Query 018698
Match_columns 351
No_of_seqs 213 out of 639
Neff 6.7
Searched_HMMs 46136
Date Fri Mar 29 03:17:38 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/018698.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/018698hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0396 Uncharacterized conser 100.0 9.1E-81 2E-85 592.5 21.9 312 38-351 2-389 (389)
2 KOG2817 Predicted E3 ubiquitin 100.0 2.9E-59 6.2E-64 450.1 19.0 236 114-350 154-394 (394)
3 COG5109 Uncharacterized conser 100.0 3E-39 6.5E-44 301.6 17.7 235 113-350 136-396 (396)
4 PF10607 CLTH: CTLH/CRA C-term 100.0 1.1E-32 2.3E-37 237.8 13.3 142 116-257 2-145 (145)
5 KOG2659 LisH motif-containing 99.7 1.9E-17 4.1E-22 151.5 12.4 143 110-253 59-204 (228)
6 smart00757 CRA CT11-RanBPM. pr 99.7 3.7E-18 8.1E-23 137.7 6.5 94 168-261 1-98 (99)
7 PF13445 zf-RING_UBOX: RING-ty 99.5 1.5E-14 3.2E-19 99.9 3.0 42 293-334 1-43 (43)
8 smart00668 CTLH C-terminal to 99.3 5.4E-12 1.2E-16 91.8 5.5 55 116-170 2-56 (58)
9 smart00504 Ubox Modified RING 99.0 1.9E-10 4.1E-15 85.1 3.8 53 291-349 2-54 (63)
10 PF04564 U-box: U-box domain; 98.8 5.2E-09 1.1E-13 80.4 3.3 55 289-348 3-57 (73)
11 PF04641 Rtf2: Rtf2 RING-finge 98.5 5.3E-08 1.1E-12 92.4 4.1 59 286-348 109-168 (260)
12 PF11789 zf-Nse: Zinc-finger o 98.3 6.5E-07 1.4E-11 65.6 2.8 44 290-337 11-55 (57)
13 KOG3113 Uncharacterized conser 98.2 1.2E-06 2.6E-11 81.2 3.4 58 286-348 107-165 (293)
14 PLN03208 E3 ubiquitin-protein 97.9 1.1E-05 2.4E-10 72.9 4.7 59 289-350 17-88 (193)
15 PF15227 zf-C3HC4_4: zinc fing 97.9 1E-05 2.2E-10 55.6 2.8 41 293-336 1-42 (42)
16 PF14634 zf-RING_5: zinc-RING 97.8 1.9E-05 4.2E-10 54.5 3.0 43 293-338 2-44 (44)
17 PF13639 zf-RING_2: Ring finge 97.6 4.5E-05 9.7E-10 52.5 2.9 42 292-336 2-43 (44)
18 KOG0320 Predicted E3 ubiquitin 97.5 5.5E-05 1.2E-09 67.0 2.8 58 289-350 130-187 (187)
19 smart00184 RING Ring finger. E 97.2 0.00044 9.5E-09 44.6 3.1 32 303-336 8-39 (39)
20 PF00097 zf-C3HC4: Zinc finger 97.1 0.0006 1.3E-08 45.9 3.6 29 307-336 13-41 (41)
21 TIGR00599 rad18 DNA repair pro 97.1 0.00033 7.2E-09 70.2 3.3 65 279-349 15-79 (397)
22 KOG0978 E3 ubiquitin ligase in 97.1 0.00015 3.2E-09 76.7 0.3 59 287-350 640-698 (698)
23 PF13923 zf-C3HC4_2: Zinc fing 97.0 0.00073 1.6E-08 45.2 3.1 38 293-336 1-39 (39)
24 cd00162 RING RING-finger (Real 97.0 0.00085 1.9E-08 44.9 3.3 43 293-339 2-44 (45)
25 KOG3039 Uncharacterized conser 96.9 0.0008 1.7E-08 62.6 3.6 60 286-348 216-277 (303)
26 TIGR00570 cdk7 CDK-activating 96.6 0.0017 3.6E-08 62.9 3.6 41 307-349 22-62 (309)
27 KOG0823 Predicted E3 ubiquitin 96.5 0.0032 7E-08 58.2 4.7 61 286-349 43-103 (230)
28 PF13920 zf-C3HC4_3: Zinc fing 96.2 0.0063 1.4E-07 42.9 3.5 34 305-341 14-48 (50)
29 PHA02929 N1R/p28-like protein; 95.8 0.0086 1.9E-07 56.2 3.9 33 306-341 195-227 (238)
30 KOG2879 Predicted E3 ubiquitin 95.7 0.0082 1.8E-07 56.8 3.2 57 290-349 239-295 (298)
31 KOG1734 Predicted RING-contain 95.5 0.0044 9.6E-08 58.5 0.6 51 292-343 226-283 (328)
32 KOG2177 Predicted E3 ubiquitin 94.7 0.013 2.8E-07 54.3 1.2 46 287-338 10-55 (386)
33 PHA02926 zinc finger-like prot 94.6 0.034 7.4E-07 51.4 3.6 44 306-349 192-238 (242)
34 KOG2164 Predicted E3 ubiquitin 94.5 0.028 6E-07 57.5 3.1 45 306-350 199-245 (513)
35 PF12678 zf-rbx1: RING-H2 zinc 93.8 0.068 1.5E-06 40.9 3.4 33 302-337 41-73 (73)
36 KOG0317 Predicted E3 ubiquitin 93.8 0.082 1.8E-06 50.5 4.4 64 279-348 228-291 (293)
37 KOG0287 Postreplication repair 93.4 0.018 3.9E-07 56.1 -0.7 65 280-350 13-77 (442)
38 COG5243 HRD1 HRD ubiquitin lig 93.1 0.093 2E-06 51.8 3.7 36 305-343 312-347 (491)
39 PF14447 Prok-RING_4: Prokaryo 93.1 0.063 1.4E-06 38.9 1.9 35 306-345 20-54 (55)
40 KOG0826 Predicted E3 ubiquitin 92.5 0.06 1.3E-06 52.3 1.5 47 301-350 309-355 (357)
41 PF02891 zf-MIZ: MIZ/SP-RING z 91.0 0.27 5.8E-06 34.9 3.1 44 291-338 3-49 (50)
42 PF12861 zf-Apc11: Anaphase-pr 90.5 0.32 7E-06 38.5 3.4 43 302-344 43-85 (85)
43 KOG2979 Protein involved in DN 90.0 0.18 4E-06 47.5 2.1 45 292-339 178-222 (262)
44 KOG1477 SPRY domain-containing 90.0 0.16 3.5E-06 52.3 1.8 135 129-270 312-458 (469)
45 COG5432 RAD18 RING-finger-cont 89.2 0.18 3.8E-06 48.4 1.2 65 279-349 14-78 (391)
46 COG5540 RING-finger-containing 88.5 0.36 7.9E-06 46.6 2.8 48 292-341 325-372 (374)
47 smart00744 RINGv The RING-vari 88.4 0.74 1.6E-05 32.5 3.7 44 292-337 1-49 (49)
48 smart00531 TFIIE Transcription 87.3 0.48 1E-05 41.1 2.7 34 310-344 104-137 (147)
49 KOG4628 Predicted E3 ubiquitin 86.8 0.47 1E-05 46.9 2.6 49 291-341 230-278 (348)
50 COG5574 PEX10 RING-finger-cont 85.9 0.54 1.2E-05 44.5 2.4 49 292-345 217-266 (271)
51 PF07304 SRA1: Steroid recepto 85.4 4 8.6E-05 36.0 7.5 45 89-137 68-112 (157)
52 PF04641 Rtf2: Rtf2 RING-finge 84.5 1.7 3.7E-05 41.2 5.2 38 284-324 28-66 (260)
53 KOG0802 E3 ubiquitin ligase [P 83.6 0.83 1.8E-05 48.0 2.9 50 289-341 290-341 (543)
54 PF04710 Pellino: Pellino; In 82.1 0.42 9.2E-06 47.7 0.0 47 304-350 357-411 (416)
55 KOG0828 Predicted E3 ubiquitin 81.5 0.88 1.9E-05 46.6 2.0 32 307-340 602-633 (636)
56 COG4391 Uncharacterized protei 80.6 0.82 1.8E-05 33.8 1.0 18 326-343 44-61 (62)
57 PF03966 Trm112p: Trm112p-like 79.9 1.7 3.7E-05 32.6 2.7 18 327-344 50-67 (68)
58 PF04494 TFIID_90kDa: WD40 ass 79.4 5.3 0.00011 34.3 5.9 53 141-197 33-85 (142)
59 PF05605 zf-Di19: Drought indu 77.4 0.77 1.7E-05 32.8 0.1 16 330-345 2-17 (54)
60 KOG4185 Predicted E3 ubiquitin 77.0 2.2 4.7E-05 41.0 3.1 48 290-339 3-53 (296)
61 KOG1814 Predicted E3 ubiquitin 76.3 1.8 4E-05 43.4 2.4 60 286-345 180-246 (445)
62 PF04100 Vps53_N: Vps53-like, 75.6 63 0.0014 32.5 13.2 86 53-141 24-114 (383)
63 cd08044 TAF5_NTD2 TAF5_NTD2 is 72.8 5.7 0.00012 33.7 4.3 60 135-198 12-75 (133)
64 PF14835 zf-RING_6: zf-RING of 70.5 0.91 2E-05 34.0 -1.0 49 291-346 8-56 (65)
65 KOG1002 Nucleotide excision re 66.5 3.8 8.2E-05 42.6 2.1 54 288-344 534-589 (791)
66 PF09723 Zn-ribbon_8: Zinc rib 64.9 1 2.2E-05 30.7 -1.6 32 310-349 10-41 (42)
67 PF14570 zf-RING_4: RING/Ubox 63.1 11 0.00023 26.7 3.3 47 293-341 1-48 (48)
68 COG5222 Uncharacterized conser 62.9 4.8 0.0001 39.0 2.0 43 291-338 275-318 (427)
69 PF00096 zf-C2H2: Zinc finger, 62.9 3.5 7.7E-05 23.6 0.7 13 331-343 1-13 (23)
70 PF06160 EzrA: Septation ring 61.7 52 0.0011 34.8 9.7 45 119-163 261-305 (560)
71 KOG3800 Predicted E3 ubiquitin 61.5 5.7 0.00012 38.3 2.2 36 309-346 21-56 (300)
72 KOG0824 Predicted E3 ubiquitin 60.2 4.7 0.0001 39.1 1.4 39 303-343 17-55 (324)
73 KOG1940 Zn-finger protein [Gen 59.9 5.9 0.00013 38.1 2.0 45 291-338 159-204 (276)
74 PF14559 TPR_19: Tetratricopep 58.9 47 0.001 23.5 6.4 65 126-197 2-66 (68)
75 KOG0293 WD40 repeat-containing 58.2 29 0.00062 35.4 6.5 81 123-204 57-137 (519)
76 KOG4159 Predicted E3 ubiquitin 58.1 6.9 0.00015 39.6 2.3 48 289-342 83-130 (398)
77 PF13719 zinc_ribbon_5: zinc-r 58.1 6.4 0.00014 26.0 1.4 15 327-341 22-36 (37)
78 KOG1645 RING-finger-containing 57.0 4.2 9.1E-05 41.0 0.5 43 306-349 22-64 (463)
79 COG1579 Zn-ribbon protein, pos 56.8 6.9 0.00015 36.9 1.9 29 311-340 203-231 (239)
80 cd00350 rubredoxin_like Rubred 56.0 3.6 7.9E-05 26.4 -0.1 21 309-338 5-25 (33)
81 PF13894 zf-C2H2_4: C2H2-type 56.0 5.7 0.00012 22.3 0.8 13 331-343 1-13 (24)
82 PF10276 zf-CHCC: Zinc-finger 55.9 5.7 0.00012 26.9 0.9 12 329-340 28-39 (40)
83 cd00730 rubredoxin Rubredoxin; 55.8 4.1 8.8E-05 29.0 0.1 11 329-339 33-43 (50)
84 PF02591 DUF164: Putative zinc 55.4 13 0.00028 26.6 2.8 28 310-338 27-54 (56)
85 PF09538 FYDLN_acid: Protein o 55.3 5.7 0.00012 32.9 0.9 15 329-343 25-39 (108)
86 KOG2114 Vacuolar assembly/sort 54.4 17 0.00037 39.9 4.5 29 306-340 853-882 (933)
87 KOG0883 Cyclophilin type, U bo 54.4 12 0.00025 37.8 3.0 57 279-348 36-92 (518)
88 PF10367 Vps39_2: Vacuolar sor 54.1 4.4 9.6E-05 32.3 0.1 16 306-321 93-108 (109)
89 PF13838 Clathrin_H_link: Clat 54.0 15 0.00032 27.7 2.9 25 155-179 7-31 (66)
90 KOG1302 Vacuolar sorting prote 53.9 2.6E+02 0.0055 30.0 12.8 90 110-203 364-455 (600)
91 KOG2307 Low density lipoprotei 53.7 1E+02 0.0023 32.7 9.8 56 48-103 44-102 (705)
92 PF13878 zf-C2H2_3: zinc-finge 53.6 7.6 0.00016 26.3 1.2 17 329-345 12-28 (41)
93 COG5175 MOT2 Transcriptional r 53.1 13 0.00028 36.8 3.1 55 293-349 17-72 (480)
94 KOG1785 Tyrosine kinase negati 53.0 8.9 0.00019 38.6 2.0 47 300-347 375-422 (563)
95 PF13465 zf-H2C2_2: Zinc-finge 52.6 7.4 0.00016 23.4 0.9 15 327-341 11-25 (26)
96 COG5152 Uncharacterized conser 52.3 7.3 0.00016 35.7 1.2 44 291-340 197-240 (259)
97 KOG0883 Cyclophilin type, U bo 51.2 9.1 0.0002 38.5 1.8 68 280-348 91-159 (518)
98 KOG2391 Vacuolar sorting prote 51.1 2.6E+02 0.0057 27.8 13.8 28 154-181 299-326 (365)
99 COG1675 TFA1 Transcription ini 50.4 10 0.00022 34.2 1.8 40 303-347 110-149 (176)
100 PF13913 zf-C2HC_2: zinc-finge 50.3 3.3 7.2E-05 25.0 -0.9 16 330-345 2-17 (25)
101 TIGR02605 CxxC_CxxC_SSSS putat 50.2 3.5 7.6E-05 28.9 -1.0 25 310-338 10-34 (52)
102 TIGR01206 lysW lysine biosynth 48.8 8.4 0.00018 27.9 0.9 16 330-345 2-17 (54)
103 smart00806 AIP3 Actin interact 48.6 1.1E+02 0.0024 31.3 9.0 37 46-82 158-194 (426)
104 PF06676 DUF1178: Protein of u 48.6 15 0.00033 32.1 2.6 25 311-337 10-39 (148)
105 KOG3060 Uncharacterized conser 47.9 2.7E+02 0.0058 26.9 13.8 152 49-229 7-167 (289)
106 KOG2910 Uncharacterized conser 47.5 1.8E+02 0.004 26.6 9.2 46 131-182 72-117 (209)
107 cd00729 rubredoxin_SM Rubredox 47.4 13 0.00028 24.1 1.5 8 332-339 20-27 (34)
108 TIGR02098 MJ0042_CXXC MJ0042 f 47.2 8.2 0.00018 25.2 0.6 15 330-344 2-16 (38)
109 PF13717 zinc_ribbon_4: zinc-r 46.4 10 0.00022 24.9 0.9 16 330-345 2-17 (36)
110 KOG2034 Vacuolar sorting prote 45.9 10 0.00022 41.8 1.3 20 305-324 831-850 (911)
111 PF14255 Cys_rich_CPXG: Cystei 45.6 8 0.00017 27.8 0.3 12 331-342 1-12 (52)
112 PF06248 Zw10: Centromere/kine 45.6 2.6E+02 0.0056 29.7 11.8 61 90-150 73-143 (593)
113 COG2835 Uncharacterized conser 45.1 17 0.00037 26.9 2.0 15 330-344 26-40 (60)
114 COG1084 Predicted GTPase [Gene 44.4 3.4E+02 0.0073 27.1 11.5 120 46-185 9-138 (346)
115 COG4049 Uncharacterized protei 43.9 8.6 0.00019 28.1 0.3 16 328-343 15-30 (65)
116 PF04710 Pellino: Pellino; In 43.2 7.9 0.00017 38.9 0.0 41 302-342 299-340 (416)
117 KOG3039 Uncharacterized conser 42.8 17 0.00036 34.5 2.0 28 292-322 45-72 (303)
118 PF13805 Pil1: Eisosome compon 42.2 1.1E+02 0.0023 29.6 7.4 61 46-106 53-116 (271)
119 PF10915 DUF2709: Protein of u 42.2 34 0.00074 31.2 3.8 52 285-350 82-133 (238)
120 PF07729 FCD: FCD domain; Int 40.6 1.7E+02 0.0037 22.6 8.7 27 115-141 96-122 (125)
121 PHA01750 hypothetical protein 40.2 1.3E+02 0.0029 22.6 6.1 31 52-82 25-56 (75)
122 KOG1941 Acetylcholine receptor 40.0 14 0.00031 37.1 1.2 47 291-338 366-413 (518)
123 KOG3161 Predicted E3 ubiquitin 39.7 9.9 0.00022 40.5 0.1 20 305-324 27-46 (861)
124 KOG2104 Nuclear transport fact 38.2 49 0.0011 27.9 3.9 21 215-236 3-23 (126)
125 PF12660 zf-TFIIIC: Putative z 38.2 4.8 0.0001 32.7 -2.0 19 285-303 35-53 (99)
126 PRK11827 hypothetical protein; 37.9 28 0.0006 25.8 2.2 22 289-310 25-47 (60)
127 PF04124 Dor1: Dor1-like famil 37.7 3.7E+02 0.008 26.3 10.8 30 49-82 6-35 (338)
128 PF04423 Rad50_zn_hook: Rad50 37.1 17 0.00036 25.9 0.9 14 332-345 22-35 (54)
129 smart00668 CTLH C-terminal to 35.9 48 0.001 23.0 3.2 28 157-184 4-31 (58)
130 PF10122 Mu-like_Com: Mu-like 35.8 17 0.00038 25.9 0.8 15 329-343 23-37 (51)
131 PF12126 DUF3583: Protein of u 35.4 1.5E+02 0.0033 28.8 7.3 24 147-170 133-156 (324)
132 PF14353 CpXC: CpXC protein 35.1 32 0.00069 28.7 2.4 26 318-343 26-51 (128)
133 PF07282 OrfB_Zn_ribbon: Putat 34.6 19 0.00041 26.6 0.9 17 327-343 43-59 (69)
134 PF14691 Fer4_20: Dihydroprymi 34.3 48 0.001 27.4 3.3 29 154-182 38-66 (111)
135 PF07889 DUF1664: Protein of u 34.1 1.2E+02 0.0025 25.9 5.6 27 56-82 38-64 (126)
136 KOG1493 Anaphase-promoting com 33.7 16 0.00034 28.5 0.3 43 302-344 41-84 (84)
137 PF00412 LIM: LIM domain; Int 33.7 21 0.00046 25.0 1.0 36 285-322 20-56 (58)
138 TIGR02300 FYDLN_acid conserved 33.4 22 0.00048 30.3 1.2 16 329-344 25-40 (129)
139 smart00659 RPOLCX RNA polymera 33.4 22 0.00048 24.5 1.0 24 310-341 7-30 (44)
140 PF05265 DUF723: Protein of un 33.2 33 0.00072 25.4 1.9 15 288-302 30-44 (60)
141 PF00627 UBA: UBA/TS-N domain; 33.0 60 0.0013 20.9 3.0 18 121-138 18-37 (37)
142 PF10058 DUF2296: Predicted in 32.9 27 0.00058 25.2 1.4 35 304-338 18-52 (54)
143 KOG0976 Rho/Rac1-interacting s 32.7 6E+02 0.013 28.5 11.8 76 91-167 415-490 (1265)
144 PRK10807 paraquat-inducible pr 32.2 3.3E+02 0.0071 28.8 9.9 97 49-145 431-530 (547)
145 smart00782 PhnA_Zn_Ribbon PhnA 32.1 26 0.00056 24.6 1.2 37 264-300 7-46 (47)
146 KOG0827 Predicted E3 ubiquitin 31.9 42 0.0009 33.9 3.0 29 309-337 24-52 (465)
147 PF07754 DUF1610: Domain of un 31.9 25 0.00054 21.2 0.9 11 328-338 14-24 (24)
148 PRK00398 rpoP DNA-directed RNA 31.7 22 0.00049 24.3 0.8 15 330-344 21-35 (46)
149 PF10607 CLTH: CTLH/CRA C-term 31.6 2.1E+02 0.0045 23.9 7.0 32 111-142 36-67 (145)
150 PF03884 DUF329: Domain of unk 31.4 22 0.00048 26.0 0.7 14 330-343 2-15 (57)
151 PHA02825 LAP/PHD finger-like p 31.3 49 0.0011 29.3 3.0 35 309-344 23-62 (162)
152 PF06160 EzrA: Septation ring 31.3 4E+02 0.0086 28.2 10.4 53 116-177 142-196 (560)
153 KOG2169 Zn-finger transcriptio 31.1 36 0.00078 36.7 2.6 54 290-346 306-361 (636)
154 PF12760 Zn_Tnp_IS1595: Transp 31.1 38 0.00083 23.2 1.9 12 327-339 16-27 (46)
155 PHA02862 5L protein; Provision 31.0 53 0.0011 28.7 3.1 46 293-343 5-55 (156)
156 KOG0259 Tyrosine aminotransfer 30.9 31 0.00066 34.9 1.9 16 310-325 211-226 (447)
157 PF01383 CpcD: CpcD/allophycoc 30.1 34 0.00073 24.8 1.5 24 41-65 23-46 (56)
158 TIGR01562 FdhE formate dehydro 29.9 16 0.00035 35.7 -0.2 10 263-272 183-192 (305)
159 PF01399 PCI: PCI domain; Int 29.7 1.6E+02 0.0034 22.6 5.6 28 119-146 3-30 (105)
160 PF05120 GvpG: Gas vesicle pro 29.7 2.7E+02 0.0059 21.7 6.8 58 50-107 7-70 (79)
161 KOG3842 Adaptor protein Pellin 29.4 31 0.00066 33.9 1.5 33 309-341 376-414 (429)
162 PF09748 Med10: Transcription 29.2 3.5E+02 0.0076 22.8 7.9 91 67-182 2-111 (128)
163 PF09862 DUF2089: Protein of u 29.1 1.3E+02 0.0029 25.1 5.1 57 77-136 52-110 (113)
164 smart00834 CxxC_CXXC_SSSS Puta 28.9 34 0.00073 22.3 1.3 31 310-349 10-40 (41)
165 KOG1088 Uncharacterized conser 28.8 29 0.00062 29.2 1.1 18 328-345 96-113 (124)
166 KOG3842 Adaptor protein Pellin 28.8 19 0.0004 35.3 -0.0 44 297-340 308-351 (429)
167 KOG2176 Exocyst complex, subun 28.6 8.2E+02 0.018 27.2 12.1 123 43-166 41-191 (800)
168 KOG2462 C2H2-type Zn-finger pr 28.5 45 0.00098 32.1 2.5 91 249-340 145-253 (279)
169 KOG2196 Nuclear porin [Nuclear 28.5 3.7E+02 0.008 25.5 8.4 23 60-82 126-148 (254)
170 PRK11088 rrmA 23S rRNA methylt 28.4 31 0.00068 32.5 1.5 8 266-273 4-11 (272)
171 smart00734 ZnF_Rad18 Rad18-lik 28.1 21 0.00045 21.7 0.1 13 331-343 2-14 (26)
172 COG4066 Uncharacterized protei 28.0 3.1E+02 0.0067 24.2 7.3 62 63-124 42-106 (165)
173 PF07304 SRA1: Steroid recepto 27.9 1.5E+02 0.0033 26.0 5.6 49 84-142 84-132 (157)
174 PF09751 Es2: Nuclear protein 27.8 1.5E+02 0.0033 30.1 6.3 51 86-147 6-57 (414)
175 COG4530 Uncharacterized protei 27.6 25 0.00053 29.3 0.5 17 327-343 23-39 (129)
176 PF05531 NPV_P10: Nucleopolyhe 26.8 2.9E+02 0.0064 21.4 6.2 49 58-107 8-56 (75)
177 PF10537 WAC_Acf1_DNA_bd: ATP- 26.7 59 0.0013 26.6 2.6 38 289-339 2-39 (102)
178 PRK07003 DNA polymerase III su 26.4 2.6E+02 0.0055 31.2 8.0 88 94-182 162-273 (830)
179 KOG0801 Predicted E3 ubiquitin 26.3 34 0.00075 30.4 1.2 23 329-351 137-159 (205)
180 PF04100 Vps53_N: Vps53-like, 26.1 6.8E+02 0.015 25.1 11.1 23 116-138 200-222 (383)
181 PTZ00196 60S ribosomal protein 26.1 1.6E+02 0.0034 24.0 4.8 42 156-197 50-93 (98)
182 COG5220 TFB3 Cdk activating ki 25.7 28 0.0006 32.9 0.6 38 303-342 22-65 (314)
183 PF04136 Sec34: Sec34-like fam 25.5 4.5E+02 0.0098 22.9 8.8 26 154-181 90-115 (157)
184 PF05290 Baculo_IE-1: Baculovi 25.3 66 0.0014 27.7 2.7 54 290-345 80-136 (140)
185 PF13424 TPR_12: Tetratricopep 25.2 2.3E+02 0.0049 20.5 5.5 55 127-181 17-73 (78)
186 cd00194 UBA Ubiquitin Associat 25.1 96 0.0021 19.8 3.0 21 119-139 15-37 (38)
187 KOG3002 Zn finger protein [Gen 24.2 53 0.0012 32.0 2.2 47 286-341 44-91 (299)
188 KOG4367 Predicted Zn-finger pr 24.2 38 0.00082 34.7 1.2 31 291-324 5-35 (699)
189 COG5109 Uncharacterized conser 23.9 5E+02 0.011 25.7 8.6 37 109-145 148-186 (396)
190 PF14787 zf-CCHC_5: GAG-polypr 23.6 45 0.00097 22.1 1.1 12 332-343 4-15 (36)
191 PF12906 RINGv: RING-variant d 23.6 47 0.001 23.0 1.2 42 293-336 1-47 (47)
192 PF11793 FANCL_C: FANCL C-term 23.5 40 0.00088 25.3 1.0 34 310-343 27-68 (70)
193 smart00531 TFIIE Transcription 23.4 27 0.00059 30.1 0.0 21 328-348 97-117 (147)
194 COG4416 Com Mu-like prophage p 23.2 35 0.00076 24.7 0.5 10 330-339 24-33 (60)
195 COG1655 Uncharacterized protei 23.1 46 0.001 31.3 1.4 11 265-275 20-30 (267)
196 KOG2180 Late Golgi protein sor 22.9 1.1E+03 0.023 26.2 12.3 87 53-139 39-127 (793)
197 PHA00616 hypothetical protein 22.9 24 0.00051 24.5 -0.4 12 331-342 2-13 (44)
198 KOG2027 Spindle pole body prot 22.8 3.3E+02 0.0071 27.6 7.5 90 99-204 3-92 (388)
199 PRK00114 hslO Hsp33-like chape 22.5 57 0.0012 31.5 2.1 31 314-344 251-282 (293)
200 PF12895 Apc3: Anaphase-promot 22.5 1.7E+02 0.0036 21.8 4.3 49 125-179 35-83 (84)
201 KOG0825 PHD Zn-finger protein 22.4 50 0.0011 36.3 1.7 35 309-346 142-176 (1134)
202 PF04475 DUF555: Protein of un 21.9 45 0.00097 27.2 1.0 14 329-342 46-59 (102)
203 PF12126 DUF3583: Protein of u 21.7 3.7E+02 0.0081 26.3 7.2 75 53-127 60-148 (324)
204 PF03833 PolC_DP2: DNA polymer 21.5 31 0.00067 38.1 0.0 18 168-185 469-486 (900)
205 PHA02768 hypothetical protein; 21.4 79 0.0017 23.0 2.1 32 310-341 10-42 (55)
206 KOG0989 Replication factor C, 21.4 4.2E+02 0.009 26.4 7.6 87 96-182 174-283 (346)
207 KOG2856 Adaptor protein PACSIN 21.3 6.6E+02 0.014 25.5 9.0 24 120-143 260-283 (472)
208 PRK04778 septation ring format 21.3 9.8E+02 0.021 25.3 13.6 136 49-194 375-559 (569)
209 PF01158 Ribosomal_L36e: Ribos 21.1 2.1E+02 0.0045 23.3 4.7 44 154-197 48-93 (98)
210 smart00165 UBA Ubiquitin assoc 21.1 1.2E+02 0.0025 19.3 2.7 18 121-138 17-36 (37)
211 PRK14714 DNA polymerase II lar 21.0 1.1E+02 0.0025 35.5 4.2 46 292-348 681-727 (1337)
212 cd00498 Hsp33 Heat shock prote 21.0 75 0.0016 30.4 2.5 30 314-343 245-275 (275)
213 COG2317 Zn-dependent carboxype 20.9 1.3E+02 0.0028 31.3 4.2 120 34-153 298-472 (497)
214 PF14662 CCDC155: Coiled-coil 20.7 4.2E+02 0.009 24.3 7.0 29 129-157 161-189 (193)
215 PF13395 HNH_4: HNH endonuclea 20.6 45 0.00098 23.6 0.7 13 333-345 1-13 (54)
216 PF01430 HSP33: Hsp33 protein; 20.4 49 0.0011 31.6 1.2 30 314-343 249-279 (280)
217 PRK03824 hypA hydrogenase nick 20.4 37 0.00079 29.0 0.2 22 329-350 106-128 (135)
218 PF13824 zf-Mss51: Zinc-finger 20.4 51 0.0011 24.0 0.9 13 286-298 10-22 (55)
219 KOG1813 Predicted E3 ubiquitin 20.3 36 0.00079 33.0 0.2 44 292-341 243-286 (313)
220 KOG0311 Predicted E3 ubiquitin 20.1 19 0.0004 35.8 -1.8 51 286-341 39-90 (381)
221 PF13934 ELYS: Nuclear pore co 20.0 3.7E+02 0.0079 24.9 6.8 54 122-182 114-168 (226)
222 PF14446 Prok-RING_1: Prokaryo 20.0 53 0.0011 23.8 0.9 16 327-342 18-33 (54)
No 1
>KOG0396 consensus Uncharacterized conserved protein [Function unknown]
Probab=100.00 E-value=9.1e-81 Score=592.53 Aligned_cols=312 Identities=44% Similarity=0.777 Sum_probs=299.3
Q ss_pred cchhhcccccccccHHHHhHHHHhhhhHHHHHHHHHHHHHHHhhcc----CCCChHHHHHHHHHHHHHHHhhhhc-----
Q 018698 38 TEALKLEHQFLRVPFEHYKKTIRTNHRAVEKEITSVISNVADVSDS----ENFSKDDAVNHLTSLVSRLQGLKRK----- 108 (351)
Q Consensus 38 ~~~~~le~~~l~vP~E~l~k~fr~~qk~ieke~~~v~~~~~~~~k~----~~~~~~~~~~~l~~~i~rl~~lkrk----- 108 (351)
++++.|||++||||||.|+|+||+.||.|+||+++|...++++.+. ...+.+++++.||.+|.|++.+||+
T Consensus 2 ~~~l~l~y~l~ripye~l~kr~r~~qk~i~re~~~v~~~~~~l~~~~~sn~~~~~d~~~~~id~Li~kv~~~krk~e~~i 81 (389)
T KOG0396|consen 2 TFHLKLEYQLFRIPYELLNKRIRHNQKVIDRETSHVLMVVAELQETLISNIVPHLDSTVSLIDRLIRKVQCLKRKLEEYI 81 (389)
T ss_pred cchhhhhchhhcCCHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhcccChhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 6899999999999999999999999999999999999999999872 2467999999999999999999988
Q ss_pred ----------------------------------------------------------------CCCCHHHHHHHHHHHH
Q 018698 109 ----------------------------------------------------------------DLVDIEVFQEAKKVID 124 (351)
Q Consensus 109 ----------------------------------------------------------------~lvd~d~f~~~~~I~~ 124 (351)
||||+|+|.+++.|.+
T Consensus 82 q~e~~~~~~iksRid~m~e~~~~d~~~~~~~w~r~~l~r~vvdhmlr~gy~~~A~~L~K~s~ledlvD~Dv~~~~~~I~~ 161 (389)
T KOG0396|consen 82 QSEEEQLKRIKSRIDFMHEEISSDTPANSRKWPRNKLDRFVVDHMLRNGYFGAAVLLGKKSQLEDLVDSDVYKRAYGIRD 161 (389)
T ss_pred HHHHHHHHHHHHHHHHHHHHhcccCchHHHHhHHHHHHHHHHHHHHHcCchhHHHHHHHhhhhhhhHhHHHHHHHHHHHH
Confidence 9999999999999999
Q ss_pred HHhcCChHHHHHHHHhhhhHhhhCCCcchhhchhHHHHHHHhcCChHHHHHHHHHhCccchhhhHHHHHHHHHHhccCCC
Q 018698 125 ALQNKEVAPALAWCSDNKSRLKKSKSKFEFQLRLQEFIELVRGENNLRAITYARKYLAPWGATHMKELQRVMATLAFKSN 204 (351)
Q Consensus 125 ~L~~~dl~~AL~W~~enk~~L~k~~S~LEF~Lr~q~fIeLir~~~~~eAI~yark~l~~~~~~~~~ei~~~m~lLaf~~~ 204 (351)
+|.+|+++|||.||++|+.+|+|.+|.|||+||+|+|||||+.+++.+||+|||+||.||..+|+++++.+||+|||++.
T Consensus 162 sll~~~l~~~Lswc~ehk~~LkK~~S~lEf~lRlQefIELi~~~~~~~Ai~~akk~f~~~~~~~~~~Lk~a~g~laF~~~ 241 (389)
T KOG0396|consen 162 SLLAGELEPALSWCKEHKVELKKEESSLEFQLRLQEFIELIKVDNYDKAIAFAKKHFAPWAKSHKSDLKLAMGLLAFPKY 241 (389)
T ss_pred HHHhcchHHHHHHHHHHHHHHHhccchhhhHHHHHHHHHHHHhccHHHHHHHHHHHHhhhhhhhHHHHHHHHHhhcCccc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCccchhhhcCcCCHHHHHHHHHHHHHHHcCCCCCchHHHHHhhhhccccccccccCCC---CCCCCCCchhhhcccCCC
Q 018698 205 TECTTYKALFEPKQWDFLVDQFKQEFCKLYGMTLEPLLNIYLQAGLSALNTPYCYEDDC---TKEDPLSQESFRKLASPL 281 (351)
Q Consensus 205 ~~~spY~~L~~~~rW~~L~~~F~~~~~~l~gl~~~s~L~~~l~aGlsaLkt~~c~~~~~---~~~cP~c~~~~~~l~~~L 281 (351)
+.+++|..|++++||+.|+++|.++++++||+|.+|+|.+.+++|+|++|||.|+.+.. .+.||+|++.|++++.+|
T Consensus 242 t~~sky~~l~~~~rw~~l~~lF~s~a~~l~~i~~~~~L~~~l~~GLsalKTp~c~~~~~~~~~~~CpvC~~~f~~ia~~L 321 (389)
T KOG0396|consen 242 TSSSKYLNLLTADRWSVLADLFLSEALKLFGIPINPALTIYLQAGLSALKTPRCLNDESDNNPNNCPVCCEAFKPIAQAL 321 (389)
T ss_pred cCcccccCcccHHHHHHHHHHhhHHHHHHhCCCCCcHHHHHHHhhhhhcccccccccccCCCCCCCCCcccccchhhhcC
Confidence 99999999999999999999999999999999999999999999999999999997753 356999999999999999
Q ss_pred CCCCCCCCeeeeeccccccCCCCCceeccCCccchHHHHHHHHHhCCCceecCCCCcccCcCCceeeecC
Q 018698 282 PYSKQHHSKLVCYITKELMDTENPPQVLPNGYVYSTKALEEMAKKNNGKITCPRTGLVCNYSDLVKAYIS 351 (351)
Q Consensus 282 P~~~~~hS~~vCpis~e~~~e~NpP~~Lp~GhV~s~~al~~l~~~~~~~~~CP~~~~~~~~~~~~kvyi~ 351 (351)
||+||.||+++|.|||+.||++|||+++|||||||.++|.+|...+ | +.||+++++|.++++.|||++
T Consensus 322 Pfah~~~S~Lvc~isge~md~~N~P~lfpnG~Vyg~~~L~s~~~~~-~-i~dP~~~k~f~~~~l~kvy~~ 389 (389)
T KOG0396|consen 322 PFAHHAQSRLVCSISGELMDDDNPPHLFPNGYVYGTKALESLNEDD-G-IGDPRTKKVFRYSELCKVYLS 389 (389)
T ss_pred CchhhhhhHHHhhccccccCCCCCcccccCceeehhHHHHhhcccC-C-CcCCCCCccccHHHHHHHhcC
Confidence 9999999999999999999999999999999999999999996433 3 999999999999999999985
No 2
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=2.9e-59 Score=450.13 Aligned_cols=236 Identities=31% Similarity=0.562 Sum_probs=219.4
Q ss_pred HHHHHHHHHHHHHhcCChHHHHHHHHhhhhHhhhCCCcchhhchhHHHHHHHhcCChH--HHHHHHHHhCccchhhhHHH
Q 018698 114 EVFQEAKKVIDALQNKEVAPALAWCSDNKSRLKKSKSKFEFQLRLQEFIELVRGENNL--RAITYARKYLAPWGATHMKE 191 (351)
Q Consensus 114 d~f~~~~~I~~~L~~~dl~~AL~W~~enk~~L~k~~S~LEF~Lr~q~fIeLir~~~~~--eAI~yark~l~~~~~~~~~e 191 (351)
+.|.++++|+++|+.||+++||+|+..|+.+|...+|.|||.||.++|+++++.|+.. |||.|||+||+||...|..|
T Consensus 154 ~~F~el~~Iv~~lke~Dl~~aLeWa~~~~~~L~~~~s~LE~~Lh~l~fl~l~~~g~~~~~eAl~Yar~~~~~F~~~~~~e 233 (394)
T KOG2817|consen 154 TEFVELNQIVEALKERDLEPALEWAESNRQKLKEKSSSLEFKLHSLHFLSLIRGGKSDQREALRYARTHFAPFVADHLRE 233 (394)
T ss_pred hhHHHHHHHHHHHHhccchhHHHHHHHhhhhhccccccHHHHHHHHHHHHHHhcCCcCcHHHHHHHHHhcCccccchHHH
Confidence 4699999999999999999999999999999999999999999999999999998765 99999999999999999999
Q ss_pred HHHHHHHhccCCC-CCccchhhhcCcCCHHHHHHHHHHHHHHHcCCCCCchHHHHHhhhhccccccccccCCCCCCC--C
Q 018698 192 LQRVMATLAFKSN-TECTTYKALFEPKQWDFLVDQFKQEFCKLYGMTLEPLLNIYLQAGLSALNTPYCYEDDCTKED--P 268 (351)
Q Consensus 192 i~~~m~lLaf~~~-~~~spY~~L~~~~rW~~L~~~F~~~~~~l~gl~~~s~L~~~l~aGlsaLkt~~c~~~~~~~~c--P 268 (351)
||.+|++|.|... .+.+||.+++++..|+++.+.|.++||.++|+|.+|||.+++.||+.||+.+..+..+... | -
T Consensus 234 IQklm~sl~~l~~gl~~spy~~~ls~~~w~~~~~~f~r~ycallg~s~eSPL~v~v~aG~~Alp~Llk~~~v~~~-~~~~ 312 (394)
T KOG2817|consen 234 IQKLMGSLLYLRNGLEKSPYSEILSPKLWKELTEEFTREYCALLGISVESPLSVLVNAGCIALPQLLKYKSVMEL-KHGE 312 (394)
T ss_pred HHHHHHHHHHHHcCCCCCChHHHhCHHHHHHHHHHHHHHHHHHcCCCccCcHHHHHHhhHHHHHHHHHHHHHHHH-hccC
Confidence 9999999999887 4779999999999999999999999999999999999999999999999999988775422 2 1
Q ss_pred CCchhhhcccCCCCCCCCCCCeeeeeccccccCCCCCceeccCCccchHHHHHHHHHhCCCceecCCCCcccCcCCceee
Q 018698 269 LSQESFRKLASPLPYSKQHHSKLVCYITKELMDTENPPQVLPNGYVYSTKALEEMAKKNNGKITCPRTGLVCNYSDLVKA 348 (351)
Q Consensus 269 ~c~~~~~~l~~~LP~~~~~hS~~vCpis~e~~~e~NpP~~Lp~GhV~s~~al~~l~~~~~~~~~CP~~~~~~~~~~~~kv 348 (351)
|-..+.+|++++||..+||||+|+|||++||++++||||+|+||||||++||.+|++++.-+|||||||.+...++++||
T Consensus 313 W~~~deLPveIeL~~~~~fHSvF~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPYCP~e~~~~~~kql 392 (394)
T KOG2817|consen 313 WNTKDELPVEIELGKEYHFHSVFICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGSQSFKCPYCPVEQLASDTKQL 392 (394)
T ss_pred ccccccCccceeccccccccceeecccchhhccCCCCCeeeeccceecHHHHHHHhhCCCeeeeCCCCCcccCHHhcccc
Confidence 22446778999999999999999999999999999999999999999999999998755456999999999999999999
Q ss_pred ec
Q 018698 349 YI 350 (351)
Q Consensus 349 yi 350 (351)
||
T Consensus 393 ~F 394 (394)
T KOG2817|consen 393 YF 394 (394)
T ss_pred cC
Confidence 97
No 3
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=100.00 E-value=3e-39 Score=301.61 Aligned_cols=235 Identities=22% Similarity=0.315 Sum_probs=202.9
Q ss_pred HHHHHHHHHHHHHHhcCChHHHHHHHHhhhhHhhhCCCcchhhchh--HHHHHHHhcCChHHHHHHHHHhCccchhhhHH
Q 018698 113 IEVFQEAKKVIDALQNKEVAPALAWCSDNKSRLKKSKSKFEFQLRL--QEFIELVRGENNLRAITYARKYLAPWGATHMK 190 (351)
Q Consensus 113 ~d~f~~~~~I~~~L~~~dl~~AL~W~~enk~~L~k~~S~LEF~Lr~--q~fIeLir~~~~~eAI~yark~l~~~~~~~~~ 190 (351)
.+.|.-+..|.+.|++.++..-++|. +-+..|.|-++.+|++|.. .++.-|+.. ++++|+.|+++.++.|...|..
