Query 023250
Match_columns 285
No_of_seqs 222 out of 943
Neff 4.1
Searched_HMMs 46136
Date Fri Mar 29 02:37:18 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/023250.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/023250hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 smart00744 RINGv The RING-vari 99.7 1.2E-17 2.5E-22 119.3 3.4 49 201-249 1-49 (49)
2 PF12906 RINGv: RING-variant d 99.6 6.4E-17 1.4E-21 114.7 1.7 47 202-248 1-47 (47)
3 PHA02825 LAP/PHD finger-like p 99.6 8.6E-16 1.9E-20 133.9 4.4 60 194-256 3-62 (162)
4 PHA02862 5L protein; Provision 99.6 1.3E-15 2.7E-20 131.5 4.3 56 199-257 2-57 (156)
5 COG5183 SSM4 Protein involved 99.5 1.3E-14 2.8E-19 150.2 4.2 63 197-259 10-72 (1175)
6 KOG1609 Protein involved in mR 99.4 1.1E-13 2.3E-18 125.8 4.6 79 190-268 69-149 (323)
7 KOG3053 Uncharacterized conser 99.3 5E-13 1.1E-17 124.4 2.9 67 193-259 14-88 (293)
8 KOG4628 Predicted E3 ubiquitin 98.6 4.1E-08 8.8E-13 95.0 3.8 49 200-254 230-279 (348)
9 PF13639 zf-RING_2: Ring finge 98.4 1.4E-07 3.1E-12 64.6 1.4 42 201-249 2-44 (44)
10 COG5540 RING-finger-containing 97.9 1.3E-05 2.8E-10 77.2 4.3 51 197-253 321-372 (374)
11 PHA02929 N1R/p28-like protein; 97.9 9.4E-06 2E-10 75.2 3.3 52 198-256 173-230 (238)
12 PF12678 zf-rbx1: RING-H2 zinc 97.8 2.3E-05 4.9E-10 59.9 3.6 44 199-249 19-73 (73)
13 COG5243 HRD1 HRD ubiquitin lig 97.6 3.8E-05 8.2E-10 75.7 3.7 55 191-252 279-344 (491)
14 cd00162 RING RING-finger (Real 97.6 5.1E-05 1.1E-09 49.4 3.1 45 201-252 1-45 (45)
15 PF13920 zf-C3HC4_3: Zinc fing 97.6 5.5E-05 1.2E-09 53.1 2.8 48 198-254 1-49 (50)
16 PLN03208 E3 ubiquitin-protein 97.5 7.6E-05 1.6E-09 67.5 3.9 50 198-254 17-80 (193)
17 PF12861 zf-Apc11: Anaphase-pr 97.5 9.5E-05 2.1E-09 59.2 3.8 52 199-254 21-83 (85)
18 smart00184 RING Ring finger. E 97.3 0.0002 4.3E-09 44.9 2.6 39 202-248 1-39 (39)
19 PF11793 FANCL_C: FANCL C-term 97.2 8.2E-05 1.8E-09 56.6 0.3 52 199-253 2-66 (70)
20 COG5219 Uncharacterized conser 97.1 0.00014 3.1E-09 78.3 0.3 57 196-255 1466-1525(1525)
21 PF00097 zf-C3HC4: Zinc finger 97.0 0.00071 1.5E-08 45.2 3.2 40 202-248 1-41 (41)
22 KOG0802 E3 ubiquitin ligase [P 97.0 0.00044 9.5E-09 70.0 2.6 51 195-252 287-340 (543)
23 KOG0823 Predicted E3 ubiquitin 96.9 0.0012 2.7E-08 61.2 5.0 53 195-254 43-96 (230)
24 PHA02926 zinc finger-like prot 96.9 0.00083 1.8E-08 62.4 3.3 54 197-255 168-232 (242)
25 KOG1493 Anaphase-promoting com 96.7 0.00056 1.2E-08 54.3 1.1 51 201-255 22-83 (84)
26 PF13923 zf-C3HC4_2: Zinc fing 96.6 0.002 4.4E-08 43.1 2.6 38 202-248 1-39 (39)
27 KOG0828 Predicted E3 ubiquitin 96.4 0.0019 4.1E-08 65.8 2.8 56 192-253 564-634 (636)
28 KOG4265 Predicted E3 ubiquitin 96.3 0.005 1.1E-07 60.2 4.9 52 194-253 285-336 (349)
29 smart00504 Ubox Modified RING 96.3 0.0052 1.1E-07 44.0 3.7 45 200-253 2-46 (63)
30 KOG0827 Predicted E3 ubiquitin 96.3 0.0026 5.6E-08 63.3 2.6 46 199-249 4-52 (465)
31 KOG0317 Predicted E3 ubiquitin 96.1 0.0065 1.4E-07 58.1 4.2 62 191-261 231-292 (293)
32 TIGR00599 rad18 DNA repair pro 95.8 0.0057 1.2E-07 60.7 2.6 50 196-254 23-72 (397)
33 PF14634 zf-RING_5: zinc-RING 95.8 0.0081 1.7E-07 41.4 2.5 43 201-250 1-44 (44)
34 KOG0804 Cytoplasmic Zn-finger 95.7 0.0037 8E-08 63.0 0.7 49 196-253 172-222 (493)
35 KOG4445 Uncharacterized conser 95.0 0.0076 1.6E-07 58.4 0.6 52 198-254 114-187 (368)
36 KOG1645 RING-finger-containing 94.9 0.0069 1.5E-07 60.6 -0.0 74 197-275 2-81 (463)
37 KOG0320 Predicted E3 ubiquitin 94.7 0.088 1.9E-06 47.7 6.3 56 190-252 122-177 (187)
38 PF14570 zf-RING_4: RING/Ubox 94.5 0.024 5.2E-07 41.1 1.8 46 202-253 1-48 (48)
39 COG5194 APC11 Component of SCF 94.2 0.041 8.9E-07 44.2 2.9 28 226-255 56-83 (88)
40 PF15227 zf-C3HC4_4: zinc fing 93.4 0.069 1.5E-06 36.9 2.4 40 202-248 1-42 (42)
41 KOG1734 Predicted RING-contain 91.4 0.043 9.3E-07 52.7 -0.8 52 197-253 222-281 (328)
42 KOG1785 Tyrosine kinase negati 91.4 0.054 1.2E-06 54.5 -0.1 58 192-256 362-419 (563)
43 PF04564 U-box: U-box domain; 90.6 0.19 4.1E-06 38.1 2.2 48 199-254 4-51 (73)
44 KOG2930 SCF ubiquitin ligase, 90.5 0.16 3.5E-06 42.6 1.9 28 226-255 83-110 (114)
45 KOG2177 Predicted E3 ubiquitin 90.5 0.11 2.3E-06 44.3 0.8 49 193-250 7-55 (386)
46 PF05883 Baculo_RING: Baculovi 90.4 0.099 2.2E-06 45.2 0.6 42 198-239 25-68 (134)
47 KOG0825 PHD Zn-finger protein 90.2 0.056 1.2E-06 58.1 -1.4 53 198-257 122-175 (1134)
48 KOG0801 Predicted E3 ubiquitin 89.7 0.19 4.1E-06 45.4 1.7 29 193-221 171-200 (205)
49 PF13445 zf-RING_UBOX: RING-ty 89.6 0.28 6.1E-06 34.4 2.3 39 202-246 1-43 (43)
50 COG5574 PEX10 RING-finger-cont 89.0 0.36 7.7E-06 46.1 3.1 59 195-261 211-270 (271)
51 KOG1952 Transcription factor N 87.9 0.43 9.2E-06 51.8 3.2 61 195-260 187-254 (950)
52 PF07800 DUF1644: Protein of u 87.9 0.69 1.5E-05 41.2 4.0 54 198-255 1-93 (162)
53 COG5432 RAD18 RING-finger-cont 87.2 0.25 5.4E-06 48.2 1.0 50 198-256 24-73 (391)
54 TIGR00570 cdk7 CDK-activating 86.8 0.63 1.4E-05 45.2 3.4 50 199-254 3-55 (309)
55 KOG2164 Predicted E3 ubiquitin 85.2 0.62 1.3E-05 47.9 2.6 58 199-263 186-249 (513)
56 PF10367 Vps39_2: Vacuolar sor 85.1 0.38 8.3E-06 37.3 0.9 34 197-235 76-109 (109)
57 KOG1039 Predicted E3 ubiquitin 84.6 0.67 1.5E-05 45.5 2.5 63 197-264 159-232 (344)
58 COG5175 MOT2 Transcriptional r 83.9 0.85 1.8E-05 45.4 2.8 53 197-255 12-66 (480)
59 PLN02189 cellulose synthase 83.9 0.72 1.6E-05 51.0 2.5 51 198-253 33-87 (1040)
60 PF14569 zf-UDP: Zinc-binding 83.3 1.1 2.5E-05 35.7 2.8 54 197-256 7-65 (80)
61 KOG0287 Postreplication repair 83.1 0.42 9.1E-06 47.5 0.4 48 198-254 22-69 (442)
62 COG5236 Uncharacterized conser 82.9 1.8 3.9E-05 43.3 4.6 60 193-259 55-114 (493)
63 PLN02638 cellulose synthase A 80.5 1.6 3.4E-05 48.6 3.6 51 198-254 16-71 (1079)
64 KOG1428 Inhibitor of type V ad 80.5 1.6 3.5E-05 50.5 3.7 56 195-255 3482-3546(3738)
65 PLN02436 cellulose synthase A 80.1 1.3 2.9E-05 49.2 2.9 51 198-253 35-89 (1094)
66 PLN02195 cellulose synthase A 79.9 1.8 4E-05 47.7 3.8 51 197-253 4-59 (977)
67 KOG3970 Predicted E3 ubiquitin 76.8 2.4 5.1E-05 40.3 3.1 51 197-252 48-104 (299)
68 PF10272 Tmpp129: Putative tra 76.6 2.2 4.7E-05 42.3 3.0 37 217-256 307-354 (358)
69 COG5034 TNG2 Chromatin remodel 76.1 1.4 3E-05 42.1 1.4 30 220-251 241-270 (271)
70 PLN02400 cellulose synthase 75.2 2.1 4.5E-05 47.7 2.6 52 198-255 35-91 (1085)
71 KOG1973 Chromatin remodeling p 75.0 1.3 2.8E-05 41.8 0.9 36 218-253 234-270 (274)
72 PF08746 zf-RING-like: RING-li 74.8 1.9 4.2E-05 30.1 1.5 22 227-248 22-43 (43)
73 KOG0802 E3 ubiquitin ligase [P 74.1 1.7 3.7E-05 44.4 1.6 53 189-254 469-521 (543)
74 KOG1941 Acetylcholine receptor 70.0 2 4.4E-05 43.5 1.0 50 196-250 362-413 (518)
75 KOG1002 Nucleotide excision re 68.7 2.3 5E-05 44.6 1.1 53 194-253 531-586 (791)
76 KOG4323 Polycomb-like PHD Zn-f 67.0 2.8 6E-05 42.9 1.3 61 198-261 167-234 (464)
77 KOG0955 PHD finger protein BR1 66.9 2 4.4E-05 47.7 0.4 54 195-251 215-269 (1051)
78 PF05290 Baculo_IE-1: Baculovi 66.8 3.9 8.5E-05 35.8 2.0 56 198-255 79-134 (140)
79 PLN02915 cellulose synthase A 63.9 5.4 0.00012 44.5 2.8 51 197-253 13-68 (1044)
80 KOG0956 PHD finger protein AF1 62.6 3.5 7.5E-05 44.4 1.1 59 197-255 115-184 (900)
81 KOG0825 PHD Zn-finger protein 61.5 3.4 7.4E-05 45.1 0.8 50 195-249 211-264 (1134)
82 KOG4172 Predicted E3 ubiquitin 57.3 4.6 0.0001 30.7 0.6 49 200-255 8-56 (62)
83 KOG4692 Predicted E3 ubiquitin 55.1 7.3 0.00016 39.3 1.8 49 197-254 420-468 (489)
84 PF04641 Rtf2: Rtf2 RING-finge 52.8 18 0.00039 33.6 3.9 56 195-258 109-166 (260)
85 KOG0824 Predicted E3 ubiquitin 50.9 9.2 0.0002 37.5 1.7 48 198-253 6-53 (324)
86 KOG1940 Zn-finger protein [Gen 50.5 7.8 0.00017 37.3 1.2 42 202-250 161-204 (276)
87 KOG3268 Predicted E3 ubiquitin 47.2 17 0.00037 33.6 2.7 53 196-253 162-228 (234)
88 KOG2660 Locus-specific chromos 45.8 8.8 0.00019 37.8 0.7 51 197-255 13-63 (331)
89 smart00249 PHD PHD zinc finger 45.6 7.5 0.00016 25.1 0.2 43 201-248 1-47 (47)
90 PF06937 EURL: EURL protein; 44.2 24 0.00052 34.2 3.4 41 197-240 28-69 (285)
91 KOG0956 PHD finger protein AF1 41.3 17 0.00036 39.5 2.0 56 200-256 6-76 (900)
92 KOG3899 Uncharacterized conser 40.6 16 0.00035 36.0 1.7 36 219-257 323-369 (381)
93 KOG3005 GIY-YIG type nuclease 38.8 14 0.00031 35.6 1.0 55 199-253 182-243 (276)
94 PF01440 Gemini_AL2: Geminivir 37.7 6.2 0.00014 34.3 -1.5 34 214-250 32-65 (134)
95 COG5152 Uncharacterized conser 35.4 21 0.00045 33.6 1.4 45 200-253 197-241 (259)
96 COG4847 Uncharacterized protei 34.6 34 0.00074 28.5 2.4 36 199-240 6-42 (103)
97 KOG4159 Predicted E3 ubiquitin 33.8 23 0.00049 35.7 1.5 49 197-254 82-130 (398)
98 PF14447 Prok-RING_4: Prokaryo 32.4 31 0.00067 25.9 1.7 45 198-253 6-50 (55)
99 KOG1813 Predicted E3 ubiquitin 32.1 24 0.00052 34.6 1.3 48 199-255 241-288 (313)
100 PF00628 PHD: PHD-finger; Int 30.7 16 0.00036 25.0 -0.0 44 201-249 1-49 (51)
101 KOG4443 Putative transcription 30.6 23 0.0005 38.0 1.0 32 216-249 35-75 (694)
102 KOG1100 Predicted E3 ubiquitin 30.1 43 0.00094 30.6 2.6 41 200-253 159-200 (207)
103 PF11789 zf-Nse: Zinc-finger o 30.0 37 0.00081 25.0 1.8 44 197-247 9-53 (57)
104 PF13894 zf-C2H2_4: C2H2-type 29.6 23 0.0005 19.8 0.5 11 244-254 2-12 (24)
105 KOG4275 Predicted E3 ubiquitin 29.0 3.7 8E-05 40.2 -4.7 43 199-253 300-342 (350)
106 PF04423 Rad50_zn_hook: Rad50 27.3 47 0.001 23.6 1.9 23 231-253 7-31 (54)
107 KOG2034 Vacuolar sorting prote 27.3 26 0.00056 38.7 0.7 37 196-238 814-851 (911)
108 KOG0309 Conserved WD40 repeat- 27.0 47 0.001 36.7 2.6 40 200-246 1029-1068(1081)
109 PF10571 UPF0547: Uncharacteri 26.3 32 0.00068 21.9 0.7 12 242-253 14-25 (26)
110 KOG3039 Uncharacterized conser 26.0 58 0.0013 31.5 2.7 50 198-254 220-271 (303)
111 KOG0826 Predicted E3 ubiquitin 25.6 54 0.0012 32.7 2.5 58 187-252 288-345 (357)
112 KOG3352 Cytochrome c oxidase, 25.4 22 0.00047 31.7 -0.2 25 235-259 126-150 (153)
113 KOG1814 Predicted E3 ubiquitin 25.4 51 0.0011 33.8 2.3 63 196-263 181-250 (445)
114 KOG0978 E3 ubiquitin ligase in 25.3 29 0.00063 37.4 0.6 48 198-253 642-689 (698)
115 KOG2068 MOT2 transcription fac 23.4 59 0.0013 32.2 2.3 53 197-254 247-299 (327)
116 PF13764 E3_UbLigase_R4: E3 ub 23.0 64 0.0014 35.4 2.7 15 196-210 465-479 (802)
117 KOG2114 Vacuolar assembly/sort 22.5 42 0.00092 37.1 1.2 43 200-254 841-884 (933)
118 PF02891 zf-MIZ: MIZ/SP-RING z 22.3 59 0.0013 23.2 1.6 25 226-250 20-49 (50)
119 KOG2879 Predicted E3 ubiquitin 21.4 1E+02 0.0023 30.1 3.5 53 194-253 234-287 (298)
120 PF03854 zf-P11: P-11 zinc fin 20.9 51 0.0011 24.4 1.0 43 201-253 4-46 (50)
121 PF09943 DUF2175: Uncharacteri 20.9 85 0.0018 26.2 2.4 35 201-240 4-38 (101)
No 1
>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=99.69 E-value=1.2e-17 Score=119.33 Aligned_cols=49 Identities=51% Similarity=1.187 Sum_probs=45.6
Q ss_pred eeeEeccCCCCCCeeecccccCCCcceecHHHHHHHHHhcCCCcccCCC
Q 023250 201 VCRICLDICEEGNTLKMECSCKGALRLVHEECAIRWFSTKGNKNCEVCG 249 (285)
Q Consensus 201 ~CRICle~~e~g~~Li~PC~CkGSl~~VH~~CL~kWl~~kg~~~CEICK 249 (285)
+||||++.++++++|++||.|+|+++|||+.||.+|+..+++.+||||+
T Consensus 1 ~CrIC~~~~~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~ 49 (49)
T smart00744 1 ICRICHDEGDEGDPLVSPCRCKGSLKYVHQECLERWINESGNKTCEICK 49 (49)
T ss_pred CccCCCCCCCCCCeeEeccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence 5999999666778899999999999999999999999999889999996
No 2
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=99.63 E-value=6.4e-17 Score=114.65 Aligned_cols=47 Identities=47% Similarity=1.128 Sum_probs=38.9
Q ss_pred eeEeccCCCCCCeeecccccCCCcceecHHHHHHHHHhcCCCcccCC
Q 023250 202 CRICLDICEEGNTLKMECSCKGALRLVHEECAIRWFSTKGNKNCEVC 248 (285)
Q Consensus 202 CRICle~~e~g~~Li~PC~CkGSl~~VH~~CL~kWl~~kg~~~CEIC 248 (285)
||||+++++++++|+.||.|+|+++|||+.||.+|+..+++..|++|
T Consensus 1 CrIC~~~~~~~~~li~pC~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C 47 (47)
T PF12906_consen 1 CRICLEGEEEDEPLISPCRCKGSMKYVHRSCLERWIRESGNRKCEIC 47 (47)
T ss_dssp ETTTTEE-SSSS-EE-SSS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred CeEeCCcCCCCCceecccccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence 99999988776689999999999999999999999999999999998
No 3
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=99.59 E-value=8.6e-16 Score=133.92 Aligned_cols=60 Identities=28% Similarity=0.705 Sum_probs=53.2
Q ss_pred cccCCCCeeeEeccCCCCCCeeecccccCCCcceecHHHHHHHHHhcCCCcccCCCcceeccc
Q 023250 194 EIAEEEAVCRICLDICEEGNTLKMECSCKGALRLVHEECAIRWFSTKGNKNCEVCGKEVQNLP 256 (285)
Q Consensus 194 e~~ee~~~CRICle~~e~g~~Li~PC~CkGSl~~VH~~CL~kWl~~kg~~~CEICK~ey~~vp 256 (285)
+.++.++.||||+++.+ .+..||+|+|+++|||++||.+|+..+++..||+|+++|.+..
