Query 005612
Match_columns 688
No_of_seqs 279 out of 1859
Neff 3.8
Searched_HMMs 46136
Date Fri Mar 29 02:10:16 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/005612.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/005612hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4628 Predicted E3 ubiquitin 99.5 1.9E-14 4.1E-19 153.0 3.9 71 617-687 203-277 (348)
2 PF13639 zf-RING_2: Ring finge 99.4 1.2E-13 2.6E-18 105.6 1.6 44 641-684 1-44 (44)
3 PHA02929 N1R/p28-like protein; 99.1 5.5E-11 1.2E-15 121.5 4.7 70 618-687 147-226 (238)
4 PF12678 zf-rbx1: RING-H2 zinc 99.1 8.4E-11 1.8E-15 100.0 4.0 46 639-684 18-73 (73)
5 COG5540 RING-finger-containing 99.1 4.8E-11 1E-15 124.9 2.8 52 636-687 319-371 (374)
6 COG5243 HRD1 HRD ubiquitin lig 98.9 3.1E-10 6.7E-15 121.4 2.2 51 637-687 284-344 (491)
7 cd00162 RING RING-finger (Real 98.8 3.8E-09 8.2E-14 77.5 3.5 44 642-687 1-45 (45)
8 PLN03208 E3 ubiquitin-protein 98.8 5.4E-09 1.2E-13 104.2 4.6 47 639-688 17-79 (193)
9 KOG0317 Predicted E3 ubiquitin 98.7 3.8E-09 8.3E-14 110.1 2.9 46 639-687 238-283 (293)
10 PF13920 zf-C3HC4_3: Zinc fing 98.7 5.5E-09 1.2E-13 82.1 2.6 46 640-688 2-48 (50)
11 KOG0823 Predicted E3 ubiquitin 98.7 7.8E-09 1.7E-13 105.1 3.4 49 637-688 44-95 (230)
12 PF13923 zf-C3HC4_2: Zinc fing 98.7 1.1E-08 2.5E-13 76.7 2.6 39 643-683 1-39 (39)
13 KOG0802 E3 ubiquitin ligase [P 98.6 8.5E-09 1.8E-13 115.6 1.9 48 639-686 290-339 (543)
14 smart00504 Ubox Modified RING 98.6 4.5E-08 9.7E-13 78.8 4.4 45 641-688 2-46 (63)
15 PHA02926 zinc finger-like prot 98.5 5.6E-08 1.2E-12 98.9 3.2 49 639-687 169-229 (242)
16 smart00184 RING Ring finger. E 98.5 9.4E-08 2E-12 67.7 3.4 38 643-683 1-39 (39)
17 PF12861 zf-Apc11: Anaphase-pr 98.5 6.2E-08 1.4E-12 85.7 2.6 48 640-687 21-81 (85)
18 KOG0320 Predicted E3 ubiquitin 98.5 5.4E-08 1.2E-12 96.0 2.5 48 640-688 131-178 (187)
19 PF15227 zf-C3HC4_4: zinc fing 98.5 9.1E-08 2E-12 73.9 2.6 38 643-683 1-42 (42)
20 PF14634 zf-RING_5: zinc-RING 98.4 1.7E-07 3.7E-12 72.3 3.3 44 642-685 1-44 (44)
21 TIGR00599 rad18 DNA repair pro 98.4 1.6E-07 3.6E-12 102.4 4.0 48 637-687 23-70 (397)
22 PF00097 zf-C3HC4: Zinc finger 98.4 1.4E-07 3.1E-12 70.7 2.3 39 643-683 1-41 (41)
23 KOG2164 Predicted E3 ubiquitin 98.2 4.9E-07 1.1E-11 100.4 1.8 45 640-687 186-235 (513)
24 COG5194 APC11 Component of SCF 98.2 1.5E-06 3.2E-11 76.6 3.5 45 642-686 33-79 (88)
25 KOG1734 Predicted RING-contain 98.1 8.9E-07 1.9E-11 92.3 1.3 50 638-687 222-280 (328)
26 COG5574 PEX10 RING-finger-cont 98.1 1.3E-06 2.7E-11 90.8 2.3 46 639-687 214-261 (271)
27 KOG0828 Predicted E3 ubiquitin 98.0 2.1E-06 4.5E-11 95.2 1.5 48 640-687 571-633 (636)
28 PF04564 U-box: U-box domain; 98.0 3.6E-06 7.8E-11 71.4 2.4 46 640-688 4-50 (73)
29 COG5219 Uncharacterized conser 97.9 1.7E-06 3.6E-11 101.1 -0.3 49 640-688 1469-1523(1525)
30 KOG1493 Anaphase-promoting com 97.9 3.1E-06 6.8E-11 74.0 1.2 49 639-687 19-80 (84)
31 KOG0287 Postreplication repair 97.9 3.1E-06 6.7E-11 90.5 1.2 44 641-687 24-67 (442)
32 smart00744 RINGv The RING-vari 97.9 1E-05 2.2E-10 64.7 3.3 42 642-684 1-49 (49)
33 PF13445 zf-RING_UBOX: RING-ty 97.8 1.2E-05 2.6E-10 63.0 2.7 38 643-681 1-43 (43)
34 COG5432 RAD18 RING-finger-cont 97.8 9.3E-06 2E-10 85.6 2.2 44 640-686 25-68 (391)
35 PF11793 FANCL_C: FANCL C-term 97.7 7.7E-06 1.7E-10 69.5 -0.2 49 640-688 2-66 (70)
36 KOG2930 SCF ubiquitin ligase, 97.6 3.5E-05 7.5E-10 70.9 2.3 27 660-686 80-106 (114)
37 KOG0804 Cytoplasmic Zn-finger 97.5 3.2E-05 7E-10 85.3 1.8 45 640-686 175-220 (493)
38 KOG4445 Uncharacterized conser 97.5 4.2E-05 9.2E-10 81.0 1.8 48 640-687 115-185 (368)
39 KOG1039 Predicted E3 ubiquitin 97.4 6.7E-05 1.5E-09 81.0 1.9 50 638-687 159-220 (344)
40 KOG0825 PHD Zn-finger protein 97.4 2.9E-05 6.2E-10 89.9 -1.4 48 640-687 123-170 (1134)
41 KOG4265 Predicted E3 ubiquitin 97.4 0.00012 2.5E-09 79.1 3.2 46 639-687 289-335 (349)
42 KOG0311 Predicted E3 ubiquitin 97.3 2.8E-05 6.1E-10 83.7 -2.3 47 639-687 42-89 (381)
43 KOG4172 Predicted E3 ubiquitin 96.8 0.00022 4.9E-09 59.3 -0.6 45 640-687 7-53 (62)
44 KOG0978 E3 ubiquitin ligase in 96.8 0.00032 7E-09 81.4 0.3 45 640-687 643-688 (698)
45 PF14835 zf-RING_6: zf-RING of 96.7 0.00039 8.4E-09 59.3 0.2 43 641-687 8-50 (65)
46 KOG4159 Predicted E3 ubiquitin 96.4 0.0013 2.9E-08 72.4 1.9 46 639-687 83-128 (398)
47 KOG1785 Tyrosine kinase negati 96.4 0.0011 2.4E-08 72.8 1.0 44 641-687 370-415 (563)
48 KOG1941 Acetylcholine receptor 96.4 0.001 2.2E-08 72.9 0.7 46 640-685 365-413 (518)
49 KOG0297 TNF receptor-associate 96.3 0.002 4.2E-08 70.7 2.5 47 639-687 20-66 (391)
50 KOG1428 Inhibitor of type V ad 96.2 0.0027 5.9E-08 77.6 2.7 50 639-688 3485-3544(3738)
51 PF11789 zf-Nse: Zinc-finger o 96.2 0.0025 5.4E-08 52.7 1.6 42 639-682 10-53 (57)
52 KOG2879 Predicted E3 ubiquitin 96.1 0.0052 1.1E-07 64.9 4.0 49 637-687 236-286 (298)
53 KOG2660 Locus-specific chromos 95.8 0.0024 5.2E-08 68.7 0.2 50 636-687 11-60 (331)
54 KOG3970 Predicted E3 ubiquitin 95.6 0.009 2E-07 61.9 3.1 47 640-687 50-104 (299)
55 PF10367 Vps39_2: Vacuolar sor 95.5 0.0064 1.4E-07 53.3 1.5 31 640-671 78-108 (109)
56 KOG1002 Nucleotide excision re 95.3 0.0071 1.5E-07 68.5 1.4 48 638-688 534-586 (791)
57 COG5152 Uncharacterized conser 95.2 0.0081 1.8E-07 61.2 1.5 44 640-686 196-239 (259)
58 KOG0801 Predicted E3 ubiquitin 94.9 0.0088 1.9E-07 59.4 0.6 29 639-667 176-204 (205)
59 PHA03096 p28-like protein; Pro 94.6 0.016 3.5E-07 61.6 1.6 45 641-685 179-231 (284)
60 KOG1814 Predicted E3 ubiquitin 94.5 0.019 4.2E-07 63.5 2.2 44 641-684 185-236 (445)
61 KOG1571 Predicted E3 ubiquitin 94.1 0.03 6.6E-07 61.1 2.4 46 636-687 301-346 (355)
62 PF12906 RINGv: RING-variant d 94.1 0.031 6.8E-07 44.4 1.9 40 643-683 1-47 (47)
63 KOG1813 Predicted E3 ubiquitin 94.0 0.02 4.4E-07 61.2 0.9 45 640-687 241-285 (313)
64 PF05883 Baculo_RING: Baculovi 93.9 0.027 5.8E-07 54.3 1.4 36 640-675 26-67 (134)
65 KOG4692 Predicted E3 ubiquitin 93.8 0.035 7.5E-07 60.7 2.3 47 638-687 420-466 (489)
66 KOG3039 Uncharacterized conser 93.7 0.051 1.1E-06 57.2 3.2 48 640-687 221-269 (303)
67 COG5222 Uncharacterized conser 93.6 0.032 7E-07 59.9 1.6 42 640-684 274-317 (427)
68 PF04641 Rtf2: Rtf2 RING-finge 93.6 0.062 1.3E-06 55.9 3.5 48 639-687 112-160 (260)
69 KOG0826 Predicted E3 ubiquitin 93.4 0.093 2E-06 57.0 4.5 59 626-687 286-345 (357)
70 PF15295 CCDC50_N: Coiled-coil 92.9 0.06 1.3E-06 51.8 2.0 39 480-518 83-122 (132)
71 KOG1952 Transcription factor N 92.4 0.07 1.5E-06 63.5 2.1 46 639-684 190-243 (950)
72 KOG4275 Predicted E3 ubiquitin 92.3 0.028 6.1E-07 60.1 -1.1 41 640-687 300-341 (350)
73 KOG3268 Predicted E3 ubiquitin 92.2 0.088 1.9E-06 53.2 2.3 49 640-688 165-228 (234)
74 PF14570 zf-RING_4: RING/Ubox 92.0 0.093 2E-06 42.7 1.8 44 643-687 1-47 (48)
75 PHA02825 LAP/PHD finger-like p 91.2 0.18 3.8E-06 50.1 3.2 47 638-686 6-57 (162)
76 KOG0827 Predicted E3 ubiquitin 90.7 0.015 3.2E-07 64.0 -5.2 48 640-687 196-244 (465)
77 COG5236 Uncharacterized conser 90.6 0.18 3.9E-06 55.3 2.8 47 637-686 58-106 (493)
78 KOG3002 Zn finger protein [Gen 90.4 0.16 3.6E-06 54.5 2.3 42 640-688 48-91 (299)
79 KOG1001 Helicase-like transcri 90.4 0.11 2.4E-06 61.2 1.0 43 641-687 455-499 (674)
80 COG5175 MOT2 Transcriptional r 90.2 0.17 3.7E-06 55.3 2.2 50 637-686 11-62 (480)
81 KOG1940 Zn-finger protein [Gen 90.1 0.12 2.7E-06 54.9 1.1 47 639-685 157-204 (276)
82 PF08746 zf-RING-like: RING-li 89.9 0.1 2.2E-06 41.0 0.3 41 643-683 1-43 (43)
83 KOG2932 E3 ubiquitin ligase in 89.1 0.16 3.5E-06 55.0 1.0 41 642-686 92-132 (389)
84 KOG2114 Vacuolar assembly/sort 89.0 0.21 4.6E-06 59.6 2.0 41 641-686 841-881 (933)
85 PF10272 Tmpp129: Putative tra 88.1 0.55 1.2E-05 51.8 4.3 27 661-687 311-350 (358)
86 KOG2034 Vacuolar sorting prote 87.9 0.24 5.2E-06 59.5 1.5 34 639-673 816-849 (911)
87 KOG0298 DEAD box-containing he 86.6 0.17 3.7E-06 62.6 -0.6 42 641-685 1154-1196(1394)
88 PF14447 Prok-RING_4: Prokaryo 84.6 0.48 1E-05 39.7 1.3 42 641-687 8-49 (55)
89 KOG1100 Predicted E3 ubiquitin 83.4 0.58 1.3E-05 47.9 1.5 38 643-687 161-199 (207)
90 KOG0309 Conserved WD40 repeat- 82.9 0.58 1.2E-05 55.6 1.4 27 656-682 1043-1069(1081)
91 KOG1609 Protein involved in mR 82.3 0.54 1.2E-05 48.5 0.8 47 640-686 78-132 (323)
92 PF14446 Prok-RING_1: Prokaryo 78.2 2.8 6.1E-05 35.1 3.5 33 640-672 5-38 (54)
93 KOG2817 Predicted E3 ubiquitin 78.1 1.7 3.7E-05 48.5 2.9 46 640-685 334-382 (394)
94 KOG0825 PHD Zn-finger protein 77.7 1 2.2E-05 53.8 1.2 47 640-686 96-152 (1134)
95 KOG3053 Uncharacterized conser 74.2 1.5 3.2E-05 46.8 1.2 49 638-686 18-80 (293)
96 PF02891 zf-MIZ: MIZ/SP-RING z 72.9 1.1 2.4E-05 36.2 -0.1 43 641-686 3-50 (50)
97 KOG1812 Predicted E3 ubiquitin 72.3 1.6 3.5E-05 48.4 1.0 38 639-676 145-183 (384)
98 KOG4362 Transcriptional regula 72.2 0.94 2E-05 53.5 -0.9 45 640-687 21-68 (684)
99 PF03854 zf-P11: P-11 zinc fin 69.5 2.3 5E-05 35.0 1.0 41 642-687 4-45 (50)
100 KOG1829 Uncharacterized conser 68.8 1.9 4.2E-05 50.3 0.7 42 639-683 510-556 (580)
101 KOG3899 Uncharacterized conser 64.7 3.3 7.1E-05 45.0 1.3 27 661-687 325-364 (381)
102 KOG1815 Predicted E3 ubiquitin 63.2 9.4 0.0002 42.9 4.6 38 637-676 67-104 (444)
103 KOG0802 E3 ubiquitin ligase [P 61.5 2.8 6.1E-05 48.1 0.2 41 639-686 478-518 (543)
104 KOG2066 Vacuolar assembly/sort 61.4 3.7 8E-05 49.4 1.1 43 640-683 784-830 (846)
105 COG5183 SSM4 Protein involved 61.1 6.3 0.00014 47.8 2.8 50 638-687 10-65 (1175)
106 KOG4718 Non-SMC (structural ma 60.9 3.7 8E-05 42.8 0.9 43 640-684 181-223 (235)
107 KOG0269 WD40 repeat-containing 59.6 6.4 0.00014 47.3 2.6 40 641-682 780-820 (839)
108 KOG3039 Uncharacterized conser 56.6 5.8 0.00013 42.4 1.5 33 641-676 44-76 (303)
109 KOG1812 Predicted E3 ubiquitin 54.1 6.1 0.00013 43.9 1.2 44 640-683 306-351 (384)
110 PF13901 DUF4206: Domain of un 52.4 9.7 0.00021 38.7 2.2 40 640-684 152-196 (202)
111 KOG3579 Predicted E3 ubiquitin 50.5 8.7 0.00019 41.8 1.6 37 640-677 268-306 (352)
112 PF05290 Baculo_IE-1: Baculovi 50.4 11 0.00023 37.0 2.1 49 639-687 79-131 (140)
113 KOG3005 GIY-YIG type nuclease 49.4 7.3 0.00016 41.9 0.8 47 641-687 183-242 (276)
114 COG5109 Uncharacterized conser 44.7 14 0.0003 40.8 2.1 44 640-683 336-382 (396)
115 smart00132 LIM Zinc-binding do 44.1 24 0.00052 25.1 2.6 37 642-687 1-37 (39)
116 smart00249 PHD PHD zinc finger 40.7 16 0.00035 26.8 1.3 31 642-672 1-31 (47)
117 KOG2068 MOT2 transcription fac 40.4 19 0.00042 39.6 2.4 47 640-687 249-297 (327)
118 PF04710 Pellino: Pellino; In 33.2 14 0.00031 41.7 0.0 48 640-687 328-400 (416)
119 KOG2807 RNA polymerase II tran 32.3 33 0.00072 38.1 2.6 47 640-686 330-376 (378)
120 KOG3842 Adaptor protein Pellin 31.8 36 0.00077 37.8 2.7 48 640-687 341-413 (429)
121 PF00628 PHD: PHD-finger; Int 31.7 25 0.00054 27.4 1.1 43 642-684 1-49 (51)
122 PF04710 Pellino: Pellino; In 31.7 16 0.00034 41.4 0.0 30 654-686 302-337 (416)
123 PF15295 CCDC50_N: Coiled-coil 28.3 48 0.001 32.5 2.6 43 478-520 22-69 (132)
124 PF01363 FYVE: FYVE zinc finge 27.6 30 0.00065 28.7 1.0 37 638-674 7-44 (69)
125 PF06844 DUF1244: Protein of u 24.9 37 0.00081 29.8 1.1 11 665-675 12-22 (68)
126 KOG0824 Predicted E3 ubiquitin 23.5 26 0.00056 38.5 -0.1 46 640-687 105-150 (324)
127 KOG1729 FYVE finger containing 22.2 20 0.00043 38.9 -1.3 38 640-677 214-251 (288)
128 TIGR00622 ssl1 transcription f 21.7 1E+02 0.0022 29.5 3.4 44 641-684 56-110 (112)
129 KOG4218 Nuclear hormone recept 21.0 41 0.00089 37.7 0.8 48 637-685 12-75 (475)
130 PF04216 FdhE: Protein involve 20.5 13 0.00029 39.2 -2.9 45 640-684 172-218 (290)
No 1
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.47 E-value=1.9e-14 Score=153.01 Aligned_cols=71 Identities=44% Similarity=0.947 Sum_probs=62.4
Q ss_pred CCCCCCHHHHhcCCccccccCCCCC---ccccccCCCCCCCceEEeccCCccchhhHHHHHhcCC-CCCccccCC
Q 005612 617 HQSGASANQINSLPLSTVQTDNFEE---ACAICLDNPSIGDSIRHLPCLHKFHKDCIDPWLSRRP-SCPVCKSSI 687 (688)
Q Consensus 617 ~~~GaSke~I~sLP~~~is~~~~de---eC~ICLEeF~~Gd~Vr~LPCgHvFH~sCI~~WLk~k~-SCPVCR~~L 687 (688)
....+.+..+.++|..++.....+. .|+||||+|..|++++.|||+|.||..||++||.... .||+|+.++
T Consensus 203 ~~~r~~k~~l~~~p~~~f~~~~~~~~~~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~r~~CPvCK~di 277 (348)