T Consensus 136 ~~~f~~lK~v~~gI~~k~~~l~iE~~-Qi~gyl~kgdtesel~l~~~~~esl~l~hk-~~~~a~r~c~t~~a~f~~kh~~ 213 (396)
T COG5109 136 RDGFVKLKKVISGISEKSTFLLIEFL-QIEGYLSKGDTESELELYLVSHESLLLIHK-RYDEALRLCFTKLASFVPKHIQ 213 (396)
T ss_pred HHHHHHHHHHHHhhccchhHhHHHHH-HhcCccccCCchhhhHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHhcc
Confidence 36899999999999999999999999 8888999887776666655 455555544 8999999999999999999999
Q ss_pred HHHHHHHHhccCCCCC--------ccchhhhcC--------------cCCHHHHHHHHHHHHHHHcCCCCCchHHHHHhh
Q 018698 191 ELQRVMATLAFKSNTE--------CTTYKALFE--------------PKQWDFLVDQFKQEFCKLYGMTLEPLLNIYLQA 248 (351)
Q Consensus 191 ei~~~m~lLaf~~~~~--------~spY~~L~~--------------~~rW~~L~~~F~~~~~~l~gl~~~s~L~~~l~a 248 (351)
+|+..|-.|.+-+... .....+++. +.-|.+|...|.++||...|+|.+|||...+.+
T Consensus 214 dv~~~~~~l~nap~dcfrhrekelmqnI~~~l~ksligqPiEdIDkvnk~~k~l~~lF~~eycaa~gm~~~spL~~~v~t 293 (396)
T COG5109 214 DVKPLLRFLVNAPTDCFRHREKELMQNIQEALKKSLIGQPIEDIDKVNKSRKKLIELFKSEYCAANGMPNRSPLRELVET 293 (396)
T ss_pred chHHHHHHHHcCchHHhhhcchhHHHHHHHHHHHhhcCCcHHHHHHhhhhHHHHHHHHHHHHHHhcCCCccChHHHHHHh
Confidence 9999999999865410 001111111 367999999999999999999999999999999
Q ss_pred hhccccccccccCCCC--CCCCCCchhhhcccCCCCCCCCCCCeeeeeccccccCCCCCceeccCCccchHHHHHHHHHh
Q 018698 249 GLSALNTPYCYEDDCT--KEDPLSQESFRKLASPLPYSKQHHSKLVCYITKELMDTENPPQVLPNGYVYSTKALEEMAKK 326 (351)
Q Consensus 249 GlsaLkt~~c~~~~~~--~~cP~c~~~~~~l~~~LP~~~~~hS~~vCpis~e~~~e~NpP~~Lp~GhV~s~~al~~l~~~ 326 (351)
|.+|++.+..+..+.. ..+|+ +....|+++.||...||||+|+|||++|+++++||||||.|||||+++|+.+|+++
T Consensus 294 G~iaf~~l~k~~si~~~kHvdWT-~~~eLP~eIklp~~~hfHs~FiCPVlKe~~t~ENpP~ml~CgHVIskeal~~LS~n 372 (396)
T COG5109 294 GTIAFLQLSKSGSILFDKHVDWT-DDSELPMEIKLPKGRHFHSLFICPVLKELCTDENPPVMLECGHVISKEALSVLSQN 372 (396)
T ss_pred hhHHHHHHHHhhhHHHhhccCcc-CCCCCceEEecCCcccccceeeccccHhhhcccCCCeeeeccceeeHHHHHHHhhc
Confidence 9999999999888653 34554 56678999999999999999999999999999999999999999999999999988
Q ss_pred CCCceecCCCCcccCcCCceeeec
Q 018698 327 NNGKITCPRTGLVCNYSDLVKAYI 350 (351)
Q Consensus 327 ~~~~~~CP~~~~~~~~~~~~kvyi 350 (351)
+.-+|||||||+.-..+++.||||
T Consensus 373 G~~~FKCPYCP~~~~~~~~~rvrf 396 (396)
T COG5109 373 GVLSFKCPYCPEMSKYENILRVRF 396 (396)
T ss_pred CcEEeeCCCCCcchhhhhhhcccC
Confidence 878999999999999999999997
No 4
>PF10607 CLTH: CTLH/CRA C-terminal to LisH motif domain; InterPro: IPR019589 This entry represents the CRA (or CT11-RanBPM) domain, which is a protein-protein interaction domain present in crown eukaryotes (plants, animals, fungi) and which is found in Ran-binding proteins such as Ran-binding protein 9 (RanBP9 or RanBPM) and RanBP10. RanBPM is a scaffolding protein important in regulating cellular function in both the immune system and the nervous system, and may act as an adapter protein to couple membrane receptors to intracellular signaling pathways. This domain is at the C terminus of the proteins and is the binding domain for the CRA motif, which is comprised of approximately 100 amino acids at the C-terminal of RanBPM. It was found to be important for the interaction of RanBPM with fragile X mental retardation protein (FMRP), but its functional significance has yet to be determined [].
Probab=100.00 E-value=1.1e-32 Score=237.81 Aligned_cols=142 Identities=39% Similarity=0.677 Sum_probs=137.4
Q ss_pred HHHHHHHHHHHhcCChHHHHHHHHhhhhHhhhCCCcchhhchhHHHHHHHhcCChHHHHHHHHHhCccchhhhHHHHHHH
Q 018698 116 FQEAKKVIDALQNKEVAPALAWCSDNKSRLKKSKSKFEFQLRLQEFIELVRGENNLRAITYARKYLAPWGATHMKELQRV 195 (351)
Q Consensus 116 f~~~~~I~~~L~~~dl~~AL~W~~enk~~L~k~~S~LEF~Lr~q~fIeLir~~~~~eAI~yark~l~~~~~~~~~ei~~~ 195 (351)
|.++++|+++|++||+++|++||++|++.|.+.+|.|+|.||+|+|||||+.|+..+||+|||+||.++.+.+.++++++
T Consensus 2 ~~~r~~I~~~I~~g~i~~Ai~w~~~~~~~l~~~~~~L~f~L~~q~fiell~~~~~~~Ai~y~r~~l~~~~~~~~~~l~~~ 81 (145)
T PF10607_consen 2 FKERKKIRQAILNGDIDPAIEWLNENFPELLKRNSSLEFELRCQQFIELLREGDIMEAIEYARKHLSPFNDEFLEELKKL 81 (145)
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHcCHHHHhcCCchhHHHHHHHHHHHHHHHhHHHHHHHHHHHhhhhHHHHHHHHHHH
Confidence 78999999999999999999999999999999999999999999999999999999999999999988877799999999
Q ss_pred HHHhccCCCCC--ccchhhhcCcCCHHHHHHHHHHHHHHHcCCCCCchHHHHHhhhhccccccc
Q 018698 196 MATLAFKSNTE--CTTYKALFEPKQWDFLVDQFKQEFCKLYGMTLEPLLNIYLQAGLSALNTPY 257 (351)
Q Consensus 196 m~lLaf~~~~~--~spY~~L~~~~rW~~L~~~F~~~~~~l~gl~~~s~L~~~l~aGlsaLkt~~ 257 (351)
||+|+|.++.. .+||++++++++|+++++.|++++|..+|+|.+|||..++++|++++||+.
T Consensus 82 ~~lL~~~~~~~~~~s~~~~l~~~~~~~~la~~~~~~~l~~~~~~~~s~L~~~~~~g~~~l~~l~ 145 (145)
T PF10607_consen 82 MSLLAYPDPEEPLPSPYKELLSPERREELAEEFNSAILKSYGLPKESPLEVILKAGLSALKTLM 145 (145)
T ss_pred HHHHHcCCcccccchHHHHHhChHHHHHHHHHHHHHHHHHhCcCCCCHHHHHHHHHHHHhhhcC
Confidence 99999999876 689999999999999999999999999999999999999999999999863
No 5
>KOG2659 consensus LisH motif-containing protein [Cytoskeleton]
Probab=99.74 E-value=1.9e-17 Score=151.53 Aligned_cols=143 Identities=20% Similarity=0.298 Sum_probs=133.7
Q ss_pred CCCHHHHHHHHHHHHHHhcCChHHHHHHHHhhhhHhhhCCCcchhhchhHHHHHHHhcCChHHHHHHHHHhCccchhh--
Q 018698 110 LVDIEVFQEAKKVIDALQNKEVAPALAWCSDNKSRLKKSKSKFEFQLRLQEFIELVRGENNLRAITYARKYLAPWGAT-- 187 (351)
Q Consensus 110 lvd~d~f~~~~~I~~~L~~~dl~~AL~W~~enk~~L~k~~S~LEF~Lr~q~fIeLir~~~~~eAI~yark~l~~~~~~-- 187 (351)
..|++.+.++.+|+.+++.|+++.|++-+++..+++.+.+..|.|.|++|+||||||+|+..+||+|||.+++|++..
T Consensus 59 ~~d~~~~~eR~~Ir~~I~~G~Ie~Aie~in~l~PeiLd~n~~l~F~Lq~q~lIEliR~~~~eeal~F~q~~LA~~a~e~~ 138 (228)
T KOG2659|consen 59 SIDLDSMDERLQIRRAIEEGQIEEAIEKVNQLNPEILDTNRELFFHLQQLHLIELIREGKTEEALEFAQTKLAPFAEENP 138 (228)
T ss_pred cCchhhHhHHHHHHHHHHhccHHHHHHHHHHhChHHHccchhHHHHHHHHHHHHHHHhhhHHHHHHHHHHHccccccccH
Confidence 578889999999999999999999999999999999999999999999999999999999999999999999999875
Q ss_pred -hHHHHHHHHHHhccCCCCCccchhhhcCcCCHHHHHHHHHHHHHHHcCCCCCchHHHHHhhhhccc
Q 018698 188 -HMKELQRVMATLAFKSNTECTTYKALFEPKQWDFLVDQFKQEFCKLYGMTLEPLLNIYLQAGLSAL 253 (351)
Q Consensus 188 -~~~ei~~~m~lLaf~~~~~~spY~~L~~~~rW~~L~~~F~~~~~~l~gl~~~s~L~~~l~aGlsaL 253 (351)
++.+++++|++|+|..+. .+|+..|++.++|.++++..++..++.++....+.|.-++..++.+-
T Consensus 139 ~~~~elE~~l~lLvf~~~~-~sp~~~l~~~s~R~kvA~~vN~aiL~~~~~~~~~~l~~llk~~~~~~ 204 (228)
T KOG2659|consen 139 KKMEELERTLALLVFELSQ-ESPSAELLSQSLRQKVASEVNSAILASQEHESEPKLPFLLKLISWAQ 204 (228)
T ss_pred HHHHHHHHHHHHHHcCCcc-cCcHHHHHHHHHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHH
Confidence 689999999999999654 58999999999999999999999999999999999998887666554
No 6
>smart00757 CRA CT11-RanBPM. protein-protein interaction domain present in crown eukaryotes (plants, animals, fungi)
Probab=99.73 E-value=3.7e-18 Score=137.68 Aligned_cols=94 Identities=37% Similarity=0.552 Sum_probs=88.0
Q ss_pred CChHHHHHHHHHhCccchhhh---HHHHHHHHHHhccCCCCCccchhhhcCcCCHHHHHHHHHHHHHHHc-CCCCCchHH
Q 018698 168 ENNLRAITYARKYLAPWGATH---MKELQRVMATLAFKSNTECTTYKALFEPKQWDFLVDQFKQEFCKLY-GMTLEPLLN 243 (351)
Q Consensus 168 ~~~~eAI~yark~l~~~~~~~---~~ei~~~m~lLaf~~~~~~spY~~L~~~~rW~~L~~~F~~~~~~l~-gl~~~s~L~ 243 (351)
+++.+||+|||++|.+|...+ +++|+++||+|||.++.+.+||+++++++||+.++++|+++++..+ |++.+|+|.
T Consensus 1 ~~~~eAi~yar~~l~~~~~~~~~~~~el~~~m~llaf~~~~~~sp~~~ll~~~~~~~la~~~n~~~l~~~~~~~~~s~L~ 80 (99)
T smart00757 1 GKIEEALAYARELLAPFAKEHEKFLKELEKTMALLAYPDPTEPSPYKELLSPSQREKLAEELNSAILELLHGKSSESPLE 80 (99)
T ss_pred CcHHHHHHHHHHHHhhhcccCHHHHHHHHHHHHHHhcCCCCCCccHHHHCCHHHHHHHHHHHHHHHHHHccCCCCCChHH
Confidence 357899999999999999877 8999999999999997667999999999999999999999999999 999999999
Q ss_pred HHHhhhhccccccccccC
Q 018698 244 IYLQAGLSALNTPYCYED 261 (351)
Q Consensus 244 ~~l~aGlsaLkt~~c~~~ 261 (351)
+++++|+.+++|+.|+..
T Consensus 81 ~~~~~~~~~~~~l~~~~~ 98 (99)
T smart00757 81 ILLSAGLAALKTLLEKGG 98 (99)
T ss_pred HHHHHHHHHHHHHHHhcC
Confidence 999999999999999753
No 7
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=99.49 E-value=1.5e-14 Score=99.88 Aligned_cols=42 Identities=43% Similarity=0.886 Sum_probs=28.4
Q ss_pred eeccccccCCCCCceeccCCccchHHHHHHHHHhCC-CceecC
Q 018698 293 CYITKELMDTENPPQVLPNGYVYSTKALEEMAKKNN-GKITCP 334 (351)
Q Consensus 293 Cpis~e~~~e~NpP~~Lp~GhV~s~~al~~l~~~~~-~~~~CP 334 (351)
|||++|..+++||||+|||||||++++|++|+++++ ++|+||
T Consensus 1 CpIc~e~~~~~n~P~~L~CGH~~c~~cl~~l~~~~~~~~~kCP 43 (43)
T PF13445_consen 1 CPICKEFSTEENPPMVLPCGHVFCKDCLQKLSKKSDRNRFKCP 43 (43)
T ss_dssp -TTT----TTSS-EEE-SSS-EEEHHHHHHHHHH-S-S-B--T
T ss_pred CCccccccCCCCCCEEEeCccHHHHHHHHHHHhcCCCCeeeCc
Confidence 999999779999999999999999999999998764 799998
No 8
>smart00668 CTLH C-terminal to LisH motif. Alpha-helical motif of unknown function.
Probab=99.28 E-value=5.4e-12 Score=91.83 Aligned_cols=55 Identities=38% Similarity=0.583 Sum_probs=52.7
Q ss_pred HHHHHHHHHHHhcCChHHHHHHHHhhhhHhhhCCCcchhhchhHHHHHHHhcCCh
Q 018698 116 FQEAKKVIDALQNKEVAPALAWCSDNKSRLKKSKSKFEFQLRLQEFIELVRGENN 170 (351)
Q Consensus 116 f~~~~~I~~~L~~~dl~~AL~W~~enk~~L~k~~S~LEF~Lr~q~fIeLir~~~~ 170 (351)
|.++.+|.++|..||+++|++||+++++.+.+.+|.++|.||+|+|||||+.++.
T Consensus 2 ~~~~~~i~~~i~~g~~~~a~~~~~~~~~~l~~~~~~l~f~L~~q~~lell~~~~~ 56 (58)
T smart00668 2 FDERKRIRELILKGDWDEALEWLSSLKPPLLERNSKLEFELRKQKFLELVRQGKL 56 (58)
T ss_pred hHHHHHHHHHHHcCCHHHHHHHHHHcCHHHhccCCCchhHHHHHHHHHHHHcCCc
Confidence 6789999999999999999999999999999999999999999999999998875
No 9
>smart00504 Ubox Modified RING finger domain. Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.
Probab=99.03 E-value=1.9e-10 Score=85.15 Aligned_cols=53 Identities=32% Similarity=0.525 Sum_probs=47.7
Q ss_pred eeeeccccccCCCCCceeccCCccchHHHHHHHHHhCCCceecCCCCcccCcCCceeee
Q 018698 291 LVCYITKELMDTENPPQVLPNGYVYSTKALEEMAKKNNGKITCPRTGLVCNYSDLVKAY 349 (351)
Q Consensus 291 ~vCpis~e~~~e~NpP~~Lp~GhV~s~~al~~l~~~~~~~~~CP~~~~~~~~~~~~kvy 349 (351)
|+|||+++.|++ ||++||||||++++|.++.++ ..+||.|++.++.+++.+.+
T Consensus 2 ~~Cpi~~~~~~~---Pv~~~~G~v~~~~~i~~~~~~---~~~cP~~~~~~~~~~l~~~~ 54 (63)
T smart00504 2 FLCPISLEVMKD---PVILPSGQTYERRAIEKWLLS---HGTDPVTGQPLTHEDLIPNL 54 (63)
T ss_pred cCCcCCCCcCCC---CEECCCCCEEeHHHHHHHHHH---CCCCCCCcCCCChhhceeCH
Confidence 789999999987 899999999999999999865 46899999999999888764
No 10
>PF04564 U-box: U-box domain; InterPro: IPR003613 Quality control of intracellular proteins is essential for cellular homeostasis. Molecular chaperones recognise and contribute to the refolding of misfolded or unfolded proteins, whereas the ubiquitin-proteasome system mediates the degradation of such abnormal proteins. Ubiquitin-protein ligases (E3s) determine the substrate specificity for ubiquitylation and have been classified into HECT and RING-finger families. More recently, however, U-box proteins, which contain a domain (the U box) of about 70 amino acids that is conserved from yeast to humans, have been identified as a new type of E3 []. Members of the U-box family of proteins constitute a class of ubiquitin-protein ligases (E3s) distinct from the HECT-type and RING finger-containing E3 families []. Using yeast two-hybrid technology, all mammalian U-box proteins have been reported to interact with molecular chaperones or co-chaperones, including Hsp90, Hsp70, DnaJc7, EKN1, CRN, and VCP. This suggests that the function of U box-type E3s is to mediate the degradation of unfolded or misfolded proteins in conjunction with molecular chaperones as receptors that recognise such abnormal proteins [, ]. Unlike the RING finger domain, IPR001841 from INTERPRO, that is stabilised by Zn2+ ions coordinated by the cysteines and a histidine, the U-box scaffold is probably stabilised by a system of salt-bridges and hydrogen bonds. The charged and polar residues that participate in this network of bonds are more strongly conserved in the U-box proteins than in classic RING fingers, which supports their role in maintaining the stability of the U box. Thus, the U box appears to have evolved from a RING finger domain by appropriation of a new set of residues required to stabilise its structure, concomitant with the loss of the original, metal-chelating residues [].; GO: 0004842 ubiquitin-protein ligase activity, 0016567 protein ubiquitination, 0000151 ubiquitin ligase complex; PDB: 1T1H_A 2C2L_D 2C2V_V 1WGM_A 2KR4_A 3L1Z_B 3L1X_A 2KRE_A 3M63_A 2QIZ_A ....
Probab=98.76 E-value=5.2e-09 Score=80.42 Aligned_cols=55 Identities=35% Similarity=0.492 Sum_probs=43.5
Q ss_pred CeeeeeccccccCCCCCceeccCCccchHHHHHHHHHhCCCceecCCCCcccCcCCceee
Q 018698 289 SKLVCYITKELMDTENPPQVLPNGYVYSTKALEEMAKKNNGKITCPRTGLVCNYSDLVKA 348 (351)
Q Consensus 289 S~~vCpis~e~~~e~NpP~~Lp~GhV~s~~al~~l~~~~~~~~~CP~~~~~~~~~~~~kv 348 (351)
..|.||||+++|.+ ||++|+||+|.+.+|+++.+. +..+||.|++..+.+++...
T Consensus 3 ~~f~CpIt~~lM~d---PVi~~~G~tyer~~I~~~l~~--~~~~~P~t~~~l~~~~l~pn 57 (73)
T PF04564_consen 3 DEFLCPITGELMRD---PVILPSGHTYERSAIERWLEQ--NGGTDPFTRQPLSESDLIPN 57 (73)
T ss_dssp GGGB-TTTSSB-SS---EEEETTSEEEEHHHHHHHHCT--TSSB-TTT-SB-SGGGSEE-
T ss_pred cccCCcCcCcHhhC---ceeCCcCCEEcHHHHHHHHHc--CCCCCCCCCCcCCcccceEC
Confidence 35899999999999 999999999999999999754 45799999999998887654
No 11
>PF04641 Rtf2: Rtf2 RING-finger
Probab=98.55 E-value=5.3e-08 Score=92.44 Aligned_cols=59 Identities=25% Similarity=0.476 Sum_probs=50.3
Q ss_pred CCCCeeeeeccccccCCCCCceec-cCCccchHHHHHHHHHhCCCceecCCCCcccCcCCceee
Q 018698 286 QHHSKLVCYITKELMDTENPPQVL-PNGYVYSTKALEEMAKKNNGKITCPRTGLVCNYSDLVKA 348 (351)
Q Consensus 286 ~~hS~~vCpis~e~~~e~NpP~~L-p~GhV~s~~al~~l~~~~~~~~~CP~~~~~~~~~~~~kv 348 (351)
..++.|+||||+.+|+..-+-+.| |||||||+++|+++. ..-.||.|++.|...|+..|
T Consensus 109 ~~~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k----~~~~Cp~c~~~f~~~DiI~L 168 (260)
T PF04641_consen 109 NSEGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK----KSKKCPVCGKPFTEEDIIPL 168 (260)
T ss_pred cCCceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc----ccccccccCCccccCCEEEe
Confidence 368899999999999887766664 999999999999993 12359999999999998876
No 12
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=98.25 E-value=6.5e-07 Score=65.58 Aligned_cols=44 Identities=27% Similarity=0.510 Sum_probs=31.9
Q ss_pred eeeeeccccccCCCCCcee-ccCCccchHHHHHHHHHhCCCceecCCCC
Q 018698 290 KLVCYITKELMDTENPPQV-LPNGYVYSTKALEEMAKKNNGKITCPRTG 337 (351)
Q Consensus 290 ~~vCpis~e~~~e~NpP~~-Lp~GhV~s~~al~~l~~~~~~~~~CP~~~ 337 (351)
.+.||||+..+.+ ||. ..|||||++++|.++. ++++.++||..|
T Consensus 11 ~~~CPiT~~~~~~---PV~s~~C~H~fek~aI~~~i-~~~~~~~CPv~G 55 (57)
T PF11789_consen 11 SLKCPITLQPFED---PVKSKKCGHTFEKEAILQYI-QRNGSKRCPVAG 55 (57)
T ss_dssp -SB-TTTSSB-SS---EEEESSS--EEEHHHHHHHC-TTTS-EE-SCCC
T ss_pred ccCCCCcCChhhC---CcCcCCCCCeecHHHHHHHH-HhcCCCCCCCCC
Confidence 4789999999876 777 6999999999999997 456789999965
No 13
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=98.17 E-value=1.2e-06 Score=81.15 Aligned_cols=58 Identities=21% Similarity=0.333 Sum_probs=49.1
Q ss_pred CCCCeeeeeccccccCCCCCcee-ccCCccchHHHHHHHHHhCCCceecCCCCcccCcCCceee
Q 018698 286 QHHSKLVCYITKELMDTENPPQV-LPNGYVYSTKALEEMAKKNNGKITCPRTGLVCNYSDLVKA 348 (351)
Q Consensus 286 ~~hS~~vCpis~e~~~e~NpP~~-Lp~GhV~s~~al~~l~~~~~~~~~CP~~~~~~~~~~~~kv 348 (351)
..|+.|+|||+|-+|++----+. .+||||||.+||+++- .-.|+.|+..|..+|+.-+
T Consensus 107 ~~~a~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKeik-----as~C~~C~a~y~~~dvIvl 165 (293)
T KOG3113|consen 107 TQRARFICPVTGLEMNGKYRFCALRCCGCVFSERALKEIK-----ASVCHVCGAAYQEDDVIVL 165 (293)
T ss_pred cccceeecccccceecceEEEEEEeccceeccHHHHHHhh-----hccccccCCcccccCeEee
Confidence 35889999999999988655444 6999999999999984 3589999999999998643
No 14
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=97.93 E-value=1.1e-05 Score=72.87 Aligned_cols=59 Identities=17% Similarity=0.245 Sum_probs=48.4
Q ss_pred CeeeeeccccccCCCCCceeccCCccchHHHHHHHHHhC-------------CCceecCCCCcccCcCCceeeec
Q 018698 289 SKLVCYITKELMDTENPPQVLPNGYVYSTKALEEMAKKN-------------NGKITCPRTGLVCNYSDLVKAYI 350 (351)
Q Consensus 289 S~~vCpis~e~~~e~NpP~~Lp~GhV~s~~al~~l~~~~-------------~~~~~CP~~~~~~~~~~~~kvyi 350 (351)
..|.|||-.+... .|++++|||+|+..+|.+|.... .+..+||.|...++..++..+|-
T Consensus 17 ~~~~CpICld~~~---dPVvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~LvPiyg 88 (193)
T PLN03208 17 GDFDCNICLDQVR---DPVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEATLVPIYG 88 (193)
T ss_pred CccCCccCCCcCC---CcEEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhcEEEeec
Confidence 3477888887664 48999999999999999986421 24579999999999999999983
No 15
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=97.88 E-value=1e-05 Score=55.58 Aligned_cols=41 Identities=32% Similarity=0.669 Sum_probs=28.9
Q ss_pred eeccccccCCCCCceeccCCccchHHHHHHHHHhCCCc-eecCCC
Q 018698 293 CYITKELMDTENPPQVLPNGYVYSTKALEEMAKKNNGK-ITCPRT 336 (351)
Q Consensus 293 Cpis~e~~~e~NpP~~Lp~GhV~s~~al~~l~~~~~~~-~~CP~~ 336 (351)
|||=.+.+++ ||.|+|||+|.+..|.++.+..++. +.||.|
T Consensus 1 CpiC~~~~~~---Pv~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKD---PVSLPCGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-SS---EEE-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhhCC---ccccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 5565666655 9999999999999999998765554 899987
No 16
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=97.79 E-value=1.9e-05 Score=54.52 Aligned_cols=43 Identities=23% Similarity=0.497 Sum_probs=34.9
Q ss_pred eeccccccCCCCCceeccCCccchHHHHHHHHHhCCCceecCCCCc
Q 018698 293 CYITKELMDTENPPQVLPNGYVYSTKALEEMAKKNNGKITCPRTGL 338 (351)
Q Consensus 293 Cpis~e~~~e~NpP~~Lp~GhV~s~~al~~l~~~~~~~~~CP~~~~ 338 (351)
|+|=.+..+++.+|++++|||+|..+.+.++. +..++||.|++
T Consensus 2 C~~C~~~~~~~~~~~l~~CgH~~C~~C~~~~~---~~~~~CP~C~k 44 (44)
T PF14634_consen 2 CNICFEKYSEERRPRLTSCGHIFCEKCLKKLK---GKSVKCPICRK 44 (44)
T ss_pred CcCcCccccCCCCeEEcccCCHHHHHHHHhhc---CCCCCCcCCCC
Confidence 44444555677889999999999999999986 56799999975
No 17
>PF13639 zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C 1IYM_A 2EP4_A 2ECT_A 2JRJ_A 2ECN_A 2ECM_A 3NG2_A 2EA6_A ....
Probab=97.62 E-value=4.5e-05 Score=52.50 Aligned_cols=42 Identities=29% Similarity=0.483 Sum_probs=35.9
Q ss_pred eeeccccccCCCCCceeccCCccchHHHHHHHHHhCCCceecCCC
Q 018698 292 VCYITKELMDTENPPQVLPNGYVYSTKALEEMAKKNNGKITCPRT 336 (351)
Q Consensus 292 vCpis~e~~~e~NpP~~Lp~GhV~s~~al~~l~~~~~~~~~CP~~ 336 (351)
.|+|-.+.+++.+.++.++|||+|..+.|.+|.+++ .+||.|
T Consensus 2 ~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~~~~~~---~~CP~C 43 (44)
T PF13639_consen 2 ECPICLEEFEDGEKVVKLPCGHVFHRSCIKEWLKRN---NSCPVC 43 (44)
T ss_dssp CETTTTCBHHTTSCEEEETTSEEEEHHHHHHHHHHS---SB-TTT
T ss_pred CCcCCChhhcCCCeEEEccCCCeeCHHHHHHHHHhC---CcCCcc
Confidence 378888888878899999999999999999998764 499998
No 18
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.53 E-value=5.5e-05 Score=67.04 Aligned_cols=58 Identities=16% Similarity=0.338 Sum_probs=46.8
Q ss_pred CeeeeeccccccCCCCCceeccCCccchHHHHHHHHHhCCCceecCCCCcccCcCCceeeec
Q 018698 289 SKLVCYITKELMDTENPPQVLPNGYVYSTKALEEMAKKNNGKITCPRTGLVCNYSDLVKAYI 350 (351)
Q Consensus 289 S~~vCpis~e~~~e~NpP~~Lp~GhV~s~~al~~l~~~~~~~~~CP~~~~~~~~~~~~kvyi 350 (351)
+.+-|||--+-..+.- |+.-.|||||++++|+...++ ..+||.|++..+..++-+||+
T Consensus 130 ~~~~CPiCl~~~sek~-~vsTkCGHvFC~~Cik~alk~---~~~CP~C~kkIt~k~~~rI~L 187 (187)
T KOG0320|consen 130 GTYKCPICLDSVSEKV-PVSTKCGHVFCSQCIKDALKN---TNKCPTCRKKITHKQFHRIYL 187 (187)
T ss_pred cccCCCceecchhhcc-ccccccchhHHHHHHHHHHHh---CCCCCCcccccchhhheeccC
Confidence 4466776665555544 477899999999999998764 479999999999999999995
No 19
>smart00184 RING Ring finger. E3 ubiquitin-protein ligase activity is intrinsic to the RING domain of c-Cbl and is likely to be a general function of this domain; Various RING fingers exhibit binding activity towards E2 ubiquitin-conjugating enzymes (Ubc' s)
Probab=97.15 E-value=0.00044 Score=44.63 Aligned_cols=32 Identities=31% Similarity=0.586 Sum_probs=27.2
Q ss_pred CCCceeccCCccchHHHHHHHHHhCCCceecCCC
Q 018698 303 ENPPQVLPNGYVYSTKALEEMAKKNNGKITCPRT 336 (351)
Q Consensus 303 ~NpP~~Lp~GhV~s~~al~~l~~~~~~~~~CP~~ 336 (351)
..+|+++||||+|....+..+.+ .+..+||.|
T Consensus 8 ~~~~~~~~C~H~~c~~C~~~~~~--~~~~~CP~C 39 (39)
T smart00184 8 LKDPVVLPCGHTFCRSCIRKWLK--SGNNTCPIC 39 (39)
T ss_pred CCCcEEecCCChHHHHHHHHHHH--hCcCCCCCC
Confidence 45789999999999999999876 356789986
No 20
>PF00097 zf-C3HC4: Zinc finger, C3HC4 type (RING finger); InterPro: IPR018957 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 C3HC4 type zinc-finger (RING finger) is a cysteine-rich domain of 40 to 60 residues that coordinates two zinc ions, and has the consensus sequence: C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C where X is any amino acid []. Many proteins containing a RING finger play a key role in the ubiquitination pathway []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1CHC_A 2ECW_A 2Y43_B 1V87_A 2DJB_A 2H0D_B 3RPG_C 3KNV_A 2CKL_B 1JM7_A ....
Probab=97.11 E-value=0.0006 Score=45.87 Aligned_cols=29 Identities=24% Similarity=0.595 Sum_probs=25.9
Q ss_pred eeccCCccchHHHHHHHHHhCCCceecCCC
Q 018698 307 QVLPNGYVYSTKALEEMAKKNNGKITCPRT 336 (351)
Q Consensus 307 ~~Lp~GhV~s~~al~~l~~~~~~~~~CP~~ 336 (351)
++++|||.|..+.|.++.++ .+.++||.|
T Consensus 13 ~~~~C~H~fC~~C~~~~~~~-~~~~~CP~C 41 (41)
T PF00097_consen 13 ILLPCGHSFCRDCLRKWLEN-SGSVKCPLC 41 (41)
T ss_dssp EETTTSEEEEHHHHHHHHHH-TSSSBTTTT
T ss_pred EEecCCCcchHHHHHHHHHh-cCCccCCcC
Confidence 59999999999999999875 677899987
No 21
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=97.11 E-value=0.00033 Score=70.15 Aligned_cols=65 Identities=18% Similarity=0.350 Sum_probs=52.6
Q ss_pred CCCCCCCCCCCeeeeeccccccCCCCCceeccCCccchHHHHHHHHHhCCCceecCCCCcccCcCCceeee
Q 018698 279 SPLPYSKQHHSKLVCYITKELMDTENPPQVLPNGYVYSTKALEEMAKKNNGKITCPRTGLVCNYSDLVKAY 349 (351)
Q Consensus 279 ~~LP~~~~~hS~~vCpis~e~~~e~NpP~~Lp~GhV~s~~al~~l~~~~~~~~~CP~~~~~~~~~~~~kvy 349 (351)
-.+|---.+..-|.|+|-.+.+.. |+++||||+||..+|..+... ...||.|+..+..+.+++-+
T Consensus 15 t~~~~l~~Le~~l~C~IC~d~~~~---PvitpCgH~FCs~CI~~~l~~---~~~CP~Cr~~~~~~~Lr~N~ 79 (397)
T TIGR00599 15 TPIPSLYPLDTSLRCHICKDFFDV---PVLTSCSHTFCSLCIRRCLSN---QPKCPLCRAEDQESKLRSNW 79 (397)
T ss_pred CCcccccccccccCCCcCchhhhC---ccCCCCCCchhHHHHHHHHhC---CCCCCCCCCccccccCccch
Confidence 466666778888999999998854 789999999999999998653 34899999999877665543
No 22
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=97.07 E-value=0.00015 Score=76.66 Aligned_cols=59 Identities=12% Similarity=0.265 Sum_probs=45.1
Q ss_pred CCCeeeeeccccccCCCCCceeccCCccchHHHHHHHHHhCCCceecCCCCcccCcCCceeeec
Q 018698 287 HHSKLVCYITKELMDTENPPQVLPNGYVYSTKALEEMAKKNNGKITCPRTGLVCNYSDLVKAYI 350 (351)
Q Consensus 287 ~hS~~vCpis~e~~~e~NpP~~Lp~GhV~s~~al~~l~~~~~~~~~CP~~~~~~~~~~~~kvyi 350 (351)
|.-++.||+-.+-- -.-++.-||||||.+|++..-. ...-+||.|+..|..+|+.+||+
T Consensus 640 yK~~LkCs~Cn~R~---Kd~vI~kC~H~FC~~Cvq~r~e--tRqRKCP~Cn~aFganDv~~I~l 698 (698)
T KOG0978|consen 640 YKELLKCSVCNTRW---KDAVITKCGHVFCEECVQTRYE--TRQRKCPKCNAAFGANDVHRIHL 698 (698)
T ss_pred HHhceeCCCccCch---hhHHHHhcchHHHHHHHHHHHH--HhcCCCCCCCCCCCcccccccCC
Confidence 45566666554211 1156789999999999998754 34679999999999999999996
No 23
>PF13923 zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger); PDB: 3HCU_A 2ECI_A 2JMD_A 3HCS_B 3HCT_A 3ZTG_A 2YUR_A 3L11_A.
Probab=97.00 E-value=0.00073 Score=45.25 Aligned_cols=38 Identities=26% Similarity=0.545 Sum_probs=27.5
Q ss_pred eeccccccCCCCCc-eeccCCccchHHHHHHHHHhCCCceecCCC
Q 018698 293 CYITKELMDTENPP-QVLPNGYVYSTKALEEMAKKNNGKITCPRT 336 (351)
Q Consensus 293 Cpis~e~~~e~NpP-~~Lp~GhV~s~~al~~l~~~~~~~~~CP~~ 336 (351)
|||=.+.+.+ | ++++|||+|.++.+.++.++ ..+||.|
T Consensus 1 C~iC~~~~~~---~~~~~~CGH~fC~~C~~~~~~~---~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELRD---PVVVTPCGHSFCKECIEKYLEK---NPKCPVC 39 (39)
T ss_dssp ETTTTSB-SS---EEEECTTSEEEEHHHHHHHHHC---TSB-TTT
T ss_pred CCCCCCcccC---cCEECCCCCchhHHHHHHHHHC---cCCCcCC
Confidence 4444454444 6 78999999999999999764 3799987
No 24
>cd00162 RING RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)
Probab=96.97 E-value=0.00085 Score=44.85 Aligned_cols=43 Identities=33% Similarity=0.562 Sum_probs=31.5
Q ss_pred eeccccccCCCCCceeccCCccchHHHHHHHHHhCCCceecCCCCcc
Q 018698 293 CYITKELMDTENPPQVLPNGYVYSTKALEEMAKKNNGKITCPRTGLV 339 (351)
Q Consensus 293 Cpis~e~~~e~NpP~~Lp~GhV~s~~al~~l~~~~~~~~~CP~~~~~ 339 (351)
|+|-.+.+ .++.++.+|||+|....+.++.+. +..+||.|+..
T Consensus 2 C~iC~~~~--~~~~~~~~C~H~~c~~C~~~~~~~--~~~~Cp~C~~~ 44 (45)
T cd00162 2 CPICLEEF--REPVVLLPCGHVFCRSCIDKWLKS--GKNTCPLCRTP 44 (45)
T ss_pred CCcCchhh--hCceEecCCCChhcHHHHHHHHHh--CcCCCCCCCCc
Confidence 44444444 344555669999999999999764 56789999875
No 25
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=96.91 E-value=0.0008 Score=62.57 Aligned_cols=60 Identities=20% Similarity=0.407 Sum_probs=49.0
Q ss_pred CCC-CeeeeeccccccCCCCCcee-ccCCccchHHHHHHHHHhCCCceecCCCCcccCcCCceee
Q 018698 286 QHH-SKLVCYITKELMDTENPPQV-LPNGYVYSTKALEEMAKKNNGKITCPRTGLVCNYSDLVKA 348 (351)
Q Consensus 286 ~~h-S~~vCpis~e~~~e~NpP~~-Lp~GhV~s~~al~~l~~~~~~~~~CP~~~~~~~~~~~~kv 348 (351)
..| -+++|||+++..+..-|=.+ -|||||+.++++++|.++. .+||+|++..+..|+.-+
T Consensus 216 ~a~s~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D---~v~pv~d~plkdrdiI~L 277 (303)
T KOG3039|consen 216 IAASKRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKD---MVDPVTDKPLKDRDIIGL 277 (303)
T ss_pred hhhccceecccchhhhcCccceEEeccCCcEeeHHHHHHhcccc---ccccCCCCcCcccceEee
Confidence 455 45999999999977666555 5999999999999997543 689999999998887643
No 26
>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1. All proteins in this family for which functions are known are cyclin dependent protein kinases that are components of TFIIH, a complex that is involved in nucleotide excision repair and transcription initiation. Also known as MAT1 (menage a trois 1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=96.62 E-value=0.0017 Score=62.91 Aligned_cols=41 Identities=12% Similarity=0.158 Sum_probs=33.1
Q ss_pred eeccCCccchHHHHHHHHHhCCCceecCCCCcccCcCCceeee
Q 018698 307 QVLPNGYVYSTKALEEMAKKNNGKITCPRTGLVCNYSDLVKAY 349 (351)
Q Consensus 307 ~~Lp~GhV~s~~al~~l~~~~~~~~~CP~~~~~~~~~~~~kvy 349 (351)
|+-+|||.||+.+|.++.. .+...||.|++.+...+++...