T Consensus 3 ~~s~~~~~CRIC~~~~~---~~~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~i~~ 62 (162)
T PHA02825 3 DVSLMDKCCWICKDEYD---VVTNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYNIKK 62 (162)
T ss_pred CcCCCCCeeEecCCCCC---CccCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEEEEE
Confidence 45678899999998743 3578999999999999999999999999999999999998764
No 4
>PHA02862 5L protein; Provisional
Probab=99.57 E-value=1.3e-15 Score=131.46 Aligned_cols=56 Identities=27% Similarity=0.746 Sum_probs=49.6
Q ss_pred CCeeeEeccCCCCCCeeecccccCCCcceecHHHHHHHHHhcCCCcccCCCcceecccc
Q 023250 199 EAVCRICLDICEEGNTLKMECSCKGALRLVHEECAIRWFSTKGNKNCEVCGKEVQNLPV 257 (285)
Q Consensus 199 ~~~CRICle~~e~g~~Li~PC~CkGSl~~VH~~CL~kWl~~kg~~~CEICK~ey~~vpv 257 (285)
...||||+++++++ ..||.|+|+++|||++||.+|+..+++..||+|+++|..-+.
T Consensus 2 ~diCWIC~~~~~e~---~~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~Ik~~ 57 (156)
T PHA02862 2 SDICWICNDVCDER---NNFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYNIKKT 57 (156)
T ss_pred CCEEEEecCcCCCC---cccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEEEEEc
Confidence 46899999986433 699999999999999999999999999999999999987553
No 5
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=99.49 E-value=1.3e-14 Score=150.23 Aligned_cols=63 Identities=29% Similarity=0.743 Sum_probs=57.2
Q ss_pred CCCCeeeEeccCCCCCCeeecccccCCCcceecHHHHHHHHHhcCCCcccCCCcceeccccee
Q 023250 197 EEEAVCRICLDICEEGNTLKMECSCKGALRLVHEECAIRWFSTKGNKNCEVCGKEVQNLPVTL 259 (285)
Q Consensus 197 ee~~~CRICle~~e~g~~Li~PC~CkGSl~~VH~~CL~kWl~~kg~~~CEICK~ey~~vpvtl 259 (285)
++.+.||||+++...+++|..||+|.|+++|+|++||..|+..+++..|+||+++|++--++-
T Consensus 10 ~d~~~CRICr~e~~~d~pLfhPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~Fk~IY~ 72 (1175)
T COG5183 10 EDKRSCRICRTEDIRDDPLFHPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYKFKDIYK 72 (1175)
T ss_pred ccchhceeecCCCCCCCcCcccccccchhHHHHHHHHHHHHhcCCCcceeeecceeeeeeecc
Confidence 445899999999888899999999999999999999999999999999999999998755543
No 6
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=99.42 E-value=1.1e-13 Score=125.80 Aligned_cols=79 Identities=38% Similarity=0.695 Sum_probs=66.5
Q ss_pred CCcccccCCCCeeeEeccCCCCCC--eeecccccCCCcceecHHHHHHHHHhcCCCcccCCCcceecccceecccCchhh
Q 023250 190 NNDEEIAEEEAVCRICLDICEEGN--TLKMECSCKGALRLVHEECAIRWFSTKGNKNCEVCGKEVQNLPVTLLRMSSSAQ 267 (285)
Q Consensus 190 ~~~ee~~ee~~~CRICle~~e~g~--~Li~PC~CkGSl~~VH~~CL~kWl~~kg~~~CEICK~ey~~vpvtllR~~~~~~ 267 (285)
++.++.+.++..||||+++.+..+ .++.||.|+|+++|||+.|+.+|+..+++..||+|++.|.+......+......
T Consensus 69 ~~~~~~~~~~~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~~~~~~~~~~~~~~~ 148 (323)
T KOG1609|consen 69 ESLEESPSSGPICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFINVGTKLKPLIVISK 148 (323)
T ss_pred CccccCCCCCCcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhccccCeeeecccccceecceeecceeehhh
Confidence 455555666899999998765433 689999999999999999999999999999999999999999887777776543
Q ss_pred h
Q 023250 268 R 268 (285)
Q Consensus 268 ~ 268 (285)
.
T Consensus 149 ~ 149 (323)
T KOG1609|consen 149 V 149 (323)
T ss_pred h
Confidence 3
No 7
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=99.33 E-value=5e-13 Score=124.40 Aligned_cols=67 Identities=28% Similarity=0.614 Sum_probs=55.7
Q ss_pred ccccCCCCeeeEeccCCCCC--CeeecccccCCCcceecHHHHHHHHHhcC------CCcccCCCcceeccccee
Q 023250 193 EEIAEEEAVCRICLDICEEG--NTLKMECSCKGALRLVHEECAIRWFSTKG------NKNCEVCGKEVQNLPVTL 259 (285)
Q Consensus 193 ee~~ee~~~CRICle~~e~g--~~Li~PC~CkGSl~~VH~~CL~kWl~~kg------~~~CEICK~ey~~vpvtl 259 (285)
.+..+.++.||||+..+++. ..++.||.|+|+.|+||+.||.+|+.+|. ...|+.|.++|..+-..+
T Consensus 14 ~~~~e~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYiiv~P~l 88 (293)
T KOG3053|consen 14 SDNQELERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYIIVFPQL 88 (293)
T ss_pred CCccccceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchheeecccc
Confidence 45567889999999876543 24799999999999999999999998873 469999999999765443
No 8
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.56 E-value=4.1e-08 Score=95.03 Aligned_cols=49 Identities=31% Similarity=0.817 Sum_probs=43.2
Q ss_pred CeeeEeccCCCCCCee-ecccccCCCcceecHHHHHHHHHhcCCCcccCCCcceec
Q 023250 200 AVCRICLDICEEGNTL-KMECSCKGALRLVHEECAIRWFSTKGNKNCEVCGKEVQN 254 (285)
Q Consensus 200 ~~CRICle~~e~g~~L-i~PC~CkGSl~~VH~~CL~kWl~~kg~~~CEICK~ey~~ 254 (285)
..|.||+|++..|+.| ++||+ |.+|..|++.||... ...||+||.....
T Consensus 230 ~~CaIClEdY~~GdklRiLPC~-----H~FH~~CIDpWL~~~-r~~CPvCK~di~~ 279 (348)
T KOG4628|consen 230 DTCAICLEDYEKGDKLRILPCS-----HKFHVNCIDPWLTQT-RTFCPVCKRDIRT 279 (348)
T ss_pred ceEEEeecccccCCeeeEecCC-----CchhhccchhhHhhc-CccCCCCCCcCCC
Confidence 7999999999999987 79998 789999999999886 3569999997653
No 9
>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=98.36 E-value=1.4e-07 Score=64.63 Aligned_cols=42 Identities=33% Similarity=0.967 Sum_probs=33.7
Q ss_pred eeeEeccCCCCC-CeeecccccCCCcceecHHHHHHHHHhcCCCcccCCC
Q 023250 201 VCRICLDICEEG-NTLKMECSCKGALRLVHEECAIRWFSTKGNKNCEVCG 249 (285)
Q Consensus 201 ~CRICle~~e~g-~~Li~PC~CkGSl~~VH~~CL~kWl~~kg~~~CEICK 249 (285)
.|-||+++.+.+ ....++|. |.||..||.+|+..+ ..||+|+
T Consensus 2 ~C~IC~~~~~~~~~~~~l~C~-----H~fh~~Ci~~~~~~~--~~CP~CR 44 (44)
T PF13639_consen 2 ECPICLEEFEDGEKVVKLPCG-----HVFHRSCIKEWLKRN--NSCPVCR 44 (44)
T ss_dssp CETTTTCBHHTTSCEEEETTS-----EEEEHHHHHHHHHHS--SB-TTTH
T ss_pred CCcCCChhhcCCCeEEEccCC-----CeeCHHHHHHHHHhC--CcCCccC
Confidence 699999998544 44578875 899999999999885 5999995
No 10
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.87 E-value=1.3e-05 Score=77.18 Aligned_cols=51 Identities=22% Similarity=0.644 Sum_probs=41.7
Q ss_pred CCCCeeeEeccCCCCCCee-ecccccCCCcceecHHHHHHHHHhcCCCcccCCCccee
Q 023250 197 EEEAVCRICLDICEEGNTL-KMECSCKGALRLVHEECAIRWFSTKGNKNCEVCGKEVQ 253 (285)
Q Consensus 197 ee~~~CRICle~~e~g~~L-i~PC~CkGSl~~VH~~CL~kWl~~kg~~~CEICK~ey~ 253 (285)
+.+-.|.||++.+..++.+ ++||+ |-+|..|+++|+..- ...|++|+.++.
T Consensus 321 ~~GveCaICms~fiK~d~~~vlPC~-----H~FH~~Cv~kW~~~y-~~~CPvCrt~iP 372 (374)
T COG5540 321 DKGVECAICMSNFIKNDRLRVLPCD-----HRFHVGCVDKWLLGY-SNKCPVCRTAIP 372 (374)
T ss_pred CCCceEEEEhhhhcccceEEEeccC-----ceechhHHHHHHhhh-cccCCccCCCCC
Confidence 4568999999988766654 79998 689999999999732 358999999864
No 11
>PHA02929 N1R/p28-like protein; Provisional
Probab=97.87 E-value=9.4e-06 Score=75.21 Aligned_cols=52 Identities=19% Similarity=0.546 Sum_probs=39.8
Q ss_pred CCCeeeEeccCCCCCC------eeecccccCCCcceecHHHHHHHHHhcCCCcccCCCcceeccc
Q 023250 198 EEAVCRICLDICEEGN------TLKMECSCKGALRLVHEECAIRWFSTKGNKNCEVCGKEVQNLP 256 (285)
Q Consensus 198 e~~~CRICle~~e~g~------~Li~PC~CkGSl~~VH~~CL~kWl~~kg~~~CEICK~ey~~vp 256 (285)
.+..|.||++...+.+ .+..+|. |.||..||.+|+.. ..+||+|+..+..+-
T Consensus 173 ~~~eC~ICle~~~~~~~~~~~~~vl~~C~-----H~FC~~CI~~Wl~~--~~tCPlCR~~~~~v~ 230 (238)
T PHA02929 173 KDKECAICMEKVYDKEIKNMYFGILSNCN-----HVFCIECIDIWKKE--KNTCPVCRTPFISVI 230 (238)
T ss_pred CCCCCccCCcccccCccccccceecCCCC-----CcccHHHHHHHHhc--CCCCCCCCCEeeEEe
Confidence 4579999999754321 2345786 78999999999976 458999999987543
No 12
>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=97.78 E-value=2.3e-05 Score=59.91 Aligned_cols=44 Identities=23% Similarity=0.696 Sum_probs=31.5
Q ss_pred CCeeeEeccCCCC--------C--Cee-ecccccCCCcceecHHHHHHHHHhcCCCcccCCC
Q 023250 199 EAVCRICLDICEE--------G--NTL-KMECSCKGALRLVHEECAIRWFSTKGNKNCEVCG 249 (285)
Q Consensus 199 ~~~CRICle~~e~--------g--~~L-i~PC~CkGSl~~VH~~CL~kWl~~kg~~~CEICK 249 (285)
+..|-||++...+ + -.+ ..+|. |.||..||.+|+... .+||+|+
T Consensus 19 ~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~-----H~FH~~Ci~~Wl~~~--~~CP~CR 73 (73)
T PF12678_consen 19 DDNCAICREPLEDPCPECQAPQDECPIVWGPCG-----HIFHFHCISQWLKQN--NTCPLCR 73 (73)
T ss_dssp CSBETTTTSBTTSTTCCHHHCTTTS-EEEETTS-----EEEEHHHHHHHHTTS--SB-TTSS
T ss_pred CCcccccChhhhChhhhhcCCccccceEecccC-----CCEEHHHHHHHHhcC--CcCCCCC
Confidence 3349999988731 1 222 45786 799999999999764 5999996
No 13
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=97.64 E-value=3.8e-05 Score=75.71 Aligned_cols=55 Identities=22% Similarity=0.778 Sum_probs=42.8
Q ss_pred CcccccCCCCeeeEeccCC-CCC----------CeeecccccCCCcceecHHHHHHHHHhcCCCcccCCCcce
Q 023250 191 NDEEIAEEEAVCRICLDIC-EEG----------NTLKMECSCKGALRLVHEECAIRWFSTKGNKNCEVCGKEV 252 (285)
Q Consensus 191 ~~ee~~ee~~~CRICle~~-e~g----------~~Li~PC~CkGSl~~VH~~CL~kWl~~kg~~~CEICK~ey 252 (285)
.+|.....+..|-||+++. +.+ .+-.+||. |.+|-.||+.|+..+ .+|+||+..+
T Consensus 279 t~eql~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCG-----HilHl~CLknW~ERq--QTCPICr~p~ 344 (491)
T COG5243 279 TEEQLTNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCG-----HILHLHCLKNWLERQ--QTCPICRRPV 344 (491)
T ss_pred hhhhhcCCCCeEEEecccccCCCCccCcccccCCccccccc-----ceeeHHHHHHHHHhc--cCCCcccCcc
Confidence 4455567889999999983 322 23468997 789999999999874 6999999884
No 14
>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=97.63 E-value=5.1e-05 Score=49.40 Aligned_cols=45 Identities=22% Similarity=0.770 Sum_probs=33.9
Q ss_pred eeeEeccCCCCCCeeecccccCCCcceecHHHHHHHHHhcCCCcccCCCcce
Q 023250 201 VCRICLDICEEGNTLKMECSCKGALRLVHEECAIRWFSTKGNKNCEVCGKEV 252 (285)
Q Consensus 201 ~CRICle~~e~g~~Li~PC~CkGSl~~VH~~CL~kWl~~kg~~~CEICK~ey 252 (285)
.|.||++... ......+|. |.+|..||..|+.. +...|++|+..+
T Consensus 1 ~C~iC~~~~~-~~~~~~~C~-----H~~c~~C~~~~~~~-~~~~Cp~C~~~~ 45 (45)
T cd00162 1 ECPICLEEFR-EPVVLLPCG-----HVFCRSCIDKWLKS-GKNTCPLCRTPI 45 (45)
T ss_pred CCCcCchhhh-CceEecCCC-----ChhcHHHHHHHHHh-CcCCCCCCCCcC
Confidence 4889998762 223355686 67999999999987 457899999763
No 15
>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=97.57 E-value=5.5e-05 Score=53.14 Aligned_cols=48 Identities=29% Similarity=0.755 Sum_probs=37.3
Q ss_pred CCCeeeEeccCCCCCCeeecccccCCCcce-ecHHHHHHHHHhcCCCcccCCCcceec
Q 023250 198 EEAVCRICLDICEEGNTLKMECSCKGALRL-VHEECAIRWFSTKGNKNCEVCGKEVQN 254 (285)
Q Consensus 198 e~~~CRICle~~e~g~~Li~PC~CkGSl~~-VH~~CL~kWl~~kg~~~CEICK~ey~~ 254 (285)
|+..|.||++... +.+..||. |. +-..|+.+|+. ....|++|+..+..
T Consensus 1 ~~~~C~iC~~~~~--~~~~~pCg-----H~~~C~~C~~~~~~--~~~~CP~Cr~~i~~ 49 (50)
T PF13920_consen 1 EDEECPICFENPR--DVVLLPCG-----HLCFCEECAERLLK--RKKKCPICRQPIES 49 (50)
T ss_dssp -HSB-TTTSSSBS--SEEEETTC-----EEEEEHHHHHHHHH--TTSBBTTTTBB-SE
T ss_pred CcCCCccCCccCC--ceEEeCCC-----ChHHHHHHhHHhcc--cCCCCCcCChhhcC
Confidence 3568999998743 57789997 56 99999999998 46799999998864
No 16
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=97.54 E-value=7.6e-05 Score=67.51 Aligned_cols=50 Identities=26% Similarity=0.622 Sum_probs=40.2
Q ss_pred CCCeeeEeccCCCCCCeeecccccCCCcceecHHHHHHHHHhc--------------CCCcccCCCcceec
Q 023250 198 EEAVCRICLDICEEGNTLKMECSCKGALRLVHEECAIRWFSTK--------------GNKNCEVCGKEVQN 254 (285)
Q Consensus 198 e~~~CRICle~~e~g~~Li~PC~CkGSl~~VH~~CL~kWl~~k--------------g~~~CEICK~ey~~ 254 (285)
++..|-||++... ++.+.+|. |.++..||.+|+... +...|++|+..+..
T Consensus 17 ~~~~CpICld~~~--dPVvT~CG-----H~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~ 80 (193)
T PLN03208 17 GDFDCNICLDQVR--DPVVTLCG-----HLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSE 80 (193)
T ss_pred CccCCccCCCcCC--CcEEcCCC-----chhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCCh
Confidence 5678999998754 57888987 789999999998642 24689999999864
No 17
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=97.52 E-value=9.5e-05 Score=59.18 Aligned_cols=52 Identities=27% Similarity=0.661 Sum_probs=38.3
Q ss_pred CCeeeEeccCCCC--------CC--eeecccccCCCcceecHHHHHHHHHhc-CCCcccCCCcceec
Q 023250 199 EAVCRICLDICEE--------GN--TLKMECSCKGALRLVHEECAIRWFSTK-GNKNCEVCGKEVQN 254 (285)
Q Consensus 199 ~~~CRICle~~e~--------g~--~Li~PC~CkGSl~~VH~~CL~kWl~~k-g~~~CEICK~ey~~ 254 (285)
+..|-||...++. |+ +++ =+.|. +.||..||.+|+... .+..|++|++++++
T Consensus 21 dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv-~g~C~---H~FH~hCI~kWl~~~~~~~~CPmCR~~w~~ 83 (85)
T PF12861_consen 21 DDVCGICRMPFDGCCPDCKFPGDDCPLV-WGKCS---HNFHMHCILKWLSTQSSKGQCPMCRQPWKF 83 (85)
T ss_pred CCceeeEecccccCCCCccCCCCCCcee-eccCc---cHHHHHHHHHHHccccCCCCCCCcCCeeee
Confidence 6689999987752 22 232 23453 689999999999874 46799999999874
No 18
>smart00184 RING Ring finger. E3 ubiquitin-protein ligase activity is intrinsic to the RING domain of c-Cbl and is likely to be a general function of this domain; Various RING fingers exhibit binding activity towards E2 ubiquitin-conjugating enzymes (Ubc' s)
Probab=97.30 E-value=0.0002 Score=44.93 Aligned_cols=39 Identities=28% Similarity=0.918 Sum_probs=30.8
Q ss_pred eeEeccCCCCCCeeecccccCCCcceecHHHHHHHHHhcCCCcccCC
Q 023250 202 CRICLDICEEGNTLKMECSCKGALRLVHEECAIRWFSTKGNKNCEVC 248 (285)
Q Consensus 202 CRICle~~e~g~~Li~PC~CkGSl~~VH~~CL~kWl~~kg~~~CEIC 248 (285)
|.||++.. .+..+.+|. |.+|..|+..|+. .+...|++|
T Consensus 1 C~iC~~~~--~~~~~~~C~-----H~~c~~C~~~~~~-~~~~~CP~C 39 (39)
T smart00184 1 CPICLEEL--KDPVVLPCG-----HTFCRSCIRKWLK-SGNNTCPIC 39 (39)
T ss_pred CCcCccCC--CCcEEecCC-----ChHHHHHHHHHHH-hCcCCCCCC
Confidence 67898772 356788987 6799999999998 345679987
No 19
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=97.23 E-value=8.2e-05 Score=56.64 Aligned_cols=52 Identities=25% Similarity=0.561 Sum_probs=24.7
Q ss_pred CCeeeEeccCCC-CCCeeecc---cccCCCcceecHHHHHHHHHhcC---------CCcccCCCccee
Q 023250 199 EAVCRICLDICE-EGNTLKME---CSCKGALRLVHEECAIRWFSTKG---------NKNCEVCGKEVQ 253 (285)
Q Consensus 199 ~~~CRICle~~e-~g~~Li~P---C~CkGSl~~VH~~CL~kWl~~kg---------~~~CEICK~ey~ 253 (285)
+..|.||+.... .++....- +.|. +.+|..||.+||.... ...||.|+.++.