T KOG4628|consen 203 RRNRLIKRLLKKLPVRTFTKGDDEDATDTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQTRTFCPVCKRDI 277 (348)
T ss_pred hhhhhHHHHHhhCCcEEeccccccCCCceEEEeecccccCCeeeEecCCCchhhccchhhHhhcCccCCCCCCcC
Confidence 3457889999999999987765544 9999999999999999999999999999999999875 599999865
No 2
>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=99.38 E-value=1.2e-13 Score=105.61 Aligned_cols=44 Identities=48% Similarity=1.190 Sum_probs=40.6
Q ss_pred CccccccCCCCCCCceEEeccCCccchhhHHHHHhcCCCCCccc
Q 005612 641 EACAICLDNPSIGDSIRHLPCLHKFHKDCIDPWLSRRPSCPVCK 684 (688)
Q Consensus 641 eeC~ICLEeF~~Gd~Vr~LPCgHvFH~sCI~~WLk~k~SCPVCR 684 (688)
++|+||++.|..++.++.|+|+|.||.+||..||+.+.+||+||
T Consensus 1 d~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~~~~~~~~CP~CR 44 (44)
T PF13639_consen 1 DECPICLEEFEDGEKVVKLPCGHVFHRSCIKEWLKRNNSCPVCR 44 (44)
T ss_dssp -CETTTTCBHHTTSCEEEETTSEEEEHHHHHHHHHHSSB-TTTH
T ss_pred CCCcCCChhhcCCCeEEEccCCCeeCHHHHHHHHHhCCcCCccC
Confidence 46999999999999999999999999999999999999999997
No 3
>PHA02929 N1R/p28-like protein; Provisional
Probab=99.10 E-value=5.5e-11 Score=121.54 Aligned_cols=70 Identities=23% Similarity=0.564 Sum_probs=54.6
Q ss_pred CCCCCHHHHhcCCccccc-----cCCCCCccccccCCCCCCCc-----eEEeccCCccchhhHHHHHhcCCCCCccccCC
Q 005612 618 QSGASANQINSLPLSTVQ-----TDNFEEACAICLDNPSIGDS-----IRHLPCLHKFHKDCIDPWLSRRPSCPVCKSSI 687 (688)
Q Consensus 618 ~~GaSke~I~sLP~~~is-----~~~~deeC~ICLEeF~~Gd~-----Vr~LPCgHvFH~sCI~~WLk~k~SCPVCR~~L 687 (688)
..+.++..+..+|..... ....+.+|+||++.+..... .+.++|+|.||..||.+|++.+.+||+||.++
T Consensus 147 k~~~~~~~i~~lp~vl~~~e~~~~~~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~ 226 (238)
T PHA02929 147 KGKNYKKFLKTIPSVLSEYEKLYNRSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPF 226 (238)
T ss_pred hcchhHHHHHhcchhhhhhhhhhcCCCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEe
Confidence 346688888888876533 22346899999999875431 23456999999999999999999999999876
No 4
>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=99.08 E-value=8.4e-11 Score=99.96 Aligned_cols=46 Identities=37% Similarity=0.859 Sum_probs=37.3
Q ss_pred CCCccccccCCCCCC----------CceEEeccCCccchhhHHHHHhcCCCCCccc
Q 005612 639 FEEACAICLDNPSIG----------DSIRHLPCLHKFHKDCIDPWLSRRPSCPVCK 684 (688)
Q Consensus 639 ~deeC~ICLEeF~~G----------d~Vr~LPCgHvFH~sCI~~WLk~k~SCPVCR 684 (688)
.++.|+||++.|... -.+...+|+|.||..||.+||+.+.+||+||
T Consensus 18 ~~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR 73 (73)
T PF12678_consen 18 ADDNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNNTCPLCR 73 (73)
T ss_dssp CCSBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred cCCcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCCcCCCCC
Confidence 456799999999332 2455668999999999999999999999998
No 5
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.07 E-value=4.8e-11 Score=124.85 Aligned_cols=52 Identities=42% Similarity=0.958 Sum_probs=47.1
Q ss_pred cCCCCCccccccCCCCCCCceEEeccCCccchhhHHHHHh-cCCCCCccccCC
Q 005612 636 TDNFEEACAICLDNPSIGDSIRHLPCLHKFHKDCIDPWLS-RRPSCPVCKSSI 687 (688)
Q Consensus 636 ~~~~deeC~ICLEeF~~Gd~Vr~LPCgHvFH~sCI~~WLk-~k~SCPVCR~~L 687 (688)
......+|+|||+.|..++.++.|||.|.||..||.+|+. .+..||+||.+|
T Consensus 319 ea~~GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~i 371 (374)
T COG5540 319 EADKGVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAI 371 (374)
T ss_pred hcCCCceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhcccCCccCCCC
Confidence 3345688999999999999999999999999999999998 688999999876
No 6
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=98.93 E-value=3.1e-10 Score=121.36 Aligned_cols=51 Identities=33% Similarity=0.948 Sum_probs=43.8
Q ss_pred CCCCCccccccCC-CCCCC---------ceEEeccCCccchhhHHHHHhcCCCCCccccCC
Q 005612 637 DNFEEACAICLDN-PSIGD---------SIRHLPCLHKFHKDCIDPWLSRRPSCPVCKSSI 687 (688)
Q Consensus 637 ~~~deeC~ICLEe-F~~Gd---------~Vr~LPCgHvFH~sCI~~WLk~k~SCPVCR~~L 687 (688)
.+.+..|.||+++ |..++ +-++|||||+||.+|++.|+.++++||+||.++
T Consensus 284 ~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERqQTCPICr~p~ 344 (491)
T COG5243 284 TNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTCPICRRPV 344 (491)
T ss_pred cCCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhccCCCcccCcc
Confidence 4567899999999 55442 357899999999999999999999999999985
No 7
>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=98.80 E-value=3.8e-09 Score=77.48 Aligned_cols=44 Identities=41% Similarity=1.107 Sum_probs=37.1
Q ss_pred ccccccCCCCCCCceEEeccCCccchhhHHHHHhc-CCCCCccccCC
Q 005612 642 ACAICLDNPSIGDSIRHLPCLHKFHKDCIDPWLSR-RPSCPVCKSSI 687 (688)
Q Consensus 642 eC~ICLEeF~~Gd~Vr~LPCgHvFH~sCI~~WLk~-k~SCPVCR~~L 687 (688)
.|+||++.+ ...+..++|+|.||..|+..|+.. ...||+|+..+
T Consensus 1 ~C~iC~~~~--~~~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~~ 45 (45)
T cd00162 1 ECPICLEEF--REPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI 45 (45)
T ss_pred CCCcCchhh--hCceEecCCCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence 499999998 334555569999999999999998 77899999864
No 8
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=98.77 E-value=5.4e-09 Score=104.19 Aligned_cols=47 Identities=38% Similarity=0.737 Sum_probs=39.8
Q ss_pred CCCccccccCCCCCCCceEEeccCCccchhhHHHHHhc----------------CCCCCccccCCC
Q 005612 639 FEEACAICLDNPSIGDSIRHLPCLHKFHKDCIDPWLSR----------------RPSCPVCKSSIT 688 (688)
Q Consensus 639 ~deeC~ICLEeF~~Gd~Vr~LPCgHvFH~sCI~~WLk~----------------k~SCPVCR~~Ln 688 (688)
.+.+|+||++.+..+ +.++|+|.||+.||..|+.. ...||+||.+|+
T Consensus 17 ~~~~CpICld~~~dP---VvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is 79 (193)
T PLN03208 17 GDFDCNICLDQVRDP---VVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVS 79 (193)
T ss_pred CccCCccCCCcCCCc---EEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCC
Confidence 457899999998766 67889999999999999852 357999999874
No 9
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=98.75 E-value=3.8e-09 Score=110.14 Aligned_cols=46 Identities=35% Similarity=0.846 Sum_probs=41.3
Q ss_pred CCCccccccCCCCCCCceEEeccCCccchhhHHHHHhcCCCCCccccCC
Q 005612 639 FEEACAICLDNPSIGDSIRHLPCLHKFHKDCIDPWLSRRPSCPVCKSSI 687 (688)
Q Consensus 639 ~deeC~ICLEeF~~Gd~Vr~LPCgHvFH~sCI~~WLk~k~SCPVCR~~L 687 (688)
....|.|||+....+ ..+||||+||+.||..|+..+..||+||..+
T Consensus 238 a~~kC~LCLe~~~~p---SaTpCGHiFCWsCI~~w~~ek~eCPlCR~~~ 283 (293)
T KOG0317|consen 238 ATRKCSLCLENRSNP---SATPCGHIFCWSCILEWCSEKAECPLCREKF 283 (293)
T ss_pred CCCceEEEecCCCCC---CcCcCcchHHHHHHHHHHccccCCCcccccC
Confidence 357899999998666 6799999999999999999999999999865
No 10
>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=98.73 E-value=5.5e-09 Score=82.09 Aligned_cols=46 Identities=39% Similarity=1.019 Sum_probs=39.5
Q ss_pred CCccccccCCCCCCCceEEeccCCc-cchhhHHHHHhcCCCCCccccCCC
Q 005612 640 EEACAICLDNPSIGDSIRHLPCLHK-FHKDCIDPWLSRRPSCPVCKSSIT 688 (688)
Q Consensus 640 deeC~ICLEeF~~Gd~Vr~LPCgHv-FH~sCI~~WLk~k~SCPVCR~~Ln 688 (688)
+..|.||++.+.. +..+||+|. |+..|+..|+.....||+||.+|+
T Consensus 2 ~~~C~iC~~~~~~---~~~~pCgH~~~C~~C~~~~~~~~~~CP~Cr~~i~ 48 (50)
T PF13920_consen 2 DEECPICFENPRD---VVLLPCGHLCFCEECAERLLKRKKKCPICRQPIE 48 (50)
T ss_dssp HSB-TTTSSSBSS---EEEETTCEEEEEHHHHHHHHHTTSBBTTTTBB-S
T ss_pred cCCCccCCccCCc---eEEeCCCChHHHHHHhHHhcccCCCCCcCChhhc
Confidence 4679999998654 578899999 999999999999999999999875
No 11
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.70 E-value=7.8e-09 Score=105.10 Aligned_cols=49 Identities=35% Similarity=0.654 Sum_probs=41.1
Q ss_pred CCCCCccccccCCCCCCCceEEeccCCccchhhHHHHHhc---CCCCCccccCCC
Q 005612 637 DNFEEACAICLDNPSIGDSIRHLPCLHKFHKDCIDPWLSR---RPSCPVCKSSIT 688 (688)
Q Consensus 637 ~~~deeC~ICLEeF~~Gd~Vr~LPCgHvFH~sCI~~WLk~---k~SCPVCR~~Ln 688 (688)
+....+|.|||+.-+++ +++.|||+||+.||.+||.. .+.||||+..|+
T Consensus 44 ~~~~FdCNICLd~akdP---VvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs 95 (230)
T KOG0823|consen 44 DGGFFDCNICLDLAKDP---VVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVS 95 (230)
T ss_pred CCCceeeeeeccccCCC---EEeecccceehHHHHHHHhhcCCCeeCCccccccc
Confidence 34467899999997766 66779999999999999986 567999998774
No 12
>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=98.67 E-value=1.1e-08 Score=76.74 Aligned_cols=39 Identities=46% Similarity=1.125 Sum_probs=33.9
Q ss_pred cccccCCCCCCCceEEeccCCccchhhHHHHHhcCCCCCcc
Q 005612 643 CAICLDNPSIGDSIRHLPCLHKFHKDCIDPWLSRRPSCPVC 683 (688)
Q Consensus 643 C~ICLEeF~~Gd~Vr~LPCgHvFH~sCI~~WLk~k~SCPVC 683 (688)
|+||++.+.. .++.++|||.|+..||.+|++.+..||+|
T Consensus 1 C~iC~~~~~~--~~~~~~CGH~fC~~C~~~~~~~~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELRD--PVVVTPCGHSFCKECIEKYLEKNPKCPVC 39 (39)
T ss_dssp ETTTTSB-SS--EEEECTTSEEEEHHHHHHHHHCTSB-TTT
T ss_pred CCCCCCcccC--cCEECCCCCchhHHHHHHHHHCcCCCcCC
Confidence 8999999876 56788999999999999999999999998
No 13
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.64 E-value=8.5e-09 Score=115.56 Aligned_cols=48 Identities=38% Similarity=1.034 Sum_probs=43.6
Q ss_pred CCCccccccCCCCCCCc--eEEeccCCccchhhHHHHHhcCCCCCccccC
Q 005612 639 FEEACAICLDNPSIGDS--IRHLPCLHKFHKDCIDPWLSRRPSCPVCKSS 686 (688)
Q Consensus 639 ~deeC~ICLEeF~~Gd~--Vr~LPCgHvFH~sCI~~WLk~k~SCPVCR~~ 686 (688)
.+..|+||+|.+..+.. ..+|||+|+||..|+..||+++++||+||..
T Consensus 290 ~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er~qtCP~CR~~ 339 (543)
T KOG0802|consen 290 SDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFERQQTCPTCRTV 339 (543)
T ss_pred cCCeeeeechhhccccccccceeecccchHHHHHHHHHHHhCcCCcchhh
Confidence 36889999999988654 7899999999999999999999999999974
No 14
>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=98.60 E-value=4.5e-08 Score=78.79 Aligned_cols=45 Identities=24% Similarity=0.408 Sum_probs=40.7
Q ss_pred CccccccCCCCCCCceEEeccCCccchhhHHHHHhcCCCCCccccCCC
Q 005612 641 EACAICLDNPSIGDSIRHLPCLHKFHKDCIDPWLSRRPSCPVCKSSIT 688 (688)
Q Consensus 641 eeC~ICLEeF~~Gd~Vr~LPCgHvFH~sCI~~WLk~k~SCPVCR~~Ln 688 (688)
..|+||++.+..+ +.++|||+|+..||..|+..+..||+|+.+++
T Consensus 2 ~~Cpi~~~~~~~P---v~~~~G~v~~~~~i~~~~~~~~~cP~~~~~~~ 46 (63)
T smart00504 2 FLCPISLEVMKDP---VILPSGQTYERRAIEKWLLSHGTDPVTGQPLT 46 (63)
T ss_pred cCCcCCCCcCCCC---EECCCCCEEeHHHHHHHHHHCCCCCCCcCCCC
Confidence 4699999999876 67899999999999999999999999998763
No 15
>PHA02926 zinc finger-like protein; Provisional
Probab=98.51 E-value=5.6e-08 Score=98.88 Aligned_cols=49 Identities=31% Similarity=0.747 Sum_probs=37.3
Q ss_pred CCCccccccCCCCCC-----CceEEe-ccCCccchhhHHHHHhcC------CCCCccccCC
Q 005612 639 FEEACAICLDNPSIG-----DSIRHL-PCLHKFHKDCIDPWLSRR------PSCPVCKSSI 687 (688)
Q Consensus 639 ~deeC~ICLEeF~~G-----d~Vr~L-PCgHvFH~sCI~~WLk~k------~SCPVCR~~L 687 (688)
.+.+|+||||..... .....| +|+|.||..||..|...+ .+||+||..+
T Consensus 169 kE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f 229 (242)
T PHA02926 169 KEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRF 229 (242)
T ss_pred CCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCccee
Confidence 468999999986332 122344 699999999999999853 4699999865
No 16
>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=98.50 E-value=9.4e-08 Score=67.68 Aligned_cols=38 Identities=42% Similarity=1.114 Sum_probs=33.1
Q ss_pred cccccCCCCCCCceEEeccCCccchhhHHHHHh-cCCCCCcc
Q 005612 643 CAICLDNPSIGDSIRHLPCLHKFHKDCIDPWLS-RRPSCPVC 683 (688)
Q Consensus 643 C~ICLEeF~~Gd~Vr~LPCgHvFH~sCI~~WLk-~k~SCPVC 683 (688)
|+||++.. .....++|+|.||..|+..|+. ....||+|
T Consensus 1 C~iC~~~~---~~~~~~~C~H~~c~~C~~~~~~~~~~~CP~C 39 (39)
T smart00184 1 CPICLEEL---KDPVVLPCGHTFCRSCIRKWLKSGNNTCPIC 39 (39)
T ss_pred CCcCccCC---CCcEEecCCChHHHHHHHHHHHhCcCCCCCC
Confidence 88999983 4567899999999999999999 66779998
No 17
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=98.49 E-value=6.2e-08 Score=85.73 Aligned_cols=48 Identities=35% Similarity=0.834 Sum_probs=37.7
Q ss_pred CCccccccCCCCC--------CC--ceEEeccCCccchhhHHHHHhc---CCCCCccccCC
Q 005612 640 EEACAICLDNPSI--------GD--SIRHLPCLHKFHKDCIDPWLSR---RPSCPVCKSSI 687 (688)
Q Consensus 640 deeC~ICLEeF~~--------Gd--~Vr~LPCgHvFH~sCI~~WLk~---k~SCPVCR~~L 687 (688)
++.|.||...|.. |+ .++.-.|+|.||..||.+||.. +..||+||++.