T Consensus 22 ~i~~CGH~~C~sCv~~l~~--~~~~~CP~C~~~lrk~~fr~q~ 62 (309)
T TIGR00570 22 MVNVCGHTLCESCVDLLFV--RGSGSCPECDTPLRKNNFRVQL 62 (309)
T ss_pred ccCCCCCcccHHHHHHHhc--CCCCCCCCCCCccchhhccccc
Confidence 4448999999999999864 3556999999999988876543
No 27
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.53 E-value=0.0032 Score=58.17 Aligned_cols=61 Identities=18% Similarity=0.280 Sum_probs=55.2
Q ss_pred CCCCeeeeeccccccCCCCCceeccCCccchHHHHHHHHHhCCCceecCCCCcccCcCCceeee
Q 018698 286 QHHSKLVCYITKELMDTENPPQVLPNGYVYSTKALEEMAKKNNGKITCPRTGLVCNYSDLVKAY 349 (351)
Q Consensus 286 ~~hS~~vCpis~e~~~e~NpP~~Lp~GhV~s~~al~~l~~~~~~~~~CP~~~~~~~~~~~~kvy 349 (351)
.--+.|-|-|--+..-| ||+..|||.||=-+|-+|..-..+...||+|+-+.+.+++..||
T Consensus 43 ~~~~~FdCNICLd~akd---PVvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~vvPlY 103 (230)
T KOG0823|consen 43 RDGGFFDCNICLDLAKD---PVVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDTVVPLY 103 (230)
T ss_pred CCCCceeeeeeccccCC---CEEeecccceehHHHHHHHhhcCCCeeCCccccccccceEEeee
Confidence 45578999998888777 99999999999999999998777888999999999999999998
No 28
>PF13920 zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger); PDB: 2YHN_B 2YHO_G 3T6P_A 2CSY_A 2VJE_B 2VJF_B 2HDP_B 2EA5_A 2ECG_A 3EB5_A ....
Probab=96.16 E-value=0.0063 Score=42.88 Aligned_cols=34 Identities=24% Similarity=0.393 Sum_probs=28.9
Q ss_pred CceeccCCcc-chHHHHHHHHHhCCCceecCCCCcccC
Q 018698 305 PPQVLPNGYV-YSTKALEEMAKKNNGKITCPRTGLVCN 341 (351)
Q Consensus 305 pP~~Lp~GhV-~s~~al~~l~~~~~~~~~CP~~~~~~~ 341 (351)
.++++||||+ +....+.++.+ ...+||.|.+.++
T Consensus 14 ~~~~~pCgH~~~C~~C~~~~~~---~~~~CP~Cr~~i~ 48 (50)
T PF13920_consen 14 DVVLLPCGHLCFCEECAERLLK---RKKKCPICRQPIE 48 (50)
T ss_dssp SEEEETTCEEEEEHHHHHHHHH---TTSBBTTTTBB-S
T ss_pred ceEEeCCCChHHHHHHhHHhcc---cCCCCCcCChhhc
Confidence 3888999999 99999999976 4679999998764
No 29
>PHA02929 N1R/p28-like protein; Provisional
Probab=95.84 E-value=0.0086 Score=56.19 Aligned_cols=33 Identities=18% Similarity=0.194 Sum_probs=28.3
Q ss_pred ceeccCCccchHHHHHHHHHhCCCceecCCCCcccC
Q 018698 306 PQVLPNGYVYSTKALEEMAKKNNGKITCPRTGLVCN 341 (351)
Q Consensus 306 P~~Lp~GhV~s~~al~~l~~~~~~~~~CP~~~~~~~ 341 (351)
+++.+|||+|+..+|.+|.+. +-.||.|...+.
T Consensus 195 ~vl~~C~H~FC~~CI~~Wl~~---~~tCPlCR~~~~ 227 (238)
T PHA02929 195 GILSNCNHVFCIECIDIWKKE---KNTCPVCRTPFI 227 (238)
T ss_pred eecCCCCCcccHHHHHHHHhc---CCCCCCCCCEee
Confidence 567899999999999999753 458999998876
No 30
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.73 E-value=0.0082 Score=56.82 Aligned_cols=57 Identities=16% Similarity=0.174 Sum_probs=38.7
Q ss_pred eeeeeccccccCCCCCceeccCCccchHHHHHHHHHhCCCceecCCCCcccCcCCceeee
Q 018698 290 KLVCYITKELMDTENPPQVLPNGYVYSTKALEEMAKKNNGKITCPRTGLVCNYSDLVKAY 349 (351)
Q Consensus 290 ~~vCpis~e~~~e~NpP~~Lp~GhV~s~~al~~l~~~~~~~~~CP~~~~~~~~~~~~kvy 349 (351)
...||+-|+. +.+|=.+.+|||+||.=++..=. .-+-.|+||.||+....=+...|+
T Consensus 239 ~~~C~~Cg~~--PtiP~~~~~C~HiyCY~Ci~ts~-~~~asf~Cp~Cg~~~~~lq~sgv~ 295 (298)
T KOG2879|consen 239 DTECPVCGEP--PTIPHVIGKCGHIYCYYCIATSR-LWDASFTCPLCGENVEPLQASGVK 295 (298)
T ss_pred CceeeccCCC--CCCCeeeccccceeehhhhhhhh-cchhhcccCccCCCCcchhhccCC
Confidence 3445554443 24666678899999999997632 234579999999998854444443
No 31
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.52 E-value=0.0044 Score=58.45 Aligned_cols=51 Identities=18% Similarity=0.235 Sum_probs=37.2
Q ss_pred eeeccccccCCCC-------CceeccCCccchHHHHHHHHHhCCCceecCCCCcccCcC
Q 018698 292 VCYITKELMDTEN-------PPQVLPNGYVYSTKALEEMAKKNNGKITCPRTGLVCNYS 343 (351)
Q Consensus 292 vCpis~e~~~e~N-------pP~~Lp~GhV~s~~al~~l~~~~~~~~~CP~~~~~~~~~ 343 (351)
+|.|-|++.+.+- .-+.|.|+||+-+.+|+-|.- -+.+-+||||++..+.+
T Consensus 226 vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWci-vGKkqtCPYCKekVdl~ 283 (328)
T KOG1734|consen 226 VCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCI-VGKKQTCPYCKEKVDLK 283 (328)
T ss_pred hhHhhcchheeecchhhhhhhheeeecccchHHHhhhhhee-ecCCCCCchHHHHhhHh
Confidence 3555555554332 578999999999999988753 34567999999987654
No 32
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.71 E-value=0.013 Score=54.31 Aligned_cols=46 Identities=26% Similarity=0.496 Sum_probs=37.3
Q ss_pred CCCeeeeeccccccCCCCCceeccCCccchHHHHHHHHHhCCCceecCCCCc
Q 018698 287 HHSKLVCYITKELMDTENPPQVLPNGYVYSTKALEEMAKKNNGKITCPRTGL 338 (351)
Q Consensus 287 ~hS~~vCpis~e~~~e~NpP~~Lp~GhV~s~~al~~l~~~~~~~~~CP~~~~ 338 (351)
....+.|||--+.+.+ |+++||||.++..++..+.. +.+.||.|..
T Consensus 10 ~~~~~~C~iC~~~~~~---p~~l~C~H~~c~~C~~~~~~---~~~~Cp~cr~ 55 (386)
T KOG2177|consen 10 LQEELTCPICLEYFRE---PVLLPCGHNFCRACLTRSWE---GPLSCPVCRP 55 (386)
T ss_pred ccccccChhhHHHhhc---CccccccchHhHHHHHHhcC---CCcCCcccCC
Confidence 3455677777777766 59999999999999999865 6699999983
No 33
>PHA02926 zinc finger-like protein; Provisional
Probab=94.61 E-value=0.034 Score=51.38 Aligned_cols=44 Identities=9% Similarity=0.141 Sum_probs=35.0
Q ss_pred ceeccCCccchHHHHHHHHHhC---CCceecCCCCcccCcCCceeee
Q 018698 306 PQVLPNGYVYSTKALEEMAKKN---NGKITCPRTGLVCNYSDLVKAY 349 (351)
Q Consensus 306 P~~Lp~GhV~s~~al~~l~~~~---~~~~~CP~~~~~~~~~~~~kvy 349 (351)
+++.+|||+|+..+|.+|.+.. +..-.||.|.+.|..---.|+|
T Consensus 192 GIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~I~pSrf~ 238 (242)
T PHA02926 192 GLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFRNITMSKFY 238 (242)
T ss_pred cccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceeeeeccccce
Confidence 6789999999999999998642 2356799999998866555554
No 34
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.53 E-value=0.028 Score=57.49 Aligned_cols=45 Identities=18% Similarity=0.357 Sum_probs=37.0
Q ss_pred ceeccCCccchHHHHHHHHHhC--CCceecCCCCcccCcCCceeeec
Q 018698 306 PQVLPNGYVYSTKALEEMAKKN--NGKITCPRTGLVCNYSDLVKAYI 350 (351)
Q Consensus 306 P~~Lp~GhV~s~~al~~l~~~~--~~~~~CP~~~~~~~~~~~~kvyi 350 (351)
|.+..||||||-.+|.++-.-+ .+-.+||.|...+...|++.|++
T Consensus 199 p~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kdl~pv~~ 245 (513)
T KOG2164|consen 199 PVRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKDLLPVFI 245 (513)
T ss_pred ccccccCceeeHHHHHHHHhhhcccCCccCCchhhhccccceeeeee
Confidence 4445599999999999876433 34579999999999999999986
No 35
>PF12678 zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766 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 domain constitutes a conserved region found in proteins that participate in diverse functions relevant to chromosome metabolism and cell cycle control [].The domain contains 8 cysteine/ histidine residues which are proposed to be the conserved residues involved in zinc binding.; PDB: 4A0C_D 4A0L_I 4A0K_B 2ECL_A 1LDK_C 3RTR_F 3DQV_Y 1U6G_B 1LDJ_B 2HYE_D ....
Probab=93.85 E-value=0.068 Score=40.90 Aligned_cols=33 Identities=30% Similarity=0.487 Sum_probs=25.2
Q ss_pred CCCCceeccCCccchHHHHHHHHHhCCCceecCCCC
Q 018698 302 TENPPQVLPNGYVYSTKALEEMAKKNNGKITCPRTG 337 (351)
Q Consensus 302 e~NpP~~Lp~GhV~s~~al~~l~~~~~~~~~CP~~~ 337 (351)
++-+.++.+|||+|-...|.+|.+.+. +||.|.
T Consensus 41 ~~~~i~~~~C~H~FH~~Ci~~Wl~~~~---~CP~CR 73 (73)
T PF12678_consen 41 DECPIVWGPCGHIFHFHCISQWLKQNN---TCPLCR 73 (73)
T ss_dssp TTS-EEEETTSEEEEHHHHHHHHTTSS---B-TTSS
T ss_pred cccceEecccCCCEEHHHHHHHHhcCC---cCCCCC
Confidence 345667789999999999999986543 999984
No 36
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=93.77 E-value=0.082 Score=50.55 Aligned_cols=64 Identities=17% Similarity=0.237 Sum_probs=45.5
Q ss_pred CCCCCCCCCCCeeeeeccccccCCCCCceeccCCccchHHHHHHHHHhCCCceecCCCCcccCcCCceee
Q 018698 279 SPLPYSKQHHSKLVCYITKELMDTENPPQVLPNGYVYSTKALEEMAKKNNGKITCPRTGLVCNYSDLVKA 348 (351)
Q Consensus 279 ~~LP~~~~~hS~~vCpis~e~~~e~NpP~~Lp~GhV~s~~al~~l~~~~~~~~~CP~~~~~~~~~~~~kv 348 (351)
..+-.....+-..-|-+--|.+.. |=..||||++|-.+|..|... +-.||.|.+.+..+++.=+
T Consensus 228 ~s~~~~~i~~a~~kC~LCLe~~~~---pSaTpCGHiFCWsCI~~w~~e---k~eCPlCR~~~~pskvi~L 291 (293)
T KOG0317|consen 228 DSNSLSSIPEATRKCSLCLENRSN---PSATPCGHIFCWSCILEWCSE---KAECPLCREKFQPSKVICL 291 (293)
T ss_pred hccCCccCCCCCCceEEEecCCCC---CCcCcCcchHHHHHHHHHHcc---ccCCCcccccCCCcceeee
Confidence 333333445555556655444432 778999999999999999853 3459999999999987643
No 37
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=93.39 E-value=0.018 Score=56.06 Aligned_cols=65 Identities=25% Similarity=0.330 Sum_probs=52.5
Q ss_pred CCCCCCCCCCeeeeeccccccCCCCCceeccCCccchHHHHHHHHHhCCCceecCCCCcccCcCCceeeec
Q 018698 280 PLPYSKQHHSKLVCYITKELMDTENPPQVLPNGYVYSTKALEEMAKKNNGKITCPRTGLVCNYSDLVKAYI 350 (351)
Q Consensus 280 ~LP~~~~~hS~~vCpis~e~~~e~NpP~~Lp~GhV~s~~al~~l~~~~~~~~~CP~~~~~~~~~~~~kvyi 350 (351)
.+|.-+..-+.|-|-|-.|- .|-||..||||.||.=+|.+... .+..||.|-.++..++++.=+|
T Consensus 13 sipslk~lD~lLRC~IC~ey---f~ip~itpCsHtfCSlCIR~~L~---~~p~CP~C~~~~~Es~Lr~n~i 77 (442)
T KOG0287|consen 13 SIPSLKTLDDLLRCGICFEY---FNIPMITPCSHTFCSLCIRKFLS---YKPQCPTCCVTVTESDLRNNRI 77 (442)
T ss_pred cCchhhhhHHHHHHhHHHHH---hcCceeccccchHHHHHHHHHhc---cCCCCCceecccchhhhhhhhH
Confidence 35666666777778777665 45699999999999999998763 4689999999999999887654
No 38
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=93.10 E-value=0.093 Score=51.80 Aligned_cols=36 Identities=22% Similarity=0.445 Sum_probs=29.5
Q ss_pred CceeccCCccchHHHHHHHHHhCCCceecCCCCcccCcC
Q 018698 305 PPQVLPNGYVYSTKALEEMAKKNNGKITCPRTGLVCNYS 343 (351)
Q Consensus 305 pP~~Lp~GhV~s~~al~~l~~~~~~~~~CP~~~~~~~~~ 343 (351)
-|-.|||||++--.+|+-|.++ +-+||+|....-.+
T Consensus 312 ~pKrLpCGHilHl~CLknW~ER---qQTCPICr~p~ifd 347 (491)
T COG5243 312 TPKRLPCGHILHLHCLKNWLER---QQTCPICRRPVIFD 347 (491)
T ss_pred CcccccccceeeHHHHHHHHHh---ccCCCcccCccccc
Confidence 3788999999999999999875 46999998764333
No 39
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=93.07 E-value=0.063 Score=38.88 Aligned_cols=35 Identities=23% Similarity=0.383 Sum_probs=27.9
Q ss_pred ceeccCCccchHHHHHHHHHhCCCceecCCCCcccCcCCc
Q 018698 306 PQVLPNGYVYSTKALEEMAKKNNGKITCPRTGLVCNYSDL 345 (351)
Q Consensus 306 P~~Lp~GhV~s~~al~~l~~~~~~~~~CP~~~~~~~~~~~ 345 (351)
.+++||||++......- .+.--||.|+..|..++.
T Consensus 20 ~~~~pCgH~I~~~~f~~-----~rYngCPfC~~~~~~~~~ 54 (55)
T PF14447_consen 20 GTVLPCGHLICDNCFPG-----ERYNGCPFCGTPFEFDDP 54 (55)
T ss_pred cccccccceeeccccCh-----hhccCCCCCCCcccCCCC
Confidence 67899999999998743 233479999999987763
No 40
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=92.50 E-value=0.06 Score=52.30 Aligned_cols=47 Identities=21% Similarity=0.418 Sum_probs=40.3
Q ss_pred CCCCCceeccCCccchHHHHHHHHHhCCCceecCCCCcccCcCCceeeec
Q 018698 301 DTENPPQVLPNGYVYSTKALEEMAKKNNGKITCPRTGLVCNYSDLVKAYI 350 (351)
Q Consensus 301 ~e~NpP~~Lp~GhV~s~~al~~l~~~~~~~~~CP~~~~~~~~~~~~kvyi 350 (351)
+--||-++.-.|+|+|..|+-+...+ .-+||+|+.....+++.|+|-
T Consensus 309 ~r~Nptvl~vSGyVfCY~Ci~~Yv~~---~~~CPVT~~p~~v~~l~rl~~ 355 (357)
T KOG0826|consen 309 KRQNPTVLEVSGYVFCYPCIFSYVVN---YGHCPVTGYPASVDHLIRLFN 355 (357)
T ss_pred ccCCCceEEecceEEeHHHHHHHHHh---cCCCCccCCcchHHHHHHHhc
Confidence 34788999999999999999998753 358999999999999998874
No 41
>PF02891 zf-MIZ: MIZ/SP-RING zinc finger; InterPro: IPR004181 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 MIZ-type zinc finger domains. Miz1 (Msx-interacting-zinc finger) is a zinc finger-containing protein with homology to the yeast protein, Nfi-1. Miz1 is a sequence specific DNA binding protein that can function as a positive-acting transcription factor. Miz1 binds to the homeobox protein Msx2, enhancing the specific DNA-binding ability of Msx2 []. Other proteins containing this domain include the human pias family (protein inhibitor of activated STAT protein). More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3I2D_A.
Probab=91.01 E-value=0.27 Score=34.92 Aligned_cols=44 Identities=16% Similarity=0.283 Sum_probs=26.5
Q ss_pred eeeeccccccCCCCCcee-ccCCcc--chHHHHHHHHHhCCCceecCCCCc
Q 018698 291 LVCYITKELMDTENPPQV-LPNGYV--YSTKALEEMAKKNNGKITCPRTGL 338 (351)
Q Consensus 291 ~vCpis~e~~~e~NpP~~-Lp~GhV--~s~~al~~l~~~~~~~~~CP~~~~ 338 (351)
|.||+|+..|.- |+. -.|-|+ |..++..++..+. +..+||+|++
T Consensus 3 L~CPls~~~i~~---P~Rg~~C~H~~CFDl~~fl~~~~~~-~~W~CPiC~~ 49 (50)
T PF02891_consen 3 LRCPLSFQRIRI---PVRGKNCKHLQCFDLESFLESNQRT-PKWKCPICNK 49 (50)
T ss_dssp SB-TTTSSB-SS---EEEETT--SS--EEHHHHHHHHHHS----B-TTT--
T ss_pred eeCCCCCCEEEe---CccCCcCcccceECHHHHHHHhhcc-CCeECcCCcC
Confidence 689999999955 666 788887 7777777776543 5699999986
No 42
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=90.47 E-value=0.32 Score=38.46 Aligned_cols=43 Identities=9% Similarity=0.132 Sum_probs=35.7
Q ss_pred CCCCceeccCCccchHHHHHHHHHhCCCceecCCCCcccCcCC
Q 018698 302 TENPPQVLPNGYVYSTKALEEMAKKNNGKITCPRTGLVCNYSD 344 (351)
Q Consensus 302 e~NpP~~Lp~GhV~s~~al~~l~~~~~~~~~CP~~~~~~~~~~ 344 (351)
++-|.+.-.|||.+-.-+|.++...+..+-.||.|.+++.+.|
T Consensus 43 d~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~~k~ 85 (85)
T PF12861_consen 43 DDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWKFKE 85 (85)
T ss_pred CCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeeeeCC
Confidence 3456677799999999999999876656779999999987754
No 43
>KOG2979 consensus Protein involved in DNA repair [General function prediction only]
Probab=90.04 E-value=0.18 Score=47.47 Aligned_cols=45 Identities=24% Similarity=0.313 Sum_probs=33.0
Q ss_pred eeeccccccCCCCCceeccCCccchHHHHHHHHHhCCCceecCCCCcc
Q 018698 292 VCYITKELMDTENPPQVLPNGYVYSTKALEEMAKKNNGKITCPRTGLV 339 (351)
Q Consensus 292 vCpis~e~~~e~NpP~~Lp~GhV~s~~al~~l~~~~~~~~~CP~~~~~ 339 (351)
.||+|+... .||-+---|||||.++++..+.. ....++||.-|-+
T Consensus 178 rdPis~~~I--~nPviSkkC~HvydrDsI~~~l~-~~~~i~CPv~gC~ 222 (262)
T KOG2979|consen 178 RDPISKKPI--VNPVISKKCGHVYDRDSIMQILC-DEITIRCPVLGCE 222 (262)
T ss_pred cCchhhhhh--hchhhhcCcCcchhhhhHHHHhc-cCceeecccccCC
Confidence 455554433 57777789999999999999963 3457899995544
No 44
>KOG1477 consensus SPRY domain-containing proteins [General function prediction only]
Probab=90.00 E-value=0.16 Score=52.32 Aligned_cols=135 Identities=14% Similarity=0.069 Sum_probs=107.4
Q ss_pred CChHHHHHHHHhhhhHhhh-------CCCcchhhchhHHHHHHHhcCChHHHHHHHHHhCccchh-----hhHHHHHHHH
Q 018698 129 KEVAPALAWCSDNKSRLKK-------SKSKFEFQLRLQEFIELVRGENNLRAITYARKYLAPWGA-----THMKELQRVM 196 (351)
Q Consensus 129 ~dl~~AL~W~~enk~~L~k-------~~S~LEF~Lr~q~fIeLir~~~~~eAI~yark~l~~~~~-----~~~~ei~~~m 196 (351)
+.+..+.+.+.+.....++ ..+..-+.++++-+|.+.+.+....+++|-+.+|++... ....+++-.+
T Consensus 312 ~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~g~v~~e~~~~k~~l~~~~g~~~~~~~~~~~~~s~ 391 (469)
T KOG1477|consen 312 GQFTRNGAYNAALIPTYRKVGQVFEVDYPQRGAKDPCGLHVNLGRAGFVFIEANAKKWELAKDYGIKKNSAAVGMLSDSS 391 (469)
T ss_pred ceeechhhhcccccccccccceeecccccchhhccchhhhhhHHHHHHHHHHHHHHHHhhhhhhCcCccccccccccchH
Confidence 3444555555555555544 346788999999999999999999999999999998765 4568899999
Q ss_pred HHhccCCCCCccchhhhcCcCCHHHHHHHHHHHHHHHcCCCCCchHHHHHhhhhccccccccccCCCCCCCCCC
Q 018698 197 ATLAFKSNTECTTYKALFEPKQWDFLVDQFKQEFCKLYGMTLEPLLNIYLQAGLSALNTPYCYEDDCTKEDPLS 270 (351)
Q Consensus 197 ~lLaf~~~~~~spY~~L~~~~rW~~L~~~F~~~~~~l~gl~~~s~L~~~l~aGlsaLkt~~c~~~~~~~~cP~c 270 (351)
++|+|..+.. ++-..+.++...+-+++..+.+.+...+.+.+++|..++. .++.|........+|-|
T Consensus 392 ~Llays~p~~-s~~g~~~~~~~~e~v~~~~n~~il~t~~~~~~~~l~~~l~------~~~~~~~~~~~~~~~~~ 458 (469)
T KOG1477|consen 392 SLLAYSDPEE-SPVGYLLDPIQREPVAEALNSAILETDNNSKDPDLERVLS------QTPAELSLYARDNPPRN 458 (469)
T ss_pred HHHHhcCccc-CccccccCcccchhHHhhhcccccccCCCCccchhhhhhc------cchhhHhhhhhcCCCcc
Confidence 9999998765 5666777888999999999999999999999999877776 77777766555555554
No 45
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=89.15 E-value=0.18 Score=48.38 Aligned_cols=65 Identities=18% Similarity=0.171 Sum_probs=53.9
Q ss_pred CCCCCCCCCCCeeeeeccccccCCCCCceeccCCccchHHHHHHHHHhCCCceecCCCCcccCcCCceeee
Q 018698 279 SPLPYSKQHHSKLVCYITKELMDTENPPQVLPNGYVYSTKALEEMAKKNNGKITCPRTGLVCNYSDLVKAY 349 (351)
Q Consensus 279 ~~LP~~~~~hS~~vCpis~e~~~e~NpP~~Lp~GhV~s~~al~~l~~~~~~~~~CP~~~~~~~~~~~~kvy 349 (351)
-.+|.-+..-|.+-|.|-.+-..- |+..+|||.||.=+|++-. +.+--||.|-..+.++-.+.=+
T Consensus 14 T~IPSL~~LDs~lrC~IC~~~i~i---p~~TtCgHtFCslCIR~hL---~~qp~CP~Cr~~~~esrlr~~s 78 (391)
T COG5432 14 TKIPSLKGLDSMLRCRICDCRISI---PCETTCGHTFCSLCIRRHL---GTQPFCPVCREDPCESRLRGSS 78 (391)
T ss_pred ccCcchhcchhHHHhhhhhheeec---ceecccccchhHHHHHHHh---cCCCCCccccccHHhhhcccch
Confidence 357777888999999999888776 9999999999999999875 3567899999998877665533
No 46
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=88.49 E-value=0.36 Score=46.59 Aligned_cols=48 Identities=15% Similarity=0.183 Sum_probs=35.8
Q ss_pred eeeccccccCCCCCceeccCCccchHHHHHHHHHhCCCceecCCCCcccC
Q 018698 292 VCYITKELMDTENPPQVLPNGYVYSTKALEEMAKKNNGKITCPRTGLVCN 341 (351)
Q Consensus 292 vCpis~e~~~e~NpP~~Lp~GhV~s~~al~~l~~~~~~~~~CP~~~~~~~ 341 (351)
-|.|-.+-.....--|+|||.|++-.-++.+|. .+-+-+||.|.....
T Consensus 325 eCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~--~~y~~~CPvCrt~iP 372 (374)
T COG5540 325 ECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWL--LGYSNKCPVCRTAIP 372 (374)
T ss_pred eEEEEhhhhcccceEEEeccCceechhHHHHHH--hhhcccCCccCCCCC
Confidence 344444444445557889999999999999997 345789999987654
No 47
>smart00744 RINGv The RING-variant domain is a C4HC3 zinc-finger like motif found in a number of cellular and viral proteins. Some of these proteins have been shown both in vivo and in vitro to have ubiquitin E3 ligase activity. The RING-variant domain is reminiscent of both the RING and the PHD domains and may represent an evolutionary intermediate. To describe this domain the term PHD/LAP domain has been used in the past. Extended description: The RING-variant (RINGv) domain contains a C4HC3 zinc-finger-like motif similar to the PHD domain, while some of the spacing between the Cys/His residues follow a pattern somewhat closer to that found in the RING domain. The RINGv domain, similar to the RING, PHD and LIM domains, is thought to bind two zinc ions co-ordinated by the highly conserved Cys and His residues. RING variant domain: C-x (2) -C-x(10-45)-C-x (1) -C-x (7) -H-x(2)-C-x(11-25)-C-x(2)-C As opposed to a PHD: C-x(1-2) -C-x (7-13)-C-x(2-4)-C-x(4-5)-H-x(2)-C-x(10-21)-C-x(2)-C Class
Probab=88.41 E-value=0.74 Score=32.46 Aligned_cols=44 Identities=25% Similarity=0.412 Sum_probs=32.1
Q ss_pred eeeccccccCCCCCceeccCC-----ccchHHHHHHHHHhCCCceecCCCC
Q 018698 292 VCYITKELMDTENPPQVLPNG-----YVYSTKALEEMAKKNNGKITCPRTG 337 (351)
Q Consensus 292 vCpis~e~~~e~NpP~~Lp~G-----hV~s~~al~~l~~~~~~~~~CP~~~ 337 (351)
+|+|=.+ ..+++.|+..||. +.+-...|.+|.... +..+||.|+
T Consensus 1 ~CrIC~~-~~~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~-~~~~C~iC~ 49 (49)
T smart00744 1 ICRICHD-EGDEGDPLVSPCRCKGSLKYVHQECLERWINES-GNKTCEICK 49 (49)
T ss_pred CccCCCC-CCCCCCeeEeccccCCchhHHHHHHHHHHHHHc-CCCcCCCCC
Confidence 3555555 3345557899996 889999999998643 456999985
No 48
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=87.29 E-value=0.48 Score=41.13 Aligned_cols=34 Identities=24% Similarity=0.379 Sum_probs=23.9
Q ss_pred cCCccchHHHHHHHHHhCCCceecCCCCcccCcCC
Q 018698 310 PNGYVYSTKALEEMAKKNNGKITCPRTGLVCNYSD 344 (351)
Q Consensus 310 p~GhV~s~~al~~l~~~~~~~~~CP~~~~~~~~~~ 344 (351)
.||..|+-.-...+.. .++.|+||.||.+....|
T Consensus 104 ~C~~~y~~~ea~~~~d-~~~~f~Cp~Cg~~l~~~d 137 (147)
T smart00531 104 NCQSKYTFLEANQLLD-MDGTFTCPRCGEELEEDD 137 (147)
T ss_pred CCCCEeeHHHHHHhcC-CCCcEECCCCCCEEEEcC
Confidence 5999998654434322 367799999999886554
No 49
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=86.83 E-value=0.47 Score=46.94 Aligned_cols=49 Identities=14% Similarity=0.266 Sum_probs=41.3
Q ss_pred eeeeccccccCCCCCceeccCCccchHHHHHHHHHhCCCceecCCCCcccC
Q 018698 291 LVCYITKELMDTENPPQVLPNGYVYSTKALEEMAKKNNGKITCPRTGLVCN 341 (351)
Q Consensus 291 ~vCpis~e~~~e~NpP~~Lp~GhV~s~~al~~l~~~~~~~~~CP~~~~~~~ 341 (351)
++|-|--|...+..--..|||+|.|-.++|+.|.... +-.||.|+....
T Consensus 230 ~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~--r~~CPvCK~di~ 278 (348)
T KOG4628|consen 230 DTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQT--RTFCPVCKRDIR 278 (348)
T ss_pred ceEEEeecccccCCeeeEecCCCchhhccchhhHhhc--CccCCCCCCcCC
Confidence 7888888888888888889999999999999998643 557999998543
No 50
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=85.87 E-value=0.54 Score=44.53 Aligned_cols=49 Identities=20% Similarity=0.303 Sum_probs=35.5
Q ss_pred eeeccccccCCCCCceeccCCccchHHHHHH-HHHhCCCceecCCCCcccCcCCc
Q 018698 292 VCYITKELMDTENPPQVLPNGYVYSTKALEE-MAKKNNGKITCPRTGLVCNYSDL 345 (351)
Q Consensus 292 vCpis~e~~~e~NpP~~Lp~GhV~s~~al~~-l~~~~~~~~~CP~~~~~~~~~~~ 345 (351)
-|+|--+.+ +-|.+.|||||++--+|.. |.++. .-.||.|......+++
T Consensus 217 kC~lC~e~~---~~ps~t~CgHlFC~~Cl~~~~t~~k--~~~CplCRak~~pk~v 266 (271)
T COG5574 217 KCFLCLEEP---EVPSCTPCGHLFCLSCLLISWTKKK--YEFCPLCRAKVYPKKV 266 (271)
T ss_pred ceeeeeccc---CCcccccccchhhHHHHHHHHHhhc--cccCchhhhhccchhh
Confidence 455544444 4489999999999999998 65532 2359999887766655
No 51
>PF07304 SRA1: Steroid receptor RNA activator (SRA1); InterPro: IPR009917 This entry consists of several hypothetical mammalian steroid receptor RNA activator proteins. The SRA-RNAs encode stable proteins that are widely expressed and upregulated in breast cancer cell lines. SRA-RNA is a steroid receptor co-activator which acts as a functional RNA. This domain is also found at the C terminus of Sec31, a component of the coat protein complex II (COPII, which promotes the formation of transport vesicles from the endoplasmic reticulum (ER). COPII has two main functions, the physical deformation of the endoplasmic reticulum membrane into vesicles and the selection of cargo molecules. ; PDB: 2YRU_A.
Probab=85.37 E-value=4 Score=35.95 Aligned_cols=45 Identities=22% Similarity=0.275 Sum_probs=29.7
Q ss_pred HHHHHHHHHHHHHHHhhhhcCCCCHHHHHHHHHHHHHHhcCChHHHHHH
Q 018698 89 DDAVNHLTSLVSRLQGLKRKDLVDIEVFQEAKKVIDALQNKEVAPALAW 137 (351)
Q Consensus 89 ~~~~~~l~~~i~rl~~lkrk~lvd~d~f~~~~~I~~~L~~~dl~~AL~W 137 (351)
+|+.++|+-|..++.. |.+...+...+.+|.++|++||++.|.+-
T Consensus 68 ~D~~KRL~iLfd~ln~----g~Ls~~v~~~L~~L~~aL~~~d~~~A~~I 112 (157)
T PF07304_consen 68 DDIEKRLNILFDHLNN----GKLSKPVVDKLHQLAQALQARDYDAADEI 112 (157)
T ss_dssp HHHHHHHHHHHHHHHH----T-S-HHHHHHHHHHHHHHHHT-HHHHHHH
T ss_pred HHHHHHHHHHHHHHhc----CCCCHHHHHHHHHHHHHHHcCCHHHHHHH
Confidence 4455555555554433 66777788889999999999999888774
No 52
>PF04641 Rtf2: Rtf2 RING-finger
Probab=84.52 E-value=1.7 Score=41.25 Aligned_cols=38 Identities=18% Similarity=0.350 Sum_probs=30.9
Q ss_pred CCCCCCeeeeeccccccCCCCCcee-ccCCccchHHHHHHHH
Q 018698 284 SKQHHSKLVCYITKELMDTENPPQV-LPNGYVYSTKALEEMA 324 (351)
Q Consensus 284 ~~~~hS~~vCpis~e~~~e~NpP~~-Lp~GhV~s~~al~~l~ 324 (351)
....+....|++|+++... ||+ =.-|++|.+++|.++.
T Consensus 28 ~~~~~~w~~CaLS~~pL~~---PiV~d~~G~LynKeaile~L 66 (260)
T PF04641_consen 28 EEREARWTHCALSQQPLED---PIVSDRLGRLYNKEAILEFL 66 (260)
T ss_pred HHhhCCcCcccCcCCccCC---CeeeCCCCeeEcHHHHHHHH
Confidence 3455667789999999988 765 6899999999998754
No 53
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=83.63 E-value=0.83 Score=47.96 Aligned_cols=50 Identities=28% Similarity=0.517 Sum_probs=36.8
Q ss_pred CeeeeeccccccCC-CC-CceeccCCccchHHHHHHHHHhCCCceecCCCCcccC
Q 018698 289 SKLVCYITKELMDT-EN-PPQVLPNGYVYSTKALEEMAKKNNGKITCPRTGLVCN 341 (351)
Q Consensus 289 S~~vCpis~e~~~e-~N-pP~~Lp~GhV~s~~al~~l~~~~~~~~~CP~~~~~~~ 341 (351)
+.-.|+|-.|.|.. +| -|-.|||||++.-.+|++|.++ +-.||.|...+.
T Consensus 290 ~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er---~qtCP~CR~~~~ 341 (543)
T KOG0802|consen 290 SDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFER---QQTCPTCRTVLY 341 (543)
T ss_pred cCCeeeeechhhccccccccceeecccchHHHHHHHHHHH---hCcCCcchhhhh
Confidence 34566666666632 22 1667999999999999999986 569999998443
No 54
>PF04710 Pellino: Pellino; InterPro: IPR006800 Pellino is involved in Toll-like signalling pathways, and associates with the kinase domain of the Pelle Ser/Thr kinase [, , ].; PDB: 3EGB_B 3EGA_A.
Probab=82.15 E-value=0.42 Score=47.72 Aligned_cols=47 Identities=21% Similarity=0.308 Sum_probs=0.0
Q ss_pred CCcee-ccCCccchHHHHHHHHHh--CCC----ceecCCCCcccCc-CCceeeec
Q 018698 304 NPPQV-LPNGYVYSTKALEEMAKK--NNG----KITCPRTGLVCNY-SDLVKAYI 350 (351)
Q Consensus 304 NpP~~-Lp~GhV~s~~al~~l~~~--~~~----~~~CP~~~~~~~~-~~~~kvyi 350 (351)
-|-.. -|||||.|++..+-|++- .+| .-.||.|.....- .-..|++|
T Consensus 357 ~pthaF~PCGHv~SekTa~yWs~i~lPhGt~~f~a~CPFCa~~L~g~~g~vrLiF 411 (416)
T PF04710_consen 357 PPTHAFNPCGHVCSEKTAKYWSQIPLPHGTHAFHAACPFCATPLDGEQGYVRLIF 411 (416)
T ss_dssp -------------------------------------------------------
T ss_pred CCceeecccccccchhhhhhhhcCCCCCCcccccccCCcccCcccCCCCceEEEE
Confidence 34444 499999999999998763 122 3599999987763 33555544
No 55
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=81.48 E-value=0.88 Score=46.64 Aligned_cols=32 Identities=16% Similarity=0.271 Sum_probs=25.7
Q ss_pred eeccCCccchHHHHHHHHHhCCCceecCCCCccc
Q 018698 307 QVLPNGYVYSTKALEEMAKKNNGKITCPRTGLVC 340 (351)
Q Consensus 307 ~~Lp~GhV~s~~al~~l~~~~~~~~~CP~~~~~~ 340 (351)
|+.||.|||...+|++|.. +-+..||.|....
T Consensus 602 m~tPC~HifH~~CL~~WMd--~ykl~CPvCR~pL 633 (636)
T KOG0828|consen 602 MLTPCHHIFHRQCLLQWMD--TYKLICPVCRCPL 633 (636)
T ss_pred cccchHHHHHHHHHHHHHh--hhcccCCccCCCC
Confidence 4459999999999999973 3567999997643
No 56
>COG4391 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=80.55 E-value=0.82 Score=33.81 Aligned_cols=18 Identities=17% Similarity=0.510 Sum_probs=14.8
Q ss_pred hCCCceecCCCCcccCcC
Q 018698 326 KNNGKITCPRTGLVCNYS 343 (351)
Q Consensus 326 ~~~~~~~CP~~~~~~~~~ 343 (351)
...|.++||||+..|...
T Consensus 44 g~~gev~CPYC~t~y~l~ 61 (62)
T COG4391 44 GDEGEVVCPYCSTRYRLN 61 (62)
T ss_pred CCCCcEecCccccEEEec
Confidence 356889999999998764
No 57
>PF03966 Trm112p: Trm112p-like protein; InterPro: IPR005651 This family of short proteins have no known function. The bacterial members are about 60-70 amino acids in length and the eukaryotic examples are about 120 amino acids in length. The C terminus contains the strongest conservation. The function of this family is uncertain. The bacterial members are about 60-70 amino acids in length and the eukaryotic examples are about 120 amino acids in length. The C terminus contains the strongest conservation. The entry contains 2 families: Trm112, which is required for tRNA methylation in Saccharomyces cerevisiae (Baker's yeast) and is found in complexes with 2 tRNA methylases (TRM9 and TRM11) also with putative methyltransferase YDR140W []. The zinc-finger protein Ynr046w is plurifunctional and a component of the eRF1 methyltransferase in yeast []. The crystal structure of Ynr046w has been determined to 1.7 A resolution. It comprises a zinc-binding domain built from both the N- and C-terminal sequences and an inserted domain, absent from bacterial and archaeal orthologs of the protein, composed of three alpha-helices []. UPF0434, which are proteins that are functionally uncharacterised. ; PDB: 3Q87_A 2KPI_A 2K5R_A 2HF1_A 2JS4_A 2J6A_A 2JR6_A 2PK7_A 2JNY_A.