T Consensus 2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~---~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~ 66 (70)
T PF11793_consen 2 ELECGICYSYRLDDGEIPDVVCPNPSCG---KKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPIS 66 (70)
T ss_dssp --S-SSS--SS-TT-----B--S-TT-------B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEE
T ss_pred CCCCCcCCcEecCCCCcCceEcCCcccC---CHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeee
Confidence 457999998754 33322333 3565 5799999999997531 136999999876
No 20
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=97.07 E-value=0.00014 Score=78.27 Aligned_cols=57 Identities=26% Similarity=0.765 Sum_probs=41.4
Q ss_pred cCCCCeeeEeccCCC-CCCeee-cccc-cCCCcceecHHHHHHHHHhcCCCcccCCCcceecc
Q 023250 196 AEEEAVCRICLDICE-EGNTLK-MECS-CKGALRLVHEECAIRWFSTKGNKNCEVCGKEVQNL 255 (285)
Q Consensus 196 ~ee~~~CRICle~~e-~g~~Li-~PC~-CkGSl~~VH~~CL~kWl~~kg~~~CEICK~ey~~v 255 (285)
-+....|.||+.-.+ .+..+- .-|. |+ +-+|..||.+|+..+++.+||+|+.++.++
T Consensus 1466 fsG~eECaICYsvL~~vdr~lPskrC~TCk---nKFH~~CLyKWf~Ss~~s~CPlCRseitfv 1525 (1525)
T COG5219 1466 FSGHEECAICYSVLDMVDRSLPSKRCATCK---NKFHTRCLYKWFASSARSNCPLCRSEITFV 1525 (1525)
T ss_pred cCCcchhhHHHHHHHHHhccCCccccchhh---hhhhHHHHHHHHHhcCCCCCCccccccccC
Confidence 456678999986543 222231 2232 54 469999999999999999999999988753
No 21
>PF00097 zf-C3HC4: Zinc finger, C3HC4 type (RING finger); InterPro: IPR018957 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C3HC4 type zinc-finger (RING finger) is a cysteine-rich domain of 40 to 60 residues that coordinates two zinc ions, and has the consensus sequence: C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C where X is any amino acid []. Many proteins containing a RING finger play a key role in the ubiquitination pathway []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1CHC_A 2ECW_A 2Y43_B 1V87_A 2DJB_A 2H0D_B 3RPG_C 3KNV_A 2CKL_B 1JM7_A ....
Probab=97.02 E-value=0.00071 Score=45.16 Aligned_cols=40 Identities=28% Similarity=0.904 Sum_probs=33.6
Q ss_pred eeEeccCCCCCCee-ecccccCCCcceecHHHHHHHHHhcCCCcccCC
Q 023250 202 CRICLDICEEGNTL-KMECSCKGALRLVHEECAIRWFSTKGNKNCEVC 248 (285)
Q Consensus 202 CRICle~~e~g~~L-i~PC~CkGSl~~VH~~CL~kWl~~kg~~~CEIC 248 (285)
|.||++.... +. ..+|. |.++..||.+|+...+...|++|
T Consensus 1 C~iC~~~~~~--~~~~~~C~-----H~fC~~C~~~~~~~~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFED--PVILLPCG-----HSFCRDCLRKWLENSGSVKCPLC 41 (41)
T ss_dssp ETTTSSBCSS--EEEETTTS-----EEEEHHHHHHHHHHTSSSBTTTT
T ss_pred CCcCCccccC--CCEEecCC-----CcchHHHHHHHHHhcCCccCCcC
Confidence 7899987653 44 89998 78999999999997777889998
No 22
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.96 E-value=0.00044 Score=70.04 Aligned_cols=51 Identities=27% Similarity=0.821 Sum_probs=41.2
Q ss_pred ccCCCCeeeEeccCCCCC-C--eeecccccCCCcceecHHHHHHHHHhcCCCcccCCCcce
Q 023250 195 IAEEEAVCRICLDICEEG-N--TLKMECSCKGALRLVHEECAIRWFSTKGNKNCEVCGKEV 252 (285)
Q Consensus 195 ~~ee~~~CRICle~~e~g-~--~Li~PC~CkGSl~~VH~~CL~kWl~~kg~~~CEICK~ey 252 (285)
.......|.||+++...+ + +-++||. |.+|..||.+|+.. ..+|++|+..+
T Consensus 287 ~~~~~~~C~IC~e~l~~~~~~~~~rL~C~-----Hifh~~CL~~W~er--~qtCP~CR~~~ 340 (543)
T KOG0802|consen 287 LALSDELCIICLEELHSGHNITPKRLPCG-----HIFHDSCLRSWFER--QQTCPTCRTVL 340 (543)
T ss_pred hhhcCCeeeeechhhccccccccceeecc-----cchHHHHHHHHHHH--hCcCCcchhhh
Confidence 345688999999987543 2 4689997 79999999999988 46999999943
No 23
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.92 E-value=0.0012 Score=61.16 Aligned_cols=53 Identities=30% Similarity=0.624 Sum_probs=44.2
Q ss_pred ccCCCCeeeEeccCCCCCCeeecccccCCCcceecHHHHHHHHHhcC-CCcccCCCcceec
Q 023250 195 IAEEEAVCRICLDICEEGNTLKMECSCKGALRLVHEECAIRWFSTKG-NKNCEVCGKEVQN 254 (285)
Q Consensus 195 ~~ee~~~CRICle~~e~g~~Li~PC~CkGSl~~VH~~CL~kWl~~kg-~~~CEICK~ey~~ 254 (285)
.+...-.|-|||+.- .+++++.|. |++==.||.+|+.... ...|++||.++..
T Consensus 43 ~~~~~FdCNICLd~a--kdPVvTlCG-----HLFCWpClyqWl~~~~~~~~cPVCK~~Vs~ 96 (230)
T KOG0823|consen 43 RDGGFFDCNICLDLA--KDPVVTLCG-----HLFCWPCLYQWLQTRPNSKECPVCKAEVSI 96 (230)
T ss_pred CCCCceeeeeecccc--CCCEEeecc-----cceehHHHHHHHhhcCCCeeCCcccccccc
Confidence 456778999999874 468999997 6888899999998875 5678999999975
No 24
>PHA02926 zinc finger-like protein; Provisional
Probab=96.86 E-value=0.00083 Score=62.44 Aligned_cols=54 Identities=26% Similarity=0.688 Sum_probs=40.5
Q ss_pred CCCCeeeEeccCCC----CCC---eeecccccCCCcceecHHHHHHHHHhc----CCCcccCCCcceecc
Q 023250 197 EEEAVCRICLDICE----EGN---TLKMECSCKGALRLVHEECAIRWFSTK----GNKNCEVCGKEVQNL 255 (285)
Q Consensus 197 ee~~~CRICle~~e----~g~---~Li~PC~CkGSl~~VH~~CL~kWl~~k----g~~~CEICK~ey~~v 255 (285)
..+.+|-||++... .++ .+..+|. |.|...|+.+|...+ ....||+|+..+.++
T Consensus 168 SkE~eCgICmE~I~eK~~~~eRrFGIL~~Cn-----HsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~I 232 (242)
T PHA02926 168 SKEKECGICYEVVYSKRLENDRYFGLLDSCN-----HIFCITCINIWHRTRRETGASDNCPICRTRFRNI 232 (242)
T ss_pred cCCCCCccCccccccccccccccccccCCCC-----chHHHHHHHHHHHhccccCcCCcCCCCcceeeee
Confidence 45689999998641 111 2456887 789999999999864 246799999999864
No 25
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=96.75 E-value=0.00056 Score=54.33 Aligned_cols=51 Identities=25% Similarity=0.627 Sum_probs=38.7
Q ss_pred eeeEeccCCCC--------CC--eeecccccCCCcceecHHHHHHHHHhcC-CCcccCCCcceecc
Q 023250 201 VCRICLDICEE--------GN--TLKMECSCKGALRLVHEECAIRWFSTKG-NKNCEVCGKEVQNL 255 (285)
Q Consensus 201 ~CRICle~~e~--------g~--~Li~PC~CkGSl~~VH~~CL~kWl~~kg-~~~CEICK~ey~~v 255 (285)
+|-||.+.++. |+ +|+.. .|. +.+|..|+.+|+..+. ...|+.|+++|++.
T Consensus 22 ~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G-~C~---h~fh~hCI~~wl~~~tsq~~CPmcRq~~~~~ 83 (84)
T KOG1493|consen 22 TCGICRMPFDGCCPDCKLPGDDCPLVWG-YCL---HAFHAHCILKWLNTPTSQGQCPMCRQTWQFK 83 (84)
T ss_pred ccceEecccCCcCCCCcCCCCCCccHHH-HHH---HHHHHHHHHHHhcCccccccCCcchheeEec
Confidence 99999988762 22 45433 332 7899999999998764 46999999999853
No 26
>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=96.56 E-value=0.002 Score=43.13 Aligned_cols=38 Identities=32% Similarity=0.818 Sum_probs=29.9
Q ss_pred eeEeccCCCCCCe-eecccccCCCcceecHHHHHHHHHhcCCCcccCC
Q 023250 202 CRICLDICEEGNT-LKMECSCKGALRLVHEECAIRWFSTKGNKNCEVC 248 (285)
Q Consensus 202 CRICle~~e~g~~-Li~PC~CkGSl~~VH~~CL~kWl~~kg~~~CEIC 248 (285)
|.||++... ++ ...+|. |.+..+|+.+|+.. +..|++|
T Consensus 1 C~iC~~~~~--~~~~~~~CG-----H~fC~~C~~~~~~~--~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELR--DPVVVTPCG-----HSFCKECIEKYLEK--NPKCPVC 39 (39)
T ss_dssp ETTTTSB-S--SEEEECTTS-----EEEEHHHHHHHHHC--TSB-TTT
T ss_pred CCCCCCccc--CcCEECCCC-----CchhHHHHHHHHHC--cCCCcCC
Confidence 779988654 46 578997 78999999999988 3799988
No 27
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.44 E-value=0.0019 Score=65.84 Aligned_cols=56 Identities=23% Similarity=0.588 Sum_probs=40.9
Q ss_pred cccccCCCCeeeEeccCCC---C------------CCeeecccccCCCcceecHHHHHHHHHhcCCCcccCCCccee
Q 023250 192 DEEIAEEEAVCRICLDICE---E------------GNTLKMECSCKGALRLVHEECAIRWFSTKGNKNCEVCGKEVQ 253 (285)
Q Consensus 192 ~ee~~ee~~~CRICle~~e---~------------g~~Li~PC~CkGSl~~VH~~CL~kWl~~kg~~~CEICK~ey~ 253 (285)
++.-.+....|-||+..-+ . .+-+.+||. |.+|..||++|...- +..|++|+....
T Consensus 564 ~~~~~~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~-----HifH~~CL~~WMd~y-kl~CPvCR~pLP 634 (636)
T KOG0828|consen 564 LEAFVRRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCH-----HIFHRQCLLQWMDTY-KLICPVCRCPLP 634 (636)
T ss_pred ccchhhccccceEeccccceeeccCcchhhhhhhhccccccchH-----HHHHHHHHHHHHhhh-cccCCccCCCCC
Confidence 3334567789999997643 1 123456998 789999999999842 358999998754
No 28
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.34 E-value=0.005 Score=60.23 Aligned_cols=52 Identities=23% Similarity=0.529 Sum_probs=38.6
Q ss_pred cccCCCCeeeEeccCCCCCCeeecccccCCCcceecHHHHHHHHHhcCCCcccCCCccee
Q 023250 194 EIAEEEAVCRICLDICEEGNTLKMECSCKGALRLVHEECAIRWFSTKGNKNCEVCGKEVQ 253 (285)
Q Consensus 194 e~~ee~~~CRICle~~e~g~~Li~PC~CkGSl~~VH~~CL~kWl~~kg~~~CEICK~ey~ 253 (285)
++.++++.|-||+.+. -|.+++||+.- .+=..|.+...-. .+.|+||++.+.
T Consensus 285 ~~~~~gkeCVIClse~--rdt~vLPCRHL----CLCs~Ca~~Lr~q--~n~CPICRqpi~ 336 (349)
T KOG4265|consen 285 DESESGKECVICLSES--RDTVVLPCRHL----CLCSGCAKSLRYQ--TNNCPICRQPIE 336 (349)
T ss_pred ccccCCCeeEEEecCC--cceEEecchhh----ehhHhHHHHHHHh--hcCCCccccchH
Confidence 3557799999999763 46789999821 2456888877633 457999999986
No 29
>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=96.30 E-value=0.0052 Score=43.99 Aligned_cols=45 Identities=13% Similarity=0.400 Sum_probs=37.0
Q ss_pred CeeeEeccCCCCCCeeecccccCCCcceecHHHHHHHHHhcCCCcccCCCccee
Q 023250 200 AVCRICLDICEEGNTLKMECSCKGALRLVHEECAIRWFSTKGNKNCEVCGKEVQ 253 (285)
Q Consensus 200 ~~CRICle~~e~g~~Li~PC~CkGSl~~VH~~CL~kWl~~kg~~~CEICK~ey~ 253 (285)
-.|.||++... ++++.||. +.+-+.|+.+|+.. +..|++|+..+.
T Consensus 2 ~~Cpi~~~~~~--~Pv~~~~G-----~v~~~~~i~~~~~~--~~~cP~~~~~~~ 46 (63)
T smart00504 2 FLCPISLEVMK--DPVILPSG-----QTYERRAIEKWLLS--HGTDPVTGQPLT 46 (63)
T ss_pred cCCcCCCCcCC--CCEECCCC-----CEEeHHHHHHHHHH--CCCCCCCcCCCC
Confidence 46999998764 47888874 78999999999987 468999998874
No 30
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.28 E-value=0.0026 Score=63.26 Aligned_cols=46 Identities=28% Similarity=0.775 Sum_probs=34.2
Q ss_pred CCeeeEeccCCCCCCee--ecccccCCCcceecHHHHHHHHHhcCC-CcccCCC
Q 023250 199 EAVCRICLDICEEGNTL--KMECSCKGALRLVHEECAIRWFSTKGN-KNCEVCG 249 (285)
Q Consensus 199 ~~~CRICle~~e~g~~L--i~PC~CkGSl~~VH~~CL~kWl~~kg~-~~CEICK 249 (285)
.+.|.||-+.......+ +.-|. |.||..||.+||...-. +.||||+
T Consensus 4 ~A~C~Ic~d~~p~~~~l~~i~~cG-----hifh~~cl~qwfe~~Ps~R~cpic~ 52 (465)
T KOG0827|consen 4 MAECHICIDGRPNDHELGPIGTCG-----HIFHTTCLTQWFEGDPSNRGCPICQ 52 (465)
T ss_pred cceeeEeccCCccccccccccchh-----hHHHHHHHHHHHccCCccCCCCcee
Confidence 46899995554332333 55575 78999999999987644 7999999
No 31
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=96.07 E-value=0.0065 Score=58.14 Aligned_cols=62 Identities=27% Similarity=0.589 Sum_probs=49.4
Q ss_pred CcccccCCCCeeeEeccCCCCCCeeecccccCCCcceecHHHHHHHHHhcCCCcccCCCcceecccceecc
Q 023250 191 NDEEIAEEEAVCRICLDICEEGNTLKMECSCKGALRLVHEECAIRWFSTKGNKNCEVCGKEVQNLPVTLLR 261 (285)
Q Consensus 191 ~~ee~~ee~~~CRICle~~e~g~~Li~PC~CkGSl~~VH~~CL~kWl~~kg~~~CEICK~ey~~vpvtllR 261 (285)
....+++....|-||++.-. ++-.+||. |.|=-.|+..|..++. .||+|+..++.--+-.||
T Consensus 231 ~~~~i~~a~~kC~LCLe~~~--~pSaTpCG-----HiFCWsCI~~w~~ek~--eCPlCR~~~~pskvi~Lr 292 (293)
T KOG0317|consen 231 SLSSIPEATRKCSLCLENRS--NPSATPCG-----HIFCWSCILEWCSEKA--ECPLCREKFQPSKVICLR 292 (293)
T ss_pred CCccCCCCCCceEEEecCCC--CCCcCcCc-----chHHHHHHHHHHcccc--CCCcccccCCCcceeeec
Confidence 34556778899999998743 56689998 6788899999998864 699999999866666655
No 32
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=95.80 E-value=0.0057 Score=60.68 Aligned_cols=50 Identities=26% Similarity=0.557 Sum_probs=40.9
Q ss_pred cCCCCeeeEeccCCCCCCeeecccccCCCcceecHHHHHHHHHhcCCCcccCCCcceec
Q 023250 196 AEEEAVCRICLDICEEGNTLKMECSCKGALRLVHEECAIRWFSTKGNKNCEVCGKEVQN 254 (285)
Q Consensus 196 ~ee~~~CRICle~~e~g~~Li~PC~CkGSl~~VH~~CL~kWl~~kg~~~CEICK~ey~~ 254 (285)
-+....|.||++.+. ++.+.||. |.|...|+..|+... ..|++|+..+..