T Consensus 21 dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w 81 (85)
T PF12861_consen 21 DDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPW 81 (85)
T ss_pred CCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCee
Confidence 6789999988862 22 2333459999999999999996 57899999864
No 18
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.49 E-value=5.4e-08 Score=96.02 Aligned_cols=48 Identities=35% Similarity=0.673 Sum_probs=40.8
Q ss_pred CCccccccCCCCCCCceEEeccCCccchhhHHHHHhcCCCCCccccCCC
Q 005612 640 EEACAICLDNPSIGDSIRHLPCLHKFHKDCIDPWLSRRPSCPVCKSSIT 688 (688)
Q Consensus 640 deeC~ICLEeF~~Gd~Vr~LPCgHvFH~sCI~~WLk~k~SCPVCR~~Ln 688 (688)
...|+|||+.|..... +-..|||+||..||...|+....||+|++.|+
T Consensus 131 ~~~CPiCl~~~sek~~-vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt 178 (187)
T KOG0320|consen 131 TYKCPICLDSVSEKVP-VSTKCGHVFCSQCIKDALKNTNKCPTCRKKIT 178 (187)
T ss_pred ccCCCceecchhhccc-cccccchhHHHHHHHHHHHhCCCCCCcccccc
Confidence 3679999999886422 34679999999999999999999999998775
No 19
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=98.46 E-value=9.1e-08 Score=73.90 Aligned_cols=38 Identities=39% Similarity=0.849 Sum_probs=30.5
Q ss_pred cccccCCCCCCCceEEeccCCccchhhHHHHHhcC----CCCCcc
Q 005612 643 CAICLDNPSIGDSIRHLPCLHKFHKDCIDPWLSRR----PSCPVC 683 (688)
Q Consensus 643 C~ICLEeF~~Gd~Vr~LPCgHvFH~sCI~~WLk~k----~SCPVC 683 (688)
|+||++.|..+ +.|+|||.|+..||..|++.. ..||+|
T Consensus 1 CpiC~~~~~~P---v~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKDP---VSLPCGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-SSE---EE-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhhCCc---cccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 89999999988 889999999999999999863 479998
No 20
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=98.42 E-value=1.7e-07 Score=72.29 Aligned_cols=44 Identities=27% Similarity=0.707 Sum_probs=38.9
Q ss_pred ccccccCCCCCCCceEEeccCCccchhhHHHHHhcCCCCCcccc
Q 005612 642 ACAICLDNPSIGDSIRHLPCLHKFHKDCIDPWLSRRPSCPVCKS 685 (688)
Q Consensus 642 eC~ICLEeF~~Gd~Vr~LPCgHvFH~sCI~~WLk~k~SCPVCR~ 685 (688)
.|+||++.|........|+|+|+|+..||..+......||+||+
T Consensus 1 ~C~~C~~~~~~~~~~~l~~CgH~~C~~C~~~~~~~~~~CP~C~k 44 (44)
T PF14634_consen 1 HCNICFEKYSEERRPRLTSCGHIFCEKCLKKLKGKSVKCPICRK 44 (44)
T ss_pred CCcCcCccccCCCCeEEcccCCHHHHHHHHhhcCCCCCCcCCCC
Confidence 49999999965567888999999999999999977788999985
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=98.41 E-value=1.6e-07 Score=102.38 Aligned_cols=48 Identities=31% Similarity=0.631 Sum_probs=41.8
Q ss_pred CCCCCccccccCCCCCCCceEEeccCCccchhhHHHHHhcCCCCCccccCC
Q 005612 637 DNFEEACAICLDNPSIGDSIRHLPCLHKFHKDCIDPWLSRRPSCPVCKSSI 687 (688)
Q Consensus 637 ~~~deeC~ICLEeF~~Gd~Vr~LPCgHvFH~sCI~~WLk~k~SCPVCR~~L 687 (688)
......|+||++.|... +.++|+|.||..||..||.....||+|+..+
T Consensus 23 Le~~l~C~IC~d~~~~P---vitpCgH~FCs~CI~~~l~~~~~CP~Cr~~~ 70 (397)
T TIGR00599 23 LDTSLRCHICKDFFDVP---VLTSCSHTFCSLCIRRCLSNQPKCPLCRAED 70 (397)
T ss_pred cccccCCCcCchhhhCc---cCCCCCCchhHHHHHHHHhCCCCCCCCCCcc
Confidence 33467899999999766 4689999999999999999988999999865
No 22
>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=98.40 E-value=1.4e-07 Score=70.67 Aligned_cols=39 Identities=41% Similarity=1.042 Sum_probs=34.4
Q ss_pred cccccCCCCCCCceEEeccCCccchhhHHHHHh--cCCCCCcc
Q 005612 643 CAICLDNPSIGDSIRHLPCLHKFHKDCIDPWLS--RRPSCPVC 683 (688)
Q Consensus 643 C~ICLEeF~~Gd~Vr~LPCgHvFH~sCI~~WLk--~k~SCPVC 683 (688)
|+||++.+... +..++|+|.|+..||..|+. ....||+|
T Consensus 1 C~iC~~~~~~~--~~~~~C~H~fC~~C~~~~~~~~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFEDP--VILLPCGHSFCRDCLRKWLENSGSVKCPLC 41 (41)
T ss_dssp ETTTSSBCSSE--EEETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred CCcCCccccCC--CEEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence 89999998866 35789999999999999999 56779998
No 23
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.20 E-value=4.9e-07 Score=100.39 Aligned_cols=45 Identities=38% Similarity=0.831 Sum_probs=37.7
Q ss_pred CCccccccCCCCCCCceEEeccCCccchhhHHHHHhc-----CCCCCccccCC
Q 005612 640 EEACAICLDNPSIGDSIRHLPCLHKFHKDCIDPWLSR-----RPSCPVCKSSI 687 (688)
Q Consensus 640 deeC~ICLEeF~~Gd~Vr~LPCgHvFH~sCI~~WLk~-----k~SCPVCR~~L 687 (688)
+..|+|||++.... ..+.|||+||..||..++.. ...||+||..|
T Consensus 186 ~~~CPICL~~~~~p---~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I 235 (513)
T KOG2164|consen 186 DMQCPICLEPPSVP---VRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTI 235 (513)
T ss_pred CCcCCcccCCCCcc---cccccCceeeHHHHHHHHhhhcccCCccCCchhhhc
Confidence 67899999998776 55669999999999998764 35799999865
No 24
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=98.16 E-value=1.5e-06 Score=76.55 Aligned_cols=45 Identities=31% Similarity=0.741 Sum_probs=33.0
Q ss_pred ccccccCCCCCCCceEEe--ccCCccchhhHHHHHhcCCCCCccccC
Q 005612 642 ACAICLDNPSIGDSIRHL--PCLHKFHKDCIDPWLSRRPSCPVCKSS 686 (688)
Q Consensus 642 eC~ICLEeF~~Gd~Vr~L--PCgHvFH~sCI~~WLk~k~SCPVCR~~ 686 (688)
.|+-|......+++.... -|.|.||..||.+||..+..||+||++
T Consensus 33 ~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~Tk~~CPld~q~ 79 (88)
T COG5194 33 TCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQT 79 (88)
T ss_pred cCcccccCCCCCCcceEEEEecchHHHHHHHHHHHhhCCCCCCCCce
Confidence 344444444455543222 399999999999999999999999975
No 25
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.10 E-value=8.9e-07 Score=92.26 Aligned_cols=50 Identities=30% Similarity=0.779 Sum_probs=41.9
Q ss_pred CCCCccccccCCCCCCC-------ceEEeccCCccchhhHHHHH--hcCCCCCccccCC
Q 005612 638 NFEEACAICLDNPSIGD-------SIRHLPCLHKFHKDCIDPWL--SRRPSCPVCKSSI 687 (688)
Q Consensus 638 ~~deeC~ICLEeF~~Gd-------~Vr~LPCgHvFH~sCI~~WL--k~k~SCPVCR~~L 687 (688)
..+..|+||-..+.... .+..|.|+|+||..||.-|- ..+++||.|+..|
T Consensus 222 l~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekV 280 (328)
T KOG1734|consen 222 LSDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKV 280 (328)
T ss_pred CCcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHh
Confidence 34678999999887665 67789999999999999994 4688999998754
No 26
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.10 E-value=1.3e-06 Score=90.82 Aligned_cols=46 Identities=28% Similarity=0.871 Sum_probs=39.6
Q ss_pred CCCccccccCCCCCCCceEEeccCCccchhhHHH-HHhcCCC-CCccccCC
Q 005612 639 FEEACAICLDNPSIGDSIRHLPCLHKFHKDCIDP-WLSRRPS-CPVCKSSI 687 (688)
Q Consensus 639 ~deeC~ICLEeF~~Gd~Vr~LPCgHvFH~sCI~~-WLk~k~S-CPVCR~~L 687 (688)
.+..|+||++..... ..++|||+||..||.. |-+.+.- ||+||..+
T Consensus 214 ~d~kC~lC~e~~~~p---s~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~ 261 (271)
T COG5574 214 ADYKCFLCLEEPEVP---SCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKV 261 (271)
T ss_pred cccceeeeecccCCc---ccccccchhhHHHHHHHHHhhccccCchhhhhc
Confidence 467899999997766 7889999999999999 9887665 99999754
No 27
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.99 E-value=2.1e-06 Score=95.20 Aligned_cols=48 Identities=29% Similarity=0.882 Sum_probs=38.4
Q ss_pred CCccccccCCCCCCC--------------ceEEeccCCccchhhHHHHHh-cCCCCCccccCC
Q 005612 640 EEACAICLDNPSIGD--------------SIRHLPCLHKFHKDCIDPWLS-RRPSCPVCKSSI 687 (688)
Q Consensus 640 deeC~ICLEeF~~Gd--------------~Vr~LPCgHvFH~sCI~~WLk-~k~SCPVCR~~L 687 (688)
...|+|||..+..-. ....+||.|+||..|+.+|+. .+-.||+||.+|
T Consensus 571 t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~pL 633 (636)
T KOG0828|consen 571 TNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRCPL 633 (636)
T ss_pred cccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCCCC
Confidence 357999999864321 134569999999999999999 577999999986
No 28
>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=97.98 E-value=3.6e-06 Score=71.43 Aligned_cols=46 Identities=22% Similarity=0.405 Sum_probs=37.3
Q ss_pred CCccccccCCCCCCCceEEeccCCccchhhHHHHHhc-CCCCCccccCCC
Q 005612 640 EEACAICLDNPSIGDSIRHLPCLHKFHKDCIDPWLSR-RPSCPVCKSSIT 688 (688)
Q Consensus 640 deeC~ICLEeF~~Gd~Vr~LPCgHvFH~sCI~~WLk~-k~SCPVCR~~Ln 688 (688)
...|+||.+-|.++ +.+||||.|.+.||..||.. ..+||+|+.+|+
T Consensus 4 ~f~CpIt~~lM~dP---Vi~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~ 50 (73)
T PF04564_consen 4 EFLCPITGELMRDP---VILPSGHTYERSAIERWLEQNGGTDPFTRQPLS 50 (73)
T ss_dssp GGB-TTTSSB-SSE---EEETTSEEEEHHHHHHHHCTTSSB-TTT-SB-S
T ss_pred ccCCcCcCcHhhCc---eeCCcCCEEcHHHHHHHHHcCCCCCCCCCCcCC
Confidence 45799999999988 78999999999999999999 899999998764
No 29
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=97.95 E-value=1.7e-06 Score=101.11 Aligned_cols=49 Identities=37% Similarity=0.937 Sum_probs=36.8
Q ss_pred CCccccccCCCC-CCC--ceEEe-ccCCccchhhHHHHHhc--CCCCCccccCCC
Q 005612 640 EEACAICLDNPS-IGD--SIRHL-PCLHKFHKDCIDPWLSR--RPSCPVCKSSIT 688 (688)
Q Consensus 640 deeC~ICLEeF~-~Gd--~Vr~L-PCgHvFH~sCI~~WLk~--k~SCPVCR~~Ln 688 (688)
-++|+||+..+. ... .-.+. .|.|.||..|+.+|++. ..+||+||.+++
T Consensus 1469 ~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219 1469 HEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred cchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence 478999988764 221 11122 29999999999999996 678999998874
No 30
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=97.93 E-value=3.1e-06 Score=73.97 Aligned_cols=49 Identities=35% Similarity=0.754 Sum_probs=36.2
Q ss_pred CCCccccccCCCCCC--------CceE-Ee-ccCCccchhhHHHHHhc---CCCCCccccCC
Q 005612 639 FEEACAICLDNPSIG--------DSIR-HL-PCLHKFHKDCIDPWLSR---RPSCPVCKSSI 687 (688)
Q Consensus 639 ~deeC~ICLEeF~~G--------d~Vr-~L-PCgHvFH~sCI~~WLk~---k~SCPVCR~~L 687 (688)
.+++|.||.-.|..- +..- ++ .|.|.||..||.+||.. +..||+||+..
T Consensus 19 ~~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~ 80 (84)
T KOG1493|consen 19 PDETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTW 80 (84)
T ss_pred CCCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchhee
Confidence 356899999888542 2211 11 29999999999999985 56799999863
No 31
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=97.92 E-value=3.1e-06 Score=90.55 Aligned_cols=44 Identities=36% Similarity=0.841 Sum_probs=41.2
Q ss_pred CccccccCCCCCCCceEEeccCCccchhhHHHHHhcCCCCCccccCC
Q 005612 641 EACAICLDNPSIGDSIRHLPCLHKFHKDCIDPWLSRRPSCPVCKSSI 687 (688)
Q Consensus 641 eeC~ICLEeF~~Gd~Vr~LPCgHvFH~sCI~~WLk~k~SCPVCR~~L 687 (688)
..|-||.+-|..+ .++||+|.||.-||..+|..+..||.|+.++
T Consensus 24 LRC~IC~eyf~ip---~itpCsHtfCSlCIR~~L~~~p~CP~C~~~~ 67 (442)
T KOG0287|consen 24 LRCGICFEYFNIP---MITPCSHTFCSLCIRKFLSYKPQCPTCCVTV 67 (442)
T ss_pred HHHhHHHHHhcCc---eeccccchHHHHHHHHHhccCCCCCceeccc
Confidence 5699999999988 7889999999999999999999999999876
No 32
>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=97.89 E-value=1e-05 Score=64.67 Aligned_cols=42 Identities=29% Similarity=0.837 Sum_probs=33.0
Q ss_pred ccccccCCCCCCCceEEeccC-----CccchhhHHHHHhc--CCCCCccc
Q 005612 642 ACAICLDNPSIGDSIRHLPCL-----HKFHKDCIDPWLSR--RPSCPVCK 684 (688)
Q Consensus 642 eC~ICLEeF~~Gd~Vr~LPCg-----HvFH~sCI~~WLk~--k~SCPVCR 684 (688)
.|.||++ +..++....+||. |.||..|+.+||.. +.+||+|+
T Consensus 1 ~CrIC~~-~~~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~ 49 (49)
T smart00744 1 ICRICHD-EGDEGDPLVSPCRCKGSLKYVHQECLERWINESGNKTCEICK 49 (49)
T ss_pred CccCCCC-CCCCCCeeEeccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence 4899999 3344455578984 89999999999975 45899995
No 33
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=97.82 E-value=1.2e-05 Score=62.99 Aligned_cols=38 Identities=39% Similarity=0.811 Sum_probs=22.8
Q ss_pred cccccCCCCCC-CceEEeccCCccchhhHHHHHhc----CCCCC
Q 005612 643 CAICLDNPSIG-DSIRHLPCLHKFHKDCIDPWLSR----RPSCP 681 (688)
Q Consensus 643 C~ICLEeF~~G-d~Vr~LPCgHvFH~sCI~~WLk~----k~SCP 681 (688)
|+||+| |... +.-+.|+|||+|+.+||.+|++. ...||
T Consensus 1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~~~~~~~kCP 43 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKKSDRNRFKCP 43 (43)
T ss_dssp -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH-S-S-B--T
T ss_pred CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhcCCCCeeeCc
Confidence 899999 7553 34578999999999999999985 34677
No 34
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=97.80 E-value=9.3e-06 Score=85.62 Aligned_cols=44 Identities=36% Similarity=0.678 Sum_probs=40.5
Q ss_pred CCccccccCCCCCCCceEEeccCCccchhhHHHHHhcCCCCCccccC
Q 005612 640 EEACAICLDNPSIGDSIRHLPCLHKFHKDCIDPWLSRRPSCPVCKSS 686 (688)
Q Consensus 640 deeC~ICLEeF~~Gd~Vr~LPCgHvFH~sCI~~WLk~k~SCPVCR~~ 686 (688)
-.-|-||-+-|..+ ..++|||-||.-||...|..+..||+||.+
T Consensus 25 ~lrC~IC~~~i~ip---~~TtCgHtFCslCIR~hL~~qp~CP~Cr~~ 68 (391)
T COG5432 25 MLRCRICDCRISIP---CETTCGHTFCSLCIRRHLGTQPFCPVCRED 68 (391)
T ss_pred HHHhhhhhheeecc---eecccccchhHHHHHHHhcCCCCCcccccc
Confidence 35799999999987 678899999999999999999999999986
No 35
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=97.69 E-value=7.7e-06 Score=69.53 Aligned_cols=49 Identities=35% Similarity=0.727 Sum_probs=23.4
Q ss_pred CCccccccCCCCCCCce--EEe---ccCCccchhhHHHHHhc----C-------CCCCccccCCC
Q 005612 640 EEACAICLDNPSIGDSI--RHL---PCLHKFHKDCIDPWLSR----R-------PSCPVCKSSIT 688 (688)
Q Consensus 640 deeC~ICLEeF~~Gd~V--r~L---PCgHvFH~sCI~~WLk~----k-------~SCPVCR~~Ln 688 (688)
+..|.||+..+.....+ ..- .|+..||..||..||.. + ..||.|+.+|+
T Consensus 2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~ 66 (70)
T PF11793_consen 2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPIS 66 (70)
T ss_dssp --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEE
T ss_pred CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeee
Confidence 35799999987633321 222 38999999999999974 1 25999998763
No 36
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=97.58 E-value=3.5e-05 Score=70.87 Aligned_cols=27 Identities=41% Similarity=0.952 Sum_probs=25.1
Q ss_pred ccCCccchhhHHHHHhcCCCCCccccC
Q 005612 660 PCLHKFHKDCIDPWLSRRPSCPVCKSS 686 (688)
Q Consensus 660 PCgHvFH~sCI~~WLk~k~SCPVCR~~ 686 (688)
-|.|.||..||.+||++++.||+|.++
T Consensus 80 ~CNHaFH~hCisrWlktr~vCPLdn~e 106 (114)
T KOG2930|consen 80 VCNHAFHFHCISRWLKTRNVCPLDNKE 106 (114)
T ss_pred ecchHHHHHHHHHHHhhcCcCCCcCcc
Confidence 399999999999999999999999764
No 37
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=97.54 E-value=3.2e-05 Score=85.29 Aligned_cols=45 Identities=33% Similarity=0.862 Sum_probs=36.4
Q ss_pred CCccccccCCCCCCC-ceEEeccCCccchhhHHHHHhcCCCCCccccC
Q 005612 640 EEACAICLDNPSIGD-SIRHLPCLHKFHKDCIDPWLSRRPSCPVCKSS 686 (688)
Q Consensus 640 deeC~ICLEeF~~Gd-~Vr~LPCgHvFH~sCI~~WLk~k~SCPVCR~~ 686 (688)
-.+|+||||.+.... .+....|.|.||..|+..|- ..+||+||.-
T Consensus 175 LPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~--~~scpvcR~~ 220 (493)
T KOG0804|consen 175 LPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWW--DSSCPVCRYC 220 (493)
T ss_pred CCCcchhHhhcCccccceeeeecccccchHHHhhcc--cCcChhhhhh
Confidence 358999999997764 34555699999999999995 4579999974
No 38
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=97.48 E-value=4.2e-05 Score=81.04 Aligned_cols=48 Identities=29% Similarity=0.707 Sum_probs=40.9
Q ss_pred CCccccccCCCCCCCceEEeccCCccchhhHHHHHh------------------c-----CCCCCccccCC
Q 005612 640 EEACAICLDNPSIGDSIRHLPCLHKFHKDCIDPWLS------------------R-----RPSCPVCKSSI 687 (688)
Q Consensus 640 deeC~ICLEeF~~Gd~Vr~LPCgHvFH~sCI~~WLk------------------~-----k~SCPVCR~~L 687 (688)
...|.|||-.|..+....+++|-|.||..|+.++|. . +..||+||..|
T Consensus 115 ~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i 185 (368)
T KOG4445|consen 115 NGQCVICLYGFASSPAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERI 185 (368)
T ss_pred CCceEEEEEeecCCCceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhc
Confidence 457999999999999999999999999999987653 1 23699999876
No 39
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.39 E-value=6.7e-05 Score=81.03 Aligned_cols=50 Identities=32% Similarity=0.814 Sum_probs=38.2
Q ss_pred CCCCccccccCCCCCCC----ceEEec-cCCccchhhHHHHH--hc-----CCCCCccccCC
Q 005612 638 NFEEACAICLDNPSIGD----SIRHLP-CLHKFHKDCIDPWL--SR-----RPSCPVCKSSI 687 (688)
Q Consensus 638 ~~deeC~ICLEeF~~Gd----~Vr~LP-CgHvFH~sCI~~WL--k~-----k~SCPVCR~~L 687 (688)
..+.+|.||++.....- ...+|| |.|.||..||..|- ++ ...||.||...