Probab=79.94 E-value=1.7 Score=32.58 Aligned_cols=18 Identities=28% Similarity=0.604 Sum_probs=15.0
Q ss_pred CCCceecCCCCcccCcCC
Q 018698 327 NNGKITCPRTGLVCNYSD 344 (351)
Q Consensus 327 ~~~~~~CP~~~~~~~~~~ 344 (351)
-+|..+||.|+..|...|
T Consensus 50 ~eg~L~Cp~c~r~YPI~d 67 (68)
T PF03966_consen 50 VEGELICPECGREYPIRD 67 (68)
T ss_dssp TTTEEEETTTTEEEEEET
T ss_pred cCCEEEcCCCCCEEeCCC
Confidence 368999999999998654
No 58
>PF04494 TFIID_90kDa: WD40 associated region in TFIID subunit; InterPro: IPR007582 This region, possibly a domain is found in subunits of transcription factor TFIID. The function of this region is unknown.; GO: 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 2J4B_D 2J49_A 2NXP_F.
Probab=79.39 E-value=5.3 Score=34.33 Aligned_cols=53 Identities=13% Similarity=0.395 Sum_probs=45.6
Q ss_pred hhhHhhhCCCcchhhchhHHHHHHHhcCChHHHHHHHHHhCccchhhhHHHHHHHHH
Q 018698 141 NKSRLKKSKSKFEFQLRLQEFIELVRGENNLRAITYARKYLAPWGATHMKELQRVMA 197 (351)
Q Consensus 141 nk~~L~k~~S~LEF~Lr~q~fIeLir~~~~~eAI~yark~l~~~~~~~~~ei~~~m~ 197 (351)
+|++|. .|-|=+-+.=|++||..|...+|..|..++-.-+...|..+|+++.+
T Consensus 33 yK~EL~----~lLyPvFvh~YL~Lv~~~~~~~A~~F~~kf~~~~~~~~~~~i~~L~~ 85 (142)
T PF04494_consen 33 YKPELS----RLLYPVFVHSYLDLVSKGHPEEAKSFLEKFSPDFEDSHQEDIEKLSS 85 (142)
T ss_dssp HHHHHG----GGHHHHHHHHHHHHHHTT-HHHHHHHHHHHGGGGHGHGHHHHHHHTT
T ss_pred hHHHHH----HHHHHHHHHHHHHHHHCCChHHHHHHHHHHHHHHhHHHHHHHHHHHh
Confidence 566664 57899999999999999999999999999988888889999988864
No 59
>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=77.40 E-value=0.77 Score=32.81 Aligned_cols=16 Identities=38% Similarity=0.536 Sum_probs=12.6
Q ss_pred ceecCCCCcccCcCCc
Q 018698 330 KITCPRTGLVCNYSDL 345 (351)
Q Consensus 330 ~~~CP~~~~~~~~~~~ 345 (351)
.|.||+|++.++..++
T Consensus 2 ~f~CP~C~~~~~~~~L 17 (54)
T PF05605_consen 2 SFTCPYCGKGFSESSL 17 (54)
T ss_pred CcCCCCCCCccCHHHH
Confidence 5899999998776544
No 60
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=77.04 E-value=2.2 Score=40.97 Aligned_cols=48 Identities=25% Similarity=0.355 Sum_probs=37.0
Q ss_pred eeeeecccccc---CCCCCceeccCCccchHHHHHHHHHhCCCceecCCCCcc
Q 018698 290 KLVCYITKELM---DTENPPQVLPNGYVYSTKALEEMAKKNNGKITCPRTGLV 339 (351)
Q Consensus 290 ~~vCpis~e~~---~e~NpP~~Lp~GhV~s~~al~~l~~~~~~~~~CP~~~~~ 339 (351)
.+.|-|.++.. +++.-|-.|.|||.++..++.++.. .+.+.||.|.+.
T Consensus 3 ~~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~--~~~i~cpfcR~~ 53 (296)
T KOG4185|consen 3 FPECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLLG--NSRILCPFCRET 53 (296)
T ss_pred CCceeecCccccccCcccCCcccccCceehHhHHHHHhc--CceeeccCCCCc
Confidence 34455555544 4567799999999999999999974 567899999887
No 61
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=76.25 E-value=1.8 Score=43.45 Aligned_cols=60 Identities=22% Similarity=0.331 Sum_probs=38.2
Q ss_pred CCCCeeeeeccccccCCCCCceeccCCccchHHHHHHHHHh--CCCc---eecCC--CCcccCcCCc
Q 018698 286 QHHSKLVCYITKELMDTENPPQVLPNGYVYSTKALEEMAKK--NNGK---ITCPR--TGLVCNYSDL 345 (351)
Q Consensus 286 ~~hS~~vCpis~e~~~e~NpP~~Lp~GhV~s~~al~~l~~~--~~~~---~~CP~--~~~~~~~~~~ 345 (351)
-.+|-|-|-|--+.-.+..--+.|||+||+++.+++....- .+|+ ++||- ||++-....+
T Consensus 180 F~~slf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C~~~a~~g~v 246 (445)
T KOG1814|consen 180 FVNSLFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKCGSVAPPGQV 246 (445)
T ss_pred HHhhcccceeeehhhcCcceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCCCcccCCchHH
Confidence 35566677766665555555677999999999999876542 2444 45654 4554444433
No 62
>PF04100 Vps53_N: Vps53-like, N-terminal ; InterPro: IPR007234 Vps53 complexes with Vps52 and Vps54 to form a multi-subunit complex involved in regulating membrane trafficking events [].
Probab=75.55 E-value=63 Score=32.53 Aligned_cols=86 Identities=10% Similarity=0.231 Sum_probs=53.9
Q ss_pred HHHhHHHHhhhhHHHHHHHHHHHHHHHhhccCCCChHHHHHHHHHHHHHHHhhhhcCCCCHHHHHHHHHHHHHHh-----
Q 018698 53 EHYKKTIRTNHRAVEKEITSVISNVADVSDSENFSKDDAVNHLTSLVSRLQGLKRKDLVDIEVFQEAKKVIDALQ----- 127 (351)
Q Consensus 53 E~l~k~fr~~qk~ieke~~~v~~~~~~~~k~~~~~~~~~~~~l~~~i~rl~~lkrk~lvd~d~f~~~~~I~~~L~----- 127 (351)
+.+....+.-.+.++.|+.............+....+++...+..++.|+...+.+.--. =.....|-.+|+
T Consensus 24 d~~i~~l~~~i~~ld~eI~~~v~~q~~~~~~~~~~l~~a~~~i~~L~~~i~~ik~kA~~s---E~~V~~it~dIk~LD~A 100 (383)
T PF04100_consen 24 DELIAKLRKEIRELDEEIKELVREQSSSGQDAEEDLEEAQEAIQELFEKISEIKSKAEES---EQMVQEITRDIKQLDNA 100 (383)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhccccccccHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHH
Confidence 344455566666677777666555554443334566788889999999999888773211 122334444444
Q ss_pred cCChHHHHHHHHhh
Q 018698 128 NKEVAPALAWCSDN 141 (351)
Q Consensus 128 ~~dl~~AL~W~~en 141 (351)
++|++..|.+++..
T Consensus 101 KrNLT~SIT~LkrL 114 (383)
T PF04100_consen 101 KRNLTQSITTLKRL 114 (383)
T ss_pred HHHHHHHHHHHHHH
Confidence 67888888887654
No 63
>cd08044 TAF5_NTD2 TAF5_NTD2 is the second conserved N-terminal region of TATA Binding Protein (TBP) Associated Factor 5 (TAF5), involved in forming Transcription Factor IID (TFIID). The TATA Binding Protein (TBP) Associated Factor 5 (TAF5) is one of several TAFs that bind TBP and are involved in forming Transcription Factor IID (TFIID) complex. TAF5 contains three domains, two conserved sequence motifs at the N-terminal and one at the C-terminal region. TFIID is one of seven General Transcription Factors (GTF) (TFIIA, TFIIB, TFIID, TFIIE, TFIIF, and TFIID) involved in accurate initiation of transcription by RNA polymerase II in eukaryotes. TFIID plays an important role in the recognition of promoter DNA and assembly of the preinitiation complex. TFIID complex is composed of the TBP and at least 13 TAFs. In yeast and human cells, TAFs have been found as components of other complexes besides TFIID. TAF5 may play a major role in forming TFIID and its related complexes. TAFs from various
Probab=72.80 E-value=5.7 Score=33.68 Aligned_cols=60 Identities=12% Similarity=0.377 Sum_probs=48.2
Q ss_pred HHHHHh----hhhHhhhCCCcchhhchhHHHHHHHhcCChHHHHHHHHHhCccchhhhHHHHHHHHHH
Q 018698 135 LAWCSD----NKSRLKKSKSKFEFQLRLQEFIELVRGENNLRAITYARKYLAPWGATHMKELQRVMAT 198 (351)
Q Consensus 135 L~W~~e----nk~~L~k~~S~LEF~Lr~q~fIeLir~~~~~eAI~yark~l~~~~~~~~~ei~~~m~l 198 (351)
-.|+.+ .|++|. .+-|=+-..=|++||..|...+|..|.+++-.-+...|.++|+++.+.
T Consensus 12 ~~wv~~~ld~~k~EL~----~lLyPiFvh~yL~lv~~~~~~~A~~F~~~f~~~~~~~~~~~i~~L~~i 75 (133)
T cd08044 12 RKWIESSLDIYKYELS----QLLYPIFVHSYLDLVASGHLEEAKSFFERFSGDFEDSHSEDIKKLSSI 75 (133)
T ss_pred HHHHHhCcHhhHHHHH----HHHHHHHHHHHHHHHHCCCHHHHHHHHHHhhHhhHHHHHHHHHHHHcc
Confidence 345544 456664 478888899999999999999999999988877877899999998543
No 64
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=70.51 E-value=0.91 Score=34.03 Aligned_cols=49 Identities=16% Similarity=0.333 Sum_probs=21.6
Q ss_pred eeeeccccccCCCCCceeccCCccchHHHHHHHHHhCCCceecCCCCcccCcCCce
Q 018698 291 LVCYITKELMDTENPPQVLPNGYVYSTKALEEMAKKNNGKITCPRTGLVCNYSDLV 346 (351)
Q Consensus 291 ~vCpis~e~~~e~NpP~~Lp~GhV~s~~al~~l~~~~~~~~~CP~~~~~~~~~~~~ 346 (351)
+-|++-.+.|.+ |-++-.|.|+|+..++..-. | -.||.|...-...|++
T Consensus 8 LrCs~C~~~l~~--pv~l~~CeH~fCs~Ci~~~~----~-~~CPvC~~Paw~qD~~ 56 (65)
T PF14835_consen 8 LRCSICFDILKE--PVCLGGCEHIFCSSCIRDCI----G-SECPVCHTPAWIQDIQ 56 (65)
T ss_dssp TS-SSS-S--SS---B---SSS--B-TTTGGGGT----T-TB-SSS--B-S-SS--
T ss_pred cCCcHHHHHhcC--CceeccCccHHHHHHhHHhc----C-CCCCCcCChHHHHHHH
Confidence 346666666655 33568999999999996532 1 2499999988887765
No 65
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=66.47 E-value=3.8 Score=42.59 Aligned_cols=54 Identities=11% Similarity=0.204 Sum_probs=40.8
Q ss_pred CCeeeeeccccccCCCCCceeccCCccchHHHHHHHHHh--CCCceecCCCCcccCcCC
Q 018698 288 HSKLVCYITKELMDTENPPQVLPNGYVYSTKALEEMAKK--NNGKITCPRTGLVCNYSD 344 (351)
Q Consensus 288 hS~~vCpis~e~~~e~NpP~~Lp~GhV~s~~al~~l~~~--~~~~~~CP~~~~~~~~~~ 344 (351)
.+..+|.+-.++..+ ++.-.|.|++|+-+|++.... .+..++||.|....+.+.
T Consensus 534 k~~~~C~lc~d~aed---~i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiDl 589 (791)
T KOG1002|consen 534 KGEVECGLCHDPAED---YIESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSIDL 589 (791)
T ss_pred cCceeecccCChhhh---hHhhhhhHHHHHHHHHHHHHhhhcccCCCCccccccccccc
Confidence 456778877766655 899999999999999876432 123399999998777654
No 66
>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=64.88 E-value=1 Score=30.68 Aligned_cols=32 Identities=16% Similarity=0.530 Sum_probs=20.8
Q ss_pred cCCccchHHHHHHHHHhCCCceecCCCCcccCcCCceeee
Q 018698 310 PNGYVYSTKALEEMAKKNNGKITCPRTGLVCNYSDLVKAY 349 (351)
Q Consensus 310 p~GhV~s~~al~~l~~~~~~~~~CP~~~~~~~~~~~~kvy 349 (351)
.|||++. .+..++. +....||.||. .+++||+
T Consensus 10 ~Cg~~fe--~~~~~~~--~~~~~CP~Cg~----~~~~r~~ 41 (42)
T PF09723_consen 10 ECGHEFE--VLQSISE--DDPVPCPECGS----TEVRRVI 41 (42)
T ss_pred CCCCEEE--EEEEcCC--CCCCcCCCCCC----CceEEec
Confidence 5788873 3445543 56799999997 3555553
No 67
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=63.14 E-value=11 Score=26.68 Aligned_cols=47 Identities=15% Similarity=0.246 Sum_probs=21.6
Q ss_pred eeccccccCCCCCcee-ccCCccchHHHHHHHHHhCCCceecCCCCcccC
Q 018698 293 CYITKELMDTENPPQV-LPNGYVYSTKALEEMAKKNNGKITCPRTGLVCN 341 (351)
Q Consensus 293 Cpis~e~~~e~NpP~~-Lp~GhV~s~~al~~l~~~~~~~~~CP~~~~~~~ 341 (351)
||+--+.||+..--+. =+||+-|+.....++.+ ++.-+||-|.+.|+
T Consensus 1 cp~C~e~~d~~d~~~~PC~Cgf~IC~~C~~~i~~--~~~g~CPgCr~~Y~ 48 (48)
T PF14570_consen 1 CPLCDEELDETDKDFYPCECGFQICRFCYHDILE--NEGGRCPGCREPYK 48 (48)
T ss_dssp -TTTS-B--CCCTT--SSTTS----HHHHHHHTT--SS-SB-TTT--B--
T ss_pred CCCcccccccCCCccccCcCCCcHHHHHHHHHHh--ccCCCCCCCCCCCC
Confidence 4555555544332121 58999999999999854 34579999998874
No 68
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=62.93 E-value=4.8 Score=39.01 Aligned_cols=43 Identities=16% Similarity=0.364 Sum_probs=33.5
Q ss_pred eeeeccccccCCCCCceec-cCCccchHHHHHHHHHhCCCceecCCCCc
Q 018698 291 LVCYITKELMDTENPPQVL-PNGYVYSTKALEEMAKKNNGKITCPRTGL 338 (351)
Q Consensus 291 ~vCpis~e~~~e~NpP~~L-p~GhV~s~~al~~l~~~~~~~~~CP~~~~ 338 (351)
|-||..+...-. ||.. -|||.+|+++|..-.- +.-|+||-|..
T Consensus 275 LkCplc~~Llrn---p~kT~cC~~~fc~eci~~al~--dsDf~CpnC~r 318 (427)
T COG5222 275 LKCPLCHCLLRN---PMKTPCCGHTFCDECIGTALL--DSDFKCPNCSR 318 (427)
T ss_pred ccCcchhhhhhC---cccCccccchHHHHHHhhhhh--hccccCCCccc
Confidence 889988887753 6776 7899999999985432 34599999975
No 69
>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=62.87 E-value=3.5 Score=23.58 Aligned_cols=13 Identities=23% Similarity=0.447 Sum_probs=10.9
Q ss_pred eecCCCCcccCcC
Q 018698 331 ITCPRTGLVCNYS 343 (351)
Q Consensus 331 ~~CP~~~~~~~~~ 343 (351)
++||+|++.|...
T Consensus 1 y~C~~C~~~f~~~ 13 (23)
T PF00096_consen 1 YKCPICGKSFSSK 13 (23)
T ss_dssp EEETTTTEEESSH
T ss_pred CCCCCCCCccCCH
Confidence 5899999999754
No 70
>PF06160 EzrA: Septation ring formation regulator, EzrA ; InterPro: IPR010379 During the bacterial cell cycle, the tubulin-like cell-division protein FtsZ polymerises into a ring structure that establishes the location of the nascent division site. EzrA modulates the frequency and position of FtsZ ring formation [].; GO: 0000921 septin ring assembly, 0005940 septin ring, 0016021 integral to membrane
Probab=61.74 E-value=52 Score=34.79 Aligned_cols=45 Identities=13% Similarity=0.226 Sum_probs=35.4
Q ss_pred HHHHHHHHhcCChHHHHHHHHhhhhHhhhCCCcchhhchhHHHHH
Q 018698 119 AKKVIDALQNKEVAPALAWCSDNKSRLKKSKSKFEFQLRLQEFIE 163 (351)
Q Consensus 119 ~~~I~~~L~~~dl~~AL~W~~enk~~L~k~~S~LEF~Lr~q~fIe 163 (351)
+......|.+++++.|-.+..+-..++..+-..||=++.-.++++
T Consensus 261 l~~~~~~L~~l~l~~~~~~~~~i~~~Id~lYd~le~E~~Ak~~V~ 305 (560)
T PF06160_consen 261 LEEALALLKNLELDEVEEENEEIEERIDQLYDILEKEVEAKKYVE 305 (560)
T ss_pred HHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334444556899999999999999999888888888877777765
No 71
>KOG3800 consensus Predicted E3 ubiquitin ligase containing RING finger, subunit of transcription/repair factor TFIIH and CDK-activating kinase assembly factor [Posttranslational modification, protein turnover, chaperones]
Probab=61.54 E-value=5.7 Score=38.28 Aligned_cols=36 Identities=11% Similarity=0.244 Sum_probs=29.0
Q ss_pred ccCCccchHHHHHHHHHhCCCceecCCCCcccCcCCce
Q 018698 309 LPNGYVYSTKALEEMAKKNNGKITCPRTGLVCNYSDLV 346 (351)
Q Consensus 309 Lp~GhV~s~~al~~l~~~~~~~~~CP~~~~~~~~~~~~ 346 (351)
=||||-+++.++.+|... |.--||.|+.....+.++
T Consensus 21 n~C~H~lCEsCvd~iF~~--g~~~CpeC~~iLRk~nfr 56 (300)
T KOG3800|consen 21 NECGHRLCESCVDRIFSL--GPAQCPECMVILRKNNFR 56 (300)
T ss_pred ccccchHHHHHHHHHHhc--CCCCCCcccchhhhcccc
Confidence 399999999999999765 456899999877655443
No 72
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=60.20 E-value=4.7 Score=39.11 Aligned_cols=39 Identities=21% Similarity=0.130 Sum_probs=31.0
Q ss_pred CCCceeccCCccchHHHHHHHHHhCCCceecCCCCcccCcC
Q 018698 303 ENPPQVLPNGYVYSTKALEEMAKKNNGKITCPRTGLVCNYS 343 (351)
Q Consensus 303 ~NpP~~Lp~GhV~s~~al~~l~~~~~~~~~CP~~~~~~~~~ 343 (351)
-|-|+.|+|||+++..+|+--.. +++-.|+.|-..++.+
T Consensus 17 ~n~Pv~l~C~HkFCyiCiKGsy~--ndk~~CavCR~pids~ 55 (324)
T KOG0824|consen 17 GNCPVNLYCFHKFCYICIKGSYK--NDKKTCAVCRFPIDST 55 (324)
T ss_pred CCcCccccccchhhhhhhcchhh--cCCCCCceecCCCCcc
Confidence 45588999999999999976433 4677899999888754
No 73
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=59.94 E-value=5.9 Score=38.09 Aligned_cols=45 Identities=31% Similarity=0.451 Sum_probs=36.1
Q ss_pred eeeecccccc-CCCCCceeccCCccchHHHHHHHHHhCCCceecCCCCc
Q 018698 291 LVCYITKELM-DTENPPQVLPNGYVYSTKALEEMAKKNNGKITCPRTGL 338 (351)
Q Consensus 291 ~vCpis~e~~-~e~NpP~~Lp~GhV~s~~al~~l~~~~~~~~~CP~~~~ 338 (351)
+.|||-.|-+ +....|-.++|||......++++.. ++ ..||.|.+
T Consensus 159 ~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~--~~-y~CP~C~~ 204 (276)
T KOG1940|consen 159 FNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMIC--EG-YTCPICSK 204 (276)
T ss_pred CCCchhHHHhccccccCCccCcccchHHHHHHHHhc--cC-CCCCcccc
Confidence 3488888877 4556677899999999999999863 44 99999988
No 74
>PF14559 TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN_B 3QOU_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 3FP3_A 3LCA_A ....
Probab=58.88 E-value=47 Score=23.50 Aligned_cols=65 Identities=14% Similarity=0.097 Sum_probs=40.9
Q ss_pred HhcCChHHHHHHHHhhhhHhhhCCCcchhhchhHHHHHHHhcCChHHHHHHHHHhCccchhhhHHHHHHHHH
Q 018698 126 LQNKEVAPALAWCSDNKSRLKKSKSKFEFQLRLQEFIELVRGENNLRAITYARKYLAPWGATHMKELQRVMA 197 (351)
Q Consensus 126 L~~~dl~~AL~W~~enk~~L~k~~S~LEF~Lr~q~fIeLir~~~~~eAI~yark~l~~~~~~~~~ei~~~m~ 197 (351)
+..|+.+.|++.+++-- .....+ -.++..-..-+++.|++.+|..+..+-+....+ + .++..+++
T Consensus 2 l~~~~~~~A~~~~~~~l---~~~p~~--~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~-~-~~~~~l~a 66 (68)
T PF14559_consen 2 LKQGDYDEAIELLEKAL---QRNPDN--PEARLLLAQCYLKQGQYDEAEELLERLLKQDPD-N-PEYQQLLA 66 (68)
T ss_dssp HHTTHHHHHHHHHHHHH---HHTTTS--HHHHHHHHHHHHHTT-HHHHHHHHHCCHGGGTT-H-HHHHHHHH
T ss_pred hhccCHHHHHHHHHHHH---HHCCCC--HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcC-H-HHHHHHHh
Confidence 67899999999876653 222223 334445555677889999999998865544332 2 55655555
No 75
>KOG0293 consensus WD40 repeat-containing protein [Function unknown]
Probab=58.23 E-value=29 Score=35.37 Aligned_cols=81 Identities=10% Similarity=0.103 Sum_probs=53.6
Q ss_pred HHHHhcCChHHHHHHHHhhhhHhhhCCCcchhhchhHHHHHHHhcCChHHHHHHHHHhCccchhhhHHHHHHHHHHhccC
Q 018698 123 IDALQNKEVAPALAWCSDNKSRLKKSKSKFEFQLRLQEFIELVRGENNLRAITYARKYLAPWGATHMKELQRVMATLAFK 202 (351)
Q Consensus 123 ~~~L~~~dl~~AL~W~~enk~~L~k~~S~LEF~Lr~q~fIeLir~~~~~eAI~yark~l~~~~~~~~~ei~~~m~lLaf~ 202 (351)
.+++..|+-..++.=...-.-+-.+......|-+..|.|+|+++.|++.+|+..-|..+.+.. -..+.+.++...|+++
T Consensus 57 ~q~vlqg~w~q~v~~~~~i~~~de~~~~ea~fLv~kQ~fLEf~k~~~is~al~~l~~~~~~lr-~~~kk~~el~~sll~s 135 (519)
T KOG0293|consen 57 DQQVLQGQWDQQVMSLVRISFEDERNRKEAMFLVNKQIFLEFLKTGSISHALPVLRNPVLYLR-KNKKKFHELASSLLVS 135 (519)
T ss_pred HHHHHcccHHHHHHHHhhccCcchhhhHHHHHHHHHHHHHHHHhhccHhhhhHhhhcchhhhh-hhHHHHHHHHHHHhcc
Confidence 344455555544443322211112222356799999999999999999999999997666553 3456778888888877
Q ss_pred CC
Q 018698 203 SN 204 (351)
Q Consensus 203 ~~ 204 (351)
.+
T Consensus 136 n~ 137 (519)
T KOG0293|consen 136 ND 137 (519)
T ss_pred cc
Confidence 64
No 76
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=58.11 E-value=6.9 Score=39.61 Aligned_cols=48 Identities=21% Similarity=0.349 Sum_probs=34.3
Q ss_pred CeeeeeccccccCCCCCceeccCCccchHHHHHHHHHhCCCceecCCCCcccCc
Q 018698 289 SKLVCYITKELMDTENPPQVLPNGYVYSTKALEEMAKKNNGKITCPRTGLVCNY 342 (351)
Q Consensus 289 S~~vCpis~e~~~e~NpP~~Lp~GhV~s~~al~~l~~~~~~~~~CP~~~~~~~~ 342 (351)
|-|-|-|. +.--=||+.+||||-+|..+|.+... ..-.||.|..++..
T Consensus 83 sef~c~vc---~~~l~~pv~tpcghs~c~~Cl~r~ld---~~~~cp~Cr~~l~e 130 (398)
T KOG4159|consen 83 SEFECCVC---SRALYPPVVTPCGHSFCLECLDRSLD---QETECPLCRDELVE 130 (398)
T ss_pred chhhhhhh---HhhcCCCccccccccccHHHHHHHhc---cCCCCccccccccc
Confidence 34444444 23345699999999999999988542 45789999887763
No 77
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=58.05 E-value=6.4 Score=25.97 Aligned_cols=15 Identities=33% Similarity=0.773 Sum_probs=12.9
Q ss_pred CCCceecCCCCcccC
Q 018698 327 NNGKITCPRTGLVCN 341 (351)
Q Consensus 327 ~~~~~~CP~~~~~~~ 341 (351)
.+++++||.|+.+|.
T Consensus 22 ~~~~vrC~~C~~~f~ 36 (37)
T PF13719_consen 22 GGRKVRCPKCGHVFR 36 (37)
T ss_pred CCcEEECCCCCcEee
Confidence 467899999999886
No 78
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=57.00 E-value=4.2 Score=40.95 Aligned_cols=43 Identities=16% Similarity=0.319 Sum_probs=34.6
Q ss_pred ceeccCCccchHHHHHHHHHhCCCceecCCCCcccCcCCceeee
Q 018698 306 PQVLPNGYVYSTKALEEMAKKNNGKITCPRTGLVCNYSDLVKAY 349 (351)
Q Consensus 306 P~~Lp~GhV~s~~al~~l~~~~~~~~~CP~~~~~~~~~~~~kvy 349 (351)
-+.|-|||-+|.+++++|.- ...+..||-|.-+-...++++.|
T Consensus 22 ~vsl~cghlFgs~cie~wl~-k~~~~~cp~c~~katkr~i~~e~ 64 (463)
T KOG1645|consen 22 IVSLQCGHLFGSQCIEKWLG-KKTKMQCPLCSGKATKRQIRPEY 64 (463)
T ss_pred EeeecccccccHHHHHHHHh-hhhhhhCcccCChhHHHHHHHHH
Confidence 35589999999999999974 33467999999888877776655
No 79
>COG1579 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]
Probab=56.76 E-value=6.9 Score=36.88 Aligned_cols=29 Identities=17% Similarity=0.372 Sum_probs=22.4
Q ss_pred CCccchHHHHHHHHHhCCCceecCCCCccc
Q 018698 311 NGYVYSTKALEEMAKKNNGKITCPRTGLVC 340 (351)
Q Consensus 311 ~GhV~s~~al~~l~~~~~~~~~CP~~~~~~ 340 (351)
|+-+++..-+..+.+ ++..++||+||-..
T Consensus 203 C~m~l~~~~~~~V~~-~d~iv~CP~CgRIL 231 (239)
T COG1579 203 CHMKLPSQTLSKVRK-KDEIVFCPYCGRIL 231 (239)
T ss_pred CeeeecHHHHHHHhc-CCCCccCCccchHH
Confidence 666677777778765 67889999999654
No 80
>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=55.99 E-value=3.6 Score=26.39 Aligned_cols=21 Identities=29% Similarity=0.637 Sum_probs=14.6
Q ss_pred ccCCccchHHHHHHHHHhCCCceecCCCCc
Q 018698 309 LPNGYVYSTKALEEMAKKNNGKITCPRTGL 338 (351)
Q Consensus 309 Lp~GhV~s~~al~~l~~~~~~~~~CP~~~~ 338 (351)
.-|||+|..+. .-.+||.||.
T Consensus 5 ~~CGy~y~~~~---------~~~~CP~Cg~ 25 (33)
T cd00350 5 PVCGYIYDGEE---------APWVCPVCGA 25 (33)
T ss_pred CCCCCEECCCc---------CCCcCcCCCC
Confidence 35888875433 3469999986
No 81
>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=55.96 E-value=5.7 Score=22.31 Aligned_cols=13 Identities=23% Similarity=0.473 Sum_probs=8.8
Q ss_pred eecCCCCcccCcC
Q 018698 331 ITCPRTGLVCNYS 343 (351)
Q Consensus 331 ~~CP~~~~~~~~~ 343 (351)
+.||+|+..|...
T Consensus 1 ~~C~~C~~~~~~~ 13 (24)
T PF13894_consen 1 FQCPICGKSFRSK 13 (24)
T ss_dssp EE-SSTS-EESSH
T ss_pred CCCcCCCCcCCcH
Confidence 5799999998754
No 82
>PF10276 zf-CHCC: Zinc-finger domain; InterPro: IPR019401 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 a short conserved zinc-finger domain. It contains the sequence motif Cx8Hx14Cx2C. ; PDB: 2JVM_A 2JRR_A 2JZ8_A.
Probab=55.92 E-value=5.7 Score=26.94 Aligned_cols=12 Identities=33% Similarity=0.797 Sum_probs=10.3
Q ss_pred CceecCCCCccc
Q 018698 329 GKITCPRTGLVC 340 (351)
Q Consensus 329 ~~~~CP~~~~~~ 340 (351)
+.+.||||+..|
T Consensus 28 ~~~~CpYCg~~y 39 (40)
T PF10276_consen 28 GPVVCPYCGTRY 39 (40)
T ss_dssp CEEEETTTTEEE
T ss_pred CeEECCCCCCEE
Confidence 469999999876
No 83
>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=55.81 E-value=4.1 Score=29.00 Aligned_cols=11 Identities=27% Similarity=0.531 Sum_probs=8.7
Q ss_pred CceecCCCCcc
Q 018698 329 GKITCPRTGLV 339 (351)
Q Consensus 329 ~~~~CP~~~~~ 339 (351)
..++||.|+..
T Consensus 33 ~~w~CP~C~a~ 43 (50)
T cd00730 33 DDWVCPVCGAG 43 (50)
T ss_pred CCCCCCCCCCc
Confidence 46899999863
No 84
>PF02591 DUF164: Putative zinc ribbon domain; InterPro: IPR003743 This entry describes proteins of unknown function.
Probab=55.39 E-value=13 Score=26.60 Aligned_cols=28 Identities=21% Similarity=0.389 Sum_probs=23.7
Q ss_pred cCCccchHHHHHHHHHhCCCceecCCCCc
Q 018698 310 PNGYVYSTKALEEMAKKNNGKITCPRTGL 338 (351)
Q Consensus 310 p~GhV~s~~al~~l~~~~~~~~~CP~~~~ 338 (351)
-|+-.++...+.++. +++..+.||.||.
T Consensus 27 gC~~~l~~~~~~~i~-~~~~i~~Cp~CgR 54 (56)
T PF02591_consen 27 GCHMELPPQELNEIR-KGDEIVFCPNCGR 54 (56)
T ss_pred CCCEEcCHHHHHHHH-cCCCeEECcCCCc
Confidence 588899999999995 4567899999985
No 85
>PF09538 FYDLN_acid: Protein of unknown function (FYDLN_acid); InterPro: IPR012644 Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=55.25 E-value=5.7 Score=32.87 Aligned_cols=15 Identities=27% Similarity=0.525 Sum_probs=11.7
Q ss_pred CceecCCCCcccCcC
Q 018698 329 GKITCPRTGLVCNYS 343 (351)
Q Consensus 329 ~~~~CP~~~~~~~~~ 343 (351)
.-++||+||.+|..+
T Consensus 25 ~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 25 DPIVCPKCGTEFPPE 39 (108)
T ss_pred CCccCCCCCCccCcc
Confidence 347788888888877
No 86
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=54.40 E-value=17 Score=39.93 Aligned_cols=29 Identities=28% Similarity=0.413 Sum_probs=23.7
Q ss_pred cee-ccCCccchHHHHHHHHHhCCCceecCCCCccc
Q 018698 306 PQV-LPNGYVYSTKALEEMAKKNNGKITCPRTGLVC 340 (351)
Q Consensus 306 P~~-Lp~GhV~s~~al~~l~~~~~~~~~CP~~~~~~ 340 (351)
|++ +-|||.|-..++. ++..+||.|.-+.
T Consensus 853 P~VhF~CgHsyHqhC~e------~~~~~CP~C~~e~ 882 (933)
T KOG2114|consen 853 PFVHFLCGHSYHQHCLE------DKEDKCPKCLPEL 882 (933)
T ss_pred ceeeeecccHHHHHhhc------cCcccCCccchhh
Confidence 444 9999999999997 4568999998743
No 87
>KOG0883 consensus Cyclophilin type, U box-containing peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=54.36 E-value=12 Score=37.75 Aligned_cols=57 Identities=28% Similarity=0.364 Sum_probs=35.3
Q ss_pred CCCCCCCCCCCeeeeeccccccCCCCCceeccCCccchHHHHHHHHHhCCCceecCCCCcccCcCCceee
Q 018698 279 SPLPYSKQHHSKLVCYITKELMDTENPPQVLPNGYVYSTKALEEMAKKNNGKITCPRTGLVCNYSDLVKA 348 (351)
Q Consensus 279 ~~LP~~~~~hS~~vCpis~e~~~e~NpP~~Lp~GhV~s~~al~~l~~~~~~~~~CP~~~~~~~~~~~~kv 348 (351)
..||+.||.-+.+ +.+.|+..+.|.|+...+|-.|.++-+ +-|.+|+....+++.++
T Consensus 36 krLP~~hC~lt~~----------Pfe~PvC~~dg~vFd~~~Ivp~lkk~g---~nP~tG~kl~~~dLIkL 92 (518)
T KOG0883|consen 36 KRLPFNHCSLTML----------PFEDPVCTVDGTVFDLTAIVPWLKKHG---TNPITGQKLDGKDLIKL 92 (518)
T ss_pred ccCChhhceeccc----------cccCcccccCCcEEeeehhhHHHHHcC---CCCCCCCccccccceee
Confidence 4677777655544 466688888888888888877776421 33444444444444444
No 88
>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=54.14 E-value=4.4 Score=32.27 Aligned_cols=16 Identities=25% Similarity=0.316 Sum_probs=12.3
Q ss_pred ceeccCCccchHHHHH
Q 018698 306 PQVLPNGYVYSTKALE 321 (351)
Q Consensus 306 P~~Lp~GhV~s~~al~ 321 (351)
-+++|||||+-..+++
T Consensus 93 f~~~p~~~v~H~~C~~ 108 (109)
T PF10367_consen 93 FVVFPCGHVVHYSCIK 108 (109)
T ss_pred EEEeCCCeEEeccccc
Confidence 3579999999777654
No 89
>PF13838 Clathrin_H_link: Clathrin-H-link; PDB: 2XZG_A 3GD1_I 1BPO_C 1C9I_B 1C9L_A.
Probab=53.98 E-value=15 Score=27.73 Aligned_cols=25 Identities=28% Similarity=0.259 Sum_probs=21.1
Q ss_pred hchhHHHHHHHhcCChHHHHHHHHH
Q 018698 155 QLRLQEFIELVRGENNLRAITYARK 179 (351)
Q Consensus 155 ~Lr~q~fIeLir~~~~~eAI~yark 179 (351)
.|..++|-+|+..|++.||-..|-.
T Consensus 7 ~l~~~~F~~l~~~g~y~eAA~~AA~ 31 (66)
T PF13838_consen 7 DLYVQQFNELFSQGQYEEAAKVAAN 31 (66)
T ss_dssp HHHHHHHHHHHHTT-HHHHHHHHHH
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHh
Confidence 4678999999999999999888873
No 90
>KOG1302 consensus Vacuolar sorting protein VPS33/slp1 (Sec1 family) [Intracellular trafficking, secretion, and vesicular transport]
Probab=53.89 E-value=2.6e+02 Score=29.98 Aligned_cols=90 Identities=17% Similarity=0.201 Sum_probs=64.8
Q ss_pred CCCHHHHHHHHHHHHHHh-cCChHHHHHHHHhhhhHhhhCCCcchhhchhHHHHHHHhcCChHHHHHHHHHh-Cccchhh
Q 018698 110 LVDIEVFQEAKKVIDALQ-NKEVAPALAWCSDNKSRLKKSKSKFEFQLRLQEFIELVRGENNLRAITYARKY-LAPWGAT 187 (351)
Q Consensus 110 lvd~d~f~~~~~I~~~L~-~~dl~~AL~W~~enk~~L~k~~S~LEF~Lr~q~fIeLir~~~~~eAI~yark~-l~~~~~~ 187 (351)
.+..+-|.++.+.++.|. .-|+..+..++.|.-.. .+++.--||+.=...+-..|=..+-++|.|+. +..|+..
T Consensus 364 ~v~~~~f~~~l~lE~ell~~~d~~k~~~~IeElI~~----~~~~~~vLRLicL~Slt~~Gl~~k~l~~~rr~~lqsYG~e 439 (600)
T KOG1302|consen 364 HVKNEDFRKLLKLEHELLEGNDSDKDFDYIEELIYQ----EVPLNNVLRLICLLSLTCNGLKPKDLDHYRREYLQSYGYE 439 (600)
T ss_pred HHhhHHHHHHHHHHHHHHhccCcccchHHHHHHHhh----cccHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHhhhHH
Confidence 344456999999999965 55888888888776443 57888888888888888888777777776654 4557778
Q ss_pred hHHHHHHHHHHhccCC
Q 018698 188 HMKELQRVMATLAFKS 203 (351)
Q Consensus 188 ~~~ei~~~m~lLaf~~ 203 (351)
|+-.++.+--+=++..
T Consensus 440 hl~tl~nL~kaGLl~~ 455 (600)
T KOG1302|consen 440 HLLTLQNLEKAGLLRE 455 (600)
T ss_pred HHHHHHHHHHcCCccc
Confidence 8877777754434433
No 91
>KOG2307 consensus Low density lipoprotein receptor [Intracellular trafficking, secretion, and vesicular transport]
Probab=53.66 E-value=1e+02 Score=32.69 Aligned_cols=56 Identities=21% Similarity=0.408 Sum_probs=38.5
Q ss_pred ccccHHHHhHHHHhhhhHHHHHHHHHHH-HHHHhhc-c-CCCChHHHHHHHHHHHHHHH
Q 018698 48 LRVPFEHYKKTIRTNHRAVEKEITSVIS-NVADVSD-S-ENFSKDDAVNHLTSLVSRLQ 103 (351)
Q Consensus 48 l~vP~E~l~k~fr~~qk~ieke~~~v~~-~~~~~~k-~-~~~~~~~~~~~l~~~i~rl~ 103 (351)
=++|+|.||...|..-|.+.+++-.+++ -.+++=. + +-.+.++++..|..-+.++.
T Consensus 44 ~~v~letLrddLrlylksl~~aMieLIN~DYADFVnLStnLVgld~aln~i~qpL~qlr 102 (705)
T KOG2307|consen 44 QKVDLETLRDDLRLYLKSLQNAMIELINDDYADFVNLSTNLVGLDDALNKIEQPLNQLR 102 (705)
T ss_pred ccCCHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHhhhhhhccHHHHHHHHHhHHHHHH
Confidence 4799999999999999999888765554 2344422 1 23566777777666666543
No 92
>PF13878 zf-C2H2_3: zinc-finger of acetyl-transferase ESCO
Probab=53.60 E-value=7.6 Score=26.31 Aligned_cols=17 Identities=29% Similarity=0.659 Sum_probs=14.1
Q ss_pred CceecCCCCcccCcCCc
Q 018698 329 GKITCPRTGLVCNYSDL 345 (351)
Q Consensus 329 ~~~~CP~~~~~~~~~~~ 345 (351)
+.++||.||..|.....