T Consensus 23 Le~~l~C~IC~d~~~--~PvitpCg-----H~FCs~CI~~~l~~~--~~CP~Cr~~~~~ 72 (397)
T TIGR00599 23 LDTSLRCHICKDFFD--VPVLTSCS-----HTFCSLCIRRCLSNQ--PKCPLCRAEDQE 72 (397)
T ss_pred cccccCCCcCchhhh--CccCCCCC-----CchhHHHHHHHHhCC--CCCCCCCCcccc
Confidence 346679999998764 46788997 789999999999774 489999998864
No 33
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=95.78 E-value=0.0081 Score=41.37 Aligned_cols=43 Identities=23% Similarity=0.600 Sum_probs=34.8
Q ss_pred eeeEeccCCC-CCCeeecccccCCCcceecHHHHHHHHHhcCCCcccCCCc
Q 023250 201 VCRICLDICE-EGNTLKMECSCKGALRLVHEECAIRWFSTKGNKNCEVCGK 250 (285)
Q Consensus 201 ~CRICle~~e-~g~~Li~PC~CkGSl~~VH~~CL~kWl~~kg~~~CEICK~ 250 (285)
.|-||++.+. ....++++|. |.+...|+.++. .....|++|++
T Consensus 1 ~C~~C~~~~~~~~~~~l~~Cg-----H~~C~~C~~~~~--~~~~~CP~C~k 44 (44)
T PF14634_consen 1 HCNICFEKYSEERRPRLTSCG-----HIFCEKCLKKLK--GKSVKCPICRK 44 (44)
T ss_pred CCcCcCccccCCCCeEEcccC-----CHHHHHHHHhhc--CCCCCCcCCCC
Confidence 3789999883 3356789997 789999999999 45679999984
No 34
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=95.65 E-value=0.0037 Score=62.95 Aligned_cols=49 Identities=24% Similarity=0.709 Sum_probs=38.2
Q ss_pred cCCCCeeeEeccCCCCC--CeeecccccCCCcceecHHHHHHHHHhcCCCcccCCCccee
Q 023250 196 AEEEAVCRICLDICEEG--NTLKMECSCKGALRLVHEECAIRWFSTKGNKNCEVCGKEVQ 253 (285)
Q Consensus 196 ~ee~~~CRICle~~e~g--~~Li~PC~CkGSl~~VH~~CL~kWl~~kg~~~CEICK~ey~ 253 (285)
..|.+.|.+|++..+++ ..+...|. |-||-.||.+|-.. .|++|++.-.
T Consensus 172 ~tELPTCpVCLERMD~s~~gi~t~~c~-----Hsfh~~cl~~w~~~----scpvcR~~q~ 222 (493)
T KOG0804|consen 172 LTELPTCPVCLERMDSSTTGILTILCN-----HSFHCSCLMKWWDS----SCPVCRYCQS 222 (493)
T ss_pred cccCCCcchhHhhcCccccceeeeecc-----cccchHHHhhcccC----cChhhhhhcC
Confidence 45789999999887653 34556787 67999999999765 6888888755
No 35
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=95.04 E-value=0.0076 Score=58.44 Aligned_cols=52 Identities=21% Similarity=0.506 Sum_probs=39.5
Q ss_pred CCCeeeEeccCCCCCCee-ecccccCCCcceecHHHHHHHHHhc---------------------CCCcccCCCcceec
Q 023250 198 EEAVCRICLDICEEGNTL-KMECSCKGALRLVHEECAIRWFSTK---------------------GNKNCEVCGKEVQN 254 (285)
Q Consensus 198 e~~~CRICle~~e~g~~L-i~PC~CkGSl~~VH~~CL~kWl~~k---------------------g~~~CEICK~ey~~ 254 (285)
....|-||+-++-+++.+ +++|. ||+|..||.++|..- -...|+||++.+..
T Consensus 114 p~gqCvICLygfa~~~~ft~T~C~-----Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~ 187 (368)
T KOG4445|consen 114 PNGQCVICLYGFASSPAFTVTACD-----HYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKI 187 (368)
T ss_pred CCCceEEEEEeecCCCceeeehhH-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhccc
Confidence 446799998877666644 79997 899999999888641 13579999987753
No 36
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.93 E-value=0.0069 Score=60.55 Aligned_cols=74 Identities=24% Similarity=0.604 Sum_probs=53.6
Q ss_pred CCCCeeeEeccCCC-CCCe-ee-cccccCCCcceecHHHHHHHHHhcCCCcccCCCccee---cccceecccCchhhhcc
Q 023250 197 EEEAVCRICLDICE-EGNT-LK-MECSCKGALRLVHEECAIRWFSTKGNKNCEVCGKEVQ---NLPVTLLRMSSSAQRDN 270 (285)
Q Consensus 197 ee~~~CRICle~~e-~g~~-Li-~PC~CkGSl~~VH~~CL~kWl~~kg~~~CEICK~ey~---~vpvtllR~~~~~~~~~ 270 (285)
+.+..|-||+++.+ .||- ++ .-|. +.|-..|+++||..+....|++|+.+.. ..+.+.+|++..-...+
T Consensus 2 d~g~tcpiclds~~~~g~hr~vsl~cg-----hlFgs~cie~wl~k~~~~~cp~c~~katkr~i~~e~alR~qa~dt~~~ 76 (463)
T KOG1645|consen 2 DCGTTCPICLDSYTTAGNHRIVSLQCG-----HLFGSQCIEKWLGKKTKMQCPLCSGKATKRQIRPEYALRVQAMDTENE 76 (463)
T ss_pred CccccCceeeeeeeecCceEEeeeccc-----ccccHHHHHHHHhhhhhhhCcccCChhHHHHHHHHHHHHHHHHhhhHH
Confidence 35678999999874 4553 44 4465 6899999999997656789999998764 46678899887644444
Q ss_pred ccccc
Q 023250 271 RRNHS 275 (285)
Q Consensus 271 r~~~~ 275 (285)
-++..
T Consensus 77 ~rle~ 81 (463)
T KOG1645|consen 77 QRLEE 81 (463)
T ss_pred HHHHH
Confidence 44433
No 37
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.69 E-value=0.088 Score=47.70 Aligned_cols=56 Identities=23% Similarity=0.518 Sum_probs=42.7
Q ss_pred CCcccccCCCCeeeEeccCCCCCCeeecccccCCCcceecHHHHHHHHHhcCCCcccCCCcce
Q 023250 190 NNDEEIAEEEAVCRICLDICEEGNTLKMECSCKGALRLVHEECAIRWFSTKGNKNCEVCGKEV 252 (285)
Q Consensus 190 ~~~ee~~ee~~~CRICle~~e~g~~Li~PC~CkGSl~~VH~~CL~kWl~~kg~~~CEICK~ey 252 (285)
+.++...+...-|-|||+.+++..++-.-|. |.|=.+|++.-++. ...|++|+..+
T Consensus 122 ~v~~~~~~~~~~CPiCl~~~sek~~vsTkCG-----HvFC~~Cik~alk~--~~~CP~C~kkI 177 (187)
T KOG0320|consen 122 DVDPLRKEGTYKCPICLDSVSEKVPVSTKCG-----HVFCSQCIKDALKN--TNKCPTCRKKI 177 (187)
T ss_pred cccccccccccCCCceecchhhccccccccc-----hhHHHHHHHHHHHh--CCCCCCccccc
Confidence 3445555667899999998876544456776 78889999999966 57999999754
No 38
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=94.45 E-value=0.024 Score=41.13 Aligned_cols=46 Identities=17% Similarity=0.504 Sum_probs=23.0
Q ss_pred eeEeccCCCCCCeeecccccCCCcceecHHHHHHHHHhc--CCCcccCCCccee
Q 023250 202 CRICLDICEEGNTLKMECSCKGALRLVHEECAIRWFSTK--GNKNCEVCGKEVQ 253 (285)
Q Consensus 202 CRICle~~e~g~~Li~PC~CkGSl~~VH~~CL~kWl~~k--g~~~CEICK~ey~ 253 (285)
|.+|.+..+..+.-..||.|. ++-|+.=|.... .+..|+-||..|.
T Consensus 1 cp~C~e~~d~~d~~~~PC~Cg------f~IC~~C~~~i~~~~~g~CPgCr~~Y~ 48 (48)
T PF14570_consen 1 CPLCDEELDETDKDFYPCECG------FQICRFCYHDILENEGGRCPGCREPYK 48 (48)
T ss_dssp -TTTS-B--CCCTT--SSTTS----------HHHHHHHTTSS-SB-TTT--B--
T ss_pred CCCcccccccCCCccccCcCC------CcHHHHHHHHHHhccCCCCCCCCCCCC
Confidence 567877765444557899995 567888888776 3689999999984
No 39
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=94.24 E-value=0.041 Score=44.23 Aligned_cols=28 Identities=29% Similarity=0.617 Sum_probs=24.7
Q ss_pred ceecHHHHHHHHHhcCCCcccCCCcceecc
Q 023250 226 RLVHEECAIRWFSTKGNKNCEVCGKEVQNL 255 (285)
Q Consensus 226 ~~VH~~CL~kWl~~kg~~~CEICK~ey~~v 255 (285)
|.||..|+.+||..++ .|++|++++++.
T Consensus 56 HaFH~HCI~rWL~Tk~--~CPld~q~w~~~ 83 (88)
T COG5194 56 HAFHDHCIYRWLDTKG--VCPLDRQTWVLA 83 (88)
T ss_pred hHHHHHHHHHHHhhCC--CCCCCCceeEEe
Confidence 6899999999999965 899999998753
No 40
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=93.40 E-value=0.069 Score=36.89 Aligned_cols=40 Identities=25% Similarity=0.733 Sum_probs=28.8
Q ss_pred eeEeccCCCCCCeeecccccCCCcceecHHHHHHHHHhcCC--CcccCC
Q 023250 202 CRICLDICEEGNTLKMECSCKGALRLVHEECAIRWFSTKGN--KNCEVC 248 (285)
Q Consensus 202 CRICle~~e~g~~Li~PC~CkGSl~~VH~~CL~kWl~~kg~--~~CEIC 248 (285)
|.||++-+. +++.++|. |.|=+.||.+|....+. ..|++|
T Consensus 1 CpiC~~~~~--~Pv~l~CG-----H~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFK--DPVSLPCG-----HSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-S--SEEE-SSS-----SEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhhC--CccccCCc-----CHHHHHHHHHHHHccCCcCCCCcCC
Confidence 779988765 58899997 67889999999987643 589988
No 41
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=91.45 E-value=0.043 Score=52.71 Aligned_cols=52 Identities=29% Similarity=0.697 Sum_probs=39.6
Q ss_pred CCCCeeeEeccCCC-----C---CCeeecccccCCCcceecHHHHHHHHHhcCCCcccCCCccee
Q 023250 197 EEEAVCRICLDICE-----E---GNTLKMECSCKGALRLVHEECAIRWFSTKGNKNCEVCGKEVQ 253 (285)
Q Consensus 197 ee~~~CRICle~~e-----~---g~~Li~PC~CkGSl~~VH~~CL~kWl~~kg~~~CEICK~ey~ 253 (285)
.++.+|.||-...+ + ++.-.+-|+ |.+|+.|+.-|...-+..+||-||..+.
T Consensus 222 l~d~vCaVCg~~~~~s~~eegvienty~LsCn-----HvFHEfCIrGWcivGKkqtCPYCKekVd 281 (328)
T KOG1734|consen 222 LSDSVCAVCGQQIDVSVDEEGVIENTYKLSCN-----HVFHEFCIRGWCIVGKKQTCPYCKEKVD 281 (328)
T ss_pred CCcchhHhhcchheeecchhhhhhhheeeecc-----cchHHHhhhhheeecCCCCCchHHHHhh
Confidence 45678999975532 1 133467888 7899999999998766789999999864
No 42
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=91.43 E-value=0.054 Score=54.52 Aligned_cols=58 Identities=19% Similarity=0.493 Sum_probs=45.6
Q ss_pred cccccCCCCeeeEeccCCCCCCeeecccccCCCcceecHHHHHHHHHhcCCCcccCCCcceeccc
Q 023250 192 DEEIAEEEAVCRICLDICEEGNTLKMECSCKGALRLVHEECAIRWFSTKGNKNCEVCGKEVQNLP 256 (285)
Q Consensus 192 ~ee~~ee~~~CRICle~~e~g~~Li~PC~CkGSl~~VH~~CL~kWl~~kg~~~CEICK~ey~~vp 256 (285)
+-++...-..|.||-+.+ .+.-|-||. |+.-..||..|....+...|+.|+++++..-
T Consensus 362 YceMgsTFeLCKICaend--KdvkIEPCG-----HLlCt~CLa~WQ~sd~gq~CPFCRcEIKGte 419 (563)
T KOG1785|consen 362 YCEMGSTFELCKICAEND--KDVKIEPCG-----HLLCTSCLAAWQDSDEGQTCPFCRCEIKGTE 419 (563)
T ss_pred HHHccchHHHHHHhhccC--CCccccccc-----chHHHHHHHhhcccCCCCCCCceeeEecccc
Confidence 345556678999997653 244588997 6788899999998887789999999998644
No 43
>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=90.56 E-value=0.19 Score=38.06 Aligned_cols=48 Identities=10% Similarity=0.272 Sum_probs=34.3
Q ss_pred CCeeeEeccCCCCCCeeecccccCCCcceecHHHHHHHHHhcCCCcccCCCcceec
Q 023250 199 EAVCRICLDICEEGNTLKMECSCKGALRLVHEECAIRWFSTKGNKNCEVCGKEVQN 254 (285)
Q Consensus 199 ~~~CRICle~~e~g~~Li~PC~CkGSl~~VH~~CL~kWl~~kg~~~CEICK~ey~~ 254 (285)
+-.|-||++-.. ++.+.||. +.+=+.|+.+|+.. +..+|++|+..+..
T Consensus 4 ~f~CpIt~~lM~--dPVi~~~G-----~tyer~~I~~~l~~-~~~~~P~t~~~l~~ 51 (73)
T PF04564_consen 4 EFLCPITGELMR--DPVILPSG-----HTYERSAIERWLEQ-NGGTDPFTRQPLSE 51 (73)
T ss_dssp GGB-TTTSSB-S--SEEEETTS-----EEEEHHHHHHHHCT-TSSB-TTT-SB-SG
T ss_pred ccCCcCcCcHhh--CceeCCcC-----CEEcHHHHHHHHHc-CCCCCCCCCCcCCc
Confidence 457888887654 58888875 67999999999988 45799999887764
No 44
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=90.53 E-value=0.16 Score=42.61 Aligned_cols=28 Identities=29% Similarity=0.521 Sum_probs=24.0
Q ss_pred ceecHHHHHHHHHhcCCCcccCCCcceecc
Q 023250 226 RLVHEECAIRWFSTKGNKNCEVCGKEVQNL 255 (285)
Q Consensus 226 ~~VH~~CL~kWl~~kg~~~CEICK~ey~~v 255 (285)
|-||.-|+.+||+.+ ..||+|..+..+-
T Consensus 83 HaFH~hCisrWlktr--~vCPLdn~eW~~q 110 (114)
T KOG2930|consen 83 HAFHFHCISRWLKTR--NVCPLDNKEWVFQ 110 (114)
T ss_pred hHHHHHHHHHHHhhc--CcCCCcCcceeEe
Confidence 679999999999884 6999999987643
No 45
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=90.50 E-value=0.11 Score=44.28 Aligned_cols=49 Identities=31% Similarity=0.682 Sum_probs=39.5
Q ss_pred ccccCCCCeeeEeccCCCCCCeeecccccCCCcceecHHHHHHHHHhcCCCcccCCCc
Q 023250 193 EEIAEEEAVCRICLDICEEGNTLKMECSCKGALRLVHEECAIRWFSTKGNKNCEVCGK 250 (285)
Q Consensus 193 ee~~ee~~~CRICle~~e~g~~Li~PC~CkGSl~~VH~~CL~kWl~~kg~~~CEICK~ 250 (285)
.+..+++-.|.||++.+.. +.++||. |.+=..||..|+. ....|+.|+.
T Consensus 7 ~~~~~~~~~C~iC~~~~~~--p~~l~C~-----H~~c~~C~~~~~~--~~~~Cp~cr~ 55 (386)
T KOG2177|consen 7 LEVLQEELTCPICLEYFRE--PVLLPCG-----HNFCRACLTRSWE--GPLSCPVCRP 55 (386)
T ss_pred hhhccccccChhhHHHhhc--Ccccccc-----chHhHHHHHHhcC--CCcCCcccCC
Confidence 3445688999999998754 3788997 6677899999998 5689999994
No 46
>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=90.41 E-value=0.099 Score=45.21 Aligned_cols=42 Identities=19% Similarity=0.463 Sum_probs=28.7
Q ss_pred CCCeeeEeccCCCC-CCeeecccccCCCc-ceecHHHHHHHHHh
Q 023250 198 EEAVCRICLDICEE-GNTLKMECSCKGAL-RLVHEECAIRWFST 239 (285)
Q Consensus 198 e~~~CRICle~~e~-g~~Li~PC~CkGSl-~~VH~~CL~kWl~~ 239 (285)
-...|+||++.-.. +..+..+|.-.-.+ +.+|..|+.+|-..