T Consensus 159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s 220 (344)
T KOG1039|consen 159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPS 220 (344)
T ss_pred cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCcc
Confidence 34678999999876542 123445 99999999999997 34 57899999764
No 40
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.36 E-value=2.9e-05 Score=89.87 Aligned_cols=48 Identities=23% Similarity=0.519 Sum_probs=43.3
Q ss_pred CCccccccCCCCCCCceEEeccCCccchhhHHHHHhcCCCCCccccCC
Q 005612 640 EEACAICLDNPSIGDSIRHLPCLHKFHKDCIDPWLSRRPSCPVCKSSI 687 (688)
Q Consensus 640 deeC~ICLEeF~~Gd~Vr~LPCgHvFH~sCI~~WLk~k~SCPVCR~~L 687 (688)
...|++|+..|.++......+|+|.||..||..|-+.-++||+||..+
T Consensus 123 ~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~aqTCPiDR~EF 170 (1134)
T KOG0825|consen 123 ENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCAQTCPVDRGEF 170 (1134)
T ss_pred hhhhhHHHHHHHHHhhccccccccccHHHHhhhhhhhcccCchhhhhh
Confidence 467999999998887777778999999999999999999999999864
No 41
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.35 E-value=0.00012 Score=79.07 Aligned_cols=46 Identities=28% Similarity=0.701 Sum_probs=38.5
Q ss_pred CCCccccccCCCCCCCceEEeccCCc-cchhhHHHHHhcCCCCCccccCC
Q 005612 639 FEEACAICLDNPSIGDSIRHLPCLHK-FHKDCIDPWLSRRPSCPVCKSSI 687 (688)
Q Consensus 639 ~deeC~ICLEeF~~Gd~Vr~LPCgHv-FH~sCI~~WLk~k~SCPVCR~~L 687 (688)
...+|.|||.+..+ +.+|||-|. .|..|.+..--+.+.||+||.+|
T Consensus 289 ~gkeCVIClse~rd---t~vLPCRHLCLCs~Ca~~Lr~q~n~CPICRqpi 335 (349)
T KOG4265|consen 289 SGKECVICLSESRD---TVVLPCRHLCLCSGCAKSLRYQTNNCPICRQPI 335 (349)
T ss_pred CCCeeEEEecCCcc---eEEecchhhehhHhHHHHHHHhhcCCCccccch
Confidence 46789999998664 478999997 89999887665788899999986
No 42
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.29 E-value=2.8e-05 Score=83.74 Aligned_cols=47 Identities=32% Similarity=0.707 Sum_probs=37.7
Q ss_pred CCCccccccCCCCCCCceEEeccCCccchhhHHHHHhc-CCCCCccccCC
Q 005612 639 FEEACAICLDNPSIGDSIRHLPCLHKFHKDCIDPWLSR-RPSCPVCKSSI 687 (688)
Q Consensus 639 ~deeC~ICLEeF~~Gd~Vr~LPCgHvFH~sCI~~WLk~-k~SCPVCR~~L 687 (688)
.+..|+|||+-+... ....-|.|.||.+||..-|+. ++.||.||+.+
T Consensus 42 ~~v~c~icl~llk~t--mttkeClhrfc~~ci~~a~r~gn~ecptcRk~l 89 (381)
T KOG0311|consen 42 IQVICPICLSLLKKT--MTTKECLHRFCFDCIWKALRSGNNECPTCRKKL 89 (381)
T ss_pred hhhccHHHHHHHHhh--cccHHHHHHHHHHHHHHHHHhcCCCCchHHhhc
Confidence 357899999987753 222349999999999999886 78999999864
No 43
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.82 E-value=0.00022 Score=59.26 Aligned_cols=45 Identities=24% Similarity=0.605 Sum_probs=34.3
Q ss_pred CCccccccCCCCCCCceEEeccCCc-cchhhHHHHHh-cCCCCCccccCC
Q 005612 640 EEACAICLDNPSIGDSIRHLPCLHK-FHKDCIDPWLS-RRPSCPVCKSSI 687 (688)
Q Consensus 640 deeC~ICLEeF~~Gd~Vr~LPCgHv-FH~sCI~~WLk-~k~SCPVCR~~L 687 (688)
+++|.||+|...+. +...|||. .|..|-.+-++ .+..||+||.+|
T Consensus 7 ~dECTICye~pvds---VlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi 53 (62)
T KOG4172|consen 7 SDECTICYEHPVDS---VLYTCGHMCMCYACGLRLKKALHGCCPICRAPI 53 (62)
T ss_pred ccceeeeccCcchH---HHHHcchHHhHHHHHHHHHHccCCcCcchhhHH
Confidence 37899999986654 23349996 78889665555 789999999875
No 44
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=96.81 E-value=0.00032 Score=81.43 Aligned_cols=45 Identities=20% Similarity=0.540 Sum_probs=37.2
Q ss_pred CCccccccCCCCCCCceEEeccCCccchhhHHHHHhc-CCCCCccccCC
Q 005612 640 EEACAICLDNPSIGDSIRHLPCLHKFHKDCIDPWLSR-RPSCPVCKSSI 687 (688)
Q Consensus 640 deeC~ICLEeF~~Gd~Vr~LPCgHvFH~sCI~~WLk~-k~SCPVCR~~L 687 (688)
-..|++|-..++.- +++.|+|+||..||.+-+.. ...||.|...+
T Consensus 643 ~LkCs~Cn~R~Kd~---vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aF 688 (698)
T KOG0978|consen 643 LLKCSVCNTRWKDA---VITKCGHVFCEECVQTRYETRQRKCPKCNAAF 688 (698)
T ss_pred ceeCCCccCchhhH---HHHhcchHHHHHHHHHHHHHhcCCCCCCCCCC
Confidence 45799999877653 45569999999999999885 77899998765
No 45
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=96.74 E-value=0.00039 Score=59.26 Aligned_cols=43 Identities=30% Similarity=0.670 Sum_probs=22.5
Q ss_pred CccccccCCCCCCCceEEeccCCccchhhHHHHHhcCCCCCccccCC
Q 005612 641 EACAICLDNPSIGDSIRHLPCLHKFHKDCIDPWLSRRPSCPVCKSSI 687 (688)
Q Consensus 641 eeC~ICLEeF~~Gd~Vr~LPCgHvFH~sCI~~WLk~k~SCPVCR~~L 687 (688)
..|++|.+-+..+ +....|.|+|+..||..-+.. .||+|+.+.
T Consensus 8 LrCs~C~~~l~~p--v~l~~CeH~fCs~Ci~~~~~~--~CPvC~~Pa 50 (65)
T PF14835_consen 8 LRCSICFDILKEP--VCLGGCEHIFCSSCIRDCIGS--ECPVCHTPA 50 (65)
T ss_dssp TS-SSS-S--SS---B---SSS--B-TTTGGGGTTT--B-SSS--B-
T ss_pred cCCcHHHHHhcCC--ceeccCccHHHHHHhHHhcCC--CCCCcCChH
Confidence 3699999998865 334469999999999886664 499998763
No 46
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.44 E-value=0.0013 Score=72.42 Aligned_cols=46 Identities=28% Similarity=0.683 Sum_probs=40.7
Q ss_pred CCCccccccCCCCCCCceEEeccCCccchhhHHHHHhcCCCCCccccCC
Q 005612 639 FEEACAICLDNPSIGDSIRHLPCLHKFHKDCIDPWLSRRPSCPVCKSSI 687 (688)
Q Consensus 639 ~deeC~ICLEeF~~Gd~Vr~LPCgHvFH~sCI~~WLk~k~SCPVCR~~L 687 (688)
.+..|.||+..+... +.+||||.||..||.+-|.....||.||.++
T Consensus 83 sef~c~vc~~~l~~p---v~tpcghs~c~~Cl~r~ld~~~~cp~Cr~~l 128 (398)
T KOG4159|consen 83 SEFECCVCSRALYPP---VVTPCGHSFCLECLDRSLDQETECPLCRDEL 128 (398)
T ss_pred chhhhhhhHhhcCCC---ccccccccccHHHHHHHhccCCCCccccccc
Confidence 357899999998877 6779999999999999888889999999865
No 47
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=96.41 E-value=0.0011 Score=72.80 Aligned_cols=44 Identities=32% Similarity=0.918 Sum_probs=36.9
Q ss_pred CccccccCCCCCCCceEEeccCCccchhhHHHHHhc--CCCCCccccCC
Q 005612 641 EACAICLDNPSIGDSIRHLPCLHKFHKDCIDPWLSR--RPSCPVCKSSI 687 (688)
Q Consensus 641 eeC~ICLEeF~~Gd~Vr~LPCgHvFH~sCI~~WLk~--k~SCPVCR~~L 687 (688)
+-|-||-|. ...+++-||||..|..|+..|-.. .+.||.||.+|
T Consensus 370 eLCKICaen---dKdvkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEI 415 (563)
T KOG1785|consen 370 ELCKICAEN---DKDVKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEI 415 (563)
T ss_pred HHHHHhhcc---CCCcccccccchHHHHHHHhhcccCCCCCCCceeeEe
Confidence 459999986 345677899999999999999753 68999999876
No 48
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=96.39 E-value=0.001 Score=72.86 Aligned_cols=46 Identities=33% Similarity=0.828 Sum_probs=39.2
Q ss_pred CCccccccCCCCCCC-ceEEeccCCccchhhHHHHHhc--CCCCCcccc
Q 005612 640 EEACAICLDNPSIGD-SIRHLPCLHKFHKDCIDPWLSR--RPSCPVCKS 685 (688)
Q Consensus 640 deeC~ICLEeF~~Gd-~Vr~LPCgHvFH~sCI~~WLk~--k~SCPVCR~ 685 (688)
+..|..|-+.+...+ .+.-|||.|+||..|+...|.. ..+||.||+
T Consensus 365 ~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~Crk 413 (518)
T KOG1941|consen 365 ELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPNCRK 413 (518)
T ss_pred hhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCccHHH
Confidence 567999999986654 6778999999999999999986 468999984
No 49
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=96.34 E-value=0.002 Score=70.69 Aligned_cols=47 Identities=28% Similarity=0.593 Sum_probs=40.5
Q ss_pred CCCccccccCCCCCCCceEEeccCCccchhhHHHHHhcCCCCCccccCC
Q 005612 639 FEEACAICLDNPSIGDSIRHLPCLHKFHKDCIDPWLSRRPSCPVCKSSI 687 (688)
Q Consensus 639 ~deeC~ICLEeF~~Gd~Vr~LPCgHvFH~sCI~~WLk~k~SCPVCR~~L 687 (688)
.+..|+||...+..+-.. ..|+|.||..||..|+..+..||.|+..+
T Consensus 20 ~~l~C~~C~~vl~~p~~~--~~cgh~fC~~C~~~~~~~~~~cp~~~~~~ 66 (391)
T KOG0297|consen 20 ENLLCPICMSVLRDPVQT--TTCGHRFCAGCLLESLSNHQKCPVCRQEL 66 (391)
T ss_pred ccccCccccccccCCCCC--CCCCCcccccccchhhccCcCCccccccc
Confidence 457899999999887222 57999999999999999999999998765
No 50
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=96.19 E-value=0.0027 Score=77.59 Aligned_cols=50 Identities=32% Similarity=0.699 Sum_probs=40.4
Q ss_pred CCCccccccCCCCCCCceEEeccCCccchhhHHHHHhc----------CCCCCccccCCC
Q 005612 639 FEEACAICLDNPSIGDSIRHLPCLHKFHKDCIDPWLSR----------RPSCPVCKSSIT 688 (688)
Q Consensus 639 ~deeC~ICLEeF~~Gd~Vr~LPCgHvFH~sCI~~WLk~----------k~SCPVCR~~Ln 688 (688)
.++.|.||+-+-......++|.|+|+||..|...-|.+ --+||+|..+|+
T Consensus 3485 ~DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~In 3544 (3738)
T KOG1428|consen 3485 ADDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKIN 3544 (3738)
T ss_pred cCceEEEEehhhhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhh
Confidence 47889999988766678889999999999999864443 237999998874
No 51
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=96.16 E-value=0.0025 Score=52.71 Aligned_cols=42 Identities=29% Similarity=0.566 Sum_probs=28.7
Q ss_pred CCCccccccCCCCCCCceEEeccCCccchhhHHHHHhc--CCCCCc
Q 005612 639 FEEACAICLDNPSIGDSIRHLPCLHKFHKDCIDPWLSR--RPSCPV 682 (688)
Q Consensus 639 ~deeC~ICLEeF~~Gd~Vr~LPCgHvFH~sCI~~WLk~--k~SCPV 682 (688)
....|+|.+..|..+ ++...|+|.|-++.|..||+. ...||+
T Consensus 10 ~~~~CPiT~~~~~~P--V~s~~C~H~fek~aI~~~i~~~~~~~CPv 53 (57)
T PF11789_consen 10 ISLKCPITLQPFEDP--VKSKKCGHTFEKEAILQYIQRNGSKRCPV 53 (57)
T ss_dssp --SB-TTTSSB-SSE--EEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred eccCCCCcCChhhCC--cCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence 457899999998855 666679999999999999944 557999
No 52
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.10 E-value=0.0052 Score=64.94 Aligned_cols=49 Identities=22% Similarity=0.499 Sum_probs=38.7
Q ss_pred CCCCCccccccCCCCCCCceEEeccCCccchhhHHHHHhc--CCCCCccccCC
Q 005612 637 DNFEEACAICLDNPSIGDSIRHLPCLHKFHKDCIDPWLSR--RPSCPVCKSSI 687 (688)
Q Consensus 637 ~~~deeC~ICLEeF~~Gd~Vr~LPCgHvFH~sCI~~WLk~--k~SCPVCR~~L 687 (688)
...+.+|++|-+....+ ....+|+|+||.-||..-+.. ..+||.|-.++
T Consensus 236 ~t~~~~C~~Cg~~PtiP--~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~ 286 (298)
T KOG2879|consen 236 GTSDTECPVCGEPPTIP--HVIGKCGHIYCYYCIATSRLWDASFTCPLCGENV 286 (298)
T ss_pred ccCCceeeccCCCCCCC--eeeccccceeehhhhhhhhcchhhcccCccCCCC
Confidence 34578999999987765 345679999999999987664 58999997653
No 53
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=95.85 E-value=0.0024 Score=68.69 Aligned_cols=50 Identities=30% Similarity=0.557 Sum_probs=40.6
Q ss_pred cCCCCCccccccCCCCCCCceEEeccCCccchhhHHHHHhcCCCCCccccCC
Q 005612 636 TDNFEEACAICLDNPSIGDSIRHLPCLHKFHKDCIDPWLSRRPSCPVCKSSI 687 (688)
Q Consensus 636 ~~~~deeC~ICLEeF~~Gd~Vr~LPCgHvFH~sCI~~WLk~k~SCPVCR~~L 687 (688)
..+...+|.+|.--|.+.. .+.-|-|.||+.||.+.|....+||+|...|
T Consensus 11 ~~n~~itC~LC~GYliDAT--TI~eCLHTFCkSCivk~l~~~~~CP~C~i~i 60 (331)
T KOG2660|consen 11 ELNPHITCRLCGGYLIDAT--TITECLHTFCKSCIVKYLEESKYCPTCDIVI 60 (331)
T ss_pred hcccceehhhccceeecch--hHHHHHHHHHHHHHHHHHHHhccCCccceec
Confidence 3445678999998887652 2355999999999999999999999997654
No 54
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.59 E-value=0.009 Score=61.87 Aligned_cols=47 Identities=30% Similarity=0.742 Sum_probs=39.5
Q ss_pred CCccccccCCCCCCCceEEeccCCccchhhHHHHHhc--------CCCCCccccCC
Q 005612 640 EEACAICLDNPSIGDSIRHLPCLHKFHKDCIDPWLSR--------RPSCPVCKSSI 687 (688)
Q Consensus 640 deeC~ICLEeF~~Gd~Vr~LPCgHvFH~sCI~~WLk~--------k~SCPVCR~~L 687 (688)
...|..|--.+..|+.+ .|-|-|+||..|+..|-.. ...||.|..+|
T Consensus 50 ~pNC~LC~t~La~gdt~-RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~ei 104 (299)
T KOG3970|consen 50 NPNCRLCNTPLASGDTT-RLVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEI 104 (299)
T ss_pred CCCCceeCCccccCcce-eehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCcc
Confidence 46799999999998777 5779999999999999653 35799998765
No 55
>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=95.49 E-value=0.0064 Score=53.29 Aligned_cols=31 Identities=26% Similarity=0.596 Sum_probs=26.8
Q ss_pred CCccccccCCCCCCCceEEeccCCccchhhHH
Q 005612 640 EEACAICLDNPSIGDSIRHLPCLHKFHKDCID 671 (688)
Q Consensus 640 deeC~ICLEeF~~Gd~Vr~LPCgHvFH~sCI~ 671 (688)
+..|+||-..+.. ......||+|+||..|+.
T Consensus 78 ~~~C~vC~k~l~~-~~f~~~p~~~v~H~~C~~ 108 (109)
T PF10367_consen 78 STKCSVCGKPLGN-SVFVVFPCGHVVHYSCIK 108 (109)
T ss_pred CCCccCcCCcCCC-ceEEEeCCCeEEeccccc
Confidence 5679999999987 567788999999999975
No 56
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=95.30 E-value=0.0071 Score=68.53 Aligned_cols=48 Identities=29% Similarity=0.671 Sum_probs=37.8
Q ss_pred CCCCccccccCCCCCCCceEEeccCCccchhhHHHHHhc-----CCCCCccccCCC
Q 005612 638 NFEEACAICLDNPSIGDSIRHLPCLHKFHKDCIDPWLSR-----RPSCPVCKSSIT 688 (688)
Q Consensus 638 ~~deeC~ICLEeF~~Gd~Vr~LPCgHvFH~sCI~~WLk~-----k~SCPVCR~~Ln 688 (688)
.....|.+|-++-++. +...|.|.||+-||..+... +-+||+|-..|+
T Consensus 534 k~~~~C~lc~d~aed~---i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~Ls 586 (791)
T KOG1002|consen 534 KGEVECGLCHDPAEDY---IESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLS 586 (791)
T ss_pred cCceeecccCChhhhh---HhhhhhHHHHHHHHHHHHHhhhcccCCCCcccccccc
Confidence 3467899999975443 56789999999999988763 568999987664
No 57
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=95.24 E-value=0.0081 Score=61.24 Aligned_cols=44 Identities=23% Similarity=0.412 Sum_probs=38.9
Q ss_pred CCccccccCCCCCCCceEEeccCCccchhhHHHHHhcCCCCCccccC
Q 005612 640 EEACAICLDNPSIGDSIRHLPCLHKFHKDCIDPWLSRRPSCPVCKSS 686 (688)
Q Consensus 640 deeC~ICLEeF~~Gd~Vr~LPCgHvFH~sCI~~WLk~k~SCPVCR~~ 686 (688)
...|.||.++|..+ +...|||.||..|...-++....|-+|-+.
T Consensus 196 PF~C~iCKkdy~sp---vvt~CGH~FC~~Cai~~y~kg~~C~~Cgk~ 239 (259)
T COG5152 196 PFLCGICKKDYESP---VVTECGHSFCSLCAIRKYQKGDECGVCGKA 239 (259)
T ss_pred ceeehhchhhccch---hhhhcchhHHHHHHHHHhccCCcceecchh
Confidence 45799999999987 677899999999999988889999999653
No 58
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.92 E-value=0.0088 Score=59.40 Aligned_cols=29 Identities=45% Similarity=0.962 Sum_probs=26.8
Q ss_pred CCCccccccCCCCCCCceEEeccCCccch
Q 005612 639 FEEACAICLDNPSIGDSIRHLPCLHKFHK 667 (688)
Q Consensus 639 ~deeC~ICLEeF~~Gd~Vr~LPCgHvFH~ 667 (688)
+..+|.||||++..++.+.+|||-.+||+
T Consensus 176 dkGECvICLEdL~~GdtIARLPCLCIYHK 204 (205)
T KOG0801|consen 176 DKGECVICLEDLEAGDTIARLPCLCIYHK 204 (205)
T ss_pred cCCcEEEEhhhccCCCceeccceEEEeec
Confidence 35689999999999999999999999996
No 59
>PHA03096 p28-like protein; Provisional
Probab=94.56 E-value=0.016 Score=61.58 Aligned_cols=45 Identities=27% Similarity=0.579 Sum_probs=33.1
Q ss_pred CccccccCCCCCC----CceEEec-cCCccchhhHHHHHhc---CCCCCcccc
Q 005612 641 EACAICLDNPSIG----DSIRHLP-CLHKFHKDCIDPWLSR---RPSCPVCKS 685 (688)
Q Consensus 641 eeC~ICLEeF~~G----d~Vr~LP-CgHvFH~sCI~~WLk~---k~SCPVCR~ 685 (688)
..|.||++..... .....|+ |.|.||..||..|-.. +.+||.||.