T Consensus 12 ~~~~C~~CgM~Y~~~~~ 28 (41)
T PF13878_consen 12 GATTCPTCGMLYSPGSP 28 (41)
T ss_pred CCcCCCCCCCEECCCCH
Confidence 56899999999987653
No 93
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=53.08 E-value=13 Score=36.77 Aligned_cols=55 Identities=18% Similarity=0.237 Sum_probs=38.4
Q ss_pred eeccccccCC-CCCceeccCCccchHHHHHHHHHhCCCceecCCCCcccCcCCceeee
Q 018698 293 CYITKELMDT-ENPPQVLPNGYVYSTKALEEMAKKNNGKITCPRTGLVCNYSDLVKAY 349 (351)
Q Consensus 293 Cpis~e~~~e-~NpP~~Lp~GhV~s~~al~~l~~~~~~~~~CP~~~~~~~~~~~~kvy 349 (351)
||+--|.||- +-.-+--|||+-+|+=+...+.++-+ -+||-|...|+.+.++=|-
T Consensus 17 cplcie~mditdknf~pc~cgy~ic~fc~~~irq~ln--grcpacrr~y~denv~~~~ 72 (480)
T COG5175 17 CPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLN--GRCPACRRKYDDENVRYVT 72 (480)
T ss_pred CcccccccccccCCcccCCcccHHHHHHHHHHHhhcc--CCChHhhhhccccceeEEe
Confidence 4444455532 12233479999999999988865433 4799999999999887554
No 94
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=52.96 E-value=8.9 Score=38.63 Aligned_cols=47 Identities=17% Similarity=0.177 Sum_probs=33.4
Q ss_pred cCCCCCcee-ccCCccchHHHHHHHHHhCCCceecCCCCcccCcCCcee
Q 018698 300 MDTENPPQV-LPNGYVYSTKALEEMAKKNNGKITCPRTGLVCNYSDLVK 347 (351)
Q Consensus 300 ~~e~NpP~~-Lp~GhV~s~~al~~l~~~~~~~~~CP~~~~~~~~~~~~k 347 (351)
+.|+|--+. =||||.+|..+|..|- ..++--.||.|.-+..=.+..-
T Consensus 375 CaendKdvkIEPCGHLlCt~CLa~WQ-~sd~gq~CPFCRcEIKGte~vi 422 (563)
T KOG1785|consen 375 CAENDKDVKIEPCGHLLCTSCLAAWQ-DSDEGQTCPFCRCEIKGTEPVI 422 (563)
T ss_pred hhccCCCcccccccchHHHHHHHhhc-ccCCCCCCCceeeEecccccee
Confidence 445555555 5999999999999994 3444569999987766554433
No 95
>PF13465 zf-H2C2_2: Zinc-finger double domain; PDB: 2EN7_A 1TF6_A 1TF3_A 2ELT_A 2EOS_A 2EN2_A 2DMD_A 2WBS_A 2WBU_A 2EM5_A ....
Probab=52.60 E-value=7.4 Score=23.43 Aligned_cols=15 Identities=20% Similarity=0.432 Sum_probs=12.1
Q ss_pred CCCceecCCCCcccC
Q 018698 327 NNGKITCPRTGLVCN 341 (351)
Q Consensus 327 ~~~~~~CP~~~~~~~ 341 (351)
+...++||+|++.|.
T Consensus 11 ~~k~~~C~~C~k~F~ 25 (26)
T PF13465_consen 11 GEKPYKCPYCGKSFS 25 (26)
T ss_dssp SSSSEEESSSSEEES
T ss_pred CCCCCCCCCCcCeeC
Confidence 345699999999885
No 96
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=52.27 E-value=7.3 Score=35.67 Aligned_cols=44 Identities=20% Similarity=0.298 Sum_probs=32.5
Q ss_pred eeeeccccccCCCCCceeccCCccchHHHHHHHHHhCCCceecCCCCccc
Q 018698 291 LVCYITKELMDTENPPQVLPNGYVYSTKALEEMAKKNNGKITCPRTGLVC 340 (351)
Q Consensus 291 ~vCpis~e~~~e~NpP~~Lp~GhV~s~~al~~l~~~~~~~~~CP~~~~~~ 340 (351)
|+|-|-++-... |++..|||-++..+.-+-.+++ -+|-+||+..
T Consensus 197 F~C~iCKkdy~s---pvvt~CGH~FC~~Cai~~y~kg---~~C~~Cgk~t 240 (259)
T COG5152 197 FLCGICKKDYES---PVVTECGHSFCSLCAIRKYQKG---DECGVCGKAT 240 (259)
T ss_pred eeehhchhhccc---hhhhhcchhHHHHHHHHHhccC---Ccceecchhh
Confidence 688888887665 9999999999988764433333 4788887653
No 97
>KOG0883 consensus Cyclophilin type, U box-containing peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=51.15 E-value=9.1 Score=38.46 Aligned_cols=68 Identities=19% Similarity=0.213 Sum_probs=49.2
Q ss_pred CCCCCCCCCCeeeeeccccccCCCCCcee-ccCCccchHHHHHHHHHhCCCceecCCCCcccCcCCceee
Q 018698 280 PLPYSKQHHSKLVCYITKELMDTENPPQV-LPNGYVYSTKALEEMAKKNNGKITCPRTGLVCNYSDLVKA 348 (351)
Q Consensus 280 ~LP~~~~~hS~~vCpis~e~~~e~NpP~~-Lp~GhV~s~~al~~l~~~~~~~~~CP~~~~~~~~~~~~kv 348 (351)
+|-|.....--+-|||+-.+.+++---|. -..|+|||.+||++|.-+ ....++-.+-+.|+..|+..+
T Consensus 91 kL~F~Kns~geyhcPvlfk~FT~~sHIvAv~TTGNvy~~eai~~LNiK-~knwkdLltdepFtR~DiIti 159 (518)
T KOG0883|consen 91 KLKFHKNSEGEYHCPVLFKVFTRFSHIVAVRTTGNVYSWEAIEELNIK-TKNWKDLLTDEPFTRADIITI 159 (518)
T ss_pred eeeeccCCCCcccCceeeeeecccceEEEEEecCceeeHHHHHHhCcc-hhhHHHhhccCCcchhceeee
Confidence 34444445556889999999988766555 589999999999999532 234677777777777776543
No 98
>KOG2391 consensus Vacuolar sorting protein/ubiquitin receptor VPS23 [Posttranslational modification, protein turnover, chaperones; Intracellular trafficking, secretion, and vesicular transport]
Probab=51.11 E-value=2.6e+02 Score=27.82 Aligned_cols=28 Identities=21% Similarity=-0.133 Sum_probs=13.4
Q ss_pred hhchhHHHHHHHhcCChHHHHHHHHHhC
Q 018698 154 FQLRLQEFIELVRGENNLRAITYARKYL 181 (351)
Q Consensus 154 F~Lr~q~fIeLir~~~~~eAI~yark~l 181 (351)
+-|+.|..--+-...-+.+||-|..+-|
T Consensus 299 ~~l~kq~l~~~A~d~aieD~i~~L~~~~ 326 (365)
T KOG2391|consen 299 APLYKQILECYALDLAIEDAIYSLGKSL 326 (365)
T ss_pred chHHHHHHHhhhhhhHHHHHHHHHHHHH
Confidence 4455554444434444555555555544
No 99
>COG1675 TFA1 Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=50.42 E-value=10 Score=34.18 Aligned_cols=40 Identities=30% Similarity=0.310 Sum_probs=24.7
Q ss_pred CCCceeccCCccchHHHHHHHHHhCCCceecCCCCcccCcCCcee
Q 018698 303 ENPPQVLPNGYVYSTKALEEMAKKNNGKITCPRTGLVCNYSDLVK 347 (351)
Q Consensus 303 ~NpP~~Lp~GhV~s~~al~~l~~~~~~~~~CP~~~~~~~~~~~~k 347 (351)
+|.-++-||||+. -++.+-.. -.|+||.||......|..+
T Consensus 110 ~~~~y~C~~~~~r--~sfdeA~~---~~F~Cp~Cg~~L~~~d~s~ 149 (176)
T COG1675 110 ENNYYVCPNCHVK--YSFDEAME---LGFTCPKCGEDLEEYDSSE 149 (176)
T ss_pred cCCceeCCCCCCc--ccHHHHHH---hCCCCCCCCchhhhccchH
Confidence 3444555788875 33443322 2399999999887766543
No 100
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=50.26 E-value=3.3 Score=24.95 Aligned_cols=16 Identities=31% Similarity=0.503 Sum_probs=12.6
Q ss_pred ceecCCCCcccCcCCc
Q 018698 330 KITCPRTGLVCNYSDL 345 (351)
Q Consensus 330 ~~~CP~~~~~~~~~~~ 345 (351)
.+.||.||..|..+.+
T Consensus 2 l~~C~~CgR~F~~~~l 17 (25)
T PF13913_consen 2 LVPCPICGRKFNPDRL 17 (25)
T ss_pred CCcCCCCCCEECHHHH
Confidence 3689999999976654
No 101
>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=50.17 E-value=3.5 Score=28.93 Aligned_cols=25 Identities=28% Similarity=0.562 Sum_probs=16.4
Q ss_pred cCCccchHHHHHHHHHhCCCceecCCCCc
Q 018698 310 PNGYVYSTKALEEMAKKNNGKITCPRTGL 338 (351)
Q Consensus 310 p~GhV~s~~al~~l~~~~~~~~~CP~~~~ 338 (351)
.||+++.. +..+. .+....||.||.
T Consensus 10 ~Cg~~fe~--~~~~~--~~~~~~CP~Cg~ 34 (52)
T TIGR02605 10 ACGHRFEV--LQKMS--DDPLATCPECGG 34 (52)
T ss_pred CCCCEeEE--EEecC--CCCCCCCCCCCC
Confidence 57887753 23332 245688999997
No 102
>TIGR01206 lysW lysine biosynthesis protein LysW. This very small, poorly characterized protein has been shown essential in Thermus thermophilus for an unusual pathway of Lys biosynthesis from aspartate by way of alpha-aminoadipate (AAA) rather than diaminopimelate. It is found also in Deinococcus radiodurans and Pyrococcus horikoshii, which appear to share the AAA pathway.
Probab=48.84 E-value=8.4 Score=27.87 Aligned_cols=16 Identities=19% Similarity=0.503 Sum_probs=12.5
Q ss_pred ceecCCCCcccCcCCc
Q 018698 330 KITCPRTGLVCNYSDL 345 (351)
Q Consensus 330 ~~~CP~~~~~~~~~~~ 345 (351)
.|+||.||..+.+.+.
T Consensus 2 ~~~CP~CG~~iev~~~ 17 (54)
T TIGR01206 2 QFECPDCGAEIELENP 17 (54)
T ss_pred ccCCCCCCCEEecCCC
Confidence 4789999998877653
No 103
>smart00806 AIP3 Actin interacting protein 3. Aip3p/Bud6p is a regulator of cell and cytoskeletal polarity in Saccharomyces cerevisiae that was previously identified as an actin-interacting protein. Actin-interacting protein 3 (Aip3p) localizes at the cell cortex where cytoskeleton assembly must be achieved to execute polarized cell growth, and deletion of AIP3 causes gross defects in cell and cytoskeletal polarity. Aip3p localization is mediated by the secretory pathway, mutations in early- or late-acting components of the secretory apparatus lead to Aip3p mislocalization PUBMED:10679021.
Probab=48.63 E-value=1.1e+02 Score=31.27 Aligned_cols=37 Identities=8% Similarity=0.234 Sum_probs=23.3
Q ss_pred ccccccHHHHhHHHHhhhhHHHHHHHHHHHHHHHhhc
Q 018698 46 QFLRVPFEHYKKTIRTNHRAVEKEITSVISNVADVSD 82 (351)
Q Consensus 46 ~~l~vP~E~l~k~fr~~qk~ieke~~~v~~~~~~~~k 82 (351)
..||-=+-.||-.+...++.+..-++.|...++.++.
T Consensus 158 ~~lrrdLavlRQ~~~~~~~~~~~sm~~i~~k~~~~k~ 194 (426)
T smart00806 158 KSLQRELAVLRQTHNSFFTEIKESIKDILEKIDKFKS 194 (426)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344444556666666777777777777777666644
No 104
>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=48.59 E-value=15 Score=32.07 Aligned_cols=25 Identities=32% Similarity=0.741 Sum_probs=0.0
Q ss_pred CCccc-----hHHHHHHHHHhCCCceecCCCC
Q 018698 311 NGYVY-----STKALEEMAKKNNGKITCPRTG 337 (351)
Q Consensus 311 ~GhV~-----s~~al~~l~~~~~~~~~CP~~~ 337 (351)
|||++ |.+++++..++ |.+.||+||
T Consensus 10 ~gH~FEgWF~ss~~fd~Q~~~--glv~CP~Cg 39 (148)
T PF06676_consen 10 NGHEFEGWFRSSAAFDRQQAR--GLVSCPVCG 39 (148)
T ss_pred CCCccceecCCHHHHHHHHHc--CCccCCCCC
No 105
>KOG3060 consensus Uncharacterized conserved protein [Function unknown]
Probab=47.89 E-value=2.7e+02 Score=26.93 Aligned_cols=152 Identities=17% Similarity=0.198 Sum_probs=70.3
Q ss_pred cccHHHHhHHHHhhhhHHHHHHHHHHHHHHHhhccCCCChHHHHHHHHHHHHHHHhhhhcCCCCHHHHHHHHHH-HHHHh
Q 018698 49 RVPFEHYKKTIRTNHRAVEKEITSVISNVADVSDSENFSKDDAVNHLTSLVSRLQGLKRKDLVDIEVFQEAKKV-IDALQ 127 (351)
Q Consensus 49 ~vP~E~l~k~fr~~qk~ieke~~~v~~~~~~~~k~~~~~~~~~~~~l~~~i~rl~~lkrk~lvd~d~f~~~~~I-~~~L~ 127 (351)
.|.+|.++..+|.|.+.-.|.. +++++.-..++..... +..--|.|.-+.++ +-+|-
T Consensus 7 ~~~~~~l~~~~~~wr~~~~rns------------------eevv~l~~~~~~~~k~----~~~g~e~w~l~EqV~IAAld 64 (289)
T KOG3060|consen 7 DVSWEELRDQMRKWREETVRNS------------------EEVVQLGSEVLNYSKS----GALGDEIWTLYEQVFIAALD 64 (289)
T ss_pred HHHHHHHHHHHHHHHhccccCH------------------HHHHHHHHHHHHHhhh----cccCchHHHHHHHHHHHHHH
Confidence 4667888888887744444443 4444444444433221 21212233333332 33444
Q ss_pred cCChHHHHHHHHhhhhHhhhCCCcchhhchhHHHH--HHHhcCChHHHHHHHHHhCccchhhhHHHHHHHHHHhccCCCC
Q 018698 128 NKEVAPALAWCSDNKSRLKKSKSKFEFQLRLQEFI--ELVRGENNLRAITYARKYLAPWGATHMKELQRVMATLAFKSNT 205 (351)
Q Consensus 128 ~~dl~~AL~W~~enk~~L~k~~S~LEF~Lr~q~fI--eLir~~~~~eAI~yark~l~~~~~~~~~ei~~~m~lLaf~~~~ 205 (351)
.|...-|..=.++.+.++-+ | .|...+- .|=-.|...+|++|--.-+..-.....-..+++..+.+-+++.
T Consensus 65 ~~~~~lAq~C~~~L~~~fp~--S-----~RV~~lkam~lEa~~~~~~A~e~y~~lL~ddpt~~v~~KRKlAilka~GK~l 137 (289)
T KOG3060|consen 65 TGRDDLAQKCINQLRDRFPG--S-----KRVGKLKAMLLEATGNYKEAIEYYESLLEDDPTDTVIRKRKLAILKAQGKNL 137 (289)
T ss_pred hcchHHHHHHHHHHHHhCCC--C-----hhHHHHHHHHHHHhhchhhHHHHHHHHhccCcchhHHHHHHHHHHHHcCCcH
Confidence 55555555555554444421 1 1222211 1112356666666665444322111122234555555555543
Q ss_pred Cc----cchhhh--cCcCCHHHHHHHHHHH
Q 018698 206 EC----TTYKAL--FEPKQWDFLVDQFKQE 229 (351)
Q Consensus 206 ~~----spY~~L--~~~~rW~~L~~~F~~~ 229 (351)
++ -.|-+. .|++.|.+|++.|..+
T Consensus 138 ~aIk~ln~YL~~F~~D~EAW~eLaeiY~~~ 167 (289)
T KOG3060|consen 138 EAIKELNEYLDKFMNDQEAWHELAEIYLSE 167 (289)
T ss_pred HHHHHHHHHHHHhcCcHHHHHHHHHHHHhH
Confidence 21 223232 3678899998877543
No 106
>KOG2910 consensus Uncharacterized conserved protein predicted to be involved in protein sorting [General function prediction only]
Probab=47.47 E-value=1.8e+02 Score=26.58 Aligned_cols=46 Identities=15% Similarity=0.167 Sum_probs=33.7
Q ss_pred hHHHHHHHHhhhhHhhhCCCcchhhchhHHHHHHHhcCChHHHHHHHHHhCc
Q 018698 131 VAPALAWCSDNKSRLKKSKSKFEFQLRLQEFIELVRGENNLRAITYARKYLA 182 (351)
Q Consensus 131 l~~AL~W~~enk~~L~k~~S~LEF~Lr~q~fIeLir~~~~~eAI~yark~l~ 182 (351)
++-+..|+.. |..+-+++||..-.++|++=+++|+ +||.-.++.|.
T Consensus 72 l~qt~~qL~n----lEqmvsdiEft~vqk~V~~gLk~GN--~~lkkl~~~~~ 117 (209)
T KOG2910|consen 72 LTQTDNQLIN----LEQMVSDIEFTQVQKKVMEGLKQGN--EALKKLQQEFD 117 (209)
T ss_pred HHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHhcC
Confidence 3344555543 4444589999999999999999995 68877777665
No 107
>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=47.40 E-value=13 Score=24.14 Aligned_cols=8 Identities=38% Similarity=0.829 Sum_probs=6.2
Q ss_pred ecCCCCcc
Q 018698 332 TCPRTGLV 339 (351)
Q Consensus 332 ~CP~~~~~ 339 (351)
+||.||..
T Consensus 20 ~CP~Cg~~ 27 (34)
T cd00729 20 KCPICGAP 27 (34)
T ss_pred cCcCCCCc
Confidence 88888863
No 108
>TIGR02098 MJ0042_CXXC MJ0042 family finger-like domain. This domain contains a CXXCX(19)CXXC motif suggestive of both zinc fingers and thioredoxin, usually found at the N-terminus of prokaryotic proteins. One partially characterized gene, agmX, is among a large set in Myxococcus whose interruption affects adventurous gliding motility.
Probab=47.24 E-value=8.2 Score=25.19 Aligned_cols=15 Identities=27% Similarity=0.541 Sum_probs=11.2
Q ss_pred ceecCCCCcccCcCC
Q 018698 330 KITCPRTGLVCNYSD 344 (351)
Q Consensus 330 ~~~CP~~~~~~~~~~ 344 (351)
+++||.|+..|..++
T Consensus 2 ~~~CP~C~~~~~v~~ 16 (38)
T TIGR02098 2 RIQCPNCKTSFRVVD 16 (38)
T ss_pred EEECCCCCCEEEeCH
Confidence 468888888877664
No 109
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=46.41 E-value=10 Score=24.89 Aligned_cols=16 Identities=31% Similarity=0.449 Sum_probs=12.7
Q ss_pred ceecCCCCcccCcCCc
Q 018698 330 KITCPRTGLVCNYSDL 345 (351)
Q Consensus 330 ~~~CP~~~~~~~~~~~ 345 (351)
++.||.|+..|..+|-
T Consensus 2 ~i~Cp~C~~~y~i~d~ 17 (36)
T PF13717_consen 2 IITCPNCQAKYEIDDE 17 (36)
T ss_pred EEECCCCCCEEeCCHH
Confidence 4789999988887764
No 110
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=45.93 E-value=10 Score=41.81 Aligned_cols=20 Identities=25% Similarity=0.399 Sum_probs=17.2
Q ss_pred CceeccCCccchHHHHHHHH
Q 018698 305 PPQVLPNGYVYSTKALEEMA 324 (351)
Q Consensus 305 pP~~Lp~GhV~s~~al~~l~ 324 (351)
|-|++||||-+-+++|.+-.
T Consensus 831 pF~vf~CgH~FH~~Cl~~~v 850 (911)
T KOG2034|consen 831 PFYVFPCGHCFHRDCLIRHV 850 (911)
T ss_pred cceeeeccchHHHHHHHHHH
Confidence 77889999999999997643
No 111
>PF14255 Cys_rich_CPXG: Cysteine-rich CPXCG
Probab=45.58 E-value=8 Score=27.76 Aligned_cols=12 Identities=33% Similarity=0.609 Sum_probs=9.8
Q ss_pred eecCCCCcccCc
Q 018698 331 ITCPRTGLVCNY 342 (351)
Q Consensus 331 ~~CP~~~~~~~~ 342 (351)
+.|||||+.+..
T Consensus 1 i~CPyCge~~~~ 12 (52)
T PF14255_consen 1 IQCPYCGEPIEI 12 (52)
T ss_pred CCCCCCCCeeEE
Confidence 479999998764
No 112
>PF06248 Zw10: Centromere/kinetochore Zw10; InterPro: IPR009361 Zeste white 10 (ZW10) was initially identified as a mitotic checkpoint protein involved in chromosome segregation, and then implicated in targeting cytoplasmic dynein and dynactin to mitotic kinetochores, but it is also important in non-dividing cells. These include cytoplasmic dynein targeting to Golgi and other membranes, and SNARE-mediated ER-Golgi trafficking [, ]. Dominant-negative ZW10, anti-ZW10 antibody, and ZW10 RNA interference (RNAi) cause Golgi dispersal. ZW10 RNAi also disperse endosomes and lysosomes []. Drosophila kinetochore components Rough deal (Rod) and Zw10 are required for the proper functioning of the metaphase checkpoint in flies []. The eukaryotic spindle assembly checkpoint (SAC) monitors microtubule attachment to kinetochores and prevents anaphase onset until all kinetochores are aligned on the metaphase plate. It is an essential surveillance mechanism that ensures high fidelity chromosome segregation during mitosis. In higher eukaryotes, cytoplasmic dynein is involved in silencing the SAC by removing the checkpoint proteins Mad2 and the Rod-Zw10-Zwilch complex (RZZ) from aligned kinetochores [, , ].; GO: 0007067 mitosis, 0000775 chromosome, centromeric region, 0005634 nucleus
Probab=45.56 E-value=2.6e+02 Score=29.66 Aligned_cols=61 Identities=28% Similarity=0.304 Sum_probs=38.6
Q ss_pred HHHHHHHHHHHHHHhhhhc-----CCC----CH-HHHHHHHHHHHHHhcCChHHHHHHHHhhhhHhhhCCC
Q 018698 90 DAVNHLTSLVSRLQGLKRK-----DLV----DI-EVFQEAKKVIDALQNKEVAPALAWCSDNKSRLKKSKS 150 (351)
Q Consensus 90 ~~~~~l~~~i~rl~~lkrk-----~lv----d~-d~f~~~~~I~~~L~~~dl~~AL~W~~enk~~L~k~~S 150 (351)
++...+....+++..|+|. .+. .+ ++-..+..+..++.+|++-.|++++.+-+..|...+.
T Consensus 73 ~i~~~l~~a~~e~~~L~~eL~~~~~~l~~L~~L~~i~~~l~~~~~al~~~~~~~Aa~~L~~~~~~L~~l~~ 143 (593)
T PF06248_consen 73 EIQPQLRDAAEELQELKRELEENEQLLEVLEQLQEIDELLEEVEEALKEGNYLDAADLLEELKSLLDDLKS 143 (593)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHhcCc
Confidence 3444555555556666655 010 11 1223345566677789999999999999999988643
No 113
>COG2835 Uncharacterized conserved protein [Function unknown]
Probab=45.11 E-value=17 Score=26.86 Aligned_cols=15 Identities=33% Similarity=0.713 Sum_probs=7.4
Q ss_pred ceecCCCCcccCcCC
Q 018698 330 KITCPRTGLVCNYSD 344 (351)
Q Consensus 330 ~~~CP~~~~~~~~~~ 344 (351)
...||.|+..|...|
T Consensus 26 ~L~c~~~~~aYpI~d 40 (60)
T COG2835 26 ELICPRCKLAYPIRD 40 (60)
T ss_pred EEEecccCceeeccc
Confidence 345555555554444
No 114
>COG1084 Predicted GTPase [General function prediction only]
Probab=44.35 E-value=3.4e+02 Score=27.08 Aligned_cols=120 Identities=18% Similarity=0.246 Sum_probs=61.9
Q ss_pred ccccccHHHHhHHHHhhhhHHHH--------HHHHHHHHHHHhhccCCCChHHHHHHHHHHHHHHHhhhhcCCCCHHHHH
Q 018698 46 QFLRVPFEHYKKTIRTNHRAVEK--------EITSVISNVADVSDSENFSKDDAVNHLTSLVSRLQGLKRKDLVDIEVFQ 117 (351)
Q Consensus 46 ~~l~vP~E~l~k~fr~~qk~iek--------e~~~v~~~~~~~~k~~~~~~~~~~~~l~~~i~rl~~lkrk~lvd~d~f~ 117 (351)
|++--+-|.+-|.||.++|.-.. ..+...-....++ ...+-+...|+.+++|...+.+=+ ..|.
T Consensus 9 ptv~~~~ElIdk~f~Ra~r~~~~~~~~~~~~~~kar~~e~~rv~----t~~~i~~d~l~~iv~~~P~id~Lh----pFY~ 80 (346)
T COG1084 9 PTVPTADELIDKAFRRAERAESTVRPDKGPKIVKAREFEIRRVK----TASNIVRDRLDKIVERFPSLDDLH----PFYR 80 (346)
T ss_pred CCCCCcHHHHHHHHHHHHhhcccccCCcchhHHHHHHHHHHHHH----HHHHHHHHHHHHHHHhCCCccccC----hHHH
Confidence 44445568888999888876321 1222211111221 222445567778877744332210 1233
Q ss_pred HHHHHHHHHhcC-ChHHHHHHHHhhhhHhhhCCCcchhhchhHHHHHHHhcC-ChHHHHHHHHHhCccch
Q 018698 118 EAKKVIDALQNK-EVAPALAWCSDNKSRLKKSKSKFEFQLRLQEFIELVRGE-NNLRAITYARKYLAPWG 185 (351)
Q Consensus 118 ~~~~I~~~L~~~-dl~~AL~W~~enk~~L~k~~S~LEF~Lr~q~fIeLir~~-~~~eAI~yark~l~~~~ 185 (351)
++-.|.-++..- -.=.++.|+...-.+|. -+||.+||.. +..+|-+-.|..+..++
T Consensus 81 eLidvl~d~d~~k~sLs~v~~A~~~i~~l~------------~eYi~~lk~a~~~~~~~~lrR~a~GR~a 138 (346)
T COG1084 81 ELIDVLVDIDHLKISLSAVSWASKIIEKLA------------REYIRLLKAAKDPKEANQLRRQAFGRVA 138 (346)
T ss_pred HHHHHHhCHHHHHHHHHHHHHHHHHHHHHH------------HHHHHHHhcCCChhHHHHHHHHHHHHHH
Confidence 333333322211 11247888877655553 3677777755 46666666676666654
No 115
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=43.86 E-value=8.6 Score=28.07 Aligned_cols=16 Identities=31% Similarity=0.688 Sum_probs=12.4
Q ss_pred CCceecCCCCcccCcC
Q 018698 328 NGKITCPRTGLVCNYS 343 (351)
Q Consensus 328 ~~~~~CP~~~~~~~~~ 343 (351)
+..++||+|+..|..+
T Consensus 15 E~~lrCPRC~~~FR~~ 30 (65)
T COG4049 15 EEFLRCPRCGMVFRRR 30 (65)
T ss_pred ceeeeCCchhHHHHHh
Confidence 3457999999998643
No 116
>PF04710 Pellino: Pellino; InterPro: IPR006800 Pellino is involved in Toll-like signalling pathways, and associates with the kinase domain of the Pelle Ser/Thr kinase [, , ].; PDB: 3EGB_B 3EGA_A.
Probab=43.15 E-value=7.9 Score=38.92 Aligned_cols=41 Identities=27% Similarity=0.341 Sum_probs=0.0
Q ss_pred CCCCcee-ccCCccchHHHHHHHHHhCCCceecCCCCcccCc
Q 018698 302 TENPPQV-LPNGYVYSTKALEEMAKKNNGKITCPRTGLVCNY 342 (351)
Q Consensus 302 e~NpP~~-Lp~GhV~s~~al~~l~~~~~~~~~CP~~~~~~~~ 342 (351)
++..|++ |.||||-+.-..-.-.......-+||.|-++-..
T Consensus 299 ~~~qP~VYl~CGHVhG~h~Wg~~~~~~~~~r~CPlCr~~g~~ 340 (416)
T PF04710_consen 299 DERQPWVYLNCGHVHGYHNWGQDSDRDPRSRTCPLCRQVGPY 340 (416)
T ss_dssp ------------------------------------------
T ss_pred cccCceeeccccceeeecccccccccccccccCCCccccCCc
Confidence 3455555 9999999987765432222246799999877554
No 117
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=42.79 E-value=17 Score=34.50 Aligned_cols=28 Identities=29% Similarity=0.685 Sum_probs=22.6
Q ss_pred eeeccccccCCCCCceeccCCccchHHHHHH
Q 018698 292 VCYITKELMDTENPPQVLPNGYVYSTKALEE 322 (351)
Q Consensus 292 vCpis~e~~~e~NpP~~Lp~GhV~s~~al~~ 322 (351)
-|..+-+++-+ ||.-|.||+|+++||.+
T Consensus 45 cCsLtLqPc~d---Pvit~~GylfdrEaILe 72 (303)
T KOG3039|consen 45 CCSLTLQPCRD---PVITPDGYLFDREAILE 72 (303)
T ss_pred eeeeecccccC---CccCCCCeeeeHHHHHH
Confidence 46666666654 99999999999999976
No 118
>PF13805 Pil1: Eisosome component PIL1; PDB: 3PLT_B.
Probab=42.22 E-value=1.1e+02 Score=29.57 Aligned_cols=61 Identities=16% Similarity=0.227 Sum_probs=26.5
Q ss_pred ccccccHHHHhHHHHhhhhHHH---HHHHHHHHHHHHhhccCCCChHHHHHHHHHHHHHHHhhh
Q 018698 46 QFLRVPFEHYKKTIRTNHRAVE---KEITSVISNVADVSDSENFSKDDAVNHLTSLVSRLQGLK 106 (351)
Q Consensus 46 ~~l~vP~E~l~k~fr~~qk~ie---ke~~~v~~~~~~~~k~~~~~~~~~~~~l~~~i~rl~~lk 106 (351)
|.+--|.-.|-|.-|..-...+ +|...+..++.+-....+.+..|+..+|.-++..+-.+.
T Consensus 53 pe~sr~L~~LIk~EK~vi~s~e~~are~~~~A~~L~~WG~~edddl~DIsDklgvLl~e~ge~e 116 (271)
T PF13805_consen 53 PELSRKLQRLIKAEKSVIRSLESAARERKAAAKQLSEWGEQEDDDLSDISDKLGVLLYEIGELE 116 (271)
T ss_dssp -TTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTS-HHHHHHHHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHHHHHH
Confidence 4444444444444444333333 233333333433333333344566666666666554433
No 119
>PF10915 DUF2709: Protein of unknown function (DUF2709); InterPro: IPR024484 Members of this family appear restricted to Chlamydiales. Their function is unknown.
Probab=42.16 E-value=34 Score=31.24 Aligned_cols=52 Identities=12% Similarity=0.233 Sum_probs=35.0
Q ss_pred CCCCCeeeeeccccccCCCCCceeccCCccchHHHHHHHHHhCCCceecCCCCcccCcCCceeeec
Q 018698 285 KQHHSKLVCYITKELMDTENPPQVLPNGYVYSTKALEEMAKKNNGKITCPRTGLVCNYSDLVKAYI 350 (351)
Q Consensus 285 ~~~hS~~vCpis~e~~~e~NpP~~Lp~GhV~s~~al~~l~~~~~~~~~CP~~~~~~~~~~~~kvyi 350 (351)
-.+.-+.|||.||.+..++ -|-=-.+||-.|.. +||.-.+...=-.++|-|+
T Consensus 82 E~TkkIYICPFTGKVF~DN--------t~~nPQDAIYDWvS------kCPeN~ER~~G~rVKRF~V 133 (238)
T PF10915_consen 82 EQTKKIYICPFTGKVFGDN--------THPNPQDAIYDWVS------KCPENTERQGGVRVKRFFV 133 (238)
T ss_pred cccceEEEcCCcCccccCC--------CCCChHHHHHHHHh------hCCccchhccCeEEEEEee
Confidence 4677899999999999663 22234688888863 6776665555445555444
No 120
>PF07729 FCD: FCD domain; InterPro: IPR011711 Many bacterial transcription regulation proteins bind DNA through a helix-turn-helix (HTH) motif, which can be classified into subfamilies on the basis of sequence similarities. The HTH GntR family has many members distributed among diverse bacterial groups that regulate various biological processes. It was named GntR after the Bacillus subtilis repressor of the gluconate operon []. In general, these proteins contain a DNA-binding HTH domain at the N terminus, and an effector binding or oligomerisation domain at the C terminus. The winged-helix DNA-binding domain is well conserved in structure for the whole of the GntR family (IPR000524 from INTERPRO), and is similar in structure to other transcriptional regulator families. The C-terminal effector-binding and oligomerisation domains are more variable and are consequently used to define the subfamilies. Based on the sequence and structure of the C-terminal domains, the GtnR family can be divided into four major groups, as represented by FadR (IPR008920 from INTERPRO), HutC, MocR and YtrA, as well as some minor groups such as those represented by AraR and PlmA []. This entry represents the C-terminal ligand binding domain of many members of the GntR family. This domain probably binds to a range of effector molecules that regulate the transcription of genes through the action of the N-terminal DNA-binding domain. This domain is found in P45427 from SWISSPROT and P31460 from SWISSPROT that are regulators of sugar biosynthesis operons.; PDB: 3SXK_A 3SXY_A 3SXM_B 3SXZ_A 3FMS_A 2DI3_B 2HS5_A 3IHU_B 3C7J_A.
Probab=40.64 E-value=1.7e+02 Score=22.60 Aligned_cols=27 Identities=19% Similarity=0.306 Sum_probs=20.5
Q ss_pred HHHHHHHHHHHHhcCChHHHHHHHHhh
Q 018698 115 VFQEAKKVIDALQNKEVAPALAWCSDN 141 (351)
Q Consensus 115 ~f~~~~~I~~~L~~~dl~~AL~W~~en 141 (351)
...+..+|.++|+.||.+.|-+++.+|
T Consensus 96 ~~~~h~~i~~ai~~~d~~~a~~~~~~h 122 (125)
T PF07729_consen 96 SLEEHREIIDAIRAGDPEAAREALRQH 122 (125)
T ss_dssp HHHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence 466778888888888888888887766
No 121
>PHA01750 hypothetical protein
Probab=40.17 E-value=1.3e+02 Score=22.65 Aligned_cols=31 Identities=10% Similarity=0.336 Sum_probs=22.5
Q ss_pred HHHHhHHHHhhhhH-HHHHHHHHHHHHHHhhc
Q 018698 52 FEHYKKTIRTNHRA-VEKEITSVISNVADVSD 82 (351)
Q Consensus 52 ~E~l~k~fr~~qk~-ieke~~~v~~~~~~~~k 82 (351)
|=.++..||.+-|. +.+|++++...+.++++
T Consensus 25 YlKIKq~lkdAvkeIV~~ELdNL~~ei~~~ki 56 (75)
T PHA01750 25 YLKIKQALKDAVKEIVNSELDNLKTEIEELKI 56 (75)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44566777777655 46788888888888874
No 122
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=40.03 E-value=14 Score=37.14 Aligned_cols=47 Identities=28% Similarity=0.545 Sum_probs=36.6
Q ss_pred eeeeccccccCCCCCc-eeccCCccchHHHHHHHHHhCCCceecCCCCc
Q 018698 291 LVCYITKELMDTENPP-QVLPNGYVYSTKALEEMAKKNNGKITCPRTGL 338 (351)
Q Consensus 291 ~vCpis~e~~~e~NpP-~~Lp~GhV~s~~al~~l~~~~~~~~~CP~~~~ 338 (351)
+.|-.-||....-|-- -.|||.|++-.+++.++..+ ++.-.||-|.+
T Consensus 366 L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~-n~~rsCP~Crk 413 (518)
T KOG1941|consen 366 LYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILEN-NGTRSCPNCRK 413 (518)
T ss_pred hhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHh-CCCCCCccHHH
Confidence 5688888887554433 45999999999999998865 45679999984
No 123
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=39.74 E-value=9.9 Score=40.50 Aligned_cols=20 Identities=15% Similarity=0.197 Sum_probs=18.1
Q ss_pred CceeccCCccchHHHHHHHH
Q 018698 305 PPQVLPNGYVYSTKALEEMA 324 (351)
Q Consensus 305 pP~~Lp~GhV~s~~al~~l~ 324 (351)
-|+-|-|||+|++.+++.+-
T Consensus 27 ~Pvsl~cghtic~~c~~~ly 46 (861)
T KOG3161|consen 27 EPVSLQCGHTICGHCVQLLY 46 (861)
T ss_pred CcccccccchHHHHHHHhHh
Confidence 38889999999999999985
No 124
>KOG2104 consensus Nuclear transport factor 2 [Intracellular trafficking, secretion, and vesicular transport]
Probab=38.25 E-value=49 Score=27.88 Aligned_cols=21 Identities=19% Similarity=0.566 Sum_probs=18.3
Q ss_pred CcCCHHHHHHHHHHHHHHHcCC
Q 018698 215 EPKQWDFLVDQFKQEFCKLYGM 236 (351)
Q Consensus 215 ~~~rW~~L~~~F~~~~~~l~gl 236 (351)
++ .|+.++..|..-||.++.-
T Consensus 3 d~-~~e~v~~~FvqhYY~~FD~ 23 (126)
T KOG2104|consen 3 DP-VYEAVAKAFVQHYYSLFDN 23 (126)
T ss_pred Cc-cHHHHHHHHHHHHHHHhcC
Confidence 44 7999999999999999873
No 125
>PF12660 zf-TFIIIC: Putative zinc-finger of transcription factor IIIC complex; InterPro: IPR024764 This zinc-finger domain is at the very C terminus of a number of different TFIIIC subunit proteins. This domain might be involved in protein-DNA and/or protein-protein interactions [].; PDB: 2J04_C.
Probab=38.16 E-value=4.8 Score=32.65 Aligned_cols=19 Identities=21% Similarity=0.165 Sum_probs=8.6
Q ss_pred CCCCCeeeeeccccccCCC
Q 018698 285 KQHHSKLVCYITKELMDTE 303 (351)
Q Consensus 285 ~~~hS~~vCpis~e~~~e~ 303 (351)
..-|..-.|.+|...+.+-
T Consensus 35 ~~GH~w~RC~lT~l~i~~~ 53 (99)
T PF12660_consen 35 ENGHVWPRCALTFLPIQTP 53 (99)
T ss_dssp TTS-EEEB-SSS-SBS-SS
T ss_pred CCCCEEeeeeeeeeeeccC
Confidence 3445555666666666553
No 126
>PRK11827 hypothetical protein; Provisional
Probab=37.92 E-value=28 Score=25.77 Aligned_cols=22 Identities=18% Similarity=0.407 Sum_probs=12.1
Q ss_pred Ceeeeecccccc-CCCCCceecc
Q 018698 289 SKLVCYITKELM-DTENPPQVLP 310 (351)
Q Consensus 289 S~~vCpis~e~~-~e~NpP~~Lp 310 (351)
..|+|...|-.. =.++-|+||+
T Consensus 25 ~~Lic~~~~laYPI~dgIPVlL~ 47 (60)
T PRK11827 25 QELICKLDNLAFPLRDGIPVLLE 47 (60)
T ss_pred CeEECCccCeeccccCCccccCH
Confidence 456666555544 3455566654
No 127
>PF04124 Dor1: Dor1-like family ; InterPro: IPR007255 Dor1 is involved in vesicle targeting to the yeast Golgi apparatus and complexes with a number of other trafficking proteins, which include Sec34 and Sec35 [].