T Consensus 25 ~~~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw~~~ 68 (134)
T PF05883_consen 25 CTVECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRWRRE 68 (134)
T ss_pred cCeeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHHHhh
Confidence 46789999987654 34455666533222 45999999999544
No 47
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=90.15 E-value=0.056 Score=58.08 Aligned_cols=53 Identities=25% Similarity=0.459 Sum_probs=38.7
Q ss_pred CCCeeeEeccCCCCCCe-eecccccCCCcceecHHHHHHHHHhcCCCcccCCCcceecccc
Q 023250 198 EEAVCRICLDICEEGNT-LKMECSCKGALRLVHEECAIRWFSTKGNKNCEVCGKEVQNLPV 257 (285)
Q Consensus 198 e~~~CRICle~~e~g~~-Li~PC~CkGSl~~VH~~CL~kWl~~kg~~~CEICK~ey~~vpv 257 (285)
....|.||+..+-++.. -..+|.| |||..||..|-... .+|++|+.+|--+-|
T Consensus 122 ~~~~CP~Ci~s~~DqL~~~~k~c~H-----~FC~~Ci~sWsR~a--qTCPiDR~EF~~v~V 175 (1134)
T KOG0825|consen 122 VENQCPNCLKSCNDQLEESEKHTAH-----YFCEECVGSWSRCA--QTCPVDRGEFGEVKV 175 (1134)
T ss_pred hhhhhhHHHHHHHHHhhcccccccc-----ccHHHHhhhhhhhc--ccCchhhhhhheeee
Confidence 45678888766543322 2456774 99999999999774 599999999975543
No 48
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=89.67 E-value=0.19 Score=45.38 Aligned_cols=29 Identities=31% Similarity=0.901 Sum_probs=23.6
Q ss_pred ccccCCCCeeeEeccCCCCCCee-eccccc
Q 023250 193 EEIAEEEAVCRICLDICEEGNTL-KMECSC 221 (285)
Q Consensus 193 ee~~ee~~~CRICle~~e~g~~L-i~PC~C 221 (285)
+-..+...+|-||+++.+.|+.+ .+||.|
T Consensus 171 DVL~ddkGECvICLEdL~~GdtIARLPCLC 200 (205)
T KOG0801|consen 171 DVLKDDKGECVICLEDLEAGDTIARLPCLC 200 (205)
T ss_pred chhcccCCcEEEEhhhccCCCceeccceEE
Confidence 33456678899999999888876 799999
No 49
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=89.64 E-value=0.28 Score=34.41 Aligned_cols=39 Identities=21% Similarity=0.599 Sum_probs=22.4
Q ss_pred eeEeccCC-CCCC-eeecccccCCCcceecHHHHHHHHHhc--CCCccc
Q 023250 202 CRICLDIC-EEGN-TLKMECSCKGALRLVHEECAIRWFSTK--GNKNCE 246 (285)
Q Consensus 202 CRICle~~-e~g~-~Li~PC~CkGSl~~VH~~CL~kWl~~k--g~~~CE 246 (285)
|-||++ + ++++ +.++||. |.+=++||++|+... +...|+
T Consensus 1 CpIc~e-~~~~~n~P~~L~CG-----H~~c~~cl~~l~~~~~~~~~kCP 43 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVLPCG-----HVFCKDCLQKLSKKSDRNRFKCP 43 (43)
T ss_dssp -TTT-----TTSS-EEE-SSS------EEEHHHHHHHHHH-S-S-B--T
T ss_pred CCcccc-ccCCCCCCEEEeCc-----cHHHHHHHHHHHhcCCCCeeeCc
Confidence 778988 5 3333 5889987 689999999999875 355664
No 50
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=89.02 E-value=0.36 Score=46.08 Aligned_cols=59 Identities=27% Similarity=0.517 Sum_probs=44.8
Q ss_pred ccCCCCeeeEeccCCCCCCeeecccccCCCcceecHHHHHH-HHHhcCCCcccCCCcceecccceecc
Q 023250 195 IAEEEAVCRICLDICEEGNTLKMECSCKGALRLVHEECAIR-WFSTKGNKNCEVCGKEVQNLPVTLLR 261 (285)
Q Consensus 195 ~~ee~~~CRICle~~e~g~~Li~PC~CkGSl~~VH~~CL~k-Wl~~kg~~~CEICK~ey~~vpvtllR 261 (285)
+++....|-||++..+ .+..+||. |.|=-.||.. |-..+ ...|++|+.....--+-+||
T Consensus 211 ip~~d~kC~lC~e~~~--~ps~t~Cg-----HlFC~~Cl~~~~t~~k-~~~CplCRak~~pk~viilr 270 (271)
T COG5574 211 IPLADYKCFLCLEEPE--VPSCTPCG-----HLFCLSCLLISWTKKK-YEFCPLCRAKVYPKKVIILR 270 (271)
T ss_pred ccccccceeeeecccC--Cccccccc-----chhhHHHHHHHHHhhc-cccCchhhhhccchhhheec
Confidence 3456778999998643 56789997 6788899999 98765 45699999988765555555
No 51
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=87.87 E-value=0.43 Score=51.78 Aligned_cols=61 Identities=20% Similarity=0.538 Sum_probs=44.8
Q ss_pred ccCCCCeeeEeccCCCCC-Ceee-cccccCCCcceecHHHHHHHHHhc-----CCCcccCCCcceecccceec
Q 023250 195 IAEEEAVCRICLDICEEG-NTLK-MECSCKGALRLVHEECAIRWFSTK-----GNKNCEVCGKEVQNLPVTLL 260 (285)
Q Consensus 195 ~~ee~~~CRICle~~e~g-~~Li-~PC~CkGSl~~VH~~CL~kWl~~k-----g~~~CEICK~ey~~vpvtll 260 (285)
......+|-||++..... ..|- .-| .+.||..|+.+|-... ..|.|+-|.+.++.+|++-+
T Consensus 187 l~~~~yeCmIC~e~I~~t~~~WSC~sC-----YhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv~~~~~~~y~ 254 (950)
T KOG1952|consen 187 LSNRKYECMICTERIKRTAPVWSCKSC-----YHVFHLNCIKKWARSSEKTGQDGWRCPACQSVSKTVPKTYL 254 (950)
T ss_pred HhcCceEEEEeeeeccccCCceecchh-----hhhhhHHHHHHHHHHhhhccCccccCCcccchhccCCcccc
Confidence 344668999999876432 2331 224 3789999999998653 36999999999998887443
No 52
>PF07800 DUF1644: Protein of unknown function (DUF1644); InterPro: IPR012866 This family consists of sequences found in a number of hypothetical plant proteins of unknown function. The region of interest contains nine highly conserved cysteine residues and is approximately 160 amino acids in length, which probably represent a zinc-binding domain.
Probab=87.87 E-value=0.69 Score=41.24 Aligned_cols=54 Identities=28% Similarity=0.663 Sum_probs=37.7
Q ss_pred CCCeeeEeccCCCCCCeeecccc----------cCCCcceecHHHHHHHHHhcC--------------------------
Q 023250 198 EEAVCRICLDICEEGNTLKMECS----------CKGALRLVHEECAIRWFSTKG-------------------------- 241 (285)
Q Consensus 198 e~~~CRICle~~e~g~~Li~PC~----------CkGSl~~VH~~CL~kWl~~kg-------------------------- 241 (285)
|+..|-||++-- -|.+.+-|. |.. .|-|..||+++-+..+
T Consensus 1 ed~~CpICme~P--HNAVLLlCSS~~kgcRpymc~T--s~rhSNCLdqfkka~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 76 (162)
T PF07800_consen 1 EDVTCPICMEHP--HNAVLLLCSSHEKGCRPYMCDT--SYRHSNCLDQFKKAYGKSSSSSSQSSSSAPSDSSSSESSESQ 76 (162)
T ss_pred CCccCceeccCC--CceEEEEeccccCCccccccCC--ccchhHHHHHHHHHhcCCCCccccccccCcCCCccccccccc
Confidence 467899999763 344444443 554 4889999999986531
Q ss_pred ---CCcccCCCcceecc
Q 023250 242 ---NKNCEVCGKEVQNL 255 (285)
Q Consensus 242 ---~~~CEICK~ey~~v 255 (285)
...||+|+-++...
T Consensus 77 ~~~~L~CPLCRG~V~GW 93 (162)
T PF07800_consen 77 EQPELACPLCRGEVKGW 93 (162)
T ss_pred ccccccCccccCceece
Confidence 25799999887643
No 53
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=87.24 E-value=0.25 Score=48.15 Aligned_cols=50 Identities=22% Similarity=0.383 Sum_probs=39.2
Q ss_pred CCCeeeEeccCCCCCCeeecccccCCCcceecHHHHHHHHHhcCCCcccCCCcceeccc
Q 023250 198 EEAVCRICLDICEEGNTLKMECSCKGALRLVHEECAIRWFSTKGNKNCEVCGKEVQNLP 256 (285)
Q Consensus 198 e~~~CRICle~~e~g~~Li~PC~CkGSl~~VH~~CL~kWl~~kg~~~CEICK~ey~~vp 256 (285)
..-.|+||.+-.. -+++.+|. |-|-.-|+.+.|... -.|++|++++....
T Consensus 24 s~lrC~IC~~~i~--ip~~TtCg-----HtFCslCIR~hL~~q--p~CP~Cr~~~~esr 73 (391)
T COG5432 24 SMLRCRICDCRIS--IPCETTCG-----HTFCSLCIRRHLGTQ--PFCPVCREDPCESR 73 (391)
T ss_pred hHHHhhhhhheee--cceecccc-----cchhHHHHHHHhcCC--CCCccccccHHhhh
Confidence 4568999987543 35788887 568889999999774 58999999987654
No 54
>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1. All proteins in this family for which functions are known are cyclin dependent protein kinases that are components of TFIIH, a complex that is involved in nucleotide excision repair and transcription initiation. Also known as MAT1 (menage a trois 1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=86.82 E-value=0.63 Score=45.19 Aligned_cols=50 Identities=18% Similarity=0.409 Sum_probs=35.9
Q ss_pred CCeeeEeccCCC--CCC-eeecccccCCCcceecHHHHHHHHHhcCCCcccCCCcceec
Q 023250 199 EAVCRICLDICE--EGN-TLKMECSCKGALRLVHEECAIRWFSTKGNKNCEVCGKEVQN 254 (285)
Q Consensus 199 ~~~CRICle~~e--~g~-~Li~PC~CkGSl~~VH~~CL~kWl~~kg~~~CEICK~ey~~ 254 (285)
+..|-||....- ..- .++.+|. |-+=..|+.+.+.. +...|++|+..+..
T Consensus 3 ~~~CP~Ck~~~y~np~~kl~i~~CG-----H~~C~sCv~~l~~~-~~~~CP~C~~~lrk 55 (309)
T TIGR00570 3 DQGCPRCKTTKYRNPSLKLMVNVCG-----HTLCESCVDLLFVR-GSGSCPECDTPLRK 55 (309)
T ss_pred CCCCCcCCCCCccCcccccccCCCC-----CcccHHHHHHHhcC-CCCCCCCCCCccch
Confidence 368999997632 222 2567786 56778999997644 56789999988764
No 55
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=85.16 E-value=0.62 Score=47.92 Aligned_cols=58 Identities=21% Similarity=0.596 Sum_probs=43.1
Q ss_pred CCeeeEeccCCCCCCeeecccccCCCcceecHHHHHHHHHhc---CCCcccCCCcceec---ccceecccC
Q 023250 199 EAVCRICLDICEEGNTLKMECSCKGALRLVHEECAIRWFSTK---GNKNCEVCGKEVQN---LPVTLLRMS 263 (285)
Q Consensus 199 ~~~CRICle~~e~g~~Li~PC~CkGSl~~VH~~CL~kWl~~k---g~~~CEICK~ey~~---vpvtllR~~ 263 (285)
+..|-||++.... +..+-|. |.+=-.||.+++... +-..|++|...+.. .|+++..++
T Consensus 186 ~~~CPICL~~~~~--p~~t~CG-----HiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kdl~pv~~e~~q 249 (513)
T KOG2164|consen 186 DMQCPICLEPPSV--PVRTNCG-----HIFCGPCILQYWNYSAIKGPCSCPICRSTITLKDLLPVFIEDDQ 249 (513)
T ss_pred CCcCCcccCCCCc--ccccccC-----ceeeHHHHHHHHhhhcccCCccCCchhhhccccceeeeeecccc
Confidence 8899999987543 3455576 678889999888653 56799999998876 556665553
No 56
>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=85.12 E-value=0.38 Score=37.34 Aligned_cols=34 Identities=24% Similarity=0.514 Sum_probs=25.1
Q ss_pred CCCCeeeEeccCCCCCCeeecccccCCCcceecHHHHHH
Q 023250 197 EEEAVCRICLDICEEGNTLKMECSCKGALRLVHEECAIR 235 (285)
Q Consensus 197 ee~~~CRICle~~e~g~~Li~PC~CkGSl~~VH~~CL~k 235 (285)
+++..|.+|......+.-.+.||. +.||..|+.+
T Consensus 76 ~~~~~C~vC~k~l~~~~f~~~p~~-----~v~H~~C~~r 109 (109)
T PF10367_consen 76 TESTKCSVCGKPLGNSVFVVFPCG-----HVVHYSCIKR 109 (109)
T ss_pred CCCCCccCcCCcCCCceEEEeCCC-----eEEecccccC
Confidence 456779999987655444478885 6899999753
No 57
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=84.60 E-value=0.67 Score=45.54 Aligned_cols=63 Identities=17% Similarity=0.472 Sum_probs=44.3
Q ss_pred CCCCeeeEeccCCCCCC----ee-ecc-cccCCCcceecHHHHHHHHHhcC-----CCcccCCCcceecccceecccCc
Q 023250 197 EEEAVCRICLDICEEGN----TL-KME-CSCKGALRLVHEECAIRWFSTKG-----NKNCEVCGKEVQNLPVTLLRMSS 264 (285)
Q Consensus 197 ee~~~CRICle~~e~g~----~L-i~P-C~CkGSl~~VH~~CL~kWl~~kg-----~~~CEICK~ey~~vpvtllR~~~ 264 (285)
..+.+|-||++...+-. .+ |+| |. |.+=..|+.+|-.... ...|++|+..-.++-...+.+.+
T Consensus 159 s~~k~CGICme~i~ek~~~~~rfgilpnC~-----H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~~v~pS~~Wv~t 232 (344)
T KOG1039|consen 159 SSEKECGICMETINEKAASERRFGILPNCN-----HSFCLNCIRKWRQATQFESKTSKSCPFCRVPSSFVNPSSFWVET 232 (344)
T ss_pred cccccceehhhhccccchhhhhcccCCCcc-----hhhhhcHhHhhhhhhccccccccCCCcccCccccccccceeeee
Confidence 56789999998753211 12 445 76 4566799999996654 68999999988877666555444
No 58
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=83.95 E-value=0.85 Score=45.43 Aligned_cols=53 Identities=19% Similarity=0.589 Sum_probs=38.2
Q ss_pred CCCCeeeEeccCCCCCCeeecccccCCCcceecHHHHHHHHHhcC--CCcccCCCcceecc
Q 023250 197 EEEAVCRICLDICEEGNTLKMECSCKGALRLVHEECAIRWFSTKG--NKNCEVCGKEVQNL 255 (285)
Q Consensus 197 ee~~~CRICle~~e~g~~Li~PC~CkGSl~~VH~~CL~kWl~~kg--~~~CEICK~ey~~v 255 (285)
+|+..|..|+++.+-.+.-.-||.|. | +-|--=|-.++. +-+|+-|+..|.--
T Consensus 12 deed~cplcie~mditdknf~pc~cg----y--~ic~fc~~~irq~lngrcpacrr~y~de 66 (480)
T COG5175 12 DEEDYCPLCIEPMDITDKNFFPCPCG----Y--QICQFCYNNIRQNLNGRCPACRRKYDDE 66 (480)
T ss_pred cccccCcccccccccccCCcccCCcc----c--HHHHHHHHHHHhhccCCChHhhhhcccc
Confidence 45567999999887656667899994 2 455555766553 57999999988643
No 59
>PLN02189 cellulose synthase
Probab=83.89 E-value=0.72 Score=51.01 Aligned_cols=51 Identities=27% Similarity=0.681 Sum_probs=35.8
Q ss_pred CCCeeeEeccCC---CCCCeeecccc-cCCCcceecHHHHHHHHHhcCCCcccCCCccee
Q 023250 198 EEAVCRICLDIC---EEGNTLKMECS-CKGALRLVHEECAIRWFSTKGNKNCEVCGKEVQ 253 (285)
Q Consensus 198 e~~~CRICle~~---e~g~~Li~PC~-CkGSl~~VH~~CL~kWl~~kg~~~CEICK~ey~ 253 (285)
...+|+||-++- .+|+.+ -.|+ |. --|=+.|. ..-...|+..|+.||+.|+
T Consensus 33 ~~~~C~iCgd~vg~~~~g~~f-vaC~~C~---fpvCr~Cy-eyer~eg~q~CpqCkt~Y~ 87 (1040)
T PLN02189 33 DGQVCEICGDEIGLTVDGDLF-VACNECG---FPVCRPCY-EYERREGTQNCPQCKTRYK 87 (1040)
T ss_pred cCccccccccccCcCCCCCEE-EeeccCC---Cccccchh-hhhhhcCCccCcccCCchh
Confidence 456999998774 245555 4555 42 12667898 4455558999999999998
No 60
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=83.25 E-value=1.1 Score=35.72 Aligned_cols=54 Identities=26% Similarity=0.461 Sum_probs=24.0
Q ss_pred CCCCeeeEeccCC---CCCCeee--cccccCCCcceecHHHHHHHHHhcCCCcccCCCcceeccc
Q 023250 197 EEEAVCRICLDIC---EEGNTLK--MECSCKGALRLVHEECAIRWFSTKGNKNCEVCGKEVQNLP 256 (285)
Q Consensus 197 ee~~~CRICle~~---e~g~~Li--~PC~CkGSl~~VH~~CL~kWl~~kg~~~CEICK~ey~~vp 256 (285)
-...+|.||-+.- ..|+.++ +.|. --|=+.|.+-=.+. |+..|+.|+..|...-
T Consensus 7 ~~~qiCqiCGD~VGl~~~Ge~FVAC~eC~-----fPvCr~CyEYErke-g~q~CpqCkt~ykr~k 65 (80)
T PF14569_consen 7 LNGQICQICGDDVGLTENGEVFVACHECA-----FPVCRPCYEYERKE-GNQVCPQCKTRYKRHK 65 (80)
T ss_dssp -SS-B-SSS--B--B-SSSSB--S-SSS----------HHHHHHHHHT-S-SB-TTT--B----T
T ss_pred cCCcccccccCccccCCCCCEEEEEcccC-----CccchhHHHHHhhc-CcccccccCCCccccc
Confidence 3567999998763 3566664 4454 23778898766655 6889999999998543
No 61
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=83.08 E-value=0.42 Score=47.47 Aligned_cols=48 Identities=23% Similarity=0.529 Sum_probs=38.3
Q ss_pred CCCeeeEeccCCCCCCeeecccccCCCcceecHHHHHHHHHhcCCCcccCCCcceec
Q 023250 198 EEAVCRICLDICEEGNTLKMECSCKGALRLVHEECAIRWFSTKGNKNCEVCGKEVQN 254 (285)
Q Consensus 198 e~~~CRICle~~e~g~~Li~PC~CkGSl~~VH~~CL~kWl~~kg~~~CEICK~ey~~ 254 (285)
.---|-||++=+. -+++.||. |-|-.-|+.++|..+ -.|+.|.++|+-
T Consensus 22 ~lLRC~IC~eyf~--ip~itpCs-----HtfCSlCIR~~L~~~--p~CP~C~~~~~E 69 (442)
T KOG0287|consen 22 DLLRCGICFEYFN--IPMITPCS-----HTFCSLCIRKFLSYK--PQCPTCCVTVTE 69 (442)
T ss_pred HHHHHhHHHHHhc--Cceecccc-----chHHHHHHHHHhccC--CCCCceecccch
Confidence 4467999998654 37899987 567789999999775 589999998763
No 62
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=82.94 E-value=1.8 Score=43.34 Aligned_cols=60 Identities=23% Similarity=0.510 Sum_probs=38.6
Q ss_pred ccccCCCCeeeEeccCCCCCCeeecccccCCCcceecHHHHHHHHHhcCCCcccCCCcceeccccee
Q 023250 193 EEIAEEEAVCRICLDICEEGNTLKMECSCKGALRLVHEECAIRWFSTKGNKNCEVCGKEVQNLPVTL 259 (285)
Q Consensus 193 ee~~ee~~~CRICle~~e~g~~Li~PC~CkGSl~~VH~~CL~kWl~~kg~~~CEICK~ey~~vpvtl 259 (285)
+|.+++...|-||-+...- .-+.||.. -+-..|..+...--....|.+|+.+...|-.|-
T Consensus 55 ddtDEen~~C~ICA~~~TY--s~~~PC~H-----~~CH~Ca~RlRALY~~K~C~~CrTE~e~V~fT~ 114 (493)
T COG5236 55 DDTDEENMNCQICAGSTTY--SARYPCGH-----QICHACAVRLRALYMQKGCPLCRTETEAVVFTA 114 (493)
T ss_pred cccccccceeEEecCCceE--EEeccCCc-----hHHHHHHHHHHHHHhccCCCccccccceEEEec
Confidence 4455778899999776432 23789982 233356555443333568999999987665543
No 63
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=80.51 E-value=1.6 Score=48.62 Aligned_cols=51 Identities=25% Similarity=0.539 Sum_probs=35.5
Q ss_pred CCCeeeEeccCC---CCCCeee--cccccCCCcceecHHHHHHHHHhcCCCcccCCCcceec
Q 023250 198 EEAVCRICLDIC---EEGNTLK--MECSCKGALRLVHEECAIRWFSTKGNKNCEVCGKEVQN 254 (285)
Q Consensus 198 e~~~CRICle~~---e~g~~Li--~PC~CkGSl~~VH~~CL~kWl~~kg~~~CEICK~ey~~ 254 (285)
...+|+||-++- .+|+.++ ..|. -=|=+.|.+ +=..-|+..|+.||++|+-
T Consensus 16 ~~qiCqICGD~vg~~~~Ge~FVAC~eC~-----FPVCrpCYE-YEr~eG~q~CPqCktrYkr 71 (1079)
T PLN02638 16 GGQVCQICGDNVGKTVDGEPFVACDVCA-----FPVCRPCYE-YERKDGNQSCPQCKTKYKR 71 (1079)
T ss_pred CCceeeecccccCcCCCCCEEEEeccCC-----Cccccchhh-hhhhcCCccCCccCCchhh
Confidence 456999998774 3567664 4563 115568973 3344478999999999983
No 64
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=80.48 E-value=1.6 Score=50.50 Aligned_cols=56 Identities=20% Similarity=0.675 Sum_probs=39.3
Q ss_pred ccCCCCeeeEeccCCCCCC-eeecccccCCCcceecHHHHHHHHHhc--------CCCcccCCCcceecc
Q 023250 195 IAEEEAVCRICLDICEEGN-TLKMECSCKGALRLVHEECAIRWFSTK--------GNKNCEVCGKEVQNL 255 (285)
Q Consensus 195 ~~ee~~~CRICle~~e~g~-~Li~PC~CkGSl~~VH~~CL~kWl~~k--------g~~~CEICK~ey~~v 255 (285)
..+.+.+|-||+.+--... .+.+-|. |.||..|..+-|..+ +...|+||+..+...