T Consensus 179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~e~~~~c~~ 231 (284)
T PHA03096 179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYKETEPENRR 231 (284)
T ss_pred hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhcccCccccc
Confidence 5799999986542 2344676 9999999999999774 345655553
No 60
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.53 E-value=0.019 Score=63.53 Aligned_cols=44 Identities=30% Similarity=0.695 Sum_probs=37.3
Q ss_pred CccccccCCCCCCCceEEeccCCccchhhHHHHHhc--------CCCCCccc
Q 005612 641 EACAICLDNPSIGDSIRHLPCLHKFHKDCIDPWLSR--------RPSCPVCK 684 (688)
Q Consensus 641 eeC~ICLEeF~~Gd~Vr~LPCgHvFH~sCI~~WLk~--------k~SCPVCR 684 (688)
..|.||+++.....-...|||+|+||+.|+..++.. .-.||-|.
T Consensus 185 f~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~ 236 (445)
T KOG1814|consen 185 FDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPK 236 (445)
T ss_pred ccceeeehhhcCcceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCC
Confidence 469999999887788899999999999999999874 23587664
No 61
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.06 E-value=0.03 Score=61.06 Aligned_cols=46 Identities=33% Similarity=0.713 Sum_probs=32.9
Q ss_pred cCCCCCccccccCCCCCCCceEEeccCCccchhhHHHHHhcCCCCCccccCC
Q 005612 636 TDNFEEACAICLDNPSIGDSIRHLPCLHKFHKDCIDPWLSRRPSCPVCKSSI 687 (688)
Q Consensus 636 ~~~~deeC~ICLEeF~~Gd~Vr~LPCgHvFH~sCI~~WLk~k~SCPVCR~~L 687 (688)
.......|.||++++.. ...+||||+-| |+.-- +....||+||..|
T Consensus 301 ~~~~p~lcVVcl~e~~~---~~fvpcGh~cc--ct~cs-~~l~~CPvCR~rI 346 (355)
T KOG1571|consen 301 ELPQPDLCVVCLDEPKS---AVFVPCGHVCC--CTLCS-KHLPQCPVCRQRI 346 (355)
T ss_pred ccCCCCceEEecCCccc---eeeecCCcEEE--chHHH-hhCCCCchhHHHH
Confidence 33445789999999776 58899999865 65443 2234499999754
No 62
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=94.06 E-value=0.031 Score=44.45 Aligned_cols=40 Identities=28% Similarity=0.894 Sum_probs=27.7
Q ss_pred cccccCCCCCCCceEEeccC-----CccchhhHHHHHhc--CCCCCcc
Q 005612 643 CAICLDNPSIGDSIRHLPCL-----HKFHKDCIDPWLSR--RPSCPVC 683 (688)
Q Consensus 643 C~ICLEeF~~Gd~Vr~LPCg-----HvFH~sCI~~WLk~--k~SCPVC 683 (688)
|-||++.-.... ..+.||. -..|..|+.+|+.. +..|++|
T Consensus 1 CrIC~~~~~~~~-~li~pC~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C 47 (47)
T PF12906_consen 1 CRICLEGEEEDE-PLISPCRCKGSMKYVHRSCLERWIRESGNRKCEIC 47 (47)
T ss_dssp ETTTTEE-SSSS--EE-SSS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred CeEeCCcCCCCC-ceecccccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence 779999877665 3457863 36899999999984 5679988
No 63
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.98 E-value=0.02 Score=61.17 Aligned_cols=45 Identities=22% Similarity=0.312 Sum_probs=39.9
Q ss_pred CCccccccCCCCCCCceEEeccCCccchhhHHHHHhcCCCCCccccCC
Q 005612 640 EEACAICLDNPSIGDSIRHLPCLHKFHKDCIDPWLSRRPSCPVCKSSI 687 (688)
Q Consensus 640 deeC~ICLEeF~~Gd~Vr~LPCgHvFH~sCI~~WLk~k~SCPVCR~~L 687 (688)
...|-||...|..+ ++..|+|.||..|...-++....|++|-+.+
T Consensus 241 Pf~c~icr~~f~~p---Vvt~c~h~fc~~ca~~~~qk~~~c~vC~~~t 285 (313)
T KOG1813|consen 241 PFKCFICRKYFYRP---VVTKCGHYFCEVCALKPYQKGEKCYVCSQQT 285 (313)
T ss_pred Cccccccccccccc---hhhcCCceeehhhhccccccCCcceeccccc
Confidence 45799999999987 6788999999999999999999999997653
No 64
>PF05883 Baculo_RING: Baculovirus U-box/Ring-like domain; InterPro: IPR008573 This family consists of several Baculovirus proteins of around 130 residues in length. The function of this family is unknown, but it appears to be related to the U-box and ring finger domain by profile-profile comparison.
Probab=93.89 E-value=0.027 Score=54.26 Aligned_cols=36 Identities=25% Similarity=0.515 Sum_probs=30.0
Q ss_pred CCccccccCCCCCCCceEEecc------CCccchhhHHHHHh
Q 005612 640 EEACAICLDNPSIGDSIRHLPC------LHKFHKDCIDPWLS 675 (688)
Q Consensus 640 deeC~ICLEeF~~Gd~Vr~LPC------gHvFH~sCI~~WLk 675 (688)
..+|.||++.+....-++.++| .|.||.+|+.+|-+
T Consensus 26 ~~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw~~ 67 (134)
T PF05883_consen 26 TVECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRWRR 67 (134)
T ss_pred CeeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHHHh
Confidence 3579999999998566778888 48899999999943
No 65
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.80 E-value=0.035 Score=60.74 Aligned_cols=47 Identities=28% Similarity=0.627 Sum_probs=39.6
Q ss_pred CCCCccccccCCCCCCCceEEeccCCccchhhHHHHHhcCCCCCccccCC
Q 005612 638 NFEEACAICLDNPSIGDSIRHLPCLHKFHKDCIDPWLSRRPSCPVCKSSI 687 (688)
Q Consensus 638 ~~deeC~ICLEeF~~Gd~Vr~LPCgHvFH~sCI~~WLk~k~SCPVCR~~L 687 (688)
..+..|+||+-.... .+..||+|.-|+.||.+-|...+.|=.|+..+
T Consensus 420 sEd~lCpICyA~pi~---Avf~PC~H~SC~~CI~qHlmN~k~CFfCktTv 466 (489)
T KOG4692|consen 420 SEDNLCPICYAGPIN---AVFAPCSHRSCYGCITQHLMNCKRCFFCKTTV 466 (489)
T ss_pred cccccCcceecccch---hhccCCCCchHHHHHHHHHhcCCeeeEeccee
Confidence 456789999886443 36789999999999999999999999998754
No 66
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=93.72 E-value=0.051 Score=57.15 Aligned_cols=48 Identities=19% Similarity=0.364 Sum_probs=42.9
Q ss_pred CCccccccCCCCCCCceEEe-ccCCccchhhHHHHHhcCCCCCccccCC
Q 005612 640 EEACAICLDNPSIGDSIRHL-PCLHKFHKDCIDPWLSRRPSCPVCKSSI 687 (688)
Q Consensus 640 deeC~ICLEeF~~Gd~Vr~L-PCgHvFH~sCI~~WLk~k~SCPVCR~~L 687 (688)
...|+||.+.+.....+..| ||||+|+.+|+.+.++.-..||+|-.++
T Consensus 221 ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~pl 269 (303)
T KOG3039|consen 221 RYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPL 269 (303)
T ss_pred ceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcC
Confidence 45799999999988877777 5999999999999999999999998765
No 67
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=93.60 E-value=0.032 Score=59.87 Aligned_cols=42 Identities=29% Similarity=0.585 Sum_probs=33.7
Q ss_pred CCccccccCCCCCCCceEEec-cCCccchhhHHHHHh-cCCCCCccc
Q 005612 640 EEACAICLDNPSIGDSIRHLP-CLHKFHKDCIDPWLS-RRPSCPVCK 684 (688)
Q Consensus 640 deeC~ICLEeF~~Gd~Vr~LP-CgHvFH~sCI~~WLk-~k~SCPVCR 684 (688)
...|+.|..-+... ..+| |+|.||.+||..-|. ..+.||.|.
T Consensus 274 ~LkCplc~~Llrnp---~kT~cC~~~fc~eci~~al~dsDf~CpnC~ 317 (427)
T COG5222 274 SLKCPLCHCLLRNP---MKTPCCGHTFCDECIGTALLDSDFKCPNCS 317 (427)
T ss_pred cccCcchhhhhhCc---ccCccccchHHHHHHhhhhhhccccCCCcc
Confidence 36899998887765 3445 899999999998766 578899994
No 68
>PF04641 Rtf2: Rtf2 RING-finger
Probab=93.56 E-value=0.062 Score=55.89 Aligned_cols=48 Identities=19% Similarity=0.376 Sum_probs=37.9
Q ss_pred CCCccccccCCCCCCCceEEe-ccCCccchhhHHHHHhcCCCCCccccCC
Q 005612 639 FEEACAICLDNPSIGDSIRHL-PCLHKFHKDCIDPWLSRRPSCPVCKSSI 687 (688)
Q Consensus 639 ~deeC~ICLEeF~~Gd~Vr~L-PCgHvFH~sCI~~WLk~k~SCPVCR~~L 687 (688)
....|||+..+|......+.| ||||+|...||..- .....||+|-.++
T Consensus 112 ~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~-k~~~~Cp~c~~~f 160 (260)
T PF04641_consen 112 GRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKEL-KKSKKCPVCGKPF 160 (260)
T ss_pred ceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhh-cccccccccCCcc
Confidence 456899999999665555555 89999999999987 3356799998765
No 69
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=93.35 E-value=0.093 Score=56.98 Aligned_cols=59 Identities=19% Similarity=0.255 Sum_probs=43.2
Q ss_pred HhcCCccccccCCCCCccccccCCCCCCCceEEec-cCCccchhhHHHHHhcCCCCCccccCC
Q 005612 626 INSLPLSTVQTDNFEEACAICLDNPSIGDSIRHLP-CLHKFHKDCIDPWLSRRPSCPVCKSSI 687 (688)
Q Consensus 626 I~sLP~~~is~~~~deeC~ICLEeF~~Gd~Vr~LP-CgHvFH~sCI~~WLk~k~SCPVCR~~L 687 (688)
++.+.............|+||+.....+ ..|. -|-+||..||..++...+.||+--.++
T Consensus 286 h~~~~se~e~l~~~~~~CpvClk~r~Np---tvl~vSGyVfCY~Ci~~Yv~~~~~CPVT~~p~ 345 (357)
T KOG0826|consen 286 HKQYNSESELLPPDREVCPVCLKKRQNP---TVLEVSGYVFCYPCIFSYVVNYGHCPVTGYPA 345 (357)
T ss_pred hhhcccccccCCCccccChhHHhccCCC---ceEEecceEEeHHHHHHHHHhcCCCCccCCcc
Confidence 4444444444445578899999986654 2232 599999999999999999999976654
No 70
>PF15295 CCDC50_N: Coiled-coil domain-containing protein 50 N-terminus
Probab=92.89 E-value=0.06 Score=51.81 Aligned_cols=39 Identities=44% Similarity=0.459 Sum_probs=31.3
Q ss_pred hhhHHHHHHHHHHHhhcCCCCc-chhhcHHHHHHHHHHHH
Q 005612 480 EVDQMLALELQEQLYHESPLFL-SGEIDENLARMLQQEED 518 (688)
Q Consensus 480 E~DE~lAReLQEQLy~E~p~~~-~eeID~~~A~~LQ~EEd 518 (688)
+.|+.+||+|||+|..+.-.-. -++=|+.|||.||++|-
T Consensus 83 e~D~e~Ar~iqe~l~r~~e~~r~~Ee~de~iA~~Lqe~e~ 122 (132)
T PF15295_consen 83 EQDEEYAREIQEELQREAEEQRQQEEEDEEIARRLQEEER 122 (132)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence 3799999999999988755323 45789999999996554
No 71
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=92.36 E-value=0.07 Score=63.52 Aligned_cols=46 Identities=28% Similarity=0.728 Sum_probs=36.1
Q ss_pred CCCccccccCCCCCCCceEEe-ccCCccchhhHHHHHhc-------CCCCCccc
Q 005612 639 FEEACAICLDNPSIGDSIRHL-PCLHKFHKDCIDPWLSR-------RPSCPVCK 684 (688)
Q Consensus 639 ~deeC~ICLEeF~~Gd~Vr~L-PCgHvFH~sCI~~WLk~-------k~SCPVCR 684 (688)
...+|.||++.+.....+--- .|-|+||..||..|-+. .-.||.|.
T Consensus 190 ~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cq 243 (950)
T KOG1952|consen 190 RKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQ 243 (950)
T ss_pred CceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCccc
Confidence 346899999999877655433 38999999999999764 22599997
No 72
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.28 E-value=0.028 Score=60.11 Aligned_cols=41 Identities=34% Similarity=0.746 Sum_probs=31.0
Q ss_pred CCccccccCCCCCCCceEEeccCCc-cchhhHHHHHhcCCCCCccccCC
Q 005612 640 EEACAICLDNPSIGDSIRHLPCLHK-FHKDCIDPWLSRRPSCPVCKSSI 687 (688)
Q Consensus 640 deeC~ICLEeF~~Gd~Vr~LPCgHv-FH~sCI~~WLk~k~SCPVCR~~L 687 (688)
+.-|.||++...+ ...|+|||. -|..|-.. -+.||+||+.|
T Consensus 300 ~~LC~ICmDaP~D---CvfLeCGHmVtCt~CGkr----m~eCPICRqyi 341 (350)
T KOG4275|consen 300 RRLCAICMDAPRD---CVFLECGHMVTCTKCGKR----MNECPICRQYI 341 (350)
T ss_pred HHHHHHHhcCCcc---eEEeecCcEEeehhhccc----cccCchHHHHH
Confidence 5679999998654 488999995 67778533 34899999753
No 73
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.19 E-value=0.088 Score=53.24 Aligned_cols=49 Identities=31% Similarity=0.734 Sum_probs=35.4
Q ss_pred CCccccccCCCCCCC----ceEEeccCCccchhhHHHHHhc-----------CCCCCccccCCC
Q 005612 640 EEACAICLDNPSIGD----SIRHLPCLHKFHKDCIDPWLSR-----------RPSCPVCKSSIT 688 (688)
Q Consensus 640 deeC~ICLEeF~~Gd----~Vr~LPCgHvFH~sCI~~WLk~-----------k~SCPVCR~~Ln 688 (688)
-..|.||+-.-..|. ..--..|+.-||.-|+..||+. -..||.|-.+|+
T Consensus 165 ~~~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pia 228 (234)
T KOG3268|consen 165 LGACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIA 228 (234)
T ss_pred hhcccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcce
Confidence 356888876544443 2334459999999999999973 136999998874
No 74
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=92.00 E-value=0.093 Score=42.66 Aligned_cols=44 Identities=23% Similarity=0.598 Sum_probs=22.4
Q ss_pred cccccCCCCCCCceEEec--cCCccchhhHHHHHh-cCCCCCccccCC
Q 005612 643 CAICLDNPSIGDSIRHLP--CLHKFHKDCIDPWLS-RRPSCPVCKSSI 687 (688)
Q Consensus 643 C~ICLEeF~~Gd~Vr~LP--CgHvFH~sCI~~WLk-~k~SCPVCR~~L 687 (688)
|++|.+++...+. ..+| |++..+..|...-+. ....||-||.+-
T Consensus 1 cp~C~e~~d~~d~-~~~PC~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y 47 (48)
T PF14570_consen 1 CPLCDEELDETDK-DFYPCECGFQICRFCYHDILENEGGRCPGCREPY 47 (48)
T ss_dssp -TTTS-B--CCCT-T--SSTTS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred CCCcccccccCCC-ccccCcCCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence 8999999944332 3455 799999999888886 488999999863
No 75
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=91.24 E-value=0.18 Score=50.09 Aligned_cols=47 Identities=26% Similarity=0.767 Sum_probs=32.3
Q ss_pred CCCCccccccCCCCCCCceEEeccCC---ccchhhHHHHHhc--CCCCCccccC
Q 005612 638 NFEEACAICLDNPSIGDSIRHLPCLH---KFHKDCIDPWLSR--RPSCPVCKSS 686 (688)
Q Consensus 638 ~~deeC~ICLEeF~~Gd~Vr~LPCgH---vFH~sCI~~WLk~--k~SCPVCR~~ 686 (688)
..+..|-||.++... ...--.|.. ..|.+|+..|+.. ...|++|+.+
T Consensus 6 ~~~~~CRIC~~~~~~--~~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~ 57 (162)
T PHA02825 6 LMDKCCWICKDEYDV--VTNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGP 57 (162)
T ss_pred CCCCeeEecCCCCCC--ccCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCe
Confidence 346789999988542 111011333 5699999999986 5679999875
No 76
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=90.69 E-value=0.015 Score=64.05 Aligned_cols=48 Identities=23% Similarity=0.625 Sum_probs=42.0
Q ss_pred CCccccccCCCCCC-CceEEeccCCccchhhHHHHHhcCCCCCccccCC
Q 005612 640 EEACAICLDNPSIG-DSIRHLPCLHKFHKDCIDPWLSRRPSCPVCKSSI 687 (688)
Q Consensus 640 deeC~ICLEeF~~G-d~Vr~LPCgHvFH~sCI~~WLk~k~SCPVCR~~L 687 (688)
...|+||.+.|+.. +.+..+-|+|.+|..||.+||.....||.|+.+|
T Consensus 196 v~sl~I~~~slK~~y~k~~~~~~g~~~~~~kL~k~L~~~~kl~~~~rel 244 (465)
T KOG0827|consen 196 VGSLSICFESLKQNYDKISAIVCGHIYHHGKLSKWLATKRKLPSCRREL 244 (465)
T ss_pred HhhhHhhHHHHHHHHHHHHHHhhcccchhhHHHHHHHHHHHhHHHHhhh
Confidence 45799999998876 5677778999999999999999999999998865
No 77
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=90.62 E-value=0.18 Score=55.30 Aligned_cols=47 Identities=26% Similarity=0.675 Sum_probs=37.2
Q ss_pred CCCCCccccccCCCCCCCceEEeccCCccchhhHHHH--HhcCCCCCccccC
Q 005612 637 DNFEEACAICLDNPSIGDSIRHLPCLHKFHKDCIDPW--LSRRPSCPVCKSS 686 (688)
Q Consensus 637 ~~~deeC~ICLEeF~~Gd~Vr~LPCgHvFH~sCI~~W--Lk~k~SCPVCR~~ 686 (688)
+.+...|.||-+.+... ..+||+|..|--|..+. |-.++.||+||.+
T Consensus 58 DEen~~C~ICA~~~TYs---~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE 106 (493)
T COG5236 58 DEENMNCQICAGSTTYS---ARYPCGHQICHACAVRLRALYMQKGCPLCRTE 106 (493)
T ss_pred ccccceeEEecCCceEE---EeccCCchHHHHHHHHHHHHHhccCCCccccc
Confidence 33456799999986543 78999999999997654 5568899999974
No 78
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=90.39 E-value=0.16 Score=54.46 Aligned_cols=42 Identities=24% Similarity=0.539 Sum_probs=34.6
Q ss_pred CCccccccCCCCCCCceEEecc--CCccchhhHHHHHhcCCCCCccccCCC
Q 005612 640 EEACAICLDNPSIGDSIRHLPC--LHKFHKDCIDPWLSRRPSCPVCKSSIT 688 (688)
Q Consensus 640 deeC~ICLEeF~~Gd~Vr~LPC--gHvFH~sCI~~WLk~k~SCPVCR~~Ln 688 (688)
-.+|+||.+.+..+ .+.| ||+-|..|-. +..+.||.||.+|.