Probab=37.71 E-value=3.7e+02 Score=26.32 Aligned_cols=30 Identities=13% Similarity=0.230 Sum_probs=19.0
Q ss_pred cccHHHHhHHHHhhhhHHHHHHHHHHHHHHHhhc
Q 018698 49 RVPFEHYKKTIRTNHRAVEKEITSVISNVADVSD 82 (351)
Q Consensus 49 ~vP~E~l~k~fr~~qk~ieke~~~v~~~~~~~~k 82 (351)
.-|||.|.+ ---.|+.+...+...+.++.+
T Consensus 6 s~~l~~L~~----Ep~~L~~~~~~l~~ql~~La~ 35 (338)
T PF04124_consen 6 SLSLESLFS----EPQSLSEEIASLDAQLQSLAF 35 (338)
T ss_pred cCCHHHHHh----hHHHHHHHHHHHHHHHHHHHH
Confidence 457777777 344566666666666666654
No 128
>PF04423 Rad50_zn_hook: Rad50 zinc hook motif; InterPro: IPR007517 The Mre11 complex (Mre11 Rad50 Nbs1) is central to chromosomal maintenance and functions in homologous recombination, telomere maintenance and sister chromatid association. The Rad50 coiled-coil region contains a dimer interface at the apex of the coiled coils in which pairs of conserved Cys-X-X-Cys motifs form interlocking hooks that bind one Zn ion. This alignment includes the zinc hook motif and a short stretch of coiled-coil on either side.; GO: 0004518 nuclease activity, 0005524 ATP binding, 0008270 zinc ion binding, 0006281 DNA repair; PDB: 1L8D_B.
Probab=37.13 E-value=17 Score=25.85 Aligned_cols=14 Identities=21% Similarity=0.356 Sum_probs=7.9
Q ss_pred ecCCCCcccCcCCc
Q 018698 332 TCPRTGLVCNYSDL 345 (351)
Q Consensus 332 ~CP~~~~~~~~~~~ 345 (351)
.||.|+..|+.++-
T Consensus 22 ~CPlC~r~l~~e~~ 35 (54)
T PF04423_consen 22 CCPLCGRPLDEEHR 35 (54)
T ss_dssp E-TTT--EE-HHHH
T ss_pred cCCCCCCCCCHHHH
Confidence 99999999886543
No 129
>smart00668 CTLH C-terminal to LisH motif. Alpha-helical motif of unknown function.
Probab=35.85 E-value=48 Score=23.00 Aligned_cols=28 Identities=14% Similarity=0.160 Sum_probs=23.8
Q ss_pred hhHHHHHHHhcCChHHHHHHHHHhCccc
Q 018698 157 RLQEFIELVRGENNLRAITYARKYLAPW 184 (351)
Q Consensus 157 r~q~fIeLir~~~~~eAI~yark~l~~~ 184 (351)
.++++.+.|..|+..+|++++..+-+..
T Consensus 4 ~~~~i~~~i~~g~~~~a~~~~~~~~~~l 31 (58)
T smart00668 4 ERKRIRELILKGDWDEALEWLSSLKPPL 31 (58)
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHcCHHH
Confidence 4577899999999999999999876654
No 130
>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=35.81 E-value=17 Score=25.93 Aligned_cols=15 Identities=27% Similarity=0.512 Sum_probs=12.1
Q ss_pred CceecCCCCcccCcC
Q 018698 329 GKITCPRTGLVCNYS 343 (351)
Q Consensus 329 ~~~~CP~~~~~~~~~ 343 (351)
..+|||+|+....+.
T Consensus 23 leIKCpRC~tiN~~~ 37 (51)
T PF10122_consen 23 LEIKCPRCKTINHVR 37 (51)
T ss_pred EEEECCCCCccceEe
Confidence 479999999877654
No 131
>PF12126 DUF3583: Protein of unknown function (DUF3583); InterPro: IPR021978 This domain is found in eukaryotes, and is typically between 302 and 338 amino acids in length. It is found in association with PF00097 from PFAM and PF00643 from PFAM. Most members are promyelocytic leukemia proteins, and this family lies towards the C terminus.
Probab=35.44 E-value=1.5e+02 Score=28.83 Aligned_cols=24 Identities=21% Similarity=0.416 Sum_probs=19.5
Q ss_pred hCCCcchhhchhHHHHHHHhcCCh
Q 018698 147 KSKSKFEFQLRLQEFIELVRGENN 170 (351)
Q Consensus 147 k~~S~LEF~Lr~q~fIeLir~~~~ 170 (351)
+.++--||+.|+|.++.-|.+|.-
T Consensus 133 ~td~F~E~k~rLQ~L~scItq~td 156 (324)
T PF12126_consen 133 RTDGFDEFKARLQDLVSCITQGTD 156 (324)
T ss_pred ecccHHHHHHHHHHHHHHHhcCcc
Confidence 345677999999999999998753
No 132
>PF14353 CpXC: CpXC protein
Probab=35.13 E-value=32 Score=28.72 Aligned_cols=26 Identities=19% Similarity=0.268 Sum_probs=17.7
Q ss_pred HHHHHHHHhCCCceecCCCCcccCcC
Q 018698 318 KALEEMAKKNNGKITCPRTGLVCNYS 343 (351)
Q Consensus 318 ~al~~l~~~~~~~~~CP~~~~~~~~~ 343 (351)
+..+++..+.=..++||.||..+..+
T Consensus 26 ~l~e~il~g~l~~~~CP~Cg~~~~~~ 51 (128)
T PF14353_consen 26 ELKEKILDGSLFSFTCPSCGHKFRLE 51 (128)
T ss_pred HHHHHHHcCCcCEEECCCCCCceecC
Confidence 34455553333579999999998763
No 133
>PF07282 OrfB_Zn_ribbon: Putative transposase DNA-binding domain; InterPro: IPR010095 This entry represents a region of a sequence similarity between a family of putative transposases of Thermoanaerobacter tengcongensis, smaller related proteins from Bacillus anthracis, putative transposes described by IPR001959 from INTERPRO, and other proteins. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=34.57 E-value=19 Score=26.59 Aligned_cols=17 Identities=24% Similarity=0.544 Sum_probs=11.7
Q ss_pred CCCceecCCCCcccCcC
Q 018698 327 NNGKITCPRTGLVCNYS 343 (351)
Q Consensus 327 ~~~~~~CP~~~~~~~~~ 343 (351)
.+..++||.||..++.+
T Consensus 43 ~~r~~~C~~Cg~~~~rD 59 (69)
T PF07282_consen 43 SGRVFTCPNCGFEMDRD 59 (69)
T ss_pred ccceEEcCCCCCEECcH
Confidence 34568888888776543
No 134
>PF14691 Fer4_20: Dihydroprymidine dehydrogenase domain II, 4Fe-4S cluster; PDB: 2VDC_G 1H7X_C 1H7W_A 1GT8_A 1GTE_B 1GTH_B.
Probab=34.32 E-value=48 Score=27.38 Aligned_cols=29 Identities=24% Similarity=0.318 Sum_probs=21.6
Q ss_pred hhchhHHHHHHHhcCChHHHHHHHHHhCc
Q 018698 154 FQLRLQEFIELVRGENNLRAITYARKYLA 182 (351)
Q Consensus 154 F~Lr~q~fIeLir~~~~~eAI~yark~l~ 182 (351)
.++...+||.+|+.|++.+|++..++..+
T Consensus 38 ~~~dip~~i~~i~~g~~~~A~~~i~~~np 66 (111)
T PF14691_consen 38 AHIDIPEYIRLIREGNFKEAYELIREDNP 66 (111)
T ss_dssp T---HHHHHHHHHCT-HHHHHHHHHHH-T
T ss_pred CCCcHHHHHHHHHCCCHHHHHHHHHHhCC
Confidence 45678999999999999999999997543
No 135
>PF07889 DUF1664: Protein of unknown function (DUF1664); InterPro: IPR012458 The members of this family are hypothetical plant proteins of unknown function. The region featured in this family is approximately 100 amino acids long.
Probab=34.09 E-value=1.2e+02 Score=25.89 Aligned_cols=27 Identities=11% Similarity=0.316 Sum_probs=22.9
Q ss_pred hHHHHhhhhHHHHHHHHHHHHHHHhhc
Q 018698 56 KKTIRTNHRAVEKEITSVISNVADVSD 82 (351)
Q Consensus 56 ~k~fr~~qk~ieke~~~v~~~~~~~~k 82 (351)
||++.++=..+-+++.+|...++..++
T Consensus 38 rr~m~~A~~~v~kql~~vs~~l~~tKk 64 (126)
T PF07889_consen 38 RRSMSDAVASVSKQLEQVSESLSSTKK 64 (126)
T ss_pred HHhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 788888888888888888888888875
No 136
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=33.74 E-value=16 Score=28.47 Aligned_cols=43 Identities=9% Similarity=0.183 Sum_probs=33.9
Q ss_pred CCCCceec-cCCccchHHHHHHHHHhCCCceecCCCCcccCcCC
Q 018698 302 TENPPQVL-PNGYVYSTKALEEMAKKNNGKITCPRTGLVCNYSD 344 (351)
Q Consensus 302 e~NpP~~L-p~GhV~s~~al~~l~~~~~~~~~CP~~~~~~~~~~ 344 (351)
++|=|+++ -|-|.+-.-+|.++......+-.||.|.++|.+.|
T Consensus 41 gDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~~~e 84 (84)
T KOG1493|consen 41 GDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQFKE 84 (84)
T ss_pred CCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeEecC
Confidence 36667765 68888888889888766677889999999987654
No 137
>PF00412 LIM: LIM domain; InterPro: IPR001781 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 LIM-type zinc finger (Znf) domains. LIM domains coordinate one or more zinc atoms, and are named after the three proteins (LIN-11, Isl1 and MEC-3) in which they were first found. They consist of two zinc-binding motifs that resemble GATA-like Znf's, however the residues holding the zinc atom(s) are variable, involving Cys, His, Asp or Glu residues. LIM domains are involved in proteins with differing functions, including gene expression, and cytoskeleton organisation and development [, ]. Protein containing LIM Znf domains include: Caenorhabditis elegans mec-3; a protein required for the differentiation of the set of six touch receptor neurons in this nematode. C. elegans. lin-11; a protein required for the asymmetric division of vulval blast cells. Vertebrate insulin gene enhancer binding protein isl-1. Isl-1 binds to one of the two cis-acting protein-binding domains of the insulin gene. Vertebrate homeobox proteins lim-1, lim-2 (lim-5) and lim3. Vertebrate lmx-1, which acts as a transcriptional activator by binding to the FLAT element; a beta-cell-specific transcriptional enhancer found in the insulin gene. Mammalian LH-2, a transcriptional regulatory protein involved in the control of cell differentiation in developing lymphoid and neural cell types. Drosophila melanogaster (Fruit fly) protein apterous, required for the normal development of the wing and halter imaginal discs. Vertebrate protein kinases LIMK-1 and LIMK-2. Mammalian rhombotins. Rhombotin 1 (RBTN1 or TTG-1) and rhombotin-2 (RBTN2 or TTG-2) are proteins of about 160 amino acids whose genes are disrupted by chromosomal translocations in T-cell leukemia. Mammalian and avian cysteine-rich protein (CRP), a 192 amino-acid protein of unknown function. Seems to interact with zyxin. Mammalian cysteine-rich intestinal protein (CRIP), a small protein which seems to have a role in zinc absorption and may function as an intracellular zinc transport protein. Vertebrate paxillin, a cytoskeletal focal adhesion protein. Mus musculus (Mouse) testin which should not be confused with rat testin which is a thiol protease homologue (see IPR000169 from INTERPRO). Helianthus annuus (Common sunflower) pollen specific protein SF3. Chicken zyxin. Zyxin is a low-abundance adhesion plaque protein which has been shown to interact with CRP. Yeast protein LRG1 which is involved in sporulation []. Saccharomyces cerevisiae (Baker's yeast) rho-type GTPase activating protein RGA1/DBM1. C. elegans homeobox protein ceh-14. C. elegans homeobox protein unc-97. S. cerevisiae hypothetical protein YKR090w. C. elegans hypothetical proteins C28H8.6. These proteins generally contain two tandem copies of the LIM domain in their N-terminal section. Zyxin and paxillin are exceptions in that they contain respectively three and four LIM domains at their C-terminal extremity. In apterous, isl-1, LH-2, lin-11, lim-1 to lim-3, lmx-1 and ceh-14 and mec-3 there is a homeobox domain some 50 to 95 amino acids after the LIM domains. LIM domains contain seven conserved cysteine residues and a histidine. The arrangement followed by these conserved residues is: C-x(2)-C-x(16,23)-H-x(2)-[CH]-x(2)-C-x(2)-C-x(16,21)-C-x(2,3)-[CHD] LIM domains bind two zinc ions []. LIM does not bind DNA, rather it seems to act as an interface for protein-protein interaction. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2CO8_A 2EGQ_A 2CUR_A 3IXE_B 1CTL_A 1B8T_A 1X62_A 2DFY_C 1IML_A 2CUQ_A ....
Probab=33.72 E-value=21 Score=24.98 Aligned_cols=36 Identities=14% Similarity=0.266 Sum_probs=28.8
Q ss_pred CCCCCe-eeeeccccccCCCCCceeccCCccchHHHHHH
Q 018698 285 KQHHSK-LVCYITKELMDTENPPQVLPNGYVYSTKALEE 322 (351)
Q Consensus 285 ~~~hS~-~vCpis~e~~~e~NpP~~Lp~GhV~s~~al~~ 322 (351)
..+|.. |.|..=+..+++.. +...+|.+|+++...+
T Consensus 20 ~~~H~~Cf~C~~C~~~l~~~~--~~~~~~~~~C~~c~~~ 56 (58)
T PF00412_consen 20 KFWHPECFKCSKCGKPLNDGD--FYEKDGKPYCKDCYQK 56 (58)
T ss_dssp EEEETTTSBETTTTCBTTTSS--EEEETTEEEEHHHHHH
T ss_pred cEEEccccccCCCCCccCCCe--eEeECCEEECHHHHhh
Confidence 445555 99999999997766 8889999999987655
No 138
>TIGR02300 FYDLN_acid conserved hypothetical protein TIGR02300. Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=33.42 E-value=22 Score=30.26 Aligned_cols=16 Identities=19% Similarity=0.135 Sum_probs=10.8
Q ss_pred CceecCCCCcccCcCC
Q 018698 329 GKITCPRTGLVCNYSD 344 (351)
Q Consensus 329 ~~~~CP~~~~~~~~~~ 344 (351)
.-++||+||.+|..+-
T Consensus 25 ~p~vcP~cg~~~~~~~ 40 (129)
T TIGR02300 25 RPAVSPYTGEQFPPEE 40 (129)
T ss_pred CCccCCCcCCccCcch
Confidence 3467778877776653
No 139
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=33.41 E-value=22 Score=24.50 Aligned_cols=24 Identities=17% Similarity=0.224 Sum_probs=15.8
Q ss_pred cCCccchHHHHHHHHHhCCCceecCCCCcccC
Q 018698 310 PNGYVYSTKALEEMAKKNNGKITCPRTGLVCN 341 (351)
Q Consensus 310 p~GhV~s~~al~~l~~~~~~~~~CP~~~~~~~ 341 (351)
.||+.+..+ ..+.++||+||-..-
T Consensus 7 ~Cg~~~~~~--------~~~~irC~~CG~rIl 30 (44)
T smart00659 7 ECGRENEIK--------SKDVVRCRECGYRIL 30 (44)
T ss_pred CCCCEeecC--------CCCceECCCCCceEE
Confidence 466655432 346799999997654
No 140
>PF05265 DUF723: Protein of unknown function (DUF723); InterPro: IPR007929 This family contains several uncharacterised proteins from Neisseria meningitidis. These proteins may have a role in DNA binding.
Probab=33.22 E-value=33 Score=25.36 Aligned_cols=15 Identities=7% Similarity=0.098 Sum_probs=11.4
Q ss_pred CCeeeeeccccccCC
Q 018698 288 HSKLVCYITKELMDT 302 (351)
Q Consensus 288 hS~~vCpis~e~~~e 302 (351)
-..+.||+-|+++..
T Consensus 30 PvtI~CP~HG~~~~s 44 (60)
T PF05265_consen 30 PVTIRCPKHGNFTCS 44 (60)
T ss_pred ceEEECCCCCcEEec
Confidence 356889999988754
No 141
>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=32.96 E-value=60 Score=20.95 Aligned_cols=18 Identities=33% Similarity=0.602 Sum_probs=14.7
Q ss_pred HHHHHHh--cCChHHHHHHH
Q 018698 121 KVIDALQ--NKEVAPALAWC 138 (351)
Q Consensus 121 ~I~~~L~--~~dl~~AL~W~ 138 (351)
..+.+|+ ++|++.|++|+
T Consensus 18 ~~~~AL~~~~~nve~A~~~L 37 (37)
T PF00627_consen 18 QAREALRACNGNVERAVDWL 37 (37)
T ss_dssp HHHHHHHHTTTSHHHHHHHH
T ss_pred HHHHHHHHcCCCHHHHHHhC
Confidence 6677776 68999999995
No 142
>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=32.89 E-value=27 Score=25.18 Aligned_cols=35 Identities=17% Similarity=0.228 Sum_probs=24.6
Q ss_pred CCceeccCCccchHHHHHHHHHhCCCceecCCCCc
Q 018698 304 NPPQVLPNGYVYSTKALEEMAKKNNGKITCPRTGL 338 (351)
Q Consensus 304 NpP~~Lp~GhV~s~~al~~l~~~~~~~~~CP~~~~ 338 (351)
+..+.|-|++-.+.+.+-.-.....-+++||+|+.
T Consensus 18 ~~r~aLIC~~C~~hNGla~~~~~~~i~y~C~~Cg~ 52 (54)
T PF10058_consen 18 SNRYALICSKCFSHNGLAPKEEFEEIQYRCPYCGA 52 (54)
T ss_pred cCceeEECcccchhhcccccccCCceEEEcCCCCC
Confidence 55778888888888877531112345799999985
No 143
>KOG0976 consensus Rho/Rac1-interacting serine/threonine kinase Citron [Signal transduction mechanisms]
Probab=32.71 E-value=6e+02 Score=28.53 Aligned_cols=76 Identities=17% Similarity=0.226 Sum_probs=41.8
Q ss_pred HHHHHHHHHHHHHhhhhcCCCCHHHHHHHHHHHHHHhcCChHHHHHHHHhhhhHhhhCCCcchhhchhHHHHHHHhc
Q 018698 91 AVNHLTSLVSRLQGLKRKDLVDIEVFQEAKKVIDALQNKEVAPALAWCSDNKSRLKKSKSKFEFQLRLQEFIELVRG 167 (351)
Q Consensus 91 ~~~~l~~~i~rl~~lkrk~lvd~d~f~~~~~I~~~L~~~dl~~AL~W~~enk~~L~k~~S~LEF~Lr~q~fIeLir~ 167 (351)
+-+.|..-+.|++.++. ++++.|.=.+-.++...=..|.-..||+-|++--.+|+.....+|-+=..-+=.++++.
T Consensus 415 ~kneL~~a~ekld~mgt-hl~mad~Q~s~fk~Lke~aegsrrraIeQcnemv~rir~l~~sle~qrKVeqe~emlKa 490 (1265)
T KOG0976|consen 415 AKNELQEALEKLDLMGT-HLSMADYQLSNFKVLKEHAEGSRRRAIEQCNEMVDRIRALMDSLEKQRKVEQEYEMLKA 490 (1265)
T ss_pred HHHHHHHHHHHHHHHhH-HHHHHHHHHhhHHHHHHhhhhhHhhHHHHHHHHHHHHHHHhhChhhhcchHHHHHHHHH
Confidence 33345555555544432 56665543444444555556777778888887777776654444444444344445543
No 144
>PRK10807 paraquat-inducible protein B; Provisional
Probab=32.22 E-value=3.3e+02 Score=28.84 Aligned_cols=97 Identities=8% Similarity=0.146 Sum_probs=56.4
Q ss_pred cccHHHHhHHHHhhhhHHHHHHHHHHHHHHHhhcc-CCCChHHHHHHHHHHHHHHHhhhhcCCCCHHHHHHHHHHHHHHh
Q 018698 49 RVPFEHYKKTIRTNHRAVEKEITSVISNVADVSDS-ENFSKDDAVNHLTSLVSRLQGLKRKDLVDIEVFQEAKKVIDALQ 127 (351)
Q Consensus 49 ~vP~E~l~k~fr~~qk~ieke~~~v~~~~~~~~k~-~~~~~~~~~~~l~~~i~rl~~lkrk~lvd~d~f~~~~~I~~~L~ 127 (351)
++|+|.+-.+....-+.+++-+..+...+.++++- ...+.......+++.+..++.+-..---|...+.++++-.+.|.
T Consensus 431 ~lple~i~~~l~~tL~~~~~tl~~l~~~l~~l~~ll~~~~~~~Lp~~L~~TL~~l~~~l~~~~~~s~~~~~l~~tl~~l~ 510 (547)
T PRK10807 431 NLPLNPMIEQATSTLSESQRTMRELQTTLDSLNKITSSQSMQQLPADMQKTLRELNRSMQGFQPGSPAYNKMVADMQRLD 510 (547)
T ss_pred cCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCHHHHHHHHHHHHHHHHHHHHHhhcCCCChHHHHHHHHHHHHH
Confidence 77888888877777777777777777777666541 11111122233344444333322221124566777666666665
Q ss_pred --cCChHHHHHHHHhhhhHh
Q 018698 128 --NKEVAPALAWCSDNKSRL 145 (351)
Q Consensus 128 --~~dl~~AL~W~~enk~~L 145 (351)
.+++++.++.+++|=..|
T Consensus 511 ~~~r~lr~l~~~L~~~P~aL 530 (547)
T PRK10807 511 QVLRELQPVLKTLNEKSNAL 530 (547)
T ss_pred HHHHHHHHHHHHHHhCchhh
Confidence 367777888777776655
No 145
>smart00782 PhnA_Zn_Ribbon PhnA Zinc-Ribbon. This protein family includes an uncharacterised member designated phnA in Escherichia coli, part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage. This protein is not related to the characterised phosphonoacetate hydrolase designated PhnA.
Probab=32.11 E-value=26 Score=24.61 Aligned_cols=37 Identities=14% Similarity=0.184 Sum_probs=25.2
Q ss_pred CCCCCCCchhhhcccCCCCCC---CCCCCeeeeecccccc
Q 018698 264 TKEDPLSQESFRKLASPLPYS---KQHHSKLVCYITKELM 300 (351)
Q Consensus 264 ~~~cP~c~~~~~~l~~~LP~~---~~~hS~~vCpis~e~~ 300 (351)
.+.|+.|..+-.=-.-+||.. ..-+|+++|..-.+|+
T Consensus 7 ~~kCELC~a~~~L~vy~Vpp~~~~~~d~~iliC~tC~~Qi 46 (47)
T smart00782 7 ESKCELCGSDSPLVVYAVPPSSDVTADNSVMLCDTCHSQI 46 (47)
T ss_pred CCcccCcCCCCCceEEecCCCCCCCccceeeechHHHHhh
Confidence 467999976532222367664 5688999999877765
No 146
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=31.92 E-value=42 Score=33.90 Aligned_cols=29 Identities=17% Similarity=0.300 Sum_probs=23.2
Q ss_pred ccCCccchHHHHHHHHHhCCCceecCCCC
Q 018698 309 LPNGYVYSTKALEEMAKKNNGKITCPRTG 337 (351)
Q Consensus 309 Lp~GhV~s~~al~~l~~~~~~~~~CP~~~ 337 (351)
=.|||||-..+|..|....-..-.||.|.
T Consensus 24 ~~cGhifh~~cl~qwfe~~Ps~R~cpic~ 52 (465)
T KOG0827|consen 24 GTCGHIFHTTCLTQWFEGDPSNRGCPICQ 52 (465)
T ss_pred cchhhHHHHHHHHHHHccCCccCCCCcee
Confidence 35999999999999986433336899998
No 147
>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=31.89 E-value=25 Score=21.22 Aligned_cols=11 Identities=27% Similarity=0.739 Sum_probs=8.7
Q ss_pred CCceecCCCCc
Q 018698 328 NGKITCPRTGL 338 (351)
Q Consensus 328 ~~~~~CP~~~~ 338 (351)
.-.|+||-||+
T Consensus 14 ~v~f~CPnCG~ 24 (24)
T PF07754_consen 14 AVPFPCPNCGF 24 (24)
T ss_pred CceEeCCCCCC
Confidence 45799999985
No 148
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=31.69 E-value=22 Score=24.28 Aligned_cols=15 Identities=20% Similarity=0.600 Sum_probs=11.6
Q ss_pred ceecCCCCcccCcCC
Q 018698 330 KITCPRTGLVCNYSD 344 (351)
Q Consensus 330 ~~~CP~~~~~~~~~~ 344 (351)
.++||+||..+...+
T Consensus 21 ~~~Cp~CG~~~~~~~ 35 (46)
T PRK00398 21 GVRCPYCGYRILFKE 35 (46)
T ss_pred ceECCCCCCeEEEcc
Confidence 689999998776543
No 149
>PF10607 CLTH: CTLH/CRA C-terminal to LisH motif domain; InterPro: IPR019589 This entry represents the CRA (or CT11-RanBPM) domain, which is a protein-protein interaction domain present in crown eukaryotes (plants, animals, fungi) and which is found in Ran-binding proteins such as Ran-binding protein 9 (RanBP9 or RanBPM) and RanBP10. RanBPM is a scaffolding protein important in regulating cellular function in both the immune system and the nervous system, and may act as an adapter protein to couple membrane receptors to intracellular signaling pathways. This domain is at the C terminus of the proteins and is the binding domain for the CRA motif, which is comprised of approximately 100 amino acids at the C-terminal of RanBPM. It was found to be important for the interaction of RanBPM with fragile X mental retardation protein (FMRP), but its functional significance has yet to be determined [].
Probab=31.61 E-value=2.1e+02 Score=23.88 Aligned_cols=32 Identities=13% Similarity=0.305 Sum_probs=27.3
Q ss_pred CCHHHHHHHHHHHHHHhcCChHHHHHHHHhhh
Q 018698 111 VDIEVFQEAKKVIDALQNKEVAPALAWCSDNK 142 (351)
Q Consensus 111 vd~d~f~~~~~I~~~L~~~dl~~AL~W~~enk 142 (351)
.++.......+.++-++++++.+||+|++++-
T Consensus 36 ~~L~f~L~~q~fiell~~~~~~~Ai~y~r~~l 67 (145)
T PF10607_consen 36 SSLEFELRCQQFIELLREGDIMEAIEYARKHL 67 (145)
T ss_pred CchhHHHHHHHHHHHHHHHhHHHHHHHHHHHh
Confidence 55667777888999999999999999999864
No 150
>PF03884 DUF329: Domain of unknown function (DUF329); InterPro: IPR005584 The biological function of these short proteins is unknown, but they contain four conserved cysteines, suggesting that they all bind zinc. YacG (Q5X8H6 from SWISSPROT) from Escherichia coli has been shown to bind zinc and contains the structural motifs typical of zinc-binding proteins []. The conserved four cysteine motif in these proteins (-C-X(2)-C-X(15)-C-X(3)-C-) is not found in other zinc-binding proteins with known structures.; GO: 0008270 zinc ion binding; PDB: 1LV3_A.
Probab=31.37 E-value=22 Score=26.03 Aligned_cols=14 Identities=29% Similarity=0.700 Sum_probs=8.1
Q ss_pred ceecCCCCcccCcC
Q 018698 330 KITCPRTGLVCNYS 343 (351)
Q Consensus 330 ~~~CP~~~~~~~~~ 343 (351)
+++||.|++.....
T Consensus 2 ~v~CP~C~k~~~~~ 15 (57)
T PF03884_consen 2 TVKCPICGKPVEWS 15 (57)
T ss_dssp EEE-TTT--EEE-S
T ss_pred cccCCCCCCeeccc
Confidence 58999999988773
No 151
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=31.32 E-value=49 Score=29.29 Aligned_cols=35 Identities=14% Similarity=0.110 Sum_probs=27.8
Q ss_pred ccCCc-----cchHHHHHHHHHhCCCceecCCCCcccCcCC
Q 018698 309 LPNGY-----VYSTKALEEMAKKNNGKITCPRTGLVCNYSD 344 (351)
Q Consensus 309 Lp~Gh-----V~s~~al~~l~~~~~~~~~CP~~~~~~~~~~ 344 (351)
-||.. ..-+++|++|... ++...||.|+.+|....
T Consensus 23 ~PC~CkGs~k~VH~sCL~rWi~~-s~~~~CeiC~~~Y~i~~ 62 (162)
T PHA02825 23 NYCNCKNENKIVHKECLEEWINT-SKNKSCKICNGPYNIKK 62 (162)
T ss_pred CCcccCCCchHHHHHHHHHHHhc-CCCCcccccCCeEEEEE
Confidence 46665 5678999999864 46789999999998764
No 152
>PF06160 EzrA: Septation ring formation regulator, EzrA ; InterPro: IPR010379 During the bacterial cell cycle, the tubulin-like cell-division protein FtsZ polymerises into a ring structure that establishes the location of the nascent division site. EzrA modulates the frequency and position of FtsZ ring formation [].; GO: 0000921 septin ring assembly, 0005940 septin ring, 0016021 integral to membrane
Probab=31.31 E-value=4e+02 Score=28.21 Aligned_cols=53 Identities=17% Similarity=0.183 Sum_probs=35.7
Q ss_pred HHHHHHHHHHHh--cCChHHHHHHHHhhhhHhhhCCCcchhhchhHHHHHHHhcCChHHHHHHH
Q 018698 116 FQEAKKVIDALQ--NKEVAPALAWCSDNKSRLKKSKSKFEFQLRLQEFIELVRGENNLRAITYA 177 (351)
Q Consensus 116 f~~~~~I~~~L~--~~dl~~AL~W~~enk~~L~k~~S~LEF~Lr~q~fIeLir~~~~~eAI~ya 177 (351)
....+.+.+.|. ++++.+|+.-+.+.=.. .+-.+.+|.+|..+|++.+|=...
T Consensus 142 ~~~y~~lrk~ll~~~~~~G~a~~~Le~~L~~---------ie~~F~~f~~lt~~GD~~~A~eil 196 (560)
T PF06160_consen 142 KEKYRELRKELLAHSFSYGPAIEELEKQLEN---------IEEEFSEFEELTENGDYLEAREIL 196 (560)
T ss_pred HHHHHHHHHHHHHhhhhhchhHHHHHHHHHH---------HHHHHHHHHHHHHCCCHHHHHHHH
Confidence 344555555554 56788888876665433 345578999999999998874433
No 153
>KOG2169 consensus Zn-finger transcription factor [Transcription]
Probab=31.10 E-value=36 Score=36.66 Aligned_cols=54 Identities=19% Similarity=0.271 Sum_probs=43.1
Q ss_pred eeeeeccccccCCCCCcee-ccCCccchHHHHHHHHHh-CCCceecCCCCcccCcCCce
Q 018698 290 KLVCYITKELMDTENPPQV-LPNGYVYSTKALEEMAKK-NNGKITCPRTGLVCNYSDLV 346 (351)
Q Consensus 290 ~~vCpis~e~~~e~NpP~~-Lp~GhV~s~~al~~l~~~-~~~~~~CP~~~~~~~~~~~~ 346 (351)
.|-|||++..|.- |.. ..|+|+=|-+++.-+..+ ....-.||+|.+.+.++++.
T Consensus 306 SL~CPl~~~Rm~~---P~r~~~CkHlQcFD~~~~lq~n~~~pTW~CPVC~~~~~~e~l~ 361 (636)
T KOG2169|consen 306 SLNCPLSKMRMSL---PARGHTCKHLQCFDALSYLQMNEQKPTWRCPVCQKAAPFEGLI 361 (636)
T ss_pred EecCCcccceeec---CCcccccccceecchhhhHHhccCCCeeeCccCCccccccchh
Confidence 4789999999976 444 899999998988777543 34678999999999887653
No 154
>PF12760 Zn_Tnp_IS1595: Transposase zinc-ribbon domain; InterPro: IPR024442 This zinc binding domain is found in a range of transposase proteins such as ISSPO8, ISSOD11, ISRSSP2 etc. It may be a zinc-binding beta ribbon domain that could bind DNA.
Probab=31.07 E-value=38 Score=23.19 Aligned_cols=12 Identities=33% Similarity=0.905 Sum_probs=9.0
Q ss_pred CCCceecCCCCcc
Q 018698 327 NNGKITCPRTGLV 339 (351)
Q Consensus 327 ~~~~~~CP~~~~~ 339 (351)
.+| ++||.||..
T Consensus 16 ~~g-~~CP~Cg~~ 27 (46)
T PF12760_consen 16 PDG-FVCPHCGST 27 (46)
T ss_pred CCC-CCCCCCCCe
Confidence 344 889999964
No 155
>PHA02862 5L protein; Provisional
Probab=30.98 E-value=53 Score=28.70 Aligned_cols=46 Identities=22% Similarity=0.303 Sum_probs=32.0
Q ss_pred eeccccccCCCCCceeccCCc-----cchHHHHHHHHHhCCCceecCCCCcccCcC
Q 018698 293 CYITKELMDTENPPQVLPNGY-----VYSTKALEEMAKKNNGKITCPRTGLVCNYS 343 (351)
Q Consensus 293 Cpis~e~~~e~NpP~~Lp~Gh-----V~s~~al~~l~~~~~~~~~CP~~~~~~~~~ 343 (351)
|.|-.+.-++++ -||+. ..-+++|.+|.. ..++..||.|+.+|...
T Consensus 5 CWIC~~~~~e~~----~PC~C~GS~K~VHq~CL~~WIn-~S~k~~CeLCkteY~Ik 55 (156)
T PHA02862 5 CWICNDVCDERN----NFCGCNEEYKVVHIKCMQLWIN-YSKKKECNLCKTKYNIK 55 (156)
T ss_pred EEEecCcCCCCc----ccccccCcchhHHHHHHHHHHh-cCCCcCccCCCCeEEEE
Confidence 444444443332 46654 677899999984 56789999999999753
No 156
>KOG0259 consensus Tyrosine aminotransferase [Amino acid transport and metabolism]
Probab=30.92 E-value=31 Score=34.93 Aligned_cols=16 Identities=44% Similarity=0.760 Sum_probs=14.7
Q ss_pred cCCccchHHHHHHHHH
Q 018698 310 PNGYVYSTKALEEMAK 325 (351)
Q Consensus 310 p~GhV~s~~al~~l~~ 325 (351)
|||.|||++-|++++.
T Consensus 211 PcGnVys~~HL~kiae 226 (447)
T KOG0259|consen 211 PCGNVYSEDHLKKIAE 226 (447)
T ss_pred CCcccccHHHHHHHHH
Confidence 6999999999999875
No 157
>PF01383 CpcD: CpcD/allophycocyanin linker domain; InterPro: IPR008213 Ferredoxin-NADP(+) oxydoreductase (FNR) (EC=1.18.1.2) transfers electrons from ferredoxin (or flavodoxin) to NADP(+) to generate NADPH. In eucaryotes, the nuclear-encoded, chloroplast-targeted enzyme contains two domains: an FAD-binding domain (see PDOC51384 from PROSITEDOC) and an NADP(+)-binding domain. With the exception of Gloeobacter violaceus PCC 7421, the predicted sequences of all cyanobacterial petH genes, encoding FNR, correspond to a protein containing three domains. Two domains at the C terminus correspond to the FAD- and NADP(+)-binding domains of higher plants FNR protein, which compose the catalytic domains of the enzyme. The N-terminal domain is similar to phycobilisome (PBS)-associated linker proteins from numerous cyanobacteria [, , ] and is associated with: - CpcD, the phycocyanin (PC)-associated, rod-capping, linker polypeptide of PBS. The similarity spans nearly the entire sequence of this linker class. - CpcC, the PC-associated rod linker polypeptide. The similarity is confined only to the C terminus of this linker class. - ApcC, the allophycocyanin (APC)-associated, core linker polypeptide. The similarity only correspond to about half of the molecule. The CpcD-like domain has an elongated shape and consists of a three-stranded beta-sheet, two alpha-helices, one of which has only about one turn, and the connecting random coil segments [].; GO: 0030089 phycobilisome; PDB: 1B33_O.
Probab=30.13 E-value=34 Score=24.81 Aligned_cols=24 Identities=13% Similarity=0.461 Sum_probs=18.2
Q ss_pred hhcccccccccHHHHhHHHHhhhhH
Q 018698 41 LKLEHQFLRVPFEHYKKTIRTNHRA 65 (351)
Q Consensus 41 ~~le~~~l~vP~E~l~k~fr~~qk~ 65 (351)
..-...++ ||||.|+..++.+++.
T Consensus 23 Rrs~~~~~-Vpy~~ls~~~q~I~r~ 46 (56)
T PF01383_consen 23 RRSNQTYV-VPYSQLSQEMQRINRQ 46 (56)
T ss_dssp HHHEEEEE-EEHHHHHHHHHHHHHC
T ss_pred EeeeEEEE-EcHHHhHHHHHHHHHC
Confidence 34455555 9999999999988763
No 158
>TIGR01562 FdhE formate dehydrogenase accessory protein FdhE. The only sequence scoring between trusted and noise is that from Aquifex aeolicus, which shows certain structural differences from the proteobacterial forms in the alignment. However it is notable that A. aeolicus also has a sequence scoring above trusted to the alpha subunit of formate dehydrogenase (TIGR01553).
Probab=29.88 E-value=16 Score=35.66 Aligned_cols=10 Identities=10% Similarity=-0.008 Sum_probs=6.9
Q ss_pred CCCCCCCCch
Q 018698 263 CTKEDPLSQE 272 (351)
Q Consensus 263 ~~~~cP~c~~ 272 (351)
..+.||||-.
T Consensus 183 ~~~~CPvCGs 192 (305)
T TIGR01562 183 SRTLCPACGS 192 (305)
T ss_pred CCCcCCCCCC
Confidence 3568999943
No 159
>PF01399 PCI: PCI domain; InterPro: IPR000717 A homology domain of unclear function, occurs in the C-terminal region of several regulatory components of the 26S proteasome as well as in other proteins. This domain has also been called the PINT motif (Proteasome, Int-6, Nip-1 and TRIP-15) []. Apparently, all of the characterised proteins containing PCI domains are parts of larger multi-protein complexes. Proteins with PCI domains include budding yeast proteasome regulatory components Rpn3(Sun2), Rpn5, Rpn6, Rpn7and Rpn9 []; mammalian proteasome regulatory components p55, p58 and p44.5, and translation initiation factor 3 complex subunits p110 and INT6 [, ]; Arabidopsis COP9 and FUS6/COP11 []; mammalian G-protein pathway suppressor GPS1, and several uncharacterised ORFs from plant, nematodes and mammals. The complete homology domain comprises approx. 200 residues, the highest conservation is found in the C-terminal half. Several of the proteins mentioned above have no detectable homology to the N-terminal half of the domain.; GO: 0005515 protein binding; PDB: 3TXM_A 3TXN_A 1UFM_A 3CHM_A 3T5X_A 3T5V_B.
Probab=29.69 E-value=1.6e+02 Score=22.63 Aligned_cols=28 Identities=7% Similarity=0.152 Sum_probs=22.3
Q ss_pred HHHHHHHHhcCChHHHHHHHHhhhhHhh
Q 018698 119 AKKVIDALQNKEVAPALAWCSDNKSRLK 146 (351)
Q Consensus 119 ~~~I~~~L~~~dl~~AL~W~~enk~~L~ 146 (351)
+.++.+++..||+....++++++...+.
T Consensus 3 ~~~l~~~~~~~~~~~~~~~l~~~~~~~~ 30 (105)
T PF01399_consen 3 YSELLRAFRSGDLQEFEEFLEKHSESLF 30 (105)
T ss_dssp HHHHHHHHHCT-HHHHHHHHHHTCHHHH
T ss_pred HHHHHHHHHhCCHHHHHHHHHHHHHHHH
Confidence 5678899999999999999999944444
No 160
>PF05120 GvpG: Gas vesicle protein G ; InterPro: IPR007804 Gas vesicles are intracellular, protein-coated, and hollow organelles found in cyanobacteria and halophilic archaea. They are permeable to ambient gases by diffusion and provide buoyancy, enabling cells to move upwards in water to access oxygen and/or light. Proteins containing this family are involved in the formation of gas vesicles [].