T Consensus 3482 kQD~DDmCmICFTE~L~AAP~IqL~C~-----HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~InH~ 3546 (3738)
T KOG1428|consen 3482 KQDADDMCMICFTEALSAAPAIQLDCS-----HIFHLQCCRRVLENRWLGPRITFGFISCPICKNKINHI 3546 (3738)
T ss_pred hcccCceEEEEehhhhCCCcceecCCc-----cchhHHHHHHHHHhcccCCeeEEeeeecccccchhhhH
Confidence 3456789999997642222 2445665 789999997665543 457899999987653
No 65
>PLN02436 cellulose synthase A
Probab=80.14 E-value=1.3 Score=49.17 Aligned_cols=51 Identities=25% Similarity=0.628 Sum_probs=35.8
Q ss_pred CCCeeeEeccCC---CCCCeeecccc-cCCCcceecHHHHHHHHHhcCCCcccCCCccee
Q 023250 198 EEAVCRICLDIC---EEGNTLKMECS-CKGALRLVHEECAIRWFSTKGNKNCEVCGKEVQ 253 (285)
Q Consensus 198 e~~~CRICle~~---e~g~~Li~PC~-CkGSl~~VH~~CL~kWl~~kg~~~CEICK~ey~ 253 (285)
...+|.||-++- .+|+.++ .|+ |. --|=+.|. ..-...++..|+.||+.|.
T Consensus 35 ~~~iCqICGD~Vg~t~dGe~FV-ACn~C~---fpvCr~Cy-eyer~eg~~~Cpqckt~Y~ 89 (1094)
T PLN02436 35 SGQTCQICGDEIELTVDGEPFV-ACNECA---FPVCRPCY-EYERREGNQACPQCKTRYK 89 (1094)
T ss_pred CCccccccccccCcCCCCCEEE-eeccCC---Cccccchh-hhhhhcCCccCcccCCchh
Confidence 456999998774 3566554 444 42 12667898 4455568999999999998
No 66
>PLN02195 cellulose synthase A
Probab=79.94 E-value=1.8 Score=47.69 Aligned_cols=51 Identities=24% Similarity=0.554 Sum_probs=35.7
Q ss_pred CCCCeeeEeccCC---CCCCeee--cccccCCCcceecHHHHHHHHHhcCCCcccCCCccee
Q 023250 197 EEEAVCRICLDIC---EEGNTLK--MECSCKGALRLVHEECAIRWFSTKGNKNCEVCGKEVQ 253 (285)
Q Consensus 197 ee~~~CRICle~~---e~g~~Li--~PC~CkGSl~~VH~~CL~kWl~~kg~~~CEICK~ey~ 253 (285)
....+|+||-+.- ..|++++ ..|. --|=+.|. .+=..-|+..|+.||++|+
T Consensus 4 ~~~~~c~~cgd~~~~~~~g~~fvaC~eC~-----~pvCrpCy-eyer~eg~q~CpqCkt~Yk 59 (977)
T PLN02195 4 SGAPICATCGEEVGVDSNGEAFVACHECS-----YPLCKACL-EYEIKEGRKVCLRCGGPYD 59 (977)
T ss_pred CCCccceecccccCcCCCCCeEEEeccCC-----Cccccchh-hhhhhcCCccCCccCCccc
Confidence 3567999998764 3466664 4553 12666898 3334458999999999999
No 67
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=76.79 E-value=2.4 Score=40.33 Aligned_cols=51 Identities=24% Similarity=0.573 Sum_probs=41.8
Q ss_pred CCCCeeeEeccCCCCCCeeecccccCCCcceecHHHHHHHHHhc------CCCcccCCCcce
Q 023250 197 EEEAVCRICLDICEEGNTLKMECSCKGALRLVHEECAIRWFSTK------GNKNCEVCGKEV 252 (285)
Q Consensus 197 ee~~~CRICle~~e~g~~Li~PC~CkGSl~~VH~~CL~kWl~~k------g~~~CEICK~ey 252 (285)
+-..-|+.|-....+|+...+-|- +++|-+||..|...- ....|+-|..++
T Consensus 48 DY~pNC~LC~t~La~gdt~RLvCy-----hlfHW~ClneraA~lPanTAPaGyqCP~Cs~ei 104 (299)
T KOG3970|consen 48 DYNPNCRLCNTPLASGDTTRLVCY-----HLFHWKCLNERAANLPANTAPAGYQCPCCSQEI 104 (299)
T ss_pred CCCCCCceeCCccccCcceeehhh-----hhHHHHHhhHHHhhCCCcCCCCcccCCCCCCcc
Confidence 455679999888888888888886 799999999998652 246899999886
No 68
>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=76.59 E-value=2.2 Score=42.26 Aligned_cols=37 Identities=27% Similarity=0.741 Sum_probs=27.7
Q ss_pred cccccCCCcceecHHHHHHHHHhc-----------CCCcccCCCcceeccc
Q 023250 217 MECSCKGALRLVHEECAIRWFSTK-----------GNKNCEVCGKEVQNLP 256 (285)
Q Consensus 217 ~PC~CkGSl~~VH~~CL~kWl~~k-----------g~~~CEICK~ey~~vp 256 (285)
.+|.|+- .-=.+||-+||..+ +...||.|+..|=.+=
T Consensus 307 ~~C~CRP---mWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FCilD 354 (358)
T PF10272_consen 307 QQCYCRP---MWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFCILD 354 (358)
T ss_pred ccccccc---hHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccceeee
Confidence 4677763 34569999999875 3579999999986543
No 69
>COG5034 TNG2 Chromatin remodeling protein, contains PhD zinc finger [Chromatin structure and dynamics]
Probab=76.15 E-value=1.4 Score=42.11 Aligned_cols=30 Identities=33% Similarity=0.525 Sum_probs=19.9
Q ss_pred ccCCCcceecHHHHHHHHHhcCCCcccCCCcc
Q 023250 220 SCKGALRLVHEECAIRWFSTKGNKNCEVCGKE 251 (285)
Q Consensus 220 ~CkGSl~~VH~~CL~kWl~~kg~~~CEICK~e 251 (285)
+|+-+ |||..|+--=---+|.|+|+-||..
T Consensus 241 nCkrE--WFH~~CVGLk~pPKG~WYC~eCk~~ 270 (271)
T COG5034 241 NCKRE--WFHLECVGLKEPPKGKWYCPECKKA 270 (271)
T ss_pred CCchh--heeccccccCCCCCCcEeCHHhHhc
Confidence 56643 8888884311112689999999864
No 70
>PLN02400 cellulose synthase
Probab=75.21 E-value=2.1 Score=47.75 Aligned_cols=52 Identities=25% Similarity=0.541 Sum_probs=35.4
Q ss_pred CCCeeeEeccCC---CCCCeee--cccccCCCcceecHHHHHHHHHhcCCCcccCCCcceecc
Q 023250 198 EEAVCRICLDIC---EEGNTLK--MECSCKGALRLVHEECAIRWFSTKGNKNCEVCGKEVQNL 255 (285)
Q Consensus 198 e~~~CRICle~~---e~g~~Li--~PC~CkGSl~~VH~~CL~kWl~~kg~~~CEICK~ey~~v 255 (285)
...+|.||-++- .+|+.++ ..|. --|=+.|.+ .=..-|+..|+.||++|+-.
T Consensus 35 ~gqiCqICGD~VG~t~dGe~FVAC~eCa-----FPVCRpCYE-YERkeGnq~CPQCkTrYkR~ 91 (1085)
T PLN02400 35 NGQICQICGDDVGVTETGDVFVACNECA-----FPVCRPCYE-YERKDGTQCCPQCKTRYRRH 91 (1085)
T ss_pred CCceeeecccccCcCCCCCEEEEEccCC-----Cccccchhh-eecccCCccCcccCCccccc
Confidence 456999998774 3567764 4563 125568863 22334789999999999943
No 71
>KOG1973 consensus Chromatin remodeling protein, contains PHD Zn-finger [Chromatin structure and dynamics]
Probab=75.01 E-value=1.3 Score=41.77 Aligned_cols=36 Identities=25% Similarity=0.441 Sum_probs=24.7
Q ss_pred ccccCCC-cceecHHHHHHHHHhcCCCcccCCCccee
Q 023250 218 ECSCKGA-LRLVHEECAIRWFSTKGNKNCEVCGKEVQ 253 (285)
Q Consensus 218 PC~CkGS-l~~VH~~CL~kWl~~kg~~~CEICK~ey~ 253 (285)
-|.|.+= +.|||..|+--=..-+|.|.|+-|+....
T Consensus 234 ~CDn~~C~~eWFH~~CVGL~~~PkgkWyC~~C~~~~~ 270 (274)
T KOG1973|consen 234 GCDNPGCPIEWFHFTCVGLKTKPKGKWYCPRCKAENK 270 (274)
T ss_pred ccCCCCCCcceEEEeccccccCCCCcccchhhhhhhh
Confidence 4555433 37999999653333468899999987643
No 72
>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=74.78 E-value=1.9 Score=30.05 Aligned_cols=22 Identities=27% Similarity=0.890 Sum_probs=15.9
Q ss_pred eecHHHHHHHHHhcCCCcccCC
Q 023250 227 LVHEECAIRWFSTKGNKNCEVC 248 (285)
Q Consensus 227 ~VH~~CL~kWl~~kg~~~CEIC 248 (285)
-+|..|+.+++....+..|+.|
T Consensus 22 r~H~~C~~~y~r~~~~~~CP~C 43 (43)
T PF08746_consen 22 RLHDDCFKKYFRHRSNPKCPNC 43 (43)
T ss_dssp EE-HHHHHHHTTT-SS-B-TTT
T ss_pred hHHHHHHHHHHhcCCCCCCcCC
Confidence 4999999999998776689987
No 73
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=74.13 E-value=1.7 Score=44.41 Aligned_cols=53 Identities=25% Similarity=0.634 Sum_probs=40.8
Q ss_pred CCCcccccCCCCeeeEeccCCCCCCeeecccccCCCcceecHHHHHHHHHhcCCCcccCCCcceec
Q 023250 189 ENNDEEIAEEEAVCRICLDICEEGNTLKMECSCKGALRLVHEECAIRWFSTKGNKNCEVCGKEVQN 254 (285)
Q Consensus 189 e~~~ee~~ee~~~CRICle~~e~g~~Li~PC~CkGSl~~VH~~CL~kWl~~kg~~~CEICK~ey~~ 254 (285)
+++.+++.+....|+||++.. ..-+.+|. |..||.+|+..+ ..|++|......
T Consensus 469 ~~~~~~l~~~~~~~~~~~~~~---~~~~~~~~--------~~~~l~~~~~~~--~~~pl~~~~~~~ 521 (543)
T KOG0802|consen 469 EATPSQLREPNDVCAICYQEM---SARITPCS--------HALCLRKWLYVQ--EVCPLCHTYMKE 521 (543)
T ss_pred CCChhhhhcccCcchHHHHHH---Hhcccccc--------chhHHHhhhhhc--cccCCCchhhhc
Confidence 456677888899999999875 12245665 999999999885 489999877653
No 74
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=70.00 E-value=2 Score=43.52 Aligned_cols=50 Identities=26% Similarity=0.620 Sum_probs=39.6
Q ss_pred cCCCCeeeEeccCCCC-CCee-ecccccCCCcceecHHHHHHHHHhcCCCcccCCCc
Q 023250 196 AEEEAVCRICLDICEE-GNTL-KMECSCKGALRLVHEECAIRWFSTKGNKNCEVCGK 250 (285)
Q Consensus 196 ~ee~~~CRICle~~e~-g~~L-i~PC~CkGSl~~VH~~CL~kWl~~kg~~~CEICK~ 250 (285)
.+-+-.|-.|-+.... .+.| -+||. |.+|..||...+...+.+.||-|+.
T Consensus 362 ~e~~L~Cg~CGe~~Glk~e~LqALpCs-----HIfH~rCl~e~L~~n~~rsCP~Crk 413 (518)
T KOG1941|consen 362 EETELYCGLCGESIGLKNERLQALPCS-----HIFHLRCLQEILENNGTRSCPNCRK 413 (518)
T ss_pred HHHhhhhhhhhhhhcCCcccccccchh-----HHHHHHHHHHHHHhCCCCCCccHHH
Confidence 3456789999776532 2234 68998 7999999999999889999999993
No 75
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=68.68 E-value=2.3 Score=44.65 Aligned_cols=53 Identities=21% Similarity=0.495 Sum_probs=40.4
Q ss_pred cccCCCCeeeEeccCCCCCCeeecccccCCCcceecHHHHHHHHHhc---CCCcccCCCccee
Q 023250 194 EIAEEEAVCRICLDICEEGNTLKMECSCKGALRLVHEECAIRWFSTK---GNKNCEVCGKEVQ 253 (285)
Q Consensus 194 e~~ee~~~CRICle~~e~g~~Li~PC~CkGSl~~VH~~CL~kWl~~k---g~~~CEICK~ey~ 253 (285)
+...++.+|-+|++..+ +.+..-|. |.|-+.|+..++..- .+.+|++|.-.+.
T Consensus 531 ~enk~~~~C~lc~d~ae--d~i~s~Ch-----H~FCrlCi~eyv~~f~~~~nvtCP~C~i~Ls 586 (791)
T KOG1002|consen 531 DENKGEVECGLCHDPAE--DYIESSCH-----HKFCRLCIKEYVESFMENNNVTCPVCHIGLS 586 (791)
T ss_pred ccccCceeecccCChhh--hhHhhhhh-----HHHHHHHHHHHHHhhhcccCCCCcccccccc
Confidence 34467789999998743 46788887 567889999998653 4689999987654
No 76
>KOG4323 consensus Polycomb-like PHD Zn-finger protein [General function prediction only]
Probab=67.01 E-value=2.8 Score=42.93 Aligned_cols=61 Identities=21% Similarity=0.451 Sum_probs=43.7
Q ss_pred CCCeeeEeccCC-CCCCeeecccccCCCcceecHHHHHHHHHhc------CCCcccCCCcceecccceecc
Q 023250 198 EEAVCRICLDIC-EEGNTLKMECSCKGALRLVHEECAIRWFSTK------GNKNCEVCGKEVQNLPVTLLR 261 (285)
Q Consensus 198 e~~~CRICle~~-e~g~~Li~PC~CkGSl~~VH~~CL~kWl~~k------g~~~CEICK~ey~~vpvtllR 261 (285)
...+|-+|++.. ..+|.++-=|.|. .++|+.|-+-.+... ..+.|.+|...-..++-.-+|
T Consensus 167 ~n~qc~vC~~g~~~~~NrmlqC~~C~---~~fHq~Chqp~i~~~l~~D~~~~w~C~~C~~~~~~~~r~t~~ 234 (464)
T KOG4323|consen 167 VNLQCSVCYCGGPGAGNRMLQCDKCR---QWYHQACHQPLIKDELAGDPFYEWFCDVCNRGPKKVPRLTLR 234 (464)
T ss_pred ccceeeeeecCCcCccceeeeecccc---cHHHHHhccCCCCHhhccCccceEeehhhccchhhccccccc
Confidence 344599999765 3567777777786 699999977666432 368999999987776643333
No 77
>KOG0955 consensus PHD finger protein BR140/LIN-49 [General function prediction only]
Probab=66.94 E-value=2 Score=47.73 Aligned_cols=54 Identities=35% Similarity=0.619 Sum_probs=34.2
Q ss_pred ccCCCCeeeEeccCCCCCCeeecccc-cCCCcceecHHHHHHHHHhcCCCcccCCCcc
Q 023250 195 IAEEEAVCRICLDICEEGNTLKMECS-CKGALRLVHEECAIRWFSTKGNKNCEVCGKE 251 (285)
Q Consensus 195 ~~ee~~~CRICle~~e~g~~Li~PC~-CkGSl~~VH~~CL~kWl~~kg~~~CEICK~e 251 (285)
..+++.+|-||++.+-.....+.-|. |. -+||++|.-.=+..-|.|.|--|-+.
T Consensus 215 ~~~~D~~C~iC~~~~~~n~n~ivfCD~Cn---l~VHq~Cygi~~ipeg~WlCr~Cl~s 269 (1051)
T KOG0955|consen 215 LLEEDAVCCICLDGECQNSNVIVFCDGCN---LAVHQECYGIPFIPEGQWLCRRCLQS 269 (1051)
T ss_pred ccCCCccceeecccccCCCceEEEcCCCc---chhhhhccCCCCCCCCcEeehhhccC
Confidence 34678999999988754323444443 33 58999998722222356777777553
No 78
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=66.75 E-value=3.9 Score=35.75 Aligned_cols=56 Identities=20% Similarity=0.350 Sum_probs=39.6
Q ss_pred CCCeeeEeccCCCCCCeeecccccCCCcceecHHHHHHHHHhcCCCcccCCCcceecc
Q 023250 198 EEAVCRICLDICEEGNTLKMECSCKGALRLVHEECAIRWFSTKGNKNCEVCGKEVQNL 255 (285)
Q Consensus 198 e~~~CRICle~~e~g~~Li~PC~CkGSl~~VH~~CL~kWl~~kg~~~CEICK~ey~~v 255 (285)
.--+|-||.+...+ +.+..|=.|-|. ..----|..-|-...-...||+||+.|+..