T Consensus 48 lleCPvC~~~l~~P----i~QC~nGHlaCssC~~---~~~~~CP~Cr~~~g 91 (299)
T KOG3002|consen 48 LLDCPVCFNPLSPP----IFQCDNGHLACSSCRT---KVSNKCPTCRLPIG 91 (299)
T ss_pred hccCchhhccCccc----ceecCCCcEehhhhhh---hhcccCCccccccc
Confidence 46799999999987 6778 7999999864 45778999998874
No 79
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=90.37 E-value=0.11 Score=61.16 Aligned_cols=43 Identities=30% Similarity=0.749 Sum_probs=35.2
Q ss_pred CccccccCCCCCCCceEEeccCCccchhhHHHHHhc--CCCCCccccCC
Q 005612 641 EACAICLDNPSIGDSIRHLPCLHKFHKDCIDPWLSR--RPSCPVCKSSI 687 (688)
Q Consensus 641 eeC~ICLEeF~~Gd~Vr~LPCgHvFH~sCI~~WLk~--k~SCPVCR~~L 687 (688)
..|.||++ .+.....+|+|.||.+|+..-+.. ...||+||..+
T Consensus 455 ~~c~ic~~----~~~~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l 499 (674)
T KOG1001|consen 455 HWCHICCD----LDSFFITRCGHDFCVECLKKSIQQSENAPCPLCRNVL 499 (674)
T ss_pred cccccccc----cccceeecccchHHHHHHHhccccccCCCCcHHHHHH
Confidence 68999999 355678889999999999988775 34699998643
No 80
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=90.17 E-value=0.17 Score=55.31 Aligned_cols=50 Identities=22% Similarity=0.570 Sum_probs=34.9
Q ss_pred CCCCCccccccCCCCCCCc-eEEeccCCccchhhHHHHHh-cCCCCCccccC
Q 005612 637 DNFEEACAICLDNPSIGDS-IRHLPCLHKFHKDCIDPWLS-RRPSCPVCKSS 686 (688)
Q Consensus 637 ~~~deeC~ICLEeF~~Gd~-Vr~LPCgHvFH~sCI~~WLk-~k~SCPVCR~~ 686 (688)
++.++.|+.|+|++...++ ..-.|||-..|..|....-. -+..||.||..
T Consensus 11 edeed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~ 62 (480)
T COG5175 11 EDEEDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRK 62 (480)
T ss_pred ccccccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhh
Confidence 3445669999999987764 44456888777777443322 36789999864
No 81
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=90.15 E-value=0.12 Score=54.94 Aligned_cols=47 Identities=26% Similarity=0.593 Sum_probs=39.2
Q ss_pred CCCccccccCCCCCCC-ceEEeccCCccchhhHHHHHhcCCCCCcccc
Q 005612 639 FEEACAICLDNPSIGD-SIRHLPCLHKFHKDCIDPWLSRRPSCPVCKS 685 (688)
Q Consensus 639 ~deeC~ICLEeF~~Gd-~Vr~LPCgHvFH~sCI~~WLk~k~SCPVCR~ 685 (688)
....|+||.+.+.... .+..++|+|.-|..|+.......-+||+|.+
T Consensus 157 ~~~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~y~CP~C~~ 204 (276)
T KOG1940|consen 157 SEFNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEGYTCPICSK 204 (276)
T ss_pred ccCCCchhHHHhccccccCCccCcccchHHHHHHHHhccCCCCCcccc
Confidence 3455999999876664 5667899999999999998887899999976
No 82
>PF08746 zf-RING-like: RING-like domain; InterPro: IPR014857 This is a zinc finger domain that is related to the C3HC4 RING finger domain (IPR001841 from INTERPRO). ; PDB: 3NW0_A 2CT0_A.
Probab=89.94 E-value=0.1 Score=40.96 Aligned_cols=41 Identities=27% Similarity=0.788 Sum_probs=24.3
Q ss_pred cccccCCCCCCCceEEeccCCccchhhHHHHHhcCC--CCCcc
Q 005612 643 CAICLDNPSIGDSIRHLPCLHKFHKDCIDPWLSRRP--SCPVC 683 (688)
Q Consensus 643 C~ICLEeF~~Gd~Vr~LPCgHvFH~sCI~~WLk~k~--SCPVC 683 (688)
|.+|.+-...|..-..-.|.=.+|..|+..+++... .||.|
T Consensus 1 C~~C~~iv~~G~~C~~~~C~~r~H~~C~~~y~r~~~~~~CP~C 43 (43)
T PF08746_consen 1 CEACKEIVTQGQRCSNRDCNVRLHDDCFKKYFRHRSNPKCPNC 43 (43)
T ss_dssp -TTT-SB-SSSEE-SS--S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred CcccchhHeeeccCCCCccCchHHHHHHHHHHhcCCCCCCcCC
Confidence 778999888883222223888999999999999755 79988
No 83
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=89.07 E-value=0.16 Score=54.96 Aligned_cols=41 Identities=29% Similarity=0.651 Sum_probs=29.2
Q ss_pred ccccccCCCCCCCceEEeccCCccchhhHHHHHhcCCCCCccccC
Q 005612 642 ACAICLDNPSIGDSIRHLPCLHKFHKDCIDPWLSRRPSCPVCKSS 686 (688)
Q Consensus 642 eC~ICLEeF~~Gd~Vr~LPCgHvFH~sCI~~WLk~k~SCPVCR~~ 686 (688)
.|--|-..+.. .-+.+||+|+||.+|... ..-+.||.|-..
T Consensus 92 fCd~Cd~PI~I--YGRmIPCkHvFCl~CAr~--~~dK~Cp~C~d~ 132 (389)
T KOG2932|consen 92 FCDRCDFPIAI--YGRMIPCKHVFCLECARS--DSDKICPLCDDR 132 (389)
T ss_pred eecccCCccee--eecccccchhhhhhhhhc--CccccCcCcccH
Confidence 46666555432 347889999999999643 446789999654
No 84
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=89.00 E-value=0.21 Score=59.64 Aligned_cols=41 Identities=24% Similarity=0.801 Sum_probs=33.0
Q ss_pred CccccccCCCCCCCceEEeccCCccchhhHHHHHhcCCCCCccccC
Q 005612 641 EACAICLDNPSIGDSIRHLPCLHKFHKDCIDPWLSRRPSCPVCKSS 686 (688)
Q Consensus 641 eeC~ICLEeF~~Gd~Vr~LPCgHvFH~sCI~~WLk~k~SCPVCR~~ 686 (688)
..|..|--.+..+ .+..-|+|.||..|+. .....||-|+-+
T Consensus 841 skCs~C~~~LdlP--~VhF~CgHsyHqhC~e---~~~~~CP~C~~e 881 (933)
T KOG2114|consen 841 SKCSACEGTLDLP--FVHFLCGHSYHQHCLE---DKEDKCPKCLPE 881 (933)
T ss_pred eeecccCCccccc--eeeeecccHHHHHhhc---cCcccCCccchh
Confidence 5799998887765 5566799999999998 456779999763
No 85
>PF10272 Tmpp129: Putative transmembrane protein precursor; InterPro: IPR018801 This entry consists of proteins conserved from worms to humans. They are purported to be transmembrane protein-precursors but their function is unknown.
Probab=88.05 E-value=0.55 Score=51.76 Aligned_cols=27 Identities=22% Similarity=0.935 Sum_probs=21.0
Q ss_pred cCCccchhhHHHHHhc-------------CCCCCccccCC
Q 005612 661 CLHKFHKDCIDPWLSR-------------RPSCPVCKSSI 687 (688)
Q Consensus 661 CgHvFH~sCI~~WLk~-------------k~SCPVCR~~L 687 (688)
|--.+|.+|+-+||.. +-.||+||+.+
T Consensus 311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~F 350 (358)
T PF10272_consen 311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKF 350 (358)
T ss_pred ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccc
Confidence 4566899999998753 34799999875
No 86
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=87.92 E-value=0.24 Score=59.46 Aligned_cols=34 Identities=29% Similarity=0.606 Sum_probs=28.6
Q ss_pred CCCccccccCCCCCCCceEEeccCCccchhhHHHH
Q 005612 639 FEEACAICLDNPSIGDSIRHLPCLHKFHKDCIDPW 673 (688)
Q Consensus 639 ~deeC~ICLEeF~~Gd~Vr~LPCgHvFH~sCI~~W 673 (688)
.++.|.+|...+... ...+.||+|.||++||.+-
T Consensus 816 p~d~C~~C~~~ll~~-pF~vf~CgH~FH~~Cl~~~ 849 (911)
T KOG2034|consen 816 PQDSCDHCGRPLLIK-PFYVFPCGHCFHRDCLIRH 849 (911)
T ss_pred CccchHHhcchhhcC-cceeeeccchHHHHHHHHH
Confidence 468899999988764 5667899999999999864
No 87
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=86.57 E-value=0.17 Score=62.58 Aligned_cols=42 Identities=38% Similarity=0.748 Sum_probs=36.1
Q ss_pred CccccccCCCC-CCCceEEeccCCccchhhHHHHHhcCCCCCcccc
Q 005612 641 EACAICLDNPS-IGDSIRHLPCLHKFHKDCIDPWLSRRPSCPVCKS 685 (688)
Q Consensus 641 eeC~ICLEeF~-~Gd~Vr~LPCgHvFH~sCI~~WLk~k~SCPVCR~ 685 (688)
..|.||++.+. .+ .+.-|+|.||..|+..|+..+..||+|..
T Consensus 1154 ~~c~ic~dil~~~~---~I~~cgh~~c~~c~~~~l~~~s~~~~~ks 1196 (1394)
T KOG0298|consen 1154 FVCEICLDILRNQG---GIAGCGHEPCCRCDELWLYASSRCPICKS 1196 (1394)
T ss_pred cchHHHHHHHHhcC---CeeeechhHhhhHHHHHHHHhccCcchhh
Confidence 47999999887 33 34569999999999999999999999964
No 88
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=84.65 E-value=0.48 Score=39.67 Aligned_cols=42 Identities=26% Similarity=0.624 Sum_probs=30.9
Q ss_pred CccccccCCCCCCCceEEeccCCccchhhHHHHHhcCCCCCccccCC
Q 005612 641 EACAICLDNPSIGDSIRHLPCLHKFHKDCIDPWLSRRPSCPVCKSSI 687 (688)
Q Consensus 641 eeC~ICLEeF~~Gd~Vr~LPCgHvFH~sCI~~WLk~k~SCPVCR~~L 687 (688)
..|..|...-. +-..+||+|+.+..|..- .+-+-||+|-.++
T Consensus 8 ~~~~~~~~~~~---~~~~~pCgH~I~~~~f~~--~rYngCPfC~~~~ 49 (55)
T PF14447_consen 8 QPCVFCGFVGT---KGTVLPCGHLICDNCFPG--ERYNGCPFCGTPF 49 (55)
T ss_pred eeEEEcccccc---ccccccccceeeccccCh--hhccCCCCCCCcc
Confidence 45666766533 347899999999999654 4567799998765
No 89
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=83.44 E-value=0.58 Score=47.87 Aligned_cols=38 Identities=29% Similarity=0.717 Sum_probs=28.2
Q ss_pred cccccCCCCCCCceEEeccCCc-cchhhHHHHHhcCCCCCccccCC
Q 005612 643 CAICLDNPSIGDSIRHLPCLHK-FHKDCIDPWLSRRPSCPVCKSSI 687 (688)
Q Consensus 643 C~ICLEeF~~Gd~Vr~LPCgHv-FH~sCI~~WLk~k~SCPVCR~~L 687 (688)
|-+|-+. +..|..|||.|+ +|..|=.. ...||+|+...
T Consensus 161 Cr~C~~~---~~~VlllPCrHl~lC~~C~~~----~~~CPiC~~~~ 199 (207)
T KOG1100|consen 161 CRKCGER---EATVLLLPCRHLCLCGICDES----LRICPICRSPK 199 (207)
T ss_pred ceecCcC---CceEEeecccceEeccccccc----CccCCCCcChh
Confidence 7777775 456888999875 77788543 55699998764
No 90
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=82.91 E-value=0.58 Score=55.65 Aligned_cols=27 Identities=26% Similarity=0.530 Sum_probs=23.7
Q ss_pred eEEeccCCccchhhHHHHHhcCCCCCc
Q 005612 656 IRHLPCLHKFHKDCIDPWLSRRPSCPV 682 (688)
Q Consensus 656 Vr~LPCgHvFH~sCI~~WLk~k~SCPV 682 (688)
.....|+|+.|.+|...|++....||-
T Consensus 1043 ~~Cg~C~Hv~H~sc~~eWf~~gd~Cps 1069 (1081)
T KOG0309|consen 1043 NFCGTCGHVGHTSCMMEWFRTGDVCPS 1069 (1081)
T ss_pred hhhccccccccHHHHHHHHhcCCcCCC
Confidence 445669999999999999999999984
No 91
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=82.33 E-value=0.54 Score=48.51 Aligned_cols=47 Identities=30% Similarity=0.800 Sum_probs=35.4
Q ss_pred CCccccccCCCCCCCc-eEEecc-----CCccchhhHHHHHh--cCCCCCccccC
Q 005612 640 EEACAICLDNPSIGDS-IRHLPC-----LHKFHKDCIDPWLS--RRPSCPVCKSS 686 (688)
Q Consensus 640 deeC~ICLEeF~~Gd~-Vr~LPC-----gHvFH~sCI~~WLk--~k~SCPVCR~~ 686 (688)
+..|-||.++...... ....|| ....|..|+..|+. .+..|.+|...
T Consensus 78 ~~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~ 132 (323)
T KOG1609|consen 78 GPICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIKGNITCEICKSF 132 (323)
T ss_pred CCcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhccccCeeeeccccc
Confidence 4689999998765432 346676 25689999999998 46789999764
No 92
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=78.19 E-value=2.8 Score=35.09 Aligned_cols=33 Identities=30% Similarity=0.662 Sum_probs=28.5
Q ss_pred CCccccccCCCCCCCceEEec-cCCccchhhHHH
Q 005612 640 EEACAICLDNPSIGDSIRHLP-CLHKFHKDCIDP 672 (688)
Q Consensus 640 deeC~ICLEeF~~Gd~Vr~LP-CgHvFH~sCI~~ 672 (688)
...|.+|-+.|..++.+++-| |+-.||+.|-..
T Consensus 5 ~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~ 38 (54)
T PF14446_consen 5 GCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK 38 (54)
T ss_pred CccChhhCCcccCCCCEEECCCCCCcccHHHHhh
Confidence 467999999999888888888 999999999543
No 93
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=78.09 E-value=1.7 Score=48.50 Aligned_cols=46 Identities=22% Similarity=0.361 Sum_probs=38.7
Q ss_pred CCccccccCCCCCCCceEEeccCCccchhhHHHHHhcC---CCCCcccc
Q 005612 640 EEACAICLDNPSIGDSIRHLPCLHKFHKDCIDPWLSRR---PSCPVCKS 685 (688)
Q Consensus 640 deeC~ICLEeF~~Gd~Vr~LPCgHvFH~sCI~~WLk~k---~SCPVCR~ 685 (688)
-..|||=.+.-...+.-..|.|||+-.++-|.+-.+.. ..||.|=.
T Consensus 334 vF~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPYCP~ 382 (394)
T KOG2817|consen 334 VFICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGSQSFKCPYCPV 382 (394)
T ss_pred eeecccchhhccCCCCCeeeeccceecHHHHHHHhhCCCeeeeCCCCCc
Confidence 45799999888888888999999999999999877652 57999943
No 94
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=77.68 E-value=1 Score=53.83 Aligned_cols=47 Identities=13% Similarity=0.289 Sum_probs=34.3
Q ss_pred CCccccccCCCCCCC-ceEEec---cCCccchhhHHHHHhc------CCCCCccccC
Q 005612 640 EEACAICLDNPSIGD-SIRHLP---CLHKFHKDCIDPWLSR------RPSCPVCKSS 686 (688)
Q Consensus 640 deeC~ICLEeF~~Gd-~Vr~LP---CgHvFH~sCI~~WLk~------k~SCPVCR~~ 686 (688)
...|.||.-+|.... ..-.+| |.|.||..||..|+.+ +-.|++|..-
T Consensus 96 s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~C 152 (1134)
T KOG0825|consen 96 SDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEEC 152 (1134)
T ss_pred ccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHH
Confidence 456888887777632 334556 9999999999999864 4468888653
No 95
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=74.22 E-value=1.5 Score=46.76 Aligned_cols=49 Identities=27% Similarity=0.763 Sum_probs=35.1
Q ss_pred CCCCccccccCCCCCCCce-EEecc-----CCccchhhHHHHHhcCC--------CCCccccC
Q 005612 638 NFEEACAICLDNPSIGDSI-RHLPC-----LHKFHKDCIDPWLSRRP--------SCPVCKSS 686 (688)
Q Consensus 638 ~~deeC~ICLEeF~~Gd~V-r~LPC-----gHvFH~sCI~~WLk~k~--------SCPVCR~~ 686 (688)
..+..|=||+..=++.-.. -+=|| .|-.|..|+..|+..+. +||-|+.+
T Consensus 18 e~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTE 80 (293)
T KOG3053|consen 18 ELERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTE 80 (293)
T ss_pred ccceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcch
Confidence 3467899999875544322 23466 58899999999997543 59999864
No 96
>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=72.90 E-value=1.1 Score=36.23 Aligned_cols=43 Identities=23% Similarity=0.579 Sum_probs=22.0
Q ss_pred CccccccCCCCCCCceEEeccCCccchhhHHHHHhc-----CCCCCccccC
Q 005612 641 EACAICLDNPSIGDSIRHLPCLHKFHKDCIDPWLSR-----RPSCPVCKSS 686 (688)
Q Consensus 641 eeC~ICLEeF~~Gd~Vr~LPCgHvFH~sCI~~WLk~-----k~SCPVCR~~ 686 (688)
..|+|....+..+ ++-..|.|.-+.+ +..||.. .-.||+|.++
T Consensus 3 L~CPls~~~i~~P--~Rg~~C~H~~CFD-l~~fl~~~~~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 3 LRCPLSFQRIRIP--VRGKNCKHLQCFD-LESFLESNQRTPKWKCPICNKP 50 (50)
T ss_dssp SB-TTTSSB-SSE--EEETT--SS--EE-HHHHHHHHHHS---B-TTT---
T ss_pred eeCCCCCCEEEeC--ccCCcCcccceEC-HHHHHHHhhccCCeECcCCcCc
Confidence 3688888887654 6666799986555 5667764 2359999864
No 97
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=72.32 E-value=1.6 Score=48.38 Aligned_cols=38 Identities=32% Similarity=0.670 Sum_probs=28.3
Q ss_pred CCCccccccCCC-CCCCceEEeccCCccchhhHHHHHhc
Q 005612 639 FEEACAICLDNP-SIGDSIRHLPCLHKFHKDCIDPWLSR 676 (688)
Q Consensus 639 ~deeC~ICLEeF-~~Gd~Vr~LPCgHvFH~sCI~~WLk~ 676 (688)
...+|.||+.++ ........+-|+|.||.+|+.+.+..