Probab=29.69 E-value=2.7e+02 Score=21.68 Aligned_cols=58 Identities=16% Similarity=0.294 Sum_probs=45.8
Q ss_pred ccHHHHhHHHHhhhhHHHHHHH---HHHHHHHHhhc---cCCCChHHHHHHHHHHHHHHHhhhh
Q 018698 50 VPFEHYKKTIRTNHRAVEKEIT---SVISNVADVSD---SENFSKDDAVNHLTSLVSRLQGLKR 107 (351)
Q Consensus 50 vP~E~l~k~fr~~qk~ieke~~---~v~~~~~~~~k---~~~~~~~~~~~~l~~~i~rl~~lkr 107 (351)
-|+--+..-+++++...++|+. .|...+.++.- .|..+.++....=+.++.||+.+++
T Consensus 7 aPvrgv~wv~e~I~~~Ae~E~~Dp~~i~~~L~~L~~~~e~GEIseeEf~~~E~eLL~rL~~~~~ 70 (79)
T PF05120_consen 7 APVRGVVWVAEQIQEQAERELYDPAAIRRELAELQEALEAGEISEEEFERREDELLDRLEEARR 70 (79)
T ss_pred chHHHHHHHHHHHHHHHHHHHcCHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHH
Confidence 6888888889999999999875 45555555544 4678999999999999999987764
No 161
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=29.38 E-value=31 Score=33.90 Aligned_cols=33 Identities=21% Similarity=0.223 Sum_probs=25.1
Q ss_pred ccCCccchHHHHHHHHHhC----C--CceecCCCCcccC
Q 018698 309 LPNGYVYSTKALEEMAKKN----N--GKITCPRTGLVCN 341 (351)
Q Consensus 309 Lp~GhV~s~~al~~l~~~~----~--~~~~CP~~~~~~~ 341 (351)
-|||||-|++..+=|++-. . -.-.||.|..-..
T Consensus 376 ~PCGHv~sekt~~YWs~iplPhGT~~f~a~CPFC~~~L~ 414 (429)
T KOG3842|consen 376 NPCGHVCSEKTVKYWSQIPLPHGTHAFHAACPFCATQLA 414 (429)
T ss_pred CCcccccchhhhhHhhcCcCCCccccccccCcchhhhhc
Confidence 3899999999999997531 1 2358999987654
No 162
>PF09748 Med10: Transcription factor subunit Med10 of Mediator complex; InterPro: IPR019145 The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. On recruitment the Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins. The Mediator complex is composed of at least 31 subunits: MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The subunits form at least three structurally distinct submodules. The head and the middle modules interact directly with RNA polymerase II, whereas the elongated tail module interacts with gene-specific regulatory proteins. Mediator containing the CDK8 module is less active than Mediator lacking this module in supporting transcriptional activation. The head module contains: MED6, MED8, MED11, SRB4/MED17, SRB5/MED18, ROX3/MED19, SRB2/MED20 and SRB6/MED22. The middle module contains: MED1, MED4, NUT1/MED5, MED7, CSE2/MED9, NUT2/MED10, SRB7/MED21 and SOH1/MED31. CSE2/MED9 interacts directly with MED4. The tail module contains: MED2, PGD1/MED3, RGR1/MED14, GAL11/MED15 and SIN4/MED16. The CDK8 module contains: MED12, MED13, CCNC and CDK8. Individual preparations of the Mediator complex lacking one or more distinct subunits have been variously termed ARC, CRSP, DRIP, PC2, SMCC and TRAP. Med10 is one of the protein subunits of the Mediator complex, tethered to Med14 (Rgr1) protein. Med10 specifically mediates basal-level HIS4 transcription via Gcn4. In addition, there is a putative requirement for Med10 in Bas2-mediated transcription []. ; GO: 0001104 RNA polymerase II transcription cofactor activity, 0006357 regulation of transcription from RNA polymerase II promoter, 0016592 mediator complex
Probab=29.20 E-value=3.5e+02 Score=22.79 Aligned_cols=91 Identities=29% Similarity=0.447 Sum_probs=52.3
Q ss_pred HHHHHHHHHHHHHhhcc-----CCCChHHHHHHHHHHHHHHHhhhhc--C-------CCCHHHHHHHHHHHHHHhcCChH
Q 018698 67 EKEITSVISNVADVSDS-----ENFSKDDAVNHLTSLVSRLQGLKRK--D-------LVDIEVFQEAKKVIDALQNKEVA 132 (351)
Q Consensus 67 eke~~~v~~~~~~~~k~-----~~~~~~~~~~~l~~~i~rl~~lkrk--~-------lvd~d~f~~~~~I~~~L~~~dl~ 132 (351)
|..+..++..+.++... +..+.+.+...|+.+++.|+.|.+- . +.|+.+ .-
T Consensus 2 e~~l~~~i~~l~el~~~v~d~~~~~s~~~L~~ki~~lv~~L~~l~~~~~~~~~~~~~~~~~~I---------------P~ 66 (128)
T PF09748_consen 2 EQQLEDVIQSLYELGVIVSDFQGPPSQEALNQKINQLVTSLQELDKLAQQTNDPDSPLQDIQI---------------PL 66 (128)
T ss_pred hHHHHHHHHHHHHHHHHHHcCCCCCcHHHHHHHHHHHHHHHHHHHHHhcccCCCCcccccCCC---------------CH
Confidence 55666666666666551 1356777888888888877665443 1 233222 11
Q ss_pred HHHHHHHhhhhHhhhCCCcchhhchhHHHHHHHhcCC-----hHHHHHHHHHhCc
Q 018698 133 PALAWCSDNKSRLKKSKSKFEFQLRLQEFIELVRGEN-----NLRAITYARKYLA 182 (351)
Q Consensus 133 ~AL~W~~enk~~L~k~~S~LEF~Lr~q~fIeLir~~~-----~~eAI~yark~l~ 182 (351)
+.|+++.+.+ |. .++..+|+|+++.++ ..+|++-.|++|.
T Consensus 67 evl~yID~Gr------NP----DiyTre~vE~~~~~Nq~~kGK~~a~~~fr~~L~ 111 (128)
T PF09748_consen 67 EVLEYIDDGR------NP----DIYTREFVELVRRENQYVKGKMEAFKSFRDVLA 111 (128)
T ss_pred HHHHHHhCCC------Cc----hHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHH
Confidence 2344443321 12 345678999998653 4567666666664
No 163
>PF09862 DUF2089: Protein of unknown function (DUF2089); InterPro: IPR018658 This family consists of various hypothetical prokaryotic proteins.
Probab=29.13 E-value=1.3e+02 Score=25.06 Aligned_cols=57 Identities=21% Similarity=0.285 Sum_probs=37.4
Q ss_pred HHHhhccCCCChHHHHHHHHHHHHHHHhhhhcCCCCHHHHHHHHHHHHHHhcCChH--HHHH
Q 018698 77 VADVSDSENFSKDDAVNHLTSLVSRLQGLKRKDLVDIEVFQEAKKVIDALQNKEVA--PALA 136 (351)
Q Consensus 77 ~~~~~k~~~~~~~~~~~~l~~~i~rl~~lkrk~lvd~d~f~~~~~I~~~L~~~dl~--~AL~ 136 (351)
+.++.+.-+.|=.-+-.+||.+|++|... .....+.=.+..+|.+.|.+|.++ +|++
T Consensus 52 lKe~e~~lgiSYPTvR~rLd~ii~~lg~~---~~~~~~~~~~~~~IL~~L~~GeIs~eeA~~ 110 (113)
T PF09862_consen 52 LKEMEKELGISYPTVRNRLDKIIEKLGYE---EDEEEEEEDERKEILDKLEKGEISVEEALE 110 (113)
T ss_pred HHHHHHHHCCCcHHHHHHHHHHHHHhCCC---CCcccccchhHHHHHHHHHcCCCCHHHHHH
Confidence 44444433577778889999999998441 112223345678999999999765 5554
No 164
>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=28.88 E-value=34 Score=22.31 Aligned_cols=31 Identities=19% Similarity=0.437 Sum_probs=18.2
Q ss_pred cCCccchHHHHHHHHHhCCCceecCCCCcccCcCCceeee
Q 018698 310 PNGYVYSTKALEEMAKKNNGKITCPRTGLVCNYSDLVKAY 349 (351)
Q Consensus 310 p~GhV~s~~al~~l~~~~~~~~~CP~~~~~~~~~~~~kvy 349 (351)
.||++|... ..+. .+....||.||. +++||+
T Consensus 10 ~Cg~~fe~~--~~~~--~~~~~~CP~Cg~-----~~~r~~ 40 (41)
T smart00834 10 DCGHTFEVL--QKIS--DDPLATCPECGG-----DVRRLI 40 (41)
T ss_pred CCCCEEEEE--EecC--CCCCCCCCCCCC-----cceecc
Confidence 577766422 1121 145789999998 455553
No 165
>KOG1088 consensus Uncharacterized conserved protein [Function unknown]
Probab=28.84 E-value=29 Score=29.16 Aligned_cols=18 Identities=44% Similarity=0.767 Sum_probs=15.5
Q ss_pred CCceecCCCCcccCcCCc
Q 018698 328 NGKITCPRTGLVCNYSDL 345 (351)
Q Consensus 328 ~~~~~CP~~~~~~~~~~~ 345 (351)
+|..+||.||.+|..++=
T Consensus 96 EG~l~CpetG~vfpI~~G 113 (124)
T KOG1088|consen 96 EGELVCPETGRVFPISDG 113 (124)
T ss_pred cceEecCCCCcEeecccC
Confidence 689999999999988763
No 166
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=28.78 E-value=19 Score=35.34 Aligned_cols=44 Identities=20% Similarity=0.251 Sum_probs=27.0
Q ss_pred ccccCCCCCceeccCCccchHHHHHHHHHhCCCceecCCCCccc
Q 018698 297 KELMDTENPPQVLPNGYVYSTKALEEMAKKNNGKITCPRTGLVC 340 (351)
Q Consensus 297 ~e~~~e~NpP~~Lp~GhV~s~~al~~l~~~~~~~~~CP~~~~~~ 340 (351)
|++.++..|=+-|.||||-+.--.-.-...+...-+||.|-.+-
T Consensus 308 ~~~~~~~QP~vYl~CGHV~G~H~WG~~e~~g~~~r~CPmC~~~g 351 (429)
T KOG3842|consen 308 KRVVDEKQPWVYLNCGHVHGYHNWGVRENTGQRERECPMCRVVG 351 (429)
T ss_pred cccccccCCeEEEeccccccccccccccccCcccCcCCeeeeec
Confidence 45566666666699999987654322111122357999997654
No 167
>KOG2176 consensus Exocyst complex, subunit SEC15 [Intracellular trafficking, secretion, and vesicular transport]
Probab=28.62 E-value=8.2e+02 Score=27.20 Aligned_cols=123 Identities=19% Similarity=0.273 Sum_probs=66.5
Q ss_pred cccccccccHHHHhHHHHhhhhHHHHHHH--------------HHHHHHHHhhcc-C--C----CChHHHHHHHHHHHHH
Q 018698 43 LEHQFLRVPFEHYKKTIRTNHRAVEKEIT--------------SVISNVADVSDS-E--N----FSKDDAVNHLTSLVSR 101 (351)
Q Consensus 43 le~~~l~vP~E~l~k~fr~~qk~ieke~~--------------~v~~~~~~~~k~-~--~----~~~~~~~~~l~~~i~r 101 (351)
+|..-.+--+|.|....|+-.+.||+=.+ .|...+.+|+.. . + .+..+++...+.+++
T Consensus 41 ~d~~~~~~~~e~Le~~ir~~d~EIE~lcn~hyQdFidsIdEL~~Vr~daq~Lks~vsd~N~rLQ~~g~eLiv~~e~lv~- 119 (800)
T KOG2176|consen 41 YDGNQHKPVMEKLENRIRNHDKEIEKLCNFHYQDFIDSIDELLKVRGDAQKLKSQVSDTNRRLQESGKELIVKKEDLVR- 119 (800)
T ss_pred HccCCcchHHHHHHHHHHhhHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHH-
Confidence 44444455579999999998888888332 222222232221 0 0 111222222222222
Q ss_pred HHhhhhc-----CCCC--HHHHHHHHHHHHHHhcCChHHHHHHHHhhhhHhhhCCCcchhhchhHHHHHHHh
Q 018698 102 LQGLKRK-----DLVD--IEVFQEAKKVIDALQNKEVAPALAWCSDNKSRLKKSKSKFEFQLRLQEFIELVR 166 (351)
Q Consensus 102 l~~lkrk-----~lvd--~d~f~~~~~I~~~L~~~dl~~AL~W~~enk~~L~k~~S~LEF~Lr~q~fIeLir 166 (351)
++.-.|+ +++- +.+.+-..+-.+.+.++..=+||.=+.....--.+.=+.+-|..-.|..|=-++
T Consensus 120 ~r~~~rnit~ai~~l~~Cl~vLEl~sK~~e~~s~kqyy~aLktle~lE~~yL~~~~~~~~~~~i~~~Ip~ik 191 (800)
T KOG2176|consen 120 CRTQSRNITEAIELLTLCLPVLELYSKLQEQMSEKQYYPALKTLESLEKVYLPRVSNFRFLIVIQNRIPFIK 191 (800)
T ss_pred HHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcccchhhHHHhhcchHHH
Confidence 2333333 1111 245556667777888999999999887765543333346677766666654444
No 168
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=28.52 E-value=45 Score=32.05 Aligned_cols=91 Identities=15% Similarity=0.202 Sum_probs=0.0
Q ss_pred hhcccccccc-ccCCCCCCCCCCchhhhcccCCCCCCCCCCC-eeeeeccccccC-------------CCCCceeccCCc
Q 018698 249 GLSALNTPYC-YEDDCTKEDPLSQESFRKLASPLPYSKQHHS-KLVCYITKELMD-------------TENPPQVLPNGY 313 (351)
Q Consensus 249 GlsaLkt~~c-~~~~~~~~cP~c~~~~~~l~~~LP~~~~~hS-~~vCpis~e~~~-------------e~NpP~~Lp~Gh 313 (351)
||+--|...| .+......|+.|.+..-.+ ..|-.--++|. -+.|+|-|+-++ .+-|-.-=-||.
T Consensus 145 nLsrHkQ~H~~~~s~ka~~C~~C~K~YvSm-pALkMHirTH~l~c~C~iCGKaFSRPWLLQGHiRTHTGEKPF~C~hC~k 223 (279)
T KOG2462|consen 145 NLSRHKQTHRSLDSKKAFSCKYCGKVYVSM-PALKMHIRTHTLPCECGICGKAFSRPWLLQGHIRTHTGEKPFSCPHCGK 223 (279)
T ss_pred ccchhhcccccccccccccCCCCCceeeeh-HHHhhHhhccCCCcccccccccccchHHhhcccccccCCCCccCCcccc
Q ss_pred cchHHHHHHHHHh---CCCceecCCCCccc
Q 018698 314 VYSTKALEEMAKK---NNGKITCPRTGLVC 340 (351)
Q Consensus 314 V~s~~al~~l~~~---~~~~~~CP~~~~~~ 340 (351)
.+.-++=.+---+ +..++.|++|++.|
T Consensus 224 AFADRSNLRAHmQTHS~~K~~qC~~C~KsF 253 (279)
T KOG2462|consen 224 AFADRSNLRAHMQTHSDVKKHQCPRCGKSF 253 (279)
T ss_pred hhcchHHHHHHHHhhcCCccccCcchhhHH
No 169
>KOG2196 consensus Nuclear porin [Nuclear structure]
Probab=28.51 E-value=3.7e+02 Score=25.54 Aligned_cols=23 Identities=13% Similarity=0.478 Sum_probs=13.3
Q ss_pred HhhhhHHHHHHHHHHHHHHHhhc
Q 018698 60 RTNHRAVEKEITSVISNVADVSD 82 (351)
Q Consensus 60 r~~qk~ieke~~~v~~~~~~~~k 82 (351)
+..||-||-++..|..+..|+++
T Consensus 126 k~~qkrLdq~L~~I~sqQ~ELE~ 148 (254)
T KOG2196|consen 126 KLDQKRLDQELEFILSQQQELED 148 (254)
T ss_pred HhHHHHHHHHHHHHHHHHHHHHH
Confidence 34466666666666666555544
No 170
>PRK11088 rrmA 23S rRNA methyltransferase A; Provisional
Probab=28.41 E-value=31 Score=32.50 Aligned_cols=8 Identities=25% Similarity=0.563 Sum_probs=4.6
Q ss_pred CCCCCchh
Q 018698 266 EDPLSQES 273 (351)
Q Consensus 266 ~cP~c~~~ 273 (351)
.||+|...
T Consensus 4 ~CP~C~~~ 11 (272)
T PRK11088 4 QCPLCHQP 11 (272)
T ss_pred cCCCCCcc
Confidence 46777543
No 171
>smart00734 ZnF_Rad18 Rad18-like CCHC zinc finger. Yeast Rad18p functions with Rad5p in error-free post-replicative DNA repair. This zinc finger is likely to bind nucleic-acids.
Probab=28.06 E-value=21 Score=21.71 Aligned_cols=13 Identities=15% Similarity=0.199 Sum_probs=9.7
Q ss_pred eecCCCCcccCcC
Q 018698 331 ITCPRTGLVCNYS 343 (351)
Q Consensus 331 ~~CP~~~~~~~~~ 343 (351)
+.||+|++.+...
T Consensus 2 v~CPiC~~~v~~~ 14 (26)
T smart00734 2 VQCPVCFREVPEN 14 (26)
T ss_pred CcCCCCcCcccHH
Confidence 5799998887543
No 172
>COG4066 Uncharacterized protein conserved in archaea [Function unknown]
Probab=28.01 E-value=3.1e+02 Score=24.16 Aligned_cols=62 Identities=19% Similarity=0.323 Sum_probs=40.9
Q ss_pred hhHHHHHHHHHHHHHHHhhcc---CCCChHHHHHHHHHHHHHHHhhhhcCCCCHHHHHHHHHHHH
Q 018698 63 HRAVEKEITSVISNVADVSDS---ENFSKDDAVNHLTSLVSRLQGLKRKDLVDIEVFQEAKKVID 124 (351)
Q Consensus 63 qk~ieke~~~v~~~~~~~~k~---~~~~~~~~~~~l~~~i~rl~~lkrk~lvd~d~f~~~~~I~~ 124 (351)
.+.||.=+..+++.++++++. +-...+...+.+|.++++++.+++----|...|..+.+|.-
T Consensus 42 ~~yvea~m~al~~rindir~~~~~~~~d~eg~~E~~D~~l~~~~~~k~~~~~de~~f~~i~~i~~ 106 (165)
T COG4066 42 NHYVEAMMKALIERINDIRKKSVDEIQDEEGDEEKLDEMLNRIERFKKYYTPDEERFINISKILC 106 (165)
T ss_pred HHHHHHHHHHHHHHHHHHHhcccCcccCcccCHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHH
Confidence 466777788888888888763 12333445567777777777777764445666666666654
No 173
>PF07304 SRA1: Steroid receptor RNA activator (SRA1); InterPro: IPR009917 This entry consists of several hypothetical mammalian steroid receptor RNA activator proteins. The SRA-RNAs encode stable proteins that are widely expressed and upregulated in breast cancer cell lines. SRA-RNA is a steroid receptor co-activator which acts as a functional RNA. This domain is also found at the C terminus of Sec31, a component of the coat protein complex II (COPII, which promotes the formation of transport vesicles from the endoplasmic reticulum (ER). COPII has two main functions, the physical deformation of the endoplasmic reticulum membrane into vesicles and the selection of cargo molecules. ; PDB: 2YRU_A.
Probab=27.88 E-value=1.5e+02 Score=25.95 Aligned_cols=49 Identities=24% Similarity=0.337 Sum_probs=33.5
Q ss_pred CCCChHHHHHHHHHHHHHHHhhhhcCCCCHHHHHHHHHHHHHHhcCChHHHHHHHHhhh
Q 018698 84 ENFSKDDAVNHLTSLVSRLQGLKRKDLVDIEVFQEAKKVIDALQNKEVAPALAWCSDNK 142 (351)
Q Consensus 84 ~~~~~~~~~~~l~~~i~rl~~lkrk~lvd~d~f~~~~~I~~~L~~~dl~~AL~W~~enk 142 (351)
++.+.. ++..|..+.+-|+. .-|....+|--+|.....++|=.|.---|
T Consensus 84 g~Ls~~-v~~~L~~L~~aL~~---------~d~~~A~~Ih~~L~t~h~~E~~~WmvGVK 132 (157)
T PF07304_consen 84 GKLSKP-VVDKLHQLAQALQA---------RDYDAADEIHVDLMTDHVDECGNWMVGVK 132 (157)
T ss_dssp T-S-HH-HHHHHHHHHHHHHH---------T-HHHHHHHHHHHHHSSHHHHTTTHHHHH
T ss_pred CCCCHH-HHHHHHHHHHHHHc---------CCHHHHHHHHHHHHhccHHHhhhHHHHHH
Confidence 345544 66666666654433 25899999999999999999999975443
No 174
>PF09751 Es2: Nuclear protein Es2; InterPro: IPR019148 This entry represents a family of proteins of approximately 500 residues with alternating regions of low complexity and conservation where the domain similarities are strong. Apart from a predicted coiled-coil domain, no other known functional domains have been characterised. May be involved in pre-mRNA splicing and has been associated with the spliceosome C complex. The protein appears to be expressed in the nucleus, particularly in the pons sub-region of the brain. It is clearly necessary for normal development of the nervous system [].
Probab=27.82 E-value=1.5e+02 Score=30.15 Aligned_cols=51 Identities=16% Similarity=0.430 Sum_probs=40.0
Q ss_pred CChHHHHHHHHHHHHHHHhhhhcCCC-CHHHHHHHHHHHHHHhcCChHHHHHHHHhhhhHhhh
Q 018698 86 FSKDDAVNHLTSLVSRLQGLKRKDLV-DIEVFQEAKKVIDALQNKEVAPALAWCSDNKSRLKK 147 (351)
Q Consensus 86 ~~~~~~~~~l~~~i~rl~~lkrk~lv-d~d~f~~~~~I~~~L~~~dl~~AL~W~~enk~~L~k 147 (351)
..-|+.++.|..||+| |+. |+.-++.-+...++++.+|++ |+.+...+|..
T Consensus 6 L~Ed~Y~~~l~~II~R-------DfFPdL~~l~~q~eyLeA~es~D~~----~ir~~~~k~~~ 57 (414)
T PF09751_consen 6 LDEDEYTEALSKIIQR-------DFFPDLPKLRAQNEYLEALESNDPE----RIREAQRKLSS 57 (414)
T ss_pred ccHHHHHHHHHHHHHh-------hhCCChHHHHHHHHHHHHHHcCCHH----HHHHHHHHHHh
Confidence 3557899999999998 766 888888888999999999965 66665555533
No 175
>COG4530 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=27.62 E-value=25 Score=29.26 Aligned_cols=17 Identities=35% Similarity=0.364 Sum_probs=13.2
Q ss_pred CCCceecCCCCcccCcC
Q 018698 327 NNGKITCPRTGLVCNYS 343 (351)
Q Consensus 327 ~~~~~~CP~~~~~~~~~ 343 (351)
|..-++|||||+.|..+
T Consensus 23 NrdPiVsPytG~s~P~s 39 (129)
T COG4530 23 NRDPIVSPYTGKSYPRS 39 (129)
T ss_pred CCCccccCcccccchHH
Confidence 34568999999999754
No 176
>PF05531 NPV_P10: Nucleopolyhedrovirus P10 protein; InterPro: IPR008702 This family consists of several nucleopolyhedrovirus P10 proteins which are thought to be involved in the morphogenesis of the polyhedra [].; GO: 0019028 viral capsid
Probab=26.75 E-value=2.9e+02 Score=21.35 Aligned_cols=49 Identities=18% Similarity=0.304 Sum_probs=36.4
Q ss_pred HHHhhhhHHHHHHHHHHHHHHHhhccCCCChHHHHHHHHHHHHHHHhhhh
Q 018698 58 TIRTNHRAVEKEITSVISNVADVSDSENFSKDDAVNHLTSLVSRLQGLKR 107 (351)
Q Consensus 58 ~fr~~qk~ieke~~~v~~~~~~~~k~~~~~~~~~~~~l~~~i~rl~~lkr 107 (351)
-+|+.-|.++..++.+...+..++.+ -....+...+||.+-.+|..+..
T Consensus 8 ~Ir~dIk~vd~KVdaLq~~V~~l~~~-~~~v~~l~~klDa~~~~l~~l~~ 56 (75)
T PF05531_consen 8 VIRQDIKAVDDKVDALQTQVDDLESN-LPDVTELNKKLDAQSAQLTTLNT 56 (75)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhc-CCchHHHHHHHHHHHHHHHHHHH
Confidence 46777888999999999999999863 35556677777777777665443
No 177
>PF10537 WAC_Acf1_DNA_bd: ATP-utilising chromatin assembly and remodelling N-terminal; InterPro: IPR013136 ACF (for ATP-utilising chromatin assembly and remodeling factor) is a chromatin-remodeling complex that catalyzes the ATP-dependent assembly of periodic nucleosome arrays. This reaction utilises the energy of ATP hydrolysis by ISWI, the smaller of the two subunits of ACF. Acf1, the large subunit of ACF, is essential for the full activity of the complex. The WAC (WSTF/Acf1/cbp146) domain is an ~110-residue module present at the N-termini of Acf1-related proteins in a variety of organisms. It is found in association with other domains such as the bromodomain, the PHD-type zinc finger, DDT or WAKS. The DNA-binding region of Acf1 includes the WAC domain, which is necessary for the efficient binding of ACF complex to DNA. It seems probable that the WAC domain will be involved in DNA binding in other related factors [, ]. Some proteins known to contain a WAC domain are the Drosophila melanogaster (Fruit fly) ATP-dependent chromatin assembly factor large subunit Acf1, human WSTF (Williams syndrome transcription factor), mouse cbp146, yeast imitation switch two complex protein 1 (ITC1 or YGL133w), and yeast protein YPL216w.
Probab=26.67 E-value=59 Score=26.56 Aligned_cols=38 Identities=24% Similarity=0.217 Sum_probs=27.4
Q ss_pred CeeeeeccccccCCCCCceeccCCccchHHHHHHHHHhCCCceecCCCCcc
Q 018698 289 SKLVCYITKELMDTENPPQVLPNGYVYSTKALEEMAKKNNGKITCPRTGLV 339 (351)
Q Consensus 289 S~~vCpis~e~~~e~NpP~~Lp~GhV~s~~al~~l~~~~~~~~~CP~~~~~ 339 (351)
-+|+||.|||+..+.. +-++++.-=+...+.|-.||+.
T Consensus 2 eVf~i~~T~EiF~dYe-------------~Y~~R~~~y~~~vwtC~~TGk~ 39 (102)
T PF10537_consen 2 EVFYIPFTGEIFRDYE-------------EYLKRMILYNQRVWTCEITGKS 39 (102)
T ss_pred ceEEeCCCCcccCCHH-------------HHHHHHHHHhCCeeEEecCCCC
Confidence 3689999999997632 5566654445567899998874
No 178
>PRK07003 DNA polymerase III subunits gamma and tau; Validated
Probab=26.38 E-value=2.6e+02 Score=31.22 Aligned_cols=88 Identities=7% Similarity=0.112 Sum_probs=50.2
Q ss_pred HHHHHHHHHHhhhhcCCCCHHHHHHHHHHH---------------HHHhcCChHHHHHHHHhhhhH---------hhhCC
Q 018698 94 HLTSLVSRLQGLKRKDLVDIEVFQEAKKVI---------------DALQNKEVAPALAWCSDNKSR---------LKKSK 149 (351)
Q Consensus 94 ~l~~~i~rl~~lkrk~lvd~d~f~~~~~I~---------------~~L~~~dl~~AL~W~~enk~~---------L~k~~ 149 (351)
.+.-++.|++.+.=+.+..-++...+.+|. -.+-+|++..||.|+.+--.. +..+-
T Consensus 162 Ip~TIrSRCq~f~Fk~Ls~eeIv~~L~~Il~~EgI~id~eAL~lIA~~A~GsmRdALsLLdQAia~~~~~It~~~V~~~L 241 (830)
T PRK07003 162 IPVTVLSRCLQFNLKQMPAGHIVSHLERILGEERIAFEPQALRLLARAAQGSMRDALSLTDQAIAYSANEVTETAVSGML 241 (830)
T ss_pred ccchhhhheEEEecCCcCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhccCCcCHHHHHHHh
Confidence 344555565544444444444444444432 223379999999997652211 11111
Q ss_pred CcchhhchhHHHHHHHhcCChHHHHHHHHHhCc
Q 018698 150 SKFEFQLRLQEFIELVRGENNLRAITYARKYLA 182 (351)
Q Consensus 150 S~LEF~Lr~q~fIeLir~~~~~eAI~yark~l~ 182 (351)
..+.-+ .+.++++.+..++..+++...++-..
T Consensus 242 G~~d~~-~i~~ll~aL~~~d~~~~l~~~~~l~~ 273 (830)
T PRK07003 242 GALDQT-YMVRLLDALAAGDGPEILAVADEMAL 273 (830)
T ss_pred CCCCHH-HHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence 122222 37778888899999999999887554
No 179
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=26.35 E-value=34 Score=30.39 Aligned_cols=23 Identities=17% Similarity=0.241 Sum_probs=18.5
Q ss_pred CceecCCCCcccCcCCceeeecC
Q 018698 329 GKITCPRTGLVCNYSDLVKAYIS 351 (351)
Q Consensus 329 ~~~~CP~~~~~~~~~~~~kvyi~ 351 (351)
.-+|||+|.+....+|+.=-+||
T Consensus 137 ~g~KCPvC~K~V~sDd~e~HlvM 159 (205)
T KOG0801|consen 137 SGMKCPVCHKVVPSDDAEIHLVM 159 (205)
T ss_pred CCccCCccccccCCCcceEEEEE
Confidence 45899999999999988765554
No 180
>PF04100 Vps53_N: Vps53-like, N-terminal ; InterPro: IPR007234 Vps53 complexes with Vps52 and Vps54 to form a multi-subunit complex involved in regulating membrane trafficking events [].
Probab=26.08 E-value=6.8e+02 Score=25.12 Aligned_cols=23 Identities=26% Similarity=0.420 Sum_probs=11.5
Q ss_pred HHHHHHHHHHHhcCChHHHHHHH
Q 018698 116 FQEAKKVIDALQNKEVAPALAWC 138 (351)
Q Consensus 116 f~~~~~I~~~L~~~dl~~AL~W~ 138 (351)
..++-.|+++|-..--+.-+.|+
T Consensus 200 l~~aC~vvd~L~~~~r~~li~wf 222 (383)
T PF04100_consen 200 LSDACLVVDALGPDVREELIDWF 222 (383)
T ss_pred HHHHHHHHHHcCchHHHHHHHHH
Confidence 44444455555544445555554
No 181
>PTZ00196 60S ribosomal protein L36; Provisional
Probab=26.08 E-value=1.6e+02 Score=24.04 Aligned_cols=42 Identities=26% Similarity=0.380 Sum_probs=30.8
Q ss_pred chhHHHHHHHhcCChHHHHHHHHHhCccchhh--hHHHHHHHHH
Q 018698 156 LRLQEFIELVRGENNLRAITYARKYLAPWGAT--HMKELQRVMA 197 (351)
Q Consensus 156 Lr~q~fIeLir~~~~~eAI~yark~l~~~~~~--~~~ei~~~m~ 197 (351)
=+-...+|||+.++--.|+.||++-|..+... ..+|++.++.
T Consensus 50 PYErr~mELLkv~kdKrAlKfaKkRlGth~RaK~Kreel~~vl~ 93 (98)
T PTZ00196 50 PYERRMIELLKVGKDKRALKYAKKRLGTHKRAKAKRDEIQEALR 93 (98)
T ss_pred HHHHHHHHHHHhcchHHHHHHHHHHhhhHHHHHHHHHHHHHHHH
Confidence 33456789999998899999999999776542 3466666554
No 182
>COG5220 TFB3 Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB3 [Cell division and chromosome partitioning / Transcription / DNA replication, recombination, and repair]
Probab=25.75 E-value=28 Score=32.89 Aligned_cols=38 Identities=18% Similarity=0.325 Sum_probs=28.6
Q ss_pred CCCceec---c-CCccchHHHHHHHHHhCCCceecCC--CCcccCc
Q 018698 303 ENPPQVL---P-NGYVYSTKALEEMAKKNNGKITCPR--TGLVCNY 342 (351)
Q Consensus 303 ~NpP~~L---p-~GhV~s~~al~~l~~~~~~~~~CP~--~~~~~~~ 342 (351)
-||-|.+ | |=|-+|+.++.++.. .|.-.||| |++....
T Consensus 22 LnPdik~linPECyHrmCESCvdRIFs--~GpAqCP~~gC~kILRK 65 (314)
T COG5220 22 LNPDIKILINPECYHRMCESCVDRIFS--RGPAQCPYKGCGKILRK 65 (314)
T ss_pred cCCCeEEEECHHHHHHHHHHHHHHHhc--CCCCCCCCccHHHHHHH
Confidence 4665554 5 999999999999975 46789995 7765543
No 183
>PF04136 Sec34: Sec34-like family ; InterPro: IPR007265 Sec34 and Sec35 form a sub-complex in a seven-protein complex that includes Dor1. This complex is thought to be important for tethering vesicles to the Golgi [].; GO: 0006886 intracellular protein transport, 0005801 cis-Golgi network, 0016020 membrane
Probab=25.53 E-value=4.5e+02 Score=22.88 Aligned_cols=26 Identities=4% Similarity=0.069 Sum_probs=18.2
Q ss_pred hhchhHHHHHHHhcCChHHHHHHHHHhC
Q 018698 154 FQLRLQEFIELVRGENNLRAITYARKYL 181 (351)
Q Consensus 154 F~Lr~q~fIeLir~~~~~eAI~yark~l 181 (351)
+.+....|++++. ++.++|.|...|-
T Consensus 90 ~sV~~~~F~~~L~--~LD~cl~Fl~~h~ 115 (157)
T PF04136_consen 90 SSVNSDSFKPMLS--RLDECLEFLEEHP 115 (157)
T ss_pred CcccchHHHHHHH--HHHHHHHHHHHhh
Confidence 3456777888774 5777888888763
No 184
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=25.30 E-value=66 Score=27.71 Aligned_cols=54 Identities=22% Similarity=0.168 Sum_probs=37.0
Q ss_pred eeeeeccccccCCCCCcee---ccCCccchHHHHHHHHHhCCCceecCCCCcccCcCCc
Q 018698 290 KLVCYITKELMDTENPPQV---LPNGYVYSTKALEEMAKKNNGKITCPRTGLVCNYSDL 345 (351)
Q Consensus 290 ~~vCpis~e~~~e~NpP~~---Lp~GhV~s~~al~~l~~~~~~~~~CP~~~~~~~~~~~ 345 (351)
+.-|-|-+|..+|+- ++ -=||+-|+.-+--.|=+-.+-..+||.|+..|..+..
T Consensus 80 lYeCnIC~etS~ee~--FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss~~ 136 (140)
T PF05290_consen 80 LYECNICKETSAEER--FLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSSSS 136 (140)
T ss_pred ceeccCcccccchhh--cCCcccccchHHHHHHHHHHHHHcccCCCCCccccccccccc
Confidence 345666666665532 12 2489999888776665555567899999999988754
No 185
>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H ....
Probab=25.23 E-value=2.3e+02 Score=20.52 Aligned_cols=55 Identities=13% Similarity=0.018 Sum_probs=31.5
Q ss_pred hcCChHHHHHHHHhhhhHhhhCCCcchhhchhHHHH--HHHhcCChHHHHHHHHHhC
Q 018698 127 QNKEVAPALAWCSDNKSRLKKSKSKFEFQLRLQEFI--ELVRGENNLRAITYARKYL 181 (351)
Q Consensus 127 ~~~dl~~AL~W~~enk~~L~k~~S~LEF~Lr~q~fI--eLir~~~~~eAI~yark~l 181 (351)
..|+.+.|+.|+++--...+..+..-...+....=+ -..+.|++.+|++|.++-+
T Consensus 17 ~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al 73 (78)
T PF13424_consen 17 ELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKAL 73 (78)
T ss_dssp HTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHH
T ss_pred HcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence 468889999988876655444443221112221111 1224588999999988754
No 186
>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=25.06 E-value=96 Score=19.76 Aligned_cols=21 Identities=29% Similarity=0.488 Sum_probs=16.1
Q ss_pred HHHHHHHHh--cCChHHHHHHHH
Q 018698 119 AKKVIDALQ--NKEVAPALAWCS 139 (351)
Q Consensus 119 ~~~I~~~L~--~~dl~~AL~W~~ 139 (351)
..++..+|+ +||++.|+.|+-
T Consensus 15 ~~~~~~AL~~~~~d~~~A~~~L~ 37 (38)
T cd00194 15 REEARKALRATNNNVERAVEWLL 37 (38)
T ss_pred HHHHHHHHHHhCCCHHHHHHHHh
Confidence 446677776 689999999973
No 187
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=24.24 E-value=53 Score=32.03 Aligned_cols=47 Identities=17% Similarity=0.268 Sum_probs=30.6
Q ss_pred CCCCeeeeeccccccCCCCCcee-ccCCccchHHHHHHHHHhCCCceecCCCCcccC
Q 018698 286 QHHSKLVCYITKELMDTENPPQV-LPNGYVYSTKALEEMAKKNNGKITCPRTGLVCN 341 (351)
Q Consensus 286 ~~hS~~vCpis~e~~~e~NpP~~-Lp~GhV~s~~al~~l~~~~~~~~~CP~~~~~~~ 341 (351)
-...+|-|||-.+.+.. |.+ =+|||..+..+=.++. .+||.|...+.
T Consensus 44 ~~~~lleCPvC~~~l~~---Pi~QC~nGHlaCssC~~~~~------~~CP~Cr~~~g 91 (299)
T KOG3002|consen 44 LDLDLLDCPVCFNPLSP---PIFQCDNGHLACSSCRTKVS------NKCPTCRLPIG 91 (299)
T ss_pred cchhhccCchhhccCcc---cceecCCCcEehhhhhhhhc------ccCCccccccc
Confidence 35566677776666654 555 6788888887775552 46777766554
No 188
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=24.19 E-value=38 Score=34.67 Aligned_cols=31 Identities=16% Similarity=0.324 Sum_probs=23.0
Q ss_pred eeeeccccccCCCCCceeccCCccchHHHHHHHH
Q 018698 291 LVCYITKELMDTENPPQVLPNGYVYSTKALEEMA 324 (351)
Q Consensus 291 ~vCpis~e~~~e~NpP~~Lp~GhV~s~~al~~l~ 324 (351)
+-|||-|....| |+.|||||-.++.+-..+.
T Consensus 5 lkc~vc~~f~~e---piil~c~h~lc~~ca~~~~ 35 (699)
T KOG4367|consen 5 LKCPVCGSFYRE---PIILPCSHNLCQACARNIL 35 (699)
T ss_pred ccCceehhhccC---ceEeecccHHHHHHHHhhc
Confidence 345665555555 9999999999998876654
No 189
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=23.89 E-value=5e+02 Score=25.74 Aligned_cols=37 Identities=11% Similarity=0.091 Sum_probs=28.9
Q ss_pred CCCCH--HHHHHHHHHHHHHhcCChHHHHHHHHhhhhHh
Q 018698 109 DLVDI--EVFQEAKKVIDALQNKEVAPALAWCSDNKSRL 145 (351)
Q Consensus 109 ~lvd~--d~f~~~~~I~~~L~~~dl~~AL~W~~enk~~L 145 (351)
|..|- -.|.++.+|+..|.+||.+.+++||.-....|
T Consensus 148 gI~~k~~~l~iE~~Qi~gyl~kgdtesel~l~~~~~esl 186 (396)
T COG5109 148 GISEKSTFLLIEFLQIEGYLSKGDTESELELYLVSHESL 186 (396)
T ss_pred hhccchhHhHHHHHHhcCccccCCchhhhHHHHHHHHHH
Confidence 44443 35889999999999999999999997654443
No 190
>PF14787 zf-CCHC_5: GAG-polyprotein viral zinc-finger; PDB: 1CL4_A 1DSV_A.
Probab=23.63 E-value=45 Score=22.12 Aligned_cols=12 Identities=33% Similarity=0.800 Sum_probs=8.8
Q ss_pred ecCCCCcccCcC
Q 018698 332 TCPRTGLVCNYS 343 (351)
Q Consensus 332 ~CP~~~~~~~~~ 343 (351)
.||+|++.+++.