T Consensus 79 ~lYeCnIC~etS~e-e~FLKPneCCgY-~iCn~Cya~LWK~~~~ypvCPvCkTSFKss 134 (140)
T PF05290_consen 79 KLYECNICKETSAE-ERFLKPNECCGY-SICNACYANLWKFCNLYPVCPVCKTSFKSS 134 (140)
T ss_pred CceeccCcccccch-hhcCCcccccch-HHHHHHHHHHHHHcccCCCCCccccccccc
Confidence 55689999887543 457777666663 334445677787766678999999999743
No 79
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=63.94 E-value=5.4 Score=44.49 Aligned_cols=51 Identities=25% Similarity=0.625 Sum_probs=35.8
Q ss_pred CCCCeeeEeccCC---CCCCeee--cccccCCCcceecHHHHHHHHHhcCCCcccCCCccee
Q 023250 197 EEEAVCRICLDIC---EEGNTLK--MECSCKGALRLVHEECAIRWFSTKGNKNCEVCGKEVQ 253 (285)
Q Consensus 197 ee~~~CRICle~~---e~g~~Li--~PC~CkGSl~~VH~~CL~kWl~~kg~~~CEICK~ey~ 253 (285)
-...+|.||-++- .+|++++ ..|. --|=+.|. ..=..-|+..|+.||+.|.
T Consensus 13 ~~~~~c~iCGd~vg~~~~Ge~FVAC~eC~-----fpvCr~cy-eye~~~g~~~cp~c~t~y~ 68 (1044)
T PLN02915 13 ADAKTCRVCGDEVGVKEDGQPFVACHVCG-----FPVCKPCY-EYERSEGNQCCPQCNTRYK 68 (1044)
T ss_pred CCcchhhccccccCcCCCCCEEEEeccCC-----Cccccchh-hhhhhcCCccCCccCCchh
Confidence 3568999998764 3567664 4563 12566898 3334457899999999998
No 80
>KOG0956 consensus PHD finger protein AF10 [General function prediction only]
Probab=62.64 E-value=3.5 Score=44.40 Aligned_cols=59 Identities=24% Similarity=0.401 Sum_probs=39.1
Q ss_pred CCCCeeeEeccCCCCCCe---eecccccCCCcceecHHHHHHHH---Hhc-----CCCcccCCCcceecc
Q 023250 197 EEEAVCRICLDICEEGNT---LKMECSCKGALRLVHEECAIRWF---STK-----GNKNCEVCGKEVQNL 255 (285)
Q Consensus 197 ee~~~CRICle~~e~g~~---Li~PC~CkGSl~~VH~~CL~kWl---~~k-----g~~~CEICK~ey~~v 255 (285)
...+.|.||-|..-+.+. -.|-|+=.|=-+-||..|...-= .+. +-++|-.|+|-|..+
T Consensus 115 RfnKtCYIC~E~GrpnkA~~GACMtCNKs~CkqaFHVTCAQ~~GLLCEE~gn~~dNVKYCGYCk~HfsKl 184 (900)
T KOG0956|consen 115 RFNKTCYICNEEGRPNKAAKGACMTCNKSGCKQAFHVTCAQRAGLLCEEEGNISDNVKYCGYCKYHFSKL 184 (900)
T ss_pred hhcceeeeecccCCccccccccceecccccchhhhhhhHhhhhccceeccccccccceechhHHHHHHHh
Confidence 456899999877433221 25777744444789999987541 111 247999999999754
No 81
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=61.51 E-value=3.4 Score=45.13 Aligned_cols=50 Identities=26% Similarity=0.424 Sum_probs=33.9
Q ss_pred ccCCCCeeeEeccCCCCCCeee--cccccCCCcceecHHHHHHHHHhc--CCCcccCCC
Q 023250 195 IAEEEAVCRICLDICEEGNTLK--MECSCKGALRLVHEECAIRWFSTK--GNKNCEVCG 249 (285)
Q Consensus 195 ~~ee~~~CRICle~~e~g~~Li--~PC~CkGSl~~VH~~CL~kWl~~k--g~~~CEICK 249 (285)
..++.--|-||.-.+-+ +.|+ .-|+ ..|+|.+||..=+.+. +.|+|.-|-
T Consensus 211 ~~~E~~~C~IC~~~DpE-dVLLLCDsCN----~~~YH~YCLDPdl~eiP~~eWYC~NC~ 264 (1134)
T KOG0825|consen 211 LSQEEVKCDICTVHDPE-DVLLLCDSCN----KVYYHVYCLDPDLSESPVNEWYCTNCS 264 (1134)
T ss_pred cccccccceeeccCChH-Hhheeecccc----cceeeccccCcccccccccceecCcch
Confidence 34677889999765432 3332 3454 3589999999866443 568999995
No 82
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=57.28 E-value=4.6 Score=30.69 Aligned_cols=49 Identities=16% Similarity=0.487 Sum_probs=29.8
Q ss_pred CeeeEeccCCCCCCeeecccccCCCcceecHHHHHHHHHhcCCCcccCCCcceecc
Q 023250 200 AVCRICLDICEEGNTLKMECSCKGALRLVHEECAIRWFSTKGNKNCEVCGKEVQNL 255 (285)
Q Consensus 200 ~~CRICle~~e~g~~Li~PC~CkGSl~~VH~~CL~kWl~~kg~~~CEICK~ey~~v 255 (285)
.+|-||++.-.+ .++--|... ..-.+|-.+..+. ....|+||+..++-+
T Consensus 8 dECTICye~pvd--sVlYtCGHM----CmCy~Cg~rl~~~-~~g~CPiCRapi~dv 56 (62)
T KOG4172|consen 8 DECTICYEHPVD--SVLYTCGHM----CMCYACGLRLKKA-LHGCCPICRAPIKDV 56 (62)
T ss_pred cceeeeccCcch--HHHHHcchH----HhHHHHHHHHHHc-cCCcCcchhhHHHHH
Confidence 789999986432 233344310 1234776655543 456999999987643
No 83
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=55.09 E-value=7.3 Score=39.27 Aligned_cols=49 Identities=24% Similarity=0.443 Sum_probs=36.7
Q ss_pred CCCCeeeEeccCCCCCCeeecccccCCCcceecHHHHHHHHHhcCCCcccCCCcceec
Q 023250 197 EEEAVCRICLDICEEGNTLKMECSCKGALRLVHEECAIRWFSTKGNKNCEVCGKEVQN 254 (285)
Q Consensus 197 ee~~~CRICle~~e~g~~Li~PC~CkGSl~~VH~~CL~kWl~~kg~~~CEICK~ey~~ 254 (285)
.|+..|.||+...- +.+..||.. ---..|+.+-+.. ++.|=.||..+..
T Consensus 420 sEd~lCpICyA~pi--~Avf~PC~H-----~SC~~CI~qHlmN--~k~CFfCktTv~~ 468 (489)
T KOG4692|consen 420 SEDNLCPICYAGPI--NAVFAPCSH-----RSCYGCITQHLMN--CKRCFFCKTTVID 468 (489)
T ss_pred cccccCcceecccc--hhhccCCCC-----chHHHHHHHHHhc--CCeeeEecceeee
Confidence 57789999987642 467899983 2345788887765 5689999998874
No 84
>PF04641 Rtf2: Rtf2 RING-finger
Probab=52.82 E-value=18 Score=33.63 Aligned_cols=56 Identities=20% Similarity=0.409 Sum_probs=39.3
Q ss_pred ccCCCCeeeEeccCCCCCCee--ecccccCCCcceecHHHHHHHHHhcCCCcccCCCcceecccce
Q 023250 195 IAEEEAVCRICLDICEEGNTL--KMECSCKGALRLVHEECAIRWFSTKGNKNCEVCGKEVQNLPVT 258 (285)
Q Consensus 195 ~~ee~~~CRICle~~e~g~~L--i~PC~CkGSl~~VH~~CL~kWl~~kg~~~CEICK~ey~~vpvt 258 (285)
..+..-+|-|...++...-.+ +.||.| .|-+.+|.+-- ....|++|...|...-+-
T Consensus 109 ~~~~~~~CPvt~~~~~~~~~fv~l~~cG~-----V~s~~alke~k---~~~~Cp~c~~~f~~~DiI 166 (260)
T PF04641_consen 109 NSEGRFICPVTGKEFNGKHKFVYLRPCGC-----VFSEKALKELK---KSKKCPVCGKPFTEEDII 166 (260)
T ss_pred cCCceeECCCCCcccCCceeEEEEcCCCC-----EeeHHHHHhhc---ccccccccCCccccCCEE
Confidence 345667888887766433333 679997 67888888762 356799999999865443
No 85
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=50.95 E-value=9.2 Score=37.49 Aligned_cols=48 Identities=19% Similarity=0.470 Sum_probs=29.6
Q ss_pred CCCeeeEeccCCCCCCeeecccccCCCcceecHHHHHHHHHhcCCCcccCCCccee
Q 023250 198 EEAVCRICLDICEEGNTLKMECSCKGALRLVHEECAIRWFSTKGNKNCEVCGKEVQ 253 (285)
Q Consensus 198 e~~~CRICle~~e~g~~Li~PC~CkGSl~~VH~~CL~kWl~~kg~~~CEICK~ey~ 253 (285)
-.++|-||+.... -+..++|. |-+=+.||+-=+. .+...|.+|++++.
T Consensus 6 ~~~eC~IC~nt~n--~Pv~l~C~-----HkFCyiCiKGsy~-ndk~~CavCR~pid 53 (324)
T KOG0824|consen 6 KKKECLICYNTGN--CPVNLYCF-----HKFCYICIKGSYK-NDKKTCAVCRFPID 53 (324)
T ss_pred cCCcceeeeccCC--cCcccccc-----chhhhhhhcchhh-cCCCCCceecCCCC
Confidence 4578999997643 24677886 2334445432111 13457999999975
No 86
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=50.46 E-value=7.8 Score=37.25 Aligned_cols=42 Identities=21% Similarity=0.580 Sum_probs=32.4
Q ss_pred eeEeccCCCCC--CeeecccccCCCcceecHHHHHHHHHhcCCCcccCCCc
Q 023250 202 CRICLDICEEG--NTLKMECSCKGALRLVHEECAIRWFSTKGNKNCEVCGK 250 (285)
Q Consensus 202 CRICle~~e~g--~~Li~PC~CkGSl~~VH~~CL~kWl~~kg~~~CEICK~ 250 (285)
|-||.+....+ .+-.++|. ++.|..|+..-.... ..||+|+.
T Consensus 161 cPic~e~l~~s~~~~~~~~Cg-----H~~h~~cf~e~~~~~--y~CP~C~~ 204 (276)
T KOG1940|consen 161 CPICKEYLFLSFEDAGVLKCG-----HYMHSRCFEEMICEG--YTCPICSK 204 (276)
T ss_pred CchhHHHhccccccCCccCcc-----cchHHHHHHHHhccC--CCCCcccc
Confidence 88998765433 34478887 789988888877653 89999999
No 87
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=47.20 E-value=17 Score=33.63 Aligned_cols=53 Identities=21% Similarity=0.601 Sum_probs=32.8
Q ss_pred cCCCCeeeEeccCCCCCCee-----ecccccCCCcceecHHHHHHHHHhc----C-----CCcccCCCccee
Q 023250 196 AEEEAVCRICLDICEEGNTL-----KMECSCKGALRLVHEECAIRWFSTK----G-----NKNCEVCGKEVQ 253 (285)
Q Consensus 196 ~ee~~~CRICle~~e~g~~L-----i~PC~CkGSl~~VH~~CL~kWl~~k----g-----~~~CEICK~ey~ 253 (285)
+++...|-||+.-.-+|..- ..-|. +-+|+-||-.||..- . .-.|+-|...+.
T Consensus 162 dd~~~~cgicyayqldGTipDqtCdN~qCg-----kpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pia 228 (234)
T KOG3268|consen 162 DDELGACGICYAYQLDGTIPDQTCDNIQCG-----KPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIA 228 (234)
T ss_pred chhhhcccceeeeecCCccccccccccccC-----CcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcce
Confidence 35667788887432222111 12343 569999999999641 1 247999987654
No 88
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=45.76 E-value=8.8 Score=37.82 Aligned_cols=51 Identities=20% Similarity=0.516 Sum_probs=37.5
Q ss_pred CCCCeeeEeccCCCCCCeeecccccCCCcceecHHHHHHHHHhcCCCcccCCCcceecc
Q 023250 197 EEEAVCRICLDICEEGNTLKMECSCKGALRLVHEECAIRWFSTKGNKNCEVCGKEVQNL 255 (285)
Q Consensus 197 ee~~~CRICle~~e~g~~Li~PC~CkGSl~~VH~~CL~kWl~~kg~~~CEICK~ey~~v 255 (285)
.....|++|-. +--+-..+..|- |-|=..||.+.|.. +.+|+.|+..+...
T Consensus 13 n~~itC~LC~G-YliDATTI~eCL-----HTFCkSCivk~l~~--~~~CP~C~i~ih~t 63 (331)
T KOG2660|consen 13 NPHITCRLCGG-YLIDATTITECL-----HTFCKSCIVKYLEE--SKYCPTCDIVIHKT 63 (331)
T ss_pred ccceehhhccc-eeecchhHHHHH-----HHHHHHHHHHHHHH--hccCCccceeccCc
Confidence 46688999943 332334678886 45777999999988 67999999876543
No 89
>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 PF06937 EURL: EURL protein; InterPro: IPR009704 This family consists of several animal EURL proteins. EURL is preferentially expressed in chick retinal precursor cells as well as in the anterior epithelial cells of the lens at early stages of development. EURL transcripts are found primarily in the peripheral dorsal retina, i.e., the most undifferentiated part of the dorsal retina. EURL transcripts are also detected in the lens at stage 18 and remain abundant in the proliferating epithelial cells of the lens until at least day 11. The distribution pattern of EURL in the developing retina and lens suggest a role before the events leading to cell determination and differentiation [].
Probab=44.20 E-value=24 Score=34.15 Aligned_cols=41 Identities=24% Similarity=0.526 Sum_probs=24.2
Q ss_pred CCCCeeeEeccCCCCCCee-ecccccCCCcceecHHHHHHHHHhc
Q 023250 197 EEEAVCRICLDICEEGNTL-KMECSCKGALRLVHEECAIRWFSTK 240 (285)
Q Consensus 197 ee~~~CRICle~~e~g~~L-i~PC~CkGSl~~VH~~CL~kWl~~k 240 (285)
+.-.+|.||++-.-+|-+- -++ ..-+++ =|++|+++|-.+.
T Consensus 28 ~tLsfChiCfEl~iegvpks~ll--HtkSlR-GHrdCFEK~HlIa 69 (285)
T PF06937_consen 28 ETLSFCHICFELSIEGVPKSNLL--HTKSLR-GHRDCFEKYHLIA 69 (285)
T ss_pred cceeecceeeccccccCcccccc--cccccc-chHHHHHHHHHHH
Confidence 4567899998765433110 011 112222 3999999998764
No 91
>KOG0956 consensus PHD finger protein AF10 [General function prediction only]
Probab=41.30 E-value=17 Score=39.51 Aligned_cols=56 Identities=29% Similarity=0.536 Sum_probs=35.4
Q ss_pred CeeeEeccCC-CCCCeeecccccCCCcceecHHHH-------HHHHHhc-------CCCcccCCCcceeccc
Q 023250 200 AVCRICLDIC-EEGNTLKMECSCKGALRLVHEECA-------IRWFSTK-------GNKNCEVCGKEVQNLP 256 (285)
Q Consensus 200 ~~CRICle~~-e~g~~Li~PC~CkGSl~~VH~~CL-------~kWl~~k-------g~~~CEICK~ey~~vp 256 (285)
.-|.+|-|+- -.+|+|+ .|.=.+=--.||+.|. -.||=.| -..+||+|-+.|--|-
T Consensus 6 GGCCVCSDErGWaeNPLV-YCDG~nCsVAVHQaCYGIvqVPtGpWfCrKCesqeraarvrCeLCP~kdGALK 76 (900)
T KOG0956|consen 6 GGCCVCSDERGWAENPLV-YCDGHNCSVAVHQACYGIVQVPTGPWFCRKCESQERAARVRCELCPHKDGALK 76 (900)
T ss_pred cceeeecCcCCCccCcee-eecCCCceeeeehhcceeEecCCCchhhhhhhhhhhhccceeecccCccccee
Confidence 3588998764 2457776 2321111135999997 4788443 1479999999886543
No 92
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=40.57 E-value=16 Score=35.99 Aligned_cols=36 Identities=28% Similarity=0.628 Sum_probs=26.5
Q ss_pred cccCCCcceecHHHHHHHHHhc-----------CCCcccCCCcceecccc
Q 023250 219 CSCKGALRLVHEECAIRWFSTK-----------GNKNCEVCGKEVQNLPV 257 (285)
Q Consensus 219 C~CkGSl~~VH~~CL~kWl~~k-----------g~~~CEICK~ey~~vpv 257 (285)
|-|+- .--.+||.+||..+ ++..|+.|+..|-.+-|
T Consensus 323 c~crp---~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci~dv 369 (381)
T KOG3899|consen 323 CICRP---LWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCIRDV 369 (381)
T ss_pred ccccc---HHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEEeee
Confidence 44653 45679999999754 46799999998865443
No 93
>KOG3005 consensus GIY-YIG type nuclease [General function prediction only]
Probab=38.76 E-value=14 Score=35.56 Aligned_cols=55 Identities=20% Similarity=0.349 Sum_probs=36.6
Q ss_pred CCeeeEeccCCCCCCeeecccccCCCcceecHHHHHHHHHhc--C-----CCcccCCCccee
Q 023250 199 EAVCRICLDICEEGNTLKMECSCKGALRLVHEECAIRWFSTK--G-----NKNCEVCGKEVQ 253 (285)
Q Consensus 199 ~~~CRICle~~e~g~~Li~PC~CkGSl~~VH~~CL~kWl~~k--g-----~~~CEICK~ey~ 253 (285)
...|.+|.++.++.+..+.-|.=.+-....|..||..-+..- + ...|+.|+..+.