T Consensus 145 ~~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~iev 183 (384)
T KOG1812|consen 145 PKEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIEV 183 (384)
T ss_pred ccccCccCccccccHhhhHHHhcccchhhhHHhHHHhhh
Confidence 457899999444 44344445669999999999988874
No 98
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=72.20 E-value=0.94 Score=53.54 Aligned_cols=45 Identities=33% Similarity=0.675 Sum_probs=36.3
Q ss_pred CCccccccCCCCCCCceEEeccCCccchhhHHHHHhc---CCCCCccccCC
Q 005612 640 EEACAICLDNPSIGDSIRHLPCLHKFHKDCIDPWLSR---RPSCPVCKSSI 687 (688)
Q Consensus 640 deeC~ICLEeF~~Gd~Vr~LPCgHvFH~sCI~~WLk~---k~SCPVCR~~L 687 (688)
..+|+||+..+... ..+.|.|.|+..|+..-|.. ...||+|+..+
T Consensus 21 ~lEc~ic~~~~~~p---~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~ 68 (684)
T KOG4362|consen 21 ILECPICLEHVKEP---SLLKCDHIFLKFCLNKLFESKKGPKQCALCKSDI 68 (684)
T ss_pred hccCCceeEEeecc---chhhhhHHHHhhhhhceeeccCccccchhhhhhh
Confidence 46899999999877 56789999999998876654 45799998543
No 99
>PF03854 zf-P11: P-11 zinc finger; InterPro: IPR003224 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 RING-finger is a specialised type of Zn-finger of 40 to 60 residues that binds two atoms of zinc, and is probably involved in mediating protein-protein interactions [, , ]. There are two different variants, the C3HC4-type and a C3H2C3-type, which is clearly related despite the different cysteine/histidine pattern. The latter type is sometimes referred to as 'RING-H2 finger'. The RING domain is a protein interaction domain which has been implicated in a range of diverse biological processes. Several 3D-structures for RING-fingers are known [, ]. The 3D structure of the zinc ligation system is unique to the RING domain and is referred to as the 'cross-brace' motif. The spacing of the cysteines in such a domain is: C-x(2)-C-x(9 to 39)-C-x(1 to 3)-H-x(2 to 3)-C-x(2)-C-x(4 to 48)-C-x(2)-C Metal ligand pairs one and three co-ordinate to bind one zinc ion, whilst pairs two and four bind the second. This entry represents RING finger protein Z, a small polypeptide found in some negative-strand RNA viruses including Lassa fever virus, which plays a crucial role in virion assembly and budding. RING finger Z has been shown to interact with several host proteins, including promyelocytic leukemia protein and the eukaryotic translation initiation factor 4E [, ]. It is sufficient in the absence of any other viral proteins to release virus-like particles from the infected cell []. This protein is also responsible for arenavirus superinfection exclusion; expression of this protein in a host cell strongly and specifically inhibits areanavirus transcription and replication []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003723 RNA binding, 0008270 zinc ion binding; PDB: 2KO5_A.
Probab=69.53 E-value=2.3 Score=35.02 Aligned_cols=41 Identities=27% Similarity=0.657 Sum_probs=25.5
Q ss_pred ccccccCCCCCCCceEEeccC-CccchhhHHHHHhcCCCCCccccCC
Q 005612 642 ACAICLDNPSIGDSIRHLPCL-HKFHKDCIDPWLSRRPSCPVCKSSI 687 (688)
Q Consensus 642 eC~ICLEeF~~Gd~Vr~LPCg-HvFH~sCI~~WLk~k~SCPVCR~~L 687 (688)
.|--|+-.... .+.|. |..|..|+..-|.....||+|..+|
T Consensus 4 nCKsCWf~~k~-----Li~C~dHYLCl~CLt~ml~~s~~C~iC~~~L 45 (50)
T PF03854_consen 4 NCKSCWFANKG-----LIKCSDHYLCLNCLTLMLSRSDRCPICGKPL 45 (50)
T ss_dssp ---SS-S--SS-----EEE-SS-EEEHHHHHHT-SSSSEETTTTEE-
T ss_pred cChhhhhcCCC-----eeeecchhHHHHHHHHHhccccCCCcccCcC
Confidence 35556655332 45685 9999999999999999999998875
No 100
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=68.77 E-value=1.9 Score=50.27 Aligned_cols=42 Identities=31% Similarity=0.746 Sum_probs=28.3
Q ss_pred CCCccccccC-----CCCCCCceEEeccCCccchhhHHHHHhcCCCCCcc
Q 005612 639 FEEACAICLD-----NPSIGDSIRHLPCLHKFHKDCIDPWLSRRPSCPVC 683 (688)
Q Consensus 639 ~deeC~ICLE-----eF~~Gd~Vr~LPCgHvFH~sCI~~WLk~k~SCPVC 683 (688)
....|.||.. .|......+..-|+++||..|... .+..||-|
T Consensus 510 ~gfiCe~Cq~~~iiyPF~~~~~~rC~~C~avfH~~C~~r---~s~~CPrC 556 (580)
T KOG1829|consen 510 KGFICELCQHNDIIYPFETRNTRRCSTCLAVFHKKCLRR---KSPCCPRC 556 (580)
T ss_pred CeeeeeeccCCCcccccccccceeHHHHHHHHHHHHHhc---cCCCCCch
Confidence 3567888844 244334455566999999999543 34449999
No 101
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=64.68 E-value=3.3 Score=45.02 Aligned_cols=27 Identities=19% Similarity=0.721 Sum_probs=21.5
Q ss_pred cCCccchhhHHHHHh-------------cCCCCCccccCC
Q 005612 661 CLHKFHKDCIDPWLS-------------RRPSCPVCKSSI 687 (688)
Q Consensus 661 CgHvFH~sCI~~WLk-------------~k~SCPVCR~~L 687 (688)
|.-.+|.+|+-+||. .+-+||+||+.+
T Consensus 325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~f 364 (381)
T KOG3899|consen 325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNF 364 (381)
T ss_pred cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhce
Confidence 566789999998874 355899999865
No 102
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=63.17 E-value=9.4 Score=42.89 Aligned_cols=38 Identities=26% Similarity=0.515 Sum_probs=31.9
Q ss_pred CCCCCccccccCCCCCCCceEEeccCCccchhhHHHHHhc
Q 005612 637 DNFEEACAICLDNPSIGDSIRHLPCLHKFHKDCIDPWLSR 676 (688)
Q Consensus 637 ~~~deeC~ICLEeF~~Gd~Vr~LPCgHvFH~sCI~~WLk~ 676 (688)
......|-||.+.+.. .+..+.|+|.|+..|+...|..
T Consensus 67 ~~~~~~c~ic~~~~~~--~~~~~~c~H~~c~~cw~~yl~~ 104 (444)
T KOG1815|consen 67 KKGDVQCGICVESYDG--EIIGLGCGHPFCPPCWTGYLGT 104 (444)
T ss_pred CCccccCCcccCCCcc--hhhhcCCCcHHHHHHHHHHhhh
Confidence 3456789999999876 5667889999999999998875
No 103
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=61.52 E-value=2.8 Score=48.13 Aligned_cols=41 Identities=37% Similarity=0.895 Sum_probs=35.2
Q ss_pred CCCccccccCCCCCCCceEEeccCCccchhhHHHHHhcCCCCCccccC
Q 005612 639 FEEACAICLDNPSIGDSIRHLPCLHKFHKDCIDPWLSRRPSCPVCKSS 686 (688)
Q Consensus 639 ~deeC~ICLEeF~~Gd~Vr~LPCgHvFH~sCI~~WLk~k~SCPVCR~~ 686 (688)
....|.||++.. ..+..+|. |..|+..|+..+..||+|+..
T Consensus 478 ~~~~~~~~~~~~----~~~~~~~~---~~~~l~~~~~~~~~~pl~~~~ 518 (543)
T KOG0802|consen 478 PNDVCAICYQEM----SARITPCS---HALCLRKWLYVQEVCPLCHTY 518 (543)
T ss_pred ccCcchHHHHHH----Hhcccccc---chhHHHhhhhhccccCCCchh
Confidence 357899999998 44677888 999999999999999999764
No 104
>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=61.36 E-value=3.7 Score=49.38 Aligned_cols=43 Identities=30% Similarity=0.617 Sum_probs=32.1
Q ss_pred CCccccccCCCCCC----CceEEeccCCccchhhHHHHHhcCCCCCcc
Q 005612 640 EEACAICLDNPSIG----DSIRHLPCLHKFHKDCIDPWLSRRPSCPVC 683 (688)
Q Consensus 640 deeC~ICLEeF~~G----d~Vr~LPCgHvFH~sCI~~WLk~k~SCPVC 683 (688)
+.-|.-|.+..... ..++++-|+|.||+.|+.--+.++. |-.|
T Consensus 784 e~rc~~c~~~~l~~~~~~~~~~v~~c~h~yhk~c~~~~~~~~~-~~~~ 830 (846)
T KOG2066|consen 784 EERCSSCFEPNLPSGAAFDSVVVFHCGHMYHKECLMMESLRNA-CNIE 830 (846)
T ss_pred hhhhhhhcccccccCcccceeeEEEccchhhhcccccHHHhcc-cChh
Confidence 45799999986533 3677889999999999987655544 5554
No 105
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=61.06 E-value=6.3 Score=47.77 Aligned_cols=50 Identities=22% Similarity=0.642 Sum_probs=35.7
Q ss_pred CCCCccccccCCCCCCCceEEe-ccC---CccchhhHHHHHhc--CCCCCccccCC
Q 005612 638 NFEEACAICLDNPSIGDSIRHL-PCL---HKFHKDCIDPWLSR--RPSCPVCKSSI 687 (688)
Q Consensus 638 ~~deeC~ICLEeF~~Gd~Vr~L-PCg---HvFH~sCI~~WLk~--k~SCPVCR~~L 687 (688)
.++..|-||..+=..++.+-.- .|. ...|.+|+..|+.. +..|-+|..++
T Consensus 10 ~d~~~CRICr~e~~~d~pLfhPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~ 65 (1175)
T COG5183 10 EDKRSCRICRTEDIRDDPLFHPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEY 65 (1175)
T ss_pred ccchhceeecCCCCCCCcCcccccccchhHHHHHHHHHHHHhcCCCcceeeeccee
Confidence 3458899999886666555211 121 34899999999985 56799998764
No 106
>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=60.86 E-value=3.7 Score=42.84 Aligned_cols=43 Identities=35% Similarity=0.782 Sum_probs=35.4
Q ss_pred CCccccccCCCCCCCceEEeccCCccchhhHHHHHhcCCCCCccc
Q 005612 640 EEACAICLDNPSIGDSIRHLPCLHKFHKDCIDPWLSRRPSCPVCK 684 (688)
Q Consensus 640 deeC~ICLEeF~~Gd~Vr~LPCgHvFH~sCI~~WLk~k~SCPVCR 684 (688)
-..|.+|.+-.-.+ ++.=.|+-.||..|+..+|.....||.|.
T Consensus 181 lk~Cn~Ch~LvIqg--~rCg~c~i~~h~~c~qty~q~~~~cphc~ 223 (235)
T KOG4718|consen 181 LKNCNLCHCLVIQG--IRCGSCNIQYHRGCIQTYLQRRDICPHCG 223 (235)
T ss_pred HHHHhHhHHHhhee--eccCcccchhhhHHHHHHhcccCcCCchh
Confidence 35799999987766 23335888999999999999999999993
No 107
>KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=59.62 E-value=6.4 Score=47.30 Aligned_cols=40 Identities=18% Similarity=0.336 Sum_probs=29.3
Q ss_pred CccccccCCCCCCCceEEec-cCCccchhhHHHHHhcCCCCCc
Q 005612 641 EACAICLDNPSIGDSIRHLP-CLHKFHKDCIDPWLSRRPSCPV 682 (688)
Q Consensus 641 eeC~ICLEeF~~Gd~Vr~LP-CgHvFH~sCI~~WLk~k~SCPV 682 (688)
..|.+|-..+.. . ....+ |+|.-|.+|+..||....-||.
T Consensus 780 ~~CtVC~~vi~G-~-~~~c~~C~H~gH~sh~~sw~~~~s~ca~ 820 (839)
T KOG0269|consen 780 AKCTVCDLVIRG-V-DVWCQVCGHGGHDSHLKSWFFKASPCAK 820 (839)
T ss_pred cCceeecceeee-e-EeecccccccccHHHHHHHHhcCCCCcc
Confidence 358888766442 1 22223 9999999999999999888876
No 108
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=56.64 E-value=5.8 Score=42.36 Aligned_cols=33 Identities=15% Similarity=0.210 Sum_probs=28.7
Q ss_pred CccccccCCCCCCCceEEeccCCccchhhHHHHHhc
Q 005612 641 EACAICLDNPSIGDSIRHLPCLHKFHKDCIDPWLSR 676 (688)
Q Consensus 641 eeC~ICLEeF~~Gd~Vr~LPCgHvFH~sCI~~WLk~ 676 (688)
++|+.||..+..+ ++.|=||+|+++||.+++..
T Consensus 44 dcCsLtLqPc~dP---vit~~GylfdrEaILe~ila 76 (303)
T KOG3039|consen 44 DCCSLTLQPCRDP---VITPDGYLFDREAILEYILA 76 (303)
T ss_pred ceeeeecccccCC---ccCCCCeeeeHHHHHHHHHH
Confidence 5799999999887 67788999999999998753
No 109
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=54.11 E-value=6.1 Score=43.93 Aligned_cols=44 Identities=20% Similarity=0.446 Sum_probs=31.3
Q ss_pred CCccccccCCCCCCC--ceEEeccCCccchhhHHHHHhcCCCCCcc
Q 005612 640 EEACAICLDNPSIGD--SIRHLPCLHKFHKDCIDPWLSRRPSCPVC 683 (688)
Q Consensus 640 deeC~ICLEeF~~Gd--~Vr~LPCgHvFH~sCI~~WLk~k~SCPVC 683 (688)
-..|++|.-.+.... ....-.|+|.|+..|...|...+..|..|
T Consensus 306 wr~CpkC~~~ie~~~GCnhm~CrC~~~fcy~C~~~~~~~~~~~~~~ 351 (384)
T KOG1812|consen 306 WRQCPKCKFMIELSEGCNHMTCRCGHQFCYMCGGDWKTHNGECYEC 351 (384)
T ss_pred cCcCcccceeeeecCCcceEEeeccccchhhcCcchhhCCccccCc
Confidence 356888876654433 23333499999999999999888877544
No 110
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=52.42 E-value=9.7 Score=38.67 Aligned_cols=40 Identities=35% Similarity=0.800 Sum_probs=27.5
Q ss_pred CCccccccCC-----CCCCCceEEeccCCccchhhHHHHHhcCCCCCccc
Q 005612 640 EEACAICLDN-----PSIGDSIRHLPCLHKFHKDCIDPWLSRRPSCPVCK 684 (688)
Q Consensus 640 deeC~ICLEe-----F~~Gd~Vr~LPCgHvFH~sCI~~WLk~k~SCPVCR 684 (688)
...|-||-.. |.....++.-.|+-+||..|.. +..||-|-
T Consensus 152 GfiCe~C~~~~~IfPF~~~~~~~C~~C~~v~H~~C~~-----~~~CpkC~ 196 (202)
T PF13901_consen 152 GFICEICNSDDIIFPFQIDTTVRCPKCKSVFHKSCFR-----KKSCPKCA 196 (202)
T ss_pred CCCCccCCCCCCCCCCCCCCeeeCCcCccccchhhcC-----CCCCCCcH
Confidence 4678899752 4443333333499999999976 26799993
No 111
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=50.50 E-value=8.7 Score=41.79 Aligned_cols=37 Identities=19% Similarity=0.388 Sum_probs=29.0
Q ss_pred CCccccccCCCCCCCceEEec--cCCccchhhHHHHHhcC
Q 005612 640 EEACAICLDNPSIGDSIRHLP--CLHKFHKDCIDPWLSRR 677 (688)
Q Consensus 640 deeC~ICLEeF~~Gd~Vr~LP--CgHvFH~sCI~~WLk~k 677 (688)
..+|.+|.|.+++...| +.| =.|.||+.|-..-++.+
T Consensus 268 pLcCTLC~ERLEDTHFV-QCPSVp~HKFCFPCSResIK~Q 306 (352)
T KOG3579|consen 268 PLCCTLCHERLEDTHFV-QCPSVPSHKFCFPCSRESIKQQ 306 (352)
T ss_pred ceeehhhhhhhccCcee-ecCCCcccceecccCHHHHHhh
Confidence 37899999999875433 444 38999999999988864
No 112
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=50.42 E-value=11 Score=37.00 Aligned_cols=49 Identities=24% Similarity=0.496 Sum_probs=33.2
Q ss_pred CCCccccccCCCCCCCceEEec-cCCccchhhHHHHHh---cCCCCCccccCC
Q 005612 639 FEEACAICLDNPSIGDSIRHLP-CLHKFHKDCIDPWLS---RRPSCPVCKSSI 687 (688)
Q Consensus 639 ~deeC~ICLEeF~~Gd~Vr~LP-CgHvFH~sCI~~WLk---~k~SCPVCR~~L 687 (688)
.-.+|.||.|.-.+..-+.--. ||-..|.-|--..++ ....||+|+..+
T Consensus 79 ~lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSF 131 (140)
T PF05290_consen 79 KLYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSF 131 (140)
T ss_pred CceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccCCCCCcccccc
Confidence 4578999999866552221111 898888887554444 367899998754
No 113
>KOG3005 consensus GIY-YIG type nuclease [General function prediction only]
Probab=49.40 E-value=7.3 Score=41.87 Aligned_cols=47 Identities=26% Similarity=0.492 Sum_probs=34.0
Q ss_pred CccccccCCCCCCCceE-Eec---cCCccchhhHHHHHhc---------CCCCCccccCC
Q 005612 641 EACAICLDNPSIGDSIR-HLP---CLHKFHKDCIDPWLSR---------RPSCPVCKSSI 687 (688)
Q Consensus 641 eeC~ICLEeF~~Gd~Vr-~LP---CgHvFH~sCI~~WLk~---------k~SCPVCR~~L 687 (688)
.+|-+|.+++...+..+ ..+ |.-.+|..|+..-+.. ...||.|++.+
T Consensus 183 ~~celc~~ei~e~~~~~a~c~~~~c~~~~h~~CLa~~~~~~e~g~~~p~eg~cp~C~~~~ 242 (276)
T KOG3005|consen 183 VECELCEKEILETDWSRATCPNPDCDSLNHLTCLAEELLEVEPGQLIPLEGMCPKCEKFL 242 (276)
T ss_pred hhhHHHHHHhccccceeccCCCCCCCchhhhhhhhHHHhccCCCceeccCCCCCchhcee
Confidence 58999999995444333 223 8889999999985442 45799998754
No 114
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=44.69 E-value=14 Score=40.80 Aligned_cols=44 Identities=18% Similarity=0.311 Sum_probs=35.0
Q ss_pred CCccccccCCCCCCCceEEeccCCccchhhHHHHHhc---CCCCCcc
Q 005612 640 EEACAICLDNPSIGDSIRHLPCLHKFHKDCIDPWLSR---RPSCPVC 683 (688)
Q Consensus 640 deeC~ICLEeF~~Gd~Vr~LPCgHvFH~sCI~~WLk~---k~SCPVC 683 (688)
-..||+-.+.-...+.-+.|.|||+.-.+-+...-+. ...||.|
T Consensus 336 ~FiCPVlKe~~t~ENpP~ml~CgHVIskeal~~LS~nG~~~FKCPYC 382 (396)
T COG5109 336 LFICPVLKELCTDENPPVMLECGHVISKEALSVLSQNGVLSFKCPYC 382 (396)
T ss_pred eeeccccHhhhcccCCCeeeeccceeeHHHHHHHhhcCcEEeeCCCC
Confidence 3579998887777777789999999999888776553 4569999
No 115
>smart00132 LIM Zinc-binding domain present in Lin-11, Isl-1, Mec-3. Zinc-binding domain family. Some LIM domains bind protein partners via tyrosine-containing motifs. LIM domains are found in many key regulators of developmental pathways.