T Consensus 4 ~CprC~kg~Hwa 15 (36)
T PF14787_consen 4 LCPRCGKGFHWA 15 (36)
T ss_dssp C-TTTSSSCS-T
T ss_pred cCcccCCCcchh
Confidence 699999999864
No 191
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=23.59 E-value=47 Score=23.00 Aligned_cols=42 Identities=21% Similarity=0.382 Sum_probs=22.5
Q ss_pred eeccccccCCCCCceeccCCc-----cchHHHHHHHHHhCCCceecCCC
Q 018698 293 CYITKELMDTENPPQVLPNGY-----VYSTKALEEMAKKNNGKITCPRT 336 (351)
Q Consensus 293 Cpis~e~~~e~NpP~~Lp~Gh-----V~s~~al~~l~~~~~~~~~CP~~ 336 (351)
|+|=.+.-++++ |+..||+- ..-.+.|++|... .+..+|+.|
T Consensus 1 CrIC~~~~~~~~-~li~pC~C~Gs~~~vH~~CL~~W~~~-~~~~~C~~C 47 (47)
T PF12906_consen 1 CRICLEGEEEDE-PLISPCRCKGSMKYVHRSCLERWIRE-SGNRKCEIC 47 (47)
T ss_dssp ETTTTEE-SSSS--EE-SSS-SSCCGSEECCHHHHHHHH-HT-SB-TTT
T ss_pred CeEeCCcCCCCC-ceecccccCCCcchhHHHHHHHHHHh-cCCCcCCCC
Confidence 344444444444 89999874 3456788888764 355678876
No 192
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=23.53 E-value=40 Score=25.35 Aligned_cols=34 Identities=18% Similarity=0.145 Sum_probs=18.9
Q ss_pred cCCccchHHHHHHHHHh--CC------CceecCCCCcccCcC
Q 018698 310 PNGYVYSTKALEEMAKK--NN------GKITCPRTGLVCNYS 343 (351)
Q Consensus 310 p~GhV~s~~al~~l~~~--~~------~~~~CP~~~~~~~~~ 343 (351)
.||+++-...|.+|... ++ ..-+||+|.+..+++
T Consensus 27 ~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~~~ 68 (70)
T PF11793_consen 27 SCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPISWS 68 (70)
T ss_dssp T----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEEGG
T ss_pred ccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeeeEe
Confidence 69999999999998763 11 123799999987764
No 193
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=23.45 E-value=27 Score=30.12 Aligned_cols=21 Identities=14% Similarity=0.292 Sum_probs=17.4
Q ss_pred CCceecCCCCcccCcCCceee
Q 018698 328 NGKITCPRTGLVCNYSDLVKA 348 (351)
Q Consensus 328 ~~~~~CP~~~~~~~~~~~~kv 348 (351)
+..+.||.|+..|+..++...
T Consensus 97 ~~~Y~Cp~C~~~y~~~ea~~~ 117 (147)
T smart00531 97 NAYYKCPNCQSKYTFLEANQL 117 (147)
T ss_pred CcEEECcCCCCEeeHHHHHHh
Confidence 457899999999999887654
No 194
>COG4416 Com Mu-like prophage protein Com [General function prediction only]
Probab=23.17 E-value=35 Score=24.73 Aligned_cols=10 Identities=40% Similarity=0.733 Sum_probs=8.5
Q ss_pred ceecCCCCcc
Q 018698 330 KITCPRTGLV 339 (351)
Q Consensus 330 ~~~CP~~~~~ 339 (351)
.++||+|++.
T Consensus 24 e~KCPrCK~v 33 (60)
T COG4416 24 EKKCPRCKEV 33 (60)
T ss_pred eecCCcccee
Confidence 5899999875
No 195
>COG1655 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=23.08 E-value=46 Score=31.29 Aligned_cols=11 Identities=27% Similarity=0.552 Sum_probs=8.6
Q ss_pred CCCCCCchhhh
Q 018698 265 KEDPLSQESFR 275 (351)
Q Consensus 265 ~~cP~c~~~~~ 275 (351)
-.||||+..|.
T Consensus 20 ieCPvC~tkFk 30 (267)
T COG1655 20 IECPVCNTKFK 30 (267)
T ss_pred eccCcccchhh
Confidence 46999988765
No 196
>KOG2180 consensus Late Golgi protein sorting complex, subunit Vps53 [Intracellular trafficking, secretion, and vesicular transport]
Probab=22.90 E-value=1.1e+03 Score=26.20 Aligned_cols=87 Identities=16% Similarity=0.230 Sum_probs=41.8
Q ss_pred HHHhHHHHhhhhHHHHHHHHHHHHHHHhhccCCCChHHHHHHHHHHHHHHHhhhhcCCCCHHHHHHHHHHHH--HHhcCC
Q 018698 53 EHYKKTIRTNHRAVEKEITSVISNVADVSDSENFSKDDAVNHLTSLVSRLQGLKRKDLVDIEVFQEAKKVID--ALQNKE 130 (351)
Q Consensus 53 E~l~k~fr~~qk~ieke~~~v~~~~~~~~k~~~~~~~~~~~~l~~~i~rl~~lkrk~lvd~d~f~~~~~I~~--~L~~~d 130 (351)
+.+.-+.+---+.+++++..+...-......+.....++...+..+..+++.++.+.-..-....++-+=++ ++..+|
T Consensus 39 d~li~ki~~eir~~d~~l~~~Vr~q~N~g~~~~e~l~da~~ai~eL~~~i~eiks~ae~Te~~V~eiTrdIKqLD~AKkN 118 (793)
T KOG2180|consen 39 DSLIQKIQGEIRRVDKNLLAVVRTQENSGTRGKENLADAQAAIEELFQKIQEIKSVAESTEAMVQEITRDIKQLDFAKKN 118 (793)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcccccchhhhhHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhhhHHHhh
Confidence 334444443444555555544443333333334556677777777777777766552211112222222222 122567
Q ss_pred hHHHHHHHH
Q 018698 131 VAPALAWCS 139 (351)
Q Consensus 131 l~~AL~W~~ 139 (351)
++.+|.-++
T Consensus 119 LTtSiT~L~ 127 (793)
T KOG2180|consen 119 LTTSITTLH 127 (793)
T ss_pred HHHHHHHHH
Confidence 776666544
No 197
>PHA00616 hypothetical protein
Probab=22.85 E-value=24 Score=24.51 Aligned_cols=12 Identities=25% Similarity=0.429 Sum_probs=10.0
Q ss_pred eecCCCCcccCc
Q 018698 331 ITCPRTGLVCNY 342 (351)
Q Consensus 331 ~~CP~~~~~~~~ 342 (351)
..||.||+.|.-
T Consensus 2 YqC~~CG~~F~~ 13 (44)
T PHA00616 2 YQCLRCGGIFRK 13 (44)
T ss_pred CccchhhHHHhh
Confidence 579999999864
No 198
>KOG2027 consensus Spindle pole body protein [Cytoskeleton]
Probab=22.76 E-value=3.3e+02 Score=27.64 Aligned_cols=90 Identities=22% Similarity=0.169 Sum_probs=48.6
Q ss_pred HHHHHhhhhcCCCCHHHHHHHHHHHHHHhcCChHHHHHHHHhhhhHhhhCCCcchhhchhHHHHHHHhcCChHHHHHHHH
Q 018698 99 VSRLQGLKRKDLVDIEVFQEAKKVIDALQNKEVAPALAWCSDNKSRLKKSKSKFEFQLRLQEFIELVRGENNLRAITYAR 178 (351)
Q Consensus 99 i~rl~~lkrk~lvd~d~f~~~~~I~~~L~~~dl~~AL~W~~enk~~L~k~~S~LEF~Lr~q~fIeLir~~~~~eAI~yar 178 (351)
+.||+.|++|-. .-+-+-++.|.+.|+.|.-..|.--+..---+.+ .++-.=.++.|.+||- +|
T Consensus 3 ~~Rl~lLknKk~--a~~kq~RrdIA~lL~sg~~~~A~~RvE~li~ee~----~~~a~e~le~fCelll----------~R 66 (388)
T KOG2027|consen 3 INRLKLLKNKKE--ALAKQLRRDIADLLKSGQDERARIRVEHLIREEN----LLEAYEILELFCELLL----------AR 66 (388)
T ss_pred hHHHHHHHHHHH--HHHHHHHHHHHHHHHcCCchhhHHHHHHHHHHHH----HHHHHHHHHHHHHHHH----------HH
Confidence 567777777631 1234456788889999998888765443211111 1111111233444432 22
Q ss_pred HhCccchhhhHHHHHHHHHHhccCCC
Q 018698 179 KYLAPWGATHMKELQRVMATLAFKSN 204 (351)
Q Consensus 179 k~l~~~~~~~~~ei~~~m~lLaf~~~ 204 (351)
=.+......-..++..+++.|+|-.+
T Consensus 67 ~~~i~~~~~cp~~l~EAVsSlifAA~ 92 (388)
T KOG2027|consen 67 LSLIEKQKECPDDLKEAVSSLIFAAP 92 (388)
T ss_pred hhHHhhcccCCHHHHHHHHHHHHHhc
Confidence 11211112345789999999998753
No 199
>PRK00114 hslO Hsp33-like chaperonin; Reviewed
Probab=22.49 E-value=57 Score=31.51 Aligned_cols=31 Identities=16% Similarity=0.382 Sum_probs=22.9
Q ss_pred cchHHHHHHHHHhCC-CceecCCCCcccCcCC
Q 018698 314 VYSTKALEEMAKKNN-GKITCPRTGLVCNYSD 344 (351)
Q Consensus 314 V~s~~al~~l~~~~~-~~~~CP~~~~~~~~~~ 344 (351)
.++++-++.|.+.++ -.++|.+|++.|.++.
T Consensus 251 ~Lg~~El~~i~~e~~~iev~C~FC~~~Y~f~~ 282 (293)
T PRK00114 251 SLGKEELQEMIAEDGGAEMVCQFCGNKYLFDE 282 (293)
T ss_pred hCCHHHHHHHHHcCCCEEEEEeCCCCEEEeCH
Confidence 356777777776543 3699999999988763
No 200
>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A.
Probab=22.49 E-value=1.7e+02 Score=21.83 Aligned_cols=49 Identities=16% Similarity=0.059 Sum_probs=30.2
Q ss_pred HHhcCChHHHHHHHHhhhhHhhhCCCcchhhchhHHHHHHHhcCChHHHHHHHHH
Q 018698 125 ALQNKEVAPALAWCSDNKSRLKKSKSKFEFQLRLQEFIELVRGENNLRAITYARK 179 (351)
Q Consensus 125 ~L~~~dl~~AL~W~~enk~~L~k~~S~LEF~Lr~q~fIeLir~~~~~eAI~yark 179 (351)
..+.|+.+.|+.|++. ..+... . +..+..-=--+++.|++.+||.+-.+
T Consensus 35 ~~~~~~y~~A~~~~~~--~~~~~~--~--~~~~~l~a~~~~~l~~y~eAi~~l~~ 83 (84)
T PF12895_consen 35 YFQQGKYEEAIELLQK--LKLDPS--N--PDIHYLLARCLLKLGKYEEAIKALEK 83 (84)
T ss_dssp HHHTTHHHHHHHHHHC--HTHHHC--H--HHHHHHHHHHHHHTT-HHHHHHHHHH
T ss_pred HHHCCCHHHHHHHHHH--hCCCCC--C--HHHHHHHHHHHHHhCCHHHHHHHHhc
Confidence 4567899999999877 223221 2 33333333446677899999887654
No 201
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=22.44 E-value=50 Score=36.30 Aligned_cols=35 Identities=9% Similarity=0.121 Sum_probs=29.2
Q ss_pred ccCCccchHHHHHHHHHhCCCceecCCCCcccCcCCce
Q 018698 309 LPNGYVYSTKALEEMAKKNNGKITCPRTGLVCNYSDLV 346 (351)
Q Consensus 309 Lp~GhV~s~~al~~l~~~~~~~~~CP~~~~~~~~~~~~ 346 (351)
-+|||.+++.+|..|.+. .-+||.|..+|..-.+.
T Consensus 142 k~c~H~FC~~Ci~sWsR~---aqTCPiDR~EF~~v~V~ 176 (1134)
T KOG0825|consen 142 KHTAHYFCEECVGSWSRC---AQTCPVDRGEFGEVKVL 176 (1134)
T ss_pred cccccccHHHHhhhhhhh---cccCchhhhhhheeeee
Confidence 599999999999999864 35999999999865543
No 202
>PF04475 DUF555: Protein of unknown function (DUF555); InterPro: IPR007564 This is a family of uncharacterised, hypothetical archaeal proteins.
Probab=21.86 E-value=45 Score=27.18 Aligned_cols=14 Identities=29% Similarity=0.665 Sum_probs=11.9
Q ss_pred CceecCCCCcccCc
Q 018698 329 GKITCPRTGLVCNY 342 (351)
Q Consensus 329 ~~~~CP~~~~~~~~ 342 (351)
|...||.||+++..
T Consensus 46 G~~~cP~Cge~~~~ 59 (102)
T PF04475_consen 46 GDTICPKCGEELDS 59 (102)
T ss_pred CcccCCCCCCccCc
Confidence 67899999998864
No 203
>PF12126 DUF3583: Protein of unknown function (DUF3583); InterPro: IPR021978 This domain is found in eukaryotes, and is typically between 302 and 338 amino acids in length. It is found in association with PF00097 from PFAM and PF00643 from PFAM. Most members are promyelocytic leukemia proteins, and this family lies towards the C terminus.
Probab=21.74 E-value=3.7e+02 Score=26.25 Aligned_cols=75 Identities=13% Similarity=0.182 Sum_probs=47.9
Q ss_pred HHHhHHHHhhhhHHHHHHHHHHHHHHHhhccC--------CCChHHHHHHHHHHHHHHHhhhhc------CCCCHHHHHH
Q 018698 53 EHYKKTIRTNHRAVEKEITSVISNVADVSDSE--------NFSKDDAVNHLTSLVSRLQGLKRK------DLVDIEVFQE 118 (351)
Q Consensus 53 E~l~k~fr~~qk~ieke~~~v~~~~~~~~k~~--------~~~~~~~~~~l~~~i~rl~~lkrk------~lvd~d~f~~ 118 (351)
|.++..+...++.|..++.++-..+..+...+ =.++.+|+..=..|.+.|..|.+. ..|-.|-|.+
T Consensus 60 e~v~~rYqR~y~ema~~L~~LeavLqRir~G~~LVekM~~YASDQEVLdMh~FlreAL~rLrqeePq~lqa~V~td~F~E 139 (324)
T PF12126_consen 60 EAVEARYQRDYEEMAGQLGRLEAVLQRIRTGGALVEKMKLYASDQEVLDMHGFLREALERLRQEEPQNLQAAVRTDGFDE 139 (324)
T ss_pred HHHHHHHHHHHHHHHHHHhHHHHHHHHHHhHHHHHHHHHHhcchHHHHHHHHHHHHHHHHhhhhcCcccccceecccHHH
Confidence 66777777777888888888777777665421 145566665544444455555444 4556677888
Q ss_pred HHHHHHHHh
Q 018698 119 AKKVIDALQ 127 (351)
Q Consensus 119 ~~~I~~~L~ 127 (351)
++--.++|-
T Consensus 140 ~k~rLQ~L~ 148 (324)
T PF12126_consen 140 FKARLQDLV 148 (324)
T ss_pred HHHHHHHHH
Confidence 777666664
No 204
>PF03833 PolC_DP2: DNA polymerase II large subunit DP2; InterPro: IPR016033 DP2 is the large subunit of a two-subunit novel archaebacterial replicative DNA polymerase first characterised for Pyrococcus furiosus. The structure of DP2 appears to be organised as a ~950 residue component separated from a ~300 residue component by a ~150 residue intein. The other subunit, DP1, has sequence similarity to the eukaryotic DNA polymerase delta small subunit. This entry represents the N-terminal ~950 residue component of DP2.; GO: 0003887 DNA-directed DNA polymerase activity; PDB: 3O59_X.
Probab=21.54 E-value=31 Score=38.14 Aligned_cols=18 Identities=17% Similarity=0.257 Sum_probs=0.0
Q ss_pred CChHHHHHHHHHhCccch
Q 018698 168 ENNLRAITYARKYLAPWG 185 (351)
Q Consensus 168 ~~~~eAI~yark~l~~~~ 185 (351)
-+..||+.+++++=.|+.
T Consensus 469 p~~~eA~~~s~~~~vPLH 486 (900)
T PF03833_consen 469 PSAEEALEISEEYGVPLH 486 (900)
T ss_dssp ------------------
T ss_pred CCHHHHHHHHHHhCCCCC
Confidence 356778888888776654
No 205
>PHA02768 hypothetical protein; Provisional
Probab=21.43 E-value=79 Score=22.98 Aligned_cols=32 Identities=6% Similarity=0.056 Sum_probs=19.6
Q ss_pred cCCccchHHHHHHHHHhCCC-ceecCCCCcccC
Q 018698 310 PNGYVYSTKALEEMAKKNNG-KITCPRTGLVCN 341 (351)
Q Consensus 310 p~GhV~s~~al~~l~~~~~~-~~~CP~~~~~~~ 341 (351)
-||..|+...-...-.+... .++|..|++.|.
T Consensus 10 ~CGK~Fs~~~~L~~H~r~H~k~~kc~~C~k~f~ 42 (55)
T PHA02768 10 ICGEIYIKRKSMITHLRKHNTNLKLSNCKRISL 42 (55)
T ss_pred hhCCeeccHHHHHHHHHhcCCcccCCcccceec
Confidence 37777766543332223233 578999998876
No 206
>KOG0989 consensus Replication factor C, subunit RFC4 [Replication, recombination and repair]
Probab=21.40 E-value=4.2e+02 Score=26.36 Aligned_cols=87 Identities=20% Similarity=0.253 Sum_probs=57.0
Q ss_pred HHHHHHHHhhhhcCCCCHHHHHHHHHHH---------------HHHhcCChHHHHHHHHhhhhHhhhCC-Ccchhhch--
Q 018698 96 TSLVSRLQGLKRKDLVDIEVFQEAKKVI---------------DALQNKEVAPALAWCSDNKSRLKKSK-SKFEFQLR-- 157 (351)
Q Consensus 96 ~~~i~rl~~lkrk~lvd~d~f~~~~~I~---------------~~L~~~dl~~AL~W~~enk~~L~k~~-S~LEF~Lr-- 157 (351)
+-++.|++...=+.|-|.++...+..|- -.+-.||+..|+-.++....-.+.+. +...+++.
T Consensus 174 ~pi~SRC~KfrFk~L~d~~iv~rL~~Ia~~E~v~~d~~al~~I~~~S~GdLR~Ait~Lqsls~~gk~It~~~~~e~~~Gv 253 (346)
T KOG0989|consen 174 RPLVSRCQKFRFKKLKDEDIVDRLEKIASKEGVDIDDDALKLIAKISDGDLRRAITTLQSLSLLGKRITTSLVNEELAGV 253 (346)
T ss_pred hHHHhhHHHhcCCCcchHHHHHHHHHHHHHhCCCCCHHHHHHHHHHcCCcHHHHHHHHHHhhccCcccchHHHHHHHhcc
Confidence 3344455544444565655555555442 23347999999999998877444443 22333333
Q ss_pred -----hHHHHHHHhcCChHHHHHHHHHhCc
Q 018698 158 -----LQEFIELVRGENNLRAITYARKYLA 182 (351)
Q Consensus 158 -----~q~fIeLir~~~~~eAI~yark~l~ 182 (351)
+..+.++.+.++..+.++|+|.-+-
T Consensus 254 Vp~~~l~~lle~a~S~d~~~~v~~~Rei~~ 283 (346)
T KOG0989|consen 254 VPDEKLLDLLELALSADTPNTVKRVREIMR 283 (346)
T ss_pred CCHHHHHHHHHHHHccChHHHHHHHHHHHH
Confidence 6788999999999999999997554
No 207
>KOG2856 consensus Adaptor protein PACSIN [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport; Cytoskeleton]
Probab=21.34 E-value=6.6e+02 Score=25.48 Aligned_cols=24 Identities=13% Similarity=0.450 Sum_probs=15.1
Q ss_pred HHHHHHHhcCChHHHHHHHHhhhh
Q 018698 120 KKVIDALQNKEVAPALAWCSDNKS 143 (351)
Q Consensus 120 ~~I~~~L~~~dl~~AL~W~~enk~ 143 (351)
++..++|++-|-++=|.|-..|..
T Consensus 260 ~eleqsIr~Ad~eeDLrww~s~hG 283 (472)
T KOG2856|consen 260 RELEQSIRAADAEEDLRWWRSNHG 283 (472)
T ss_pred HHHHHHHhccchHHHHHHHHhcCC
Confidence 345566666677777777666543
No 208
>PRK04778 septation ring formation regulator EzrA; Provisional
Probab=21.31 E-value=9.8e+02 Score=25.25 Aligned_cols=136 Identities=13% Similarity=0.189 Sum_probs=0.0
Q ss_pred cccHHHHhHHHHhh---hhHHHHHHHHHHHHHHHhhccCCCChHHHHHHHHHHHHHHHhhhhc-----------------
Q 018698 49 RVPFEHYKKTIRTN---HRAVEKEITSVISNVADVSDSENFSKDDAVNHLTSLVSRLQGLKRK----------------- 108 (351)
Q Consensus 49 ~vP~E~l~k~fr~~---qk~ieke~~~v~~~~~~~~k~~~~~~~~~~~~l~~~i~rl~~lkrk----------------- 108 (351)
.+||+.+...+... .+.|+++...+...+..+.+. -.++.+.|+.+-.++..++|.
T Consensus 375 ~~~ysel~e~leel~e~leeie~eq~ei~e~l~~Lrk~----E~eAr~kL~~~~~~L~~ikr~l~k~~lpgip~~y~~~~ 450 (569)
T PRK04778 375 EIAYSELQEELEEILKQLEEIEKEQEKLSEMLQGLRKD----ELEAREKLERYRNKLHEIKRYLEKSNLPGLPEDYLEMF 450 (569)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHcCCCCCcHHHHHHH
Q ss_pred ----------------CCCCHHHHH-HHHHHHHHHh------------cCChHHHHHHHHhhhhHhhhCCCcchhhchhH
Q 018698 109 ----------------DLVDIEVFQ-EAKKVIDALQ------------NKEVAPALAWCSDNKSRLKKSKSKFEFQLRLQ 159 (351)
Q Consensus 109 ----------------~lvd~d~f~-~~~~I~~~L~------------~~dl~~AL~W~~enk~~L~k~~S~LEF~Lr~q 159 (351)
|=||++... ++..+.+.+. ...++.+|.+.+..+.... +..=.+.
T Consensus 451 ~~~~~~i~~l~~~L~~g~VNm~ai~~e~~e~~~~~~~L~~q~~dL~~~a~~lE~~Iqy~nRfr~~~~------~V~~~f~ 524 (569)
T PRK04778 451 FEVSDEIEALAEELEEKPINMEAVNRLLEEATEDVETLEEETEELVENATLTEQLIQYANRYRSDNE------EVAEALN 524 (569)
T ss_pred HHHHHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCH------HHHHHHH
Q ss_pred HHHHHHhcCChHHHHHHHHHhCccchhhhHHHHHH
Q 018698 160 EFIELVRGENNLRAITYARKYLAPWGATHMKELQR 194 (351)
Q Consensus 160 ~fIeLir~~~~~eAI~yark~l~~~~~~~~~ei~~ 194 (351)
+--.+.|.+++.+|+.-|-+-+-.....-...|..
T Consensus 525 ~Ae~lF~~~~Y~~al~~~~~alE~vePG~~~ri~~ 559 (569)
T PRK04778 525 EAERLFREYDYKAALEIIATALEKVEPGVTKRIED 559 (569)
T ss_pred HHHHHHHhCChHHHHHHHHHHHHhhCCcHHHHHHH
No 209
>PF01158 Ribosomal_L36e: Ribosomal protein L36e; InterPro: IPR000509 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. The L36E ribosomal family consists of mammalian, Caenorhabditis elegans and Drosophila L36, Candida albicans L39, and yeast YL39 ribosomal proteins [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 4A1B_Q 4A1D_Q 4A19_Q 4A18_Q 3IZS_k 3IZR_k.
Probab=21.14 E-value=2.1e+02 Score=23.33 Aligned_cols=44 Identities=27% Similarity=0.371 Sum_probs=32.2
Q ss_pred hhchhHHHHHHHhcCChHHHHHHHHHhCccchh--hhHHHHHHHHH
Q 018698 154 FQLRLQEFIELVRGENNLRAITYARKYLAPWGA--THMKELQRVMA 197 (351)
Q Consensus 154 F~Lr~q~fIeLir~~~~~eAI~yark~l~~~~~--~~~~ei~~~m~ 197 (351)
|.=+-..-+|||+.++--.|+.|+++-+..+.. ...+|++.+++
T Consensus 48 faPYEkr~mELlkv~kdKrAlKf~KKRlGth~RAKrKrEel~~vl~ 93 (98)
T PF01158_consen 48 FAPYEKRAMELLKVSKDKRALKFAKKRLGTHIRAKRKREELSNVLA 93 (98)
T ss_dssp HCHHHHHHHHHHHHCCHHHHHHHHHHHHCHHHHHHHHHHHHHHHHH
T ss_pred CChHHHHHHHHHhcchhHHHHHHHHHHhhhhHHHHHHHHHHHHHHH
Confidence 333446678999999999999999999976643 23566666654
No 210
>smart00165 UBA Ubiquitin associated domain. Present in Rad23, SNF1-like kinases. The newly-found UBA in p62 is known to bind ubiquitin.
Probab=21.06 E-value=1.2e+02 Score=19.25 Aligned_cols=18 Identities=28% Similarity=0.416 Sum_probs=13.9
Q ss_pred HHHHHHh--cCChHHHHHHH
Q 018698 121 KVIDALQ--NKEVAPALAWC 138 (351)
Q Consensus 121 ~I~~~L~--~~dl~~AL~W~ 138 (351)
++..+|+ ++|++.|++|+
T Consensus 17 ~a~~aL~~~~~d~~~A~~~L 36 (37)
T smart00165 17 EALKALRAANGNVERAAEYL 36 (37)
T ss_pred HHHHHHHHhCCCHHHHHHHH
Confidence 5666665 68999999996
No 211
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=21.04 E-value=1.1e+02 Score=35.46 Aligned_cols=46 Identities=15% Similarity=0.221 Sum_probs=27.7
Q ss_pred eeeccccccCCCCCce-eccCCccchHHHHHHHHHhCCCceecCCCCcccCcCCceee
Q 018698 292 VCYITKELMDTENPPQ-VLPNGYVYSTKALEEMAKKNNGKITCPRTGLVCNYSDLVKA 348 (351)
Q Consensus 292 vCpis~e~~~e~NpP~-~Lp~GhV~s~~al~~l~~~~~~~~~CP~~~~~~~~~~~~kv 348 (351)
.||--|..++ |++ .-.||..+.. ...+...||+|+.......-+++
T Consensus 681 fCP~CGs~te---~vy~CPsCGaev~~--------des~a~~CP~CGtplv~~~~~~i 727 (1337)
T PRK14714 681 RCPDCGTHTE---PVYVCPDCGAEVPP--------DESGRVECPRCDVELTPYQRRTI 727 (1337)
T ss_pred cCcccCCcCC---CceeCccCCCccCC--------CccccccCCCCCCcccccceEEe
Confidence 6777777753 233 3467764322 11225689999987776655554
No 212
>cd00498 Hsp33 Heat shock protein 33 (Hsp33): Cytosolic protein that acts as a molecular chaperone under oxidative conditions. In normal (reducing) cytosolic conditions, four conserved Cys residues are coordinated by a Zn ion. Under oxidative stress (such as heat shock), the Cys are reversibly oxidized to disulfide bonds, which causes the chaperone activity to be turned on. Hsp33 is homodimeric in its functional form.
Probab=21.03 E-value=75 Score=30.40 Aligned_cols=30 Identities=17% Similarity=0.389 Sum_probs=21.8
Q ss_pred cchHHHHHHHHHhCC-CceecCCCCcccCcC
Q 018698 314 VYSTKALEEMAKKNN-GKITCPRTGLVCNYS 343 (351)
Q Consensus 314 V~s~~al~~l~~~~~-~~~~CP~~~~~~~~~ 343 (351)
-++++-+++|.+.++ -.++|.+|++.|.++
T Consensus 245 ~Lg~~El~~i~~e~g~iev~C~FC~~~Y~f~ 275 (275)
T cd00498 245 TLGKEELADMIEEDGGIEVTCEFCGEKYHFD 275 (275)
T ss_pred hCCHHHHHHHHHcCCCEEEEEeCCCCEEecC
Confidence 356677777766543 368999999999764
No 213
>COG2317 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]
Probab=20.93 E-value=1.3e+02 Score=31.28 Aligned_cols=120 Identities=15% Similarity=0.238 Sum_probs=75.9
Q ss_pred CCCccchhhcccccccccHHHHhHHHH-h----hhhHHHHHHHHHHHHHH-----------------Hhhc---cCCCCh
Q 018698 34 LTQLTEALKLEHQFLRVPFEHYKKTIR-T----NHRAVEKEITSVISNVA-----------------DVSD---SENFSK 88 (351)
Q Consensus 34 ~~~~~~~~~le~~~l~vP~E~l~k~fr-~----~qk~ieke~~~v~~~~~-----------------~~~k---~~~~~~ 88 (351)
|.=.+.++-=...|.+.-|..+++.|- + .+..+.+-+..|...+. ++++ +++...
T Consensus 298 SrF~En~VGRs~aFw~~~~~~~~~~~~~~~~~~s~dd~y~~vn~v~~~lIRveADElTY~lHIilRyEiEk~li~G~l~v 377 (497)
T COG2317 298 SRFWENQVGRSRAFWEAIYPLLRKHFPEQFDKYSLDDFYRAVNRVEPSLIRVEADELTYPLHIILRYEIEKELISGELKV 377 (497)
T ss_pred HHHHHHHhccCHHHHHHHHHHHHHhhhhhcccCCHHHHHHHHhcccCcceeeeccccceeeeeehhHHHHHHHHcCCcch
Confidence 333344444566778888888888887 2 23333333333333322 2233 355666
Q ss_pred HHHHHHHHHHHHHHHhhhhc----C-CCC---------------------HHHHHHHHH----HHHHHhcCChHHHHHHH
Q 018698 89 DDAVNHLTSLVSRLQGLKRK----D-LVD---------------------IEVFQEAKK----VIDALQNKEVAPALAWC 138 (351)
Q Consensus 89 ~~~~~~l~~~i~rl~~lkrk----~-lvd---------------------~d~f~~~~~----I~~~L~~~dl~~AL~W~ 138 (351)
+|+=+.-++-.++.-++.=+ | |.| .++|..+.+ |...+.+||+++.-.|+
T Consensus 378 ~DlP~lWn~kme~yLGirp~~d~eG~LQDIHWs~GsfGYFPsYtlG~v~AAQ~~~a~~~~~p~~d~~i~~gd~~~i~~WL 457 (497)
T COG2317 378 DDLPELWNDKMEEYLGIRPKNDAEGVLQDIHWSHGSFGYFPTYTLGNVYAAQLYAAMKKDIPDVDALIAKGDFSPIKNWL 457 (497)
T ss_pred hhhHHHHHHHHHHHcCCCCCCccccccccccccCCCcCcCchhhhHHHHHHHHHHHHHhhcccHHHHHHcCCcHHHHHHH
Confidence 77767777766666666544 1 122 255666666 78889999999999999
Q ss_pred HhhhhHhhhCCCcch
Q 018698 139 SDNKSRLKKSKSKFE 153 (351)
Q Consensus 139 ~enk~~L~k~~S~LE 153 (351)
.+|--+.-++.++.|
T Consensus 458 ~e~ih~~Gs~~~p~e 472 (497)
T COG2317 458 RENIHRHGSRYPPKE 472 (497)
T ss_pred HHHHHHccCcCCcHH
Confidence 999888777777765
No 214
>PF14662 CCDC155: Coiled-coil region of CCDC155
Probab=20.68 E-value=4.2e+02 Score=24.26 Aligned_cols=29 Identities=24% Similarity=0.272 Sum_probs=23.5
Q ss_pred CChHHHHHHHHhhhhHhhhCCCcchhhch
Q 018698 129 KEVAPALAWCSDNKSRLKKSKSKFEFQLR 157 (351)
Q Consensus 129 ~dl~~AL~W~~enk~~L~k~~S~LEF~Lr 157 (351)
.++..+|+|+..-...|+--.|.||=.|.
T Consensus 161 ~eL~~~ieEy~~~teeLR~e~s~LEeql~ 189 (193)
T PF14662_consen 161 EELKKTIEEYRSITEELRLEKSRLEEQLS 189 (193)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46678899999998888887888887764
No 215
>PF13395 HNH_4: HNH endonuclease
Probab=20.62 E-value=45 Score=23.62 Aligned_cols=13 Identities=31% Similarity=0.641 Sum_probs=10.7
Q ss_pred cCCCCcccCcCCc
Q 018698 333 CPRTGLVCNYSDL 345 (351)
Q Consensus 333 CP~~~~~~~~~~~ 345 (351)
|||||+.....++
T Consensus 1 C~Y~g~~i~~~~l 13 (54)
T PF13395_consen 1 CPYCGKPISIENL 13 (54)
T ss_pred CCCCCCCCChhhc
Confidence 8999998887764
No 216
>PF01430 HSP33: Hsp33 protein; InterPro: IPR000397 Hsp33 is a molecular chaperone, distinguished from all other known chaperones by its mode of functional regulation. Its activity is redox regulated. Hsp33 is a cytoplasmically localized protein with highly reactive cysteines that respond quickly to changes in the redox environment. Oxidizing conditions like H2O2 cause disulphide bonds to form in Hsp33, a process that leads to the activation of its chaperone function [].; GO: 0051082 unfolded protein binding, 0006457 protein folding, 0005737 cytoplasm; PDB: 1VZY_B 1VQ0_A 1I7F_A 3M7M_X 1XJH_A 1HW7_A.
Probab=20.44 E-value=49 Score=31.63 Aligned_cols=30 Identities=23% Similarity=0.431 Sum_probs=19.6
Q ss_pred cchHHHHHHHHHhC-CCceecCCCCcccCcC
Q 018698 314 VYSTKALEEMAKKN-NGKITCPRTGLVCNYS 343 (351)
Q Consensus 314 V~s~~al~~l~~~~-~~~~~CP~~~~~~~~~ 343 (351)
.++++-+++|.+.+ .-.++|.+|++.|.++
T Consensus 249 ~L~~eel~~i~~e~~~iev~C~fC~~~Y~f~ 279 (280)
T PF01430_consen 249 SLGREELEEILEENGKIEVTCEFCGKKYRFT 279 (280)
T ss_dssp TS-HHHHHHHHHHCSEEEEE-TTT--EEEEE
T ss_pred hCCHHHHHHHHhcCCCEEEEeeCCCCEEEeC
Confidence 35778888887764 3468999999999865
No 217
>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional
Probab=20.36 E-value=37 Score=29.05 Aligned_cols=22 Identities=23% Similarity=0.413 Sum_probs=13.8
Q ss_pred CceecCCCCcc-cCcCCceeeec
Q 018698 329 GKITCPRTGLV-CNYSDLVKAYI 350 (351)
Q Consensus 329 ~~~~CP~~~~~-~~~~~~~kvyi 350 (351)
..+.||.||.. +....=+.+||
T Consensus 106 ~~~~CP~Cgs~~~~i~~G~el~i 128 (135)
T PRK03824 106 AFLKCPKCGSRDFEIVKGRGVYI 128 (135)
T ss_pred cCcCCcCCCCCCcEEecCceEEE
Confidence 34789999964 44454444443
No 218
>PF13824 zf-Mss51: Zinc-finger of mitochondrial splicing suppressor 51
Probab=20.36 E-value=51 Score=23.97 Aligned_cols=13 Identities=15% Similarity=0.135 Sum_probs=6.1
Q ss_pred CCCCeeeeecccc
Q 018698 286 QHHSKLVCYITKE 298 (351)
Q Consensus 286 ~~hS~~vCpis~e 298 (351)
..+..|.||.+|=
T Consensus 10 ~~~v~~~Cp~cGi 22 (55)
T PF13824_consen 10 PAHVNFECPDCGI 22 (55)
T ss_pred ccccCCcCCCCCC
Confidence 3444455555443
No 219
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=20.30 E-value=36 Score=33.04 Aligned_cols=44 Identities=16% Similarity=0.240 Sum_probs=30.0
Q ss_pred eeeccccccCCCCCceeccCCccchHHHHHHHHHhCCCceecCCCCcccC
Q 018698 292 VCYITKELMDTENPPQVLPNGYVYSTKALEEMAKKNNGKITCPRTGLVCN 341 (351)
Q Consensus 292 vCpis~e~~~e~NpP~~Lp~GhV~s~~al~~l~~~~~~~~~CP~~~~~~~ 341 (351)
.|-|-++-.-. ||+-.|||-+++.+-.+-.++ .-+|+.|++...
T Consensus 243 ~c~icr~~f~~---pVvt~c~h~fc~~ca~~~~qk---~~~c~vC~~~t~ 286 (313)
T KOG1813|consen 243 KCFICRKYFYR---PVVTKCGHYFCEVCALKPYQK---GEKCYVCSQQTH 286 (313)
T ss_pred ccccccccccc---chhhcCCceeehhhhcccccc---CCcceecccccc
Confidence 45555555444 999999999999876443333 258999987643
No 220
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=20.14 E-value=19 Score=35.83 Aligned_cols=51 Identities=12% Similarity=0.174 Sum_probs=37.5
Q ss_pred CCCCeeeeeccccccCCCCCcee-ccCCccchHHHHHHHHHhCCCceecCCCCcccC
Q 018698 286 QHHSKLVCYITKELMDTENPPQV-LPNGYVYSTKALEEMAKKNNGKITCPRTGLVCN 341 (351)
Q Consensus 286 ~~hS~~vCpis~e~~~e~NpP~~-Lp~GhV~s~~al~~l~~~~~~~~~CP~~~~~~~ 341 (351)
.+|+-|+|||--+.... -|+ --|+|-|+.++|.+-.+. +.-.||.|.+...
T Consensus 39 ~~~~~v~c~icl~llk~---tmttkeClhrfc~~ci~~a~r~--gn~ecptcRk~l~ 90 (381)
T KOG0311|consen 39 MFDIQVICPICLSLLKK---TMTTKECLHRFCFDCIWKALRS--GNNECPTCRKKLV 90 (381)
T ss_pred HhhhhhccHHHHHHHHh---hcccHHHHHHHHHHHHHHHHHh--cCCCCchHHhhcc
Confidence 47888889887666543 233 579999999999886553 3358999988654
No 221
>PF13934 ELYS: Nuclear pore complex assembly
Probab=20.04 E-value=3.7e+02 Score=24.85 Aligned_cols=54 Identities=17% Similarity=0.206 Sum_probs=24.3
Q ss_pred HHHHHh-cCChHHHHHHHHhhhhHhhhCCCcchhhchhHHHHHHHhcCChHHHHHHHHHhCc
Q 018698 122 VIDALQ-NKEVAPALAWCSDNKSRLKKSKSKFEFQLRLQEFIELVRGENNLRAITYARKYLA 182 (351)
Q Consensus 122 I~~~L~-~~dl~~AL~W~~enk~~L~k~~S~LEF~Lr~q~fIeLir~~~~~eAI~yark~l~ 182 (351)
|.+.|. +|+.+-|+.+.+--++-+... --..-++.++..+.+.||..|+|++-.
T Consensus 114 Il~~L~~~~~~~lAL~y~~~~~p~l~s~-------~~~~~~~~~La~~~v~EAf~~~R~~~~ 168 (226)
T PF13934_consen 114 ILQALLRRGDPKLALRYLRAVGPPLSSP-------EALTLYFVALANGLVTEAFSFQRSYPD 168 (226)
T ss_pred HHHHHHHCCChhHHHHHHHhcCCCCCCH-------HHHHHHHHHHHcCCHHHHHHHHHhCch
Confidence 444332 455555555555544433221 111222333445555555555555444
No 222
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=20.04 E-value=53 Score=23.80 Aligned_cols=16 Identities=19% Similarity=0.526 Sum_probs=12.1
Q ss_pred CCCceecCCCCcccCc
Q 018698 327 NNGKITCPRTGLVCNY 342 (351)
Q Consensus 327 ~~~~~~CP~~~~~~~~ 342 (351)
+++.+.||.|+..|+.
T Consensus 18 ~dDiVvCp~CgapyHR 33 (54)
T PF14446_consen 18 GDDIVVCPECGAPYHR 33 (54)
T ss_pred CCCEEECCCCCCcccH
Confidence 5677888888887764
Done!