Probab=44.06 E-value=24 Score=25.10 Aligned_cols=37 Identities=22% Similarity=0.506 Sum_probs=24.9
Q ss_pred ccccccCCCCCCCceEEeccCCccchhhHHHHHhcCCCCCccccCC
Q 005612 642 ACAICLDNPSIGDSIRHLPCLHKFHKDCIDPWLSRRPSCPVCKSSI 687 (688)
Q Consensus 642 eC~ICLEeF~~Gd~Vr~LPCgHvFH~sCI~~WLk~k~SCPVCR~~L 687 (688)
.|..|.+.+...... ...=+..||..|+ .|..|...|
T Consensus 1 ~C~~C~~~i~~~~~~-~~~~~~~~H~~Cf--------~C~~C~~~L 37 (39)
T smart00132 1 KCAGCGKPIRGGELV-LRALGKVWHPECF--------KCSKCGKPL 37 (39)
T ss_pred CccccCCcccCCcEE-EEeCCccccccCC--------CCcccCCcC
Confidence 388898888765232 2223678998884 578887765
No 116
>smart00249 PHD PHD zinc finger. The plant homeodomain (PHD) finger is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in epigenetics and chromatin-mediated transcriptional regulation. The PHD finger binds two zinc ions using the so-called 'cross-brace' motif and is thus structurally related to the KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=40.41 E-value=19 Score=39.64 Aligned_cols=47 Identities=26% Similarity=0.624 Sum_probs=35.1
Q ss_pred CCccccccCCCCCCCceEEec--cCCccchhhHHHHHhcCCCCCccccCC
Q 005612 640 EEACAICLDNPSIGDSIRHLP--CLHKFHKDCIDPWLSRRPSCPVCKSSI 687 (688)
Q Consensus 640 deeC~ICLEeF~~Gd~Vr~LP--CgHvFH~sCI~~WLk~k~SCPVCR~~L 687 (688)
...|+||.+.....+. -.|| |++.-|..|...-......||.||++.
T Consensus 249 ~~s~p~~~~~~~~~d~-~~lP~~~~~~~~l~~~~t~~~~~~~~~~~rk~~ 297 (327)
T KOG2068|consen 249 PPSCPICYEDLDLTDS-NFLPCPCGFRLCLFCHKTISDGDGRCPGCRKPY 297 (327)
T ss_pred CCCCCCCCCccccccc-ccccccccccchhhhhhcccccCCCCCccCCcc
Confidence 4679999998744432 2355 777777888887777899999999753
No 118
>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=33.20 E-value=14 Score=41.66 Aligned_cols=48 Identities=19% Similarity=0.549 Sum_probs=0.0
Q ss_pred CCccccccCC-------------CCCC---CceEEeccCCccchhhHHHHHhc---------CCCCCccccCC
Q 005612 640 EEACAICLDN-------------PSIG---DSIRHLPCLHKFHKDCIDPWLSR---------RPSCPVCKSSI 687 (688)
Q Consensus 640 deeC~ICLEe-------------F~~G---d~Vr~LPCgHvFH~sCI~~WLk~---------k~SCPVCR~~L 687 (688)
..+|++|+.. |..+ -....-||||+-=.....-|-.. +..||.|-.+|
T Consensus 328 ~r~CPlCr~~g~~V~L~mG~E~afyvD~~~pthaF~PCGHv~SekTa~yWs~i~lPhGt~~f~a~CPFCa~~L 400 (416)
T PF04710_consen 328 SRTCPLCRQVGPYVPLWMGCEPAFYVDSGPPTHAFNPCGHVCSEKTAKYWSQIPLPHGTHAFHAACPFCATPL 400 (416)
T ss_dssp -------------------------------------------------------------------------
T ss_pred cccCCCccccCCceeEeeccccceeecCCCCceeecccccccchhhhhhhhcCCCCCCcccccccCCcccCcc
Confidence 5689999875 1111 12445689999888899999653 34799997665
No 119
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=32.31 E-value=33 Score=38.10 Aligned_cols=47 Identities=21% Similarity=0.374 Sum_probs=33.0
Q ss_pred CCccccccCCCCCCCceEEeccCCccchhhHHHHHhcCCCCCccccC
Q 005612 640 EEACAICLDNPSIGDSIRHLPCLHKFHKDCIDPWLSRRPSCPVCKSS 686 (688)
Q Consensus 640 deeC~ICLEeF~~Gd~Vr~LPCgHvFH~sCI~~WLk~k~SCPVCR~~ 686 (688)
...|-.|..+.......+.-.|.+.||.+|=.--=..-..||-|...
T Consensus 330 ~~~Cf~C~~~~~~~~~y~C~~Ck~~FCldCDv~iHesLh~CpgCeh~ 376 (378)
T KOG2807|consen 330 SRFCFACQGELLSSGRYRCESCKNVFCLDCDVFIHESLHNCPGCEHK 376 (378)
T ss_pred CcceeeeccccCCCCcEEchhccceeeccchHHHHhhhhcCCCcCCC
Confidence 44599998887776666666699999999932222234579999653
No 120
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=31.79 E-value=36 Score=37.81 Aligned_cols=48 Identities=23% Similarity=0.615 Sum_probs=32.6
Q ss_pred CCccccccCCC---------------CCCC-ceEEeccCCccchhhHHHHHhc---------CCCCCccccCC
Q 005612 640 EEACAICLDNP---------------SIGD-SIRHLPCLHKFHKDCIDPWLSR---------RPSCPVCKSSI 687 (688)
Q Consensus 640 deeC~ICLEeF---------------~~Gd-~Vr~LPCgHvFH~sCI~~WLk~---------k~SCPVCR~~L 687 (688)
+.+|++|+..= ..|- ....-||||+--..-+.-|-.. +..||.|-..|
T Consensus 341 ~r~CPmC~~~gp~V~L~lG~E~~f~vD~G~pthaF~PCGHv~sekt~~YWs~iplPhGT~~f~a~CPFC~~~L 413 (429)
T KOG3842|consen 341 ERECPMCRVVGPYVPLWLGCEAGFYVDAGPPTHAFNPCGHVCSEKTVKYWSQIPLPHGTHAFHAACPFCATQL 413 (429)
T ss_pred cCcCCeeeeecceeeeeccccceeEecCCCcccccCCcccccchhhhhHhhcCcCCCccccccccCcchhhhh
Confidence 56899998751 1111 1234689999888888889763 44699996654
No 121
>PF00628 PHD: PHD-finger; InterPro: IPR019787 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 the PHD (homeodomain) zinc finger domain [,], which is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in chromatin-mediated transcriptional regulation. The PHD finger motif is reminiscent of, but distinct from the C3HC4 type RING finger. The function of this domain is not yet known but in analogy with the LIM domain it could be involved in protein-protein interaction and be important for the assembly or activity of multicomponent complexes involved in transcriptional activation or repression. Alternatively, the interactions could be intra-molecular and be important in maintaining the structural integrity of the protein. In similarity to the RING finger and the LIM domain, the PHD finger is thought to bind two zinc ions. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0005515 protein binding; PDB: 3ZVY_A 2LGG_A 3SOW_A 3SOU_B 3ASL_A 3ASK_A 3ZVZ_B 3T6R_A 2LGK_A 3SOX_B ....
Probab=31.75 E-value=25 Score=27.40 Aligned_cols=43 Identities=28% Similarity=0.671 Sum_probs=29.1
Q ss_pred ccccccCCCCCCCceEEeccCCccchhhHHHHHh------cCCCCCccc
Q 005612 642 ACAICLDNPSIGDSIRHLPCLHKFHKDCIDPWLS------RRPSCPVCK 684 (688)
Q Consensus 642 eC~ICLEeF~~Gd~Vr~LPCgHvFH~sCI~~WLk------~k~SCPVCR 684 (688)
.|.||......+..+.--.|.-.||..|+..=.. ..-.||.|+
T Consensus 1 ~C~vC~~~~~~~~~i~C~~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~ 49 (51)
T PF00628_consen 1 YCPVCGQSDDDGDMIQCDSCNRWYHQECVGPPEKAEEIPSGDWYCPNCR 49 (51)
T ss_dssp EBTTTTSSCTTSSEEEBSTTSCEEETTTSTSSHSHHSHHSSSBSSHHHH
T ss_pred eCcCCCCcCCCCCeEEcCCCChhhCcccCCCChhhccCCCCcEECcCCc
Confidence 3889999444443343334899999999875433 245788885
No 122
>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=31.68 E-value=16 Score=41.36 Aligned_cols=30 Identities=23% Similarity=0.557 Sum_probs=0.0
Q ss_pred CceEEeccCCccchhhHHHHHhc------CCCCCccccC
Q 005612 654 DSIRHLPCLHKFHKDCIDPWLSR------RPSCPVCKSS 686 (688)
Q Consensus 654 d~Vr~LPCgHvFH~sCI~~WLk~------k~SCPVCR~~ 686 (688)
+..+.|.|||++... .|-.. ...||+||..
T Consensus 302 qP~VYl~CGHVhG~h---~Wg~~~~~~~~~r~CPlCr~~ 337 (416)
T PF04710_consen 302 QPWVYLNCGHVHGYH---NWGQDSDRDPRSRTCPLCRQV 337 (416)
T ss_dssp ---------------------------------------
T ss_pred Cceeeccccceeeec---ccccccccccccccCCCcccc
Confidence 345678899998744 78642 4579999863
No 123
>PF15295 CCDC50_N: Coiled-coil domain-containing protein 50 N-terminus
Probab=28.33 E-value=48 Score=32.46 Aligned_cols=43 Identities=30% Similarity=0.173 Sum_probs=34.1
Q ss_pred hhhhhHHHHHHHHHHHhhcCCCCcch-----hhcHHHHHHHHHHHHHh
Q 005612 478 QLEVDQMLALELQEQLYHESPLFLSG-----EIDENLARMLQQEEDAL 520 (688)
Q Consensus 478 QiE~DE~lAReLQEQLy~E~p~~~~e-----eID~~~A~~LQ~EEda~ 520 (688)
++=.|-.||-.||||-+...|.+.-. .-|--+|.-||++|+..
T Consensus 22 ~V~EDgaLA~~LQeqEIe~hy~~N~~rn~lV~~D~~vAk~~Q~eEd~~ 69 (132)
T PF15295_consen 22 AVLEDGALAHRLQEQEIEHHYASNRQRNRLVQEDLRVAKQEQEEEDER 69 (132)
T ss_pred HHhhhHHHHHHHHHHHHHHHHHhhhhhhhHHHhHHHHHHHHHHHHHHH
Confidence 44569999999999988888766622 34888999999888863
No 124
>PF01363 FYVE: FYVE zinc finger; InterPro: IPR000306 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 FYVE zinc finger is named after four proteins that it has been found in: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two zinc ions []. The FYVE finger has eight potential zinc coordinating cysteine positions. Many members of this family also include two histidines in a motif R+HHC+XCG, where + represents a charged residue and X any residue. FYVE-type domains are divided into two known classes: FYVE domains that specifically bind to phosphatidylinositol 3-phosphate in lipid bilayers and FYVE-related domains of undetermined function []. Those that bind to phosphatidylinositol 3-phosphate are often found in proteins targeted to lipid membranes that are involved in regulating membrane traffic [, , ]. Most FYVE domains target proteins to endosomes by binding specifically to phosphatidylinositol-3-phosphate at the membrane surface. By contrast, the CARP2 FYVE-like domain is not optimized to bind to phosphoinositides or insert into lipid bilayers. FYVE domains are distinguished from other zinc fingers by three signature sequences: an N-terminal WxxD motif, a basic R(R/K)HHCR patch, and a C-terminal RVC motif. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0046872 metal ion binding; PDB: 1HYI_A 1JOC_B 1HYJ_A 1DVP_A 3ZYQ_A 4AVX_A 1VFY_A 3T7L_A 1X4U_A 1WFK_A ....
Probab=27.64 E-value=30 Score=28.69 Aligned_cols=37 Identities=19% Similarity=0.308 Sum_probs=18.9
Q ss_pred CCCCccccccCCCCCCCceEEec-cCCccchhhHHHHH
Q 005612 638 NFEEACAICLDNPSIGDSIRHLP-CLHKFHKDCIDPWL 674 (688)
Q Consensus 638 ~~deeC~ICLEeF~~Gd~Vr~LP-CgHvFH~sCI~~WL 674 (688)
.....|.+|...|..-..-..-. ||++|+..|...++
T Consensus 7 ~~~~~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~~~~ 44 (69)
T PF01363_consen 7 SEASNCMICGKKFSLFRRRHHCRNCGRVVCSSCSSQRI 44 (69)
T ss_dssp GG-SB-TTT--B-BSSS-EEE-TTT--EEECCCS-EEE
T ss_pred CCCCcCcCcCCcCCCceeeEccCCCCCEECCchhCCEE
Confidence 34578999999997643322332 99999999987554
No 125
>PF06844 DUF1244: Protein of unknown function (DUF1244); InterPro: IPR009654 This family consists of several short bacterial proteins of around 100 residues in length. The function of this family is unknown.; PDB: 2O35_A 3FYB_B.
Probab=24.93 E-value=37 Score=29.81 Aligned_cols=11 Identities=27% Similarity=1.174 Sum_probs=8.4
Q ss_pred cchhhHHHHHh
Q 005612 665 FHKDCIDPWLS 675 (688)
Q Consensus 665 FH~sCI~~WLk 675 (688)
||+.|+.+|+.
T Consensus 12 FCRNCLskWy~ 22 (68)
T PF06844_consen 12 FCRNCLSKWYR 22 (68)
T ss_dssp --HHHHHHHHH
T ss_pred HHHHHHHHHHH
Confidence 99999999986
No 126
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=23.47 E-value=26 Score=38.51 Aligned_cols=46 Identities=26% Similarity=0.648 Sum_probs=36.8
Q ss_pred CCccccccCCCCCCCceEEeccCCccchhhHHHHHhcCCCCCccccCC
Q 005612 640 EEACAICLDNPSIGDSIRHLPCLHKFHKDCIDPWLSRRPSCPVCKSSI 687 (688)
Q Consensus 640 deeC~ICLEeF~~Gd~Vr~LPCgHvFH~sCI~~WLk~k~SCPVCR~~L 687 (688)
...|-||.-.+...... --|.|.|+..|...|....+.||.|+..+
T Consensus 105 ~~~~~~~~g~l~vpt~~--qg~w~qf~~~~p~~~~~~~~~~~d~~~~~ 150 (324)
T KOG0824|consen 105 HDICYICYGKLTVPTRI--QGCWHQFCYVCPKSNFAMGNDCPDCRGKI 150 (324)
T ss_pred ccceeeeeeeEEecccc--cCceeeeeecCCchhhhhhhccchhhcCc
Confidence 46799998887665322 12999999999999999999999998644
No 127
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=22.22 E-value=20 Score=38.88 Aligned_cols=38 Identities=26% Similarity=0.577 Sum_probs=31.0
Q ss_pred CCccccccCCCCCCCceEEeccCCccchhhHHHHHhcC
Q 005612 640 EEACAICLDNPSIGDSIRHLPCLHKFHKDCIDPWLSRR 677 (688)
Q Consensus 640 deeC~ICLEeF~~Gd~Vr~LPCgHvFH~sCI~~WLk~k 677 (688)
...|.+|+++|..+.....+.|--+||..|+-.|++..
T Consensus 214 ~rvC~~CF~el~~~~~~~~~~~~~~~~~~~~~~~~~~~ 251 (288)
T KOG1729|consen 214 IRVCDICFEELEKGARGDREDSLPVFHGKCYPNWLTTG 251 (288)
T ss_pred ceecHHHHHHHhcccccchhhccccccccccccccccc
Confidence 34899999999876666666666699999999999863
No 128
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=21.72 E-value=1e+02 Score=29.52 Aligned_cols=44 Identities=20% Similarity=0.252 Sum_probs=32.2
Q ss_pred CccccccCCCCCCC----------c-eEEeccCCccchhhHHHHHhcCCCCCccc
Q 005612 641 EACAICLDNPSIGD----------S-IRHLPCLHKFHKDCIDPWLSRRPSCPVCK 684 (688)
Q Consensus 641 eeC~ICLEeF~~Gd----------~-Vr~LPCgHvFH~sCI~~WLk~k~SCPVCR 684 (688)
..|--|+..|.... . ..--.|.+.|+.+|=.-|-..-..||-|-
T Consensus 56 ~~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh~CPGC~ 110 (112)
T TIGR00622 56 RFCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFVHESLHCCPGCI 110 (112)
T ss_pred CcccCcCCCCCCcccccccccccccceeCCCCCCccccccchhhhhhccCCcCCC
Confidence 46999999987531 1 12233999999999777766777899995
No 129
>KOG4218 consensus Nuclear hormone receptor betaFTZ-F1 [Transcription]
Probab=20.99 E-value=41 Score=37.73 Aligned_cols=48 Identities=27% Similarity=0.575 Sum_probs=27.7
Q ss_pred CCCCCccccccCCCCCCCceEEec---cCCcc--------chhhHHHHH-----hcCCCCCcccc
Q 005612 637 DNFEEACAICLDNPSIGDSIRHLP---CLHKF--------HKDCIDPWL-----SRRPSCPVCKS 685 (688)
Q Consensus 637 ~~~deeC~ICLEeF~~Gd~Vr~LP---CgHvF--------H~sCI~~WL-----k~k~SCPVCR~ 685 (688)
++.++-|++|-+.... =....|. |+-.| |..|+..-- ...+.||.||.
T Consensus 12 edl~ElCPVCGDkVSG-YHYGLLTCESCKGFFKRTVQNnK~YtC~e~qnC~iDkTqRKRCP~CRF 75 (475)
T KOG4218|consen 12 EDLGELCPVCGDKVSG-YHYGLLTCESCKGFFKRTVQNNKQYTCSEEQNCHIDKTQRKRCPSCRF 75 (475)
T ss_pred cccccccccccCcccc-ceeeeeehhhhhhHHHHHhhcCcceecccccccccchHhhccCCchhH
Confidence 3457889999987543 2333454 55544 334544320 12457999986
No 130
>PF04216 FdhE: Protein involved in formate dehydrogenase formation; InterPro: IPR006452 This family of sequences describe an accessory protein required for the assembly of formate dehydrogenase of certain proteobacteria although not present in the final complex []. The exact nature of the function of FdhE in the assembly of the complex is unknown, but considering the presence of selenocysteine, molybdopterin, iron-sulphur clusters and cytochrome b556, it is likely to be involved in the insertion of cofactors. ; GO: 0005737 cytoplasm; PDB: 2FIY_B.
Probab=20.46 E-value=13 Score=39.23 Aligned_cols=45 Identities=20% Similarity=0.330 Sum_probs=18.8
Q ss_pred CCccccccCCCCCCCceEEe--ccCCccchhhHHHHHhcCCCCCccc
Q 005612 640 EEACAICLDNPSIGDSIRHL--PCLHKFHKDCIDPWLSRRPSCPVCK 684 (688)
Q Consensus 640 deeC~ICLEeF~~Gd~Vr~L--PCgHvFH~sCI~~WLk~k~SCPVCR 684 (688)
...||||-.....+.-...- --.|.+|.-|=..|--....||.|-
T Consensus 172 ~g~CPvCGs~P~~s~l~~~~~~G~R~L~Cs~C~t~W~~~R~~Cp~Cg 218 (290)
T PF04216_consen 172 RGYCPVCGSPPVLSVLRGGEREGKRYLHCSLCGTEWRFVRIKCPYCG 218 (290)
T ss_dssp -SS-TTT---EEEEEEE------EEEEEETTT--EEE--TTS-TTT-
T ss_pred CCcCCCCCCcCceEEEecCCCCccEEEEcCCCCCeeeecCCCCcCCC
Confidence 46899998864322100000 0134566668889977788899994
Done!