T Consensus 182 ~~~celc~~ei~e~~~~~a~c~~~~c~~~~h~~CLa~~~~~~e~g~~~p~eg~cp~C~~~~~ 243 (276)
T KOG3005|consen 182 NVECELCEKEILETDWSRATCPNPDCDSLNHLTCLAEELLEVEPGQLIPLEGMCPKCEKFLS 243 (276)
T ss_pred chhhHHHHHHhccccceeccCCCCCCCchhhhhhhhHHHhccCCCceeccCCCCCchhceee
Confidence 368999988874444555555544434579999999844321 2 368999998653
No 94
>PF01440 Gemini_AL2: Geminivirus AL2 protein; InterPro: IPR000942 Geminiviruses are characterised by a genome of circular single-stranded DNA encapsidated in twinned (geminate) quasi-isometric particles, from which the group derives its name []. Most geminiviruses can be divided into two subgroups on the basis of host range and/or insect vector: i.e. those that infect dicotyledenous plants and are transmitted by the same whitefly species, and those that infect monocotyledenous plants and are transmitted by different leafhopper vectors. The genomes of the whitefly-transmitted African cassava mosaic virus, Tomato golden mosaic virus (TGMV) and Bean golden mosaic virus (BGMV) possess a bipartite genome. By contrast, only a single DNA component has been identified for the leafhopper-transmitted Maize streak virus (MSV) and Wheat dwarf virus (WDV) [, ]. Beet curly top virus (BCTV), and Tobacco yellow dwarf virus belong to a third possible subgroup. Like MSV and WDV, BCTV is transmitted by a specific leafhopper species, yet like the whitefly-transmitted geminiviruses it has a host range confined to dicotyledenous plants. Sequence comparison of the whitefly-transmitted Squash leaf curl virus (SqLCV) and Tomato yellow leaf curl virus (TYLCV) with the genomic components of TGMV and BGMV reveals a close evolutionary relationship [, , ]. Amino acid sequence alignments of Potato yellow mosaic virus (PYMV) proteins with those encoded by other geminiviruses show that PYMV is closely related to geminiviruses isolated from the New World, especially in the putative coat protein gene regions []. Comparison of MSV DNA-encoded proteins with those of other geminiviruses infecting monocotyledonous plants, including Panicum streak virus [] and Miscanthus streak virus (MiSV) [], reveal high levels of similarity.; GO: 0005198 structural molecule activity, 0019028 viral capsid
Probab=37.73 E-value=6.2 Score=34.25 Aligned_cols=34 Identities=21% Similarity=0.683 Sum_probs=27.5
Q ss_pred eeecccccCCCcceecHHHHHHHHHhcCCCcccCCCc
Q 023250 214 TLKMECSCKGALRLVHEECAIRWFSTKGNKNCEVCGK 250 (285)
Q Consensus 214 ~Li~PC~CkGSl~~VH~~CL~kWl~~kg~~~CEICK~ 250 (285)
.+-++|.|. .|+|-.|-..+|.++|+..|--...
T Consensus 32 RIDL~CGCS---yyihinC~~hGFTHRGthhCsS~~E 65 (134)
T PF01440_consen 32 RIDLPCGCS---YYIHINCHNHGFTHRGTHHCSSSRE 65 (134)
T ss_pred ccccCCCCE---EEeecccCCCCcCCCcCccCCCcCc
Confidence 345899996 7899999999999998777765443
No 95
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=35.38 E-value=21 Score=33.58 Aligned_cols=45 Identities=33% Similarity=0.696 Sum_probs=35.5
Q ss_pred CeeeEeccCCCCCCeeecccccCCCcceecHHHHHHHHHhcCCCcccCCCccee
Q 023250 200 AVCRICLDICEEGNTLKMECSCKGALRLVHEECAIRWFSTKGNKNCEVCGKEVQ 253 (285)
Q Consensus 200 ~~CRICle~~e~g~~Li~PC~CkGSl~~VH~~CL~kWl~~kg~~~CEICK~ey~ 253 (285)
-.|-||...++ .+++..|. |+|-..|+.+=+.. ...|-+|+....
T Consensus 197 F~C~iCKkdy~--spvvt~CG-----H~FC~~Cai~~y~k--g~~C~~Cgk~t~ 241 (259)
T COG5152 197 FLCGICKKDYE--SPVVTECG-----HSFCSLCAIRKYQK--GDECGVCGKATY 241 (259)
T ss_pred eeehhchhhcc--chhhhhcc-----hhHHHHHHHHHhcc--CCcceecchhhc
Confidence 48999998775 36888897 67888898876654 468999998754
No 96
>COG4847 Uncharacterized protein conserved in archaea [Function unknown]
Probab=34.61 E-value=34 Score=28.55 Aligned_cols=36 Identities=33% Similarity=0.480 Sum_probs=25.0
Q ss_pred CCeeeEeccCCCCCCee-ecccccCCCcceecHHHHHHHHHhc
Q 023250 199 EAVCRICLDICEEGNTL-KMECSCKGALRLVHEECAIRWFSTK 240 (285)
Q Consensus 199 ~~~CRICle~~e~g~~L-i~PC~CkGSl~~VH~~CL~kWl~~k 240 (285)
+-.|.||-..--.|..+ ..+ +|+ ||.+||..=...+
T Consensus 6 ewkC~VCg~~iieGqkFTF~~---kGs---VH~eCl~~s~~~k 42 (103)
T COG4847 6 EWKCYVCGGTIIEGQKFTFTK---KGS---VHYECLAESKRKK 42 (103)
T ss_pred eeeEeeeCCEeeeccEEEEee---CCc---chHHHHHHHHhcC
Confidence 35699997666566665 345 665 8999998766543
No 97
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=33.83 E-value=23 Score=35.72 Aligned_cols=49 Identities=20% Similarity=0.428 Sum_probs=35.4
Q ss_pred CCCCeeeEeccCCCCCCeeecccccCCCcceecHHHHHHHHHhcCCCcccCCCcceec
Q 023250 197 EEEAVCRICLDICEEGNTLKMECSCKGALRLVHEECAIRWFSTKGNKNCEVCGKEVQN 254 (285)
Q Consensus 197 ee~~~CRICle~~e~g~~Li~PC~CkGSl~~VH~~CL~kWl~~kg~~~CEICK~ey~~ 254 (285)
-.+-.|-||+.-.. ++..+||.- -+=..||++=+. ....|++|+.+|.-
T Consensus 82 ~sef~c~vc~~~l~--~pv~tpcgh-----s~c~~Cl~r~ld--~~~~cp~Cr~~l~e 130 (398)
T KOG4159|consen 82 RSEFECCVCSRALY--PPVVTPCGH-----SFCLECLDRSLD--QETECPLCRDELVE 130 (398)
T ss_pred cchhhhhhhHhhcC--CCccccccc-----cccHHHHHHHhc--cCCCCccccccccc
Confidence 66778999976643 467789973 344458788444 46799999999885
No 98
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=32.41 E-value=31 Score=25.92 Aligned_cols=45 Identities=20% Similarity=0.599 Sum_probs=28.7
Q ss_pred CCCeeeEeccCCCCCCeeecccccCCCcceecHHHHHHHHHhcCCCcccCCCccee
Q 023250 198 EEAVCRICLDICEEGNTLKMECSCKGALRLVHEECAIRWFSTKGNKNCEVCGKEVQ 253 (285)
Q Consensus 198 e~~~CRICle~~e~g~~Li~PC~CkGSl~~VH~~CL~kWl~~kg~~~CEICK~ey~ 253 (285)
.+..|..|..... ...++||. |+|=..| |=.++ -.-|++|+.+|.
T Consensus 6 ~~~~~~~~~~~~~--~~~~~pCg-----H~I~~~~---f~~~r-YngCPfC~~~~~ 50 (55)
T PF14447_consen 6 PEQPCVFCGFVGT--KGTVLPCG-----HLICDNC---FPGER-YNGCPFCGTPFE 50 (55)
T ss_pred cceeEEEcccccc--cccccccc-----ceeeccc---cChhh-ccCCCCCCCccc
Confidence 4567778865433 23689997 4554455 44333 346999999876
No 99
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=32.06 E-value=24 Score=34.59 Aligned_cols=48 Identities=21% Similarity=0.532 Sum_probs=37.4
Q ss_pred CCeeeEeccCCCCCCeeecccccCCCcceecHHHHHHHHHhcCCCcccCCCcceecc
Q 023250 199 EAVCRICLDICEEGNTLKMECSCKGALRLVHEECAIRWFSTKGNKNCEVCGKEVQNL 255 (285)
Q Consensus 199 ~~~CRICle~~e~g~~Li~PC~CkGSl~~VH~~CL~kWl~~kg~~~CEICK~ey~~v 255 (285)
...|-||...+. +++++-|. |||-..|..+=++. ...|-||.+....+
T Consensus 241 Pf~c~icr~~f~--~pVvt~c~-----h~fc~~ca~~~~qk--~~~c~vC~~~t~g~ 288 (313)
T KOG1813|consen 241 PFKCFICRKYFY--RPVVTKCG-----HYFCEVCALKPYQK--GEKCYVCSQQTHGS 288 (313)
T ss_pred Cccccccccccc--cchhhcCC-----ceeehhhhcccccc--CCcceecccccccc
Confidence 345999988764 46888887 78999998877755 46899999987643
No 100
>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=30.66 E-value=16 Score=25.02 Aligned_cols=44 Identities=25% Similarity=0.596 Sum_probs=26.0
Q ss_pred eeeEeccCCCCCCeee-cccccCCCcceecHHHHHHHHHh----cCCCcccCCC
Q 023250 201 VCRICLDICEEGNTLK-MECSCKGALRLVHEECAIRWFST----KGNKNCEVCG 249 (285)
Q Consensus 201 ~CRICle~~e~g~~Li-~PC~CkGSl~~VH~~CL~kWl~~----kg~~~CEICK 249 (285)
+|.||....+.++.+. .-|. .++|..|+.-=... .+.+.|+.|.
T Consensus 1 ~C~vC~~~~~~~~~i~C~~C~-----~~~H~~C~~~~~~~~~~~~~~w~C~~C~ 49 (51)
T PF00628_consen 1 YCPVCGQSDDDGDMIQCDSCN-----RWYHQECVGPPEKAEEIPSGDWYCPNCR 49 (51)
T ss_dssp EBTTTTSSCTTSSEEEBSTTS-----CEEETTTSTSSHSHHSHHSSSBSSHHHH
T ss_pred eCcCCCCcCCCCCeEEcCCCC-----hhhCcccCCCChhhccCCCCcEECcCCc
Confidence 5788887444433332 3343 68999998543321 2367888775
No 101
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=30.58 E-value=23 Score=38.01 Aligned_cols=32 Identities=34% Similarity=0.801 Sum_probs=24.2
Q ss_pred ecccccCCCcceecHHHHHHHHHhc---C------CCcccCCC
Q 023250 216 KMECSCKGALRLVHEECAIRWFSTK---G------NKNCEVCG 249 (285)
Q Consensus 216 i~PC~CkGSl~~VH~~CL~kWl~~k---g------~~~CEICK 249 (285)
..-|.|.| .+.|..|+.-|+.+. + -..||.|+
T Consensus 35 m~ac~~c~--~~yH~~cvt~~~~~~~l~~gWrC~~crvCe~c~ 75 (694)
T KOG4443|consen 35 LLACSDCG--QKYHPYCVTSWAQHAVLSGGWRCPSCRVCEACG 75 (694)
T ss_pred chhhhhhc--ccCCcchhhHHHhHHHhcCCcccCCceeeeecc
Confidence 45688877 588999999999875 2 35677776
No 102
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=30.12 E-value=43 Score=30.64 Aligned_cols=41 Identities=22% Similarity=0.491 Sum_probs=25.7
Q ss_pred CeeeEeccCCCCCCeeecccccCCCcceec-HHHHHHHHHhcCCCcccCCCccee
Q 023250 200 AVCRICLDICEEGNTLKMECSCKGALRLVH-EECAIRWFSTKGNKNCEVCGKEVQ 253 (285)
Q Consensus 200 ~~CRICle~~e~g~~Li~PC~CkGSl~~VH-~~CL~kWl~~kg~~~CEICK~ey~ 253 (285)
..||+|.+.. ..-+.+||+ |++| ..|-.. ...||+|+....
T Consensus 159 ~~Cr~C~~~~--~~VlllPCr-----Hl~lC~~C~~~------~~~CPiC~~~~~ 200 (207)
T KOG1100|consen 159 RSCRKCGERE--ATVLLLPCR-----HLCLCGICDES------LRICPICRSPKT 200 (207)
T ss_pred ccceecCcCC--ceEEeeccc-----ceEeccccccc------CccCCCCcChhh
Confidence 3499997653 246789998 3332 344222 457999987643
No 103
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=29.95 E-value=37 Score=24.98 Aligned_cols=44 Identities=25% Similarity=0.551 Sum_probs=28.4
Q ss_pred CCCCeeeEeccCCCCCCeeec-ccccCCCcceecHHHHHHHHHhcCCCcccC
Q 023250 197 EEEAVCRICLDICEEGNTLKM-ECSCKGALRLVHEECAIRWFSTKGNKNCEV 247 (285)
Q Consensus 197 ee~~~CRICle~~e~g~~Li~-PC~CkGSl~~VH~~CL~kWl~~kg~~~CEI 247 (285)
.-...|-|.+.... ++++. -|. |.+-++.+.+||...+...|++
T Consensus 9 ~~~~~CPiT~~~~~--~PV~s~~C~-----H~fek~aI~~~i~~~~~~~CPv 53 (57)
T PF11789_consen 9 TISLKCPITLQPFE--DPVKSKKCG-----HTFEKEAILQYIQRNGSKRCPV 53 (57)
T ss_dssp B--SB-TTTSSB-S--SEEEESSS-------EEEHHHHHHHCTTTS-EE-SC
T ss_pred EeccCCCCcCChhh--CCcCcCCCC-----CeecHHHHHHHHHhcCCCCCCC
Confidence 34467888877654 57764 564 6899999999997777889999
No 104
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=29.62 E-value=23 Score=19.81 Aligned_cols=11 Identities=36% Similarity=1.174 Sum_probs=7.5
Q ss_pred cccCCCcceec
Q 023250 244 NCEVCGKEVQN 254 (285)
Q Consensus 244 ~CEICK~ey~~ 254 (285)
.|++|+..|..
T Consensus 2 ~C~~C~~~~~~ 12 (24)
T PF13894_consen 2 QCPICGKSFRS 12 (24)
T ss_dssp E-SSTS-EESS
T ss_pred CCcCCCCcCCc
Confidence 69999999874
No 105
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=29.04 E-value=3.7 Score=40.24 Aligned_cols=43 Identities=23% Similarity=0.683 Sum_probs=26.9
Q ss_pred CCeeeEeccCCCCCCeeecccccCCCcceecHHHHHHHHHhcCCCcccCCCccee
Q 023250 199 EAVCRICLDICEEGNTLKMECSCKGALRLVHEECAIRWFSTKGNKNCEVCGKEVQ 253 (285)
Q Consensus 199 ~~~CRICle~~e~g~~Li~PC~CkGSl~~VH~~CL~kWl~~kg~~~CEICK~ey~ 253 (285)
...|+||++.-- +=+.++|... ..-.+|= +.-..|+||++.+.
T Consensus 300 ~~LC~ICmDaP~--DCvfLeCGHm----VtCt~CG------krm~eCPICRqyi~ 342 (350)
T KOG4275|consen 300 RRLCAICMDAPR--DCVFLECGHM----VTCTKCG------KRMNECPICRQYIV 342 (350)
T ss_pred HHHHHHHhcCCc--ceEEeecCcE----Eeehhhc------cccccCchHHHHHH
Confidence 689999998642 3467899721 1222342 12247999998654
No 106
>PF04423 Rad50_zn_hook: Rad50 zinc hook motif; InterPro: IPR007517 The Mre11 complex (Mre11 Rad50 Nbs1) is central to chromosomal maintenance and functions in homologous recombination, telomere maintenance and sister chromatid association. The Rad50 coiled-coil region contains a dimer interface at the apex of the coiled coils in which pairs of conserved Cys-X-X-Cys motifs form interlocking hooks that bind one Zn ion. This alignment includes the zinc hook motif and a short stretch of coiled-coil on either side.; GO: 0004518 nuclease activity, 0005524 ATP binding, 0008270 zinc ion binding, 0006281 DNA repair; PDB: 1L8D_B.
Probab=27.28 E-value=47 Score=23.62 Aligned_cols=23 Identities=22% Similarity=0.599 Sum_probs=11.9
Q ss_pred HHHHHHHHh-cC-CCcccCCCccee
Q 023250 231 ECAIRWFST-KG-NKNCEVCGKEVQ 253 (285)
Q Consensus 231 ~CL~kWl~~-kg-~~~CEICK~ey~ 253 (285)
.-+.+++.. .+ ...||||+..|.
T Consensus 7 ~~~~k~i~~l~~~~~~CPlC~r~l~ 31 (54)
T PF04423_consen 7 EELKKYIEELKEAKGCCPLCGRPLD 31 (54)
T ss_dssp HHHHHHHHHHTT-SEE-TTT--EE-
T ss_pred HHHHHHHHHHhcCCCcCCCCCCCCC
Confidence 446677654 22 239999999875
No 107
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=27.28 E-value=26 Score=38.73 Aligned_cols=37 Identities=22% Similarity=0.426 Sum_probs=27.3
Q ss_pred cCCCCeeeEeccCCCCCCee-ecccccCCCcceecHHHHHHHHH
Q 023250 196 AEEEAVCRICLDICEEGNTL-KMECSCKGALRLVHEECAIRWFS 238 (285)
Q Consensus 196 ~ee~~~CRICle~~e~g~~L-i~PC~CkGSl~~VH~~CL~kWl~ 238 (285)
-+....|.+|....-. .++ +-||. |.+|..||.+=..
T Consensus 814 ~ep~d~C~~C~~~ll~-~pF~vf~Cg-----H~FH~~Cl~~~v~ 851 (911)
T KOG2034|consen 814 LEPQDSCDHCGRPLLI-KPFYVFPCG-----HCFHRDCLIRHVL 851 (911)
T ss_pred ecCccchHHhcchhhc-Ccceeeecc-----chHHHHHHHHHHH
Confidence 3466889999766533 344 78997 7899999988764
No 108
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=27.04 E-value=47 Score=36.67 Aligned_cols=40 Identities=25% Similarity=0.586 Sum_probs=24.0
Q ss_pred CeeeEeccCCCCCCeeecccccCCCcceecHHHHHHHHHhcCCCccc
Q 023250 200 AVCRICLDICEEGNTLKMECSCKGALRLVHEECAIRWFSTKGNKNCE 246 (285)
Q Consensus 200 ~~CRICle~~e~g~~Li~PC~CkGSl~~VH~~CL~kWl~~kg~~~CE 246 (285)
-.|-||.-.....-.+..-| .|..|..|.+.|+...+ .|+
T Consensus 1029 ~~C~~C~l~V~gss~~Cg~C-----~Hv~H~sc~~eWf~~gd--~Cp 1068 (1081)
T KOG0309|consen 1029 FQCAICHLAVRGSSNFCGTC-----GHVGHTSCMMEWFRTGD--VCP 1068 (1081)
T ss_pred eeeeeEeeEeeccchhhccc-----cccccHHHHHHHHhcCC--cCC
Confidence 34777754322111122334 37789999999998854 565
No 109
>PF10571 UPF0547: Uncharacterised protein family UPF0547; InterPro: IPR018886 This domain may well be a type of zinc-finger as it carries two pairs of highly conserved cysteine residues though with no accompanying histidines. Several members are annotated as putative helicases.
Probab=26.30 E-value=32 Score=21.87 Aligned_cols=12 Identities=33% Similarity=0.814 Sum_probs=10.0
Q ss_pred CCcccCCCccee
Q 023250 242 NKNCEVCGKEVQ 253 (285)
Q Consensus 242 ~~~CEICK~ey~ 253 (285)
...|+.|+|.|.
T Consensus 14 ~~~Cp~CG~~F~ 25 (26)
T PF10571_consen 14 AKFCPHCGYDFE 25 (26)
T ss_pred cCcCCCCCCCCc
Confidence 468999999985
No 110
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=26.03 E-value=58 Score=31.55 Aligned_cols=50 Identities=14% Similarity=0.286 Sum_probs=38.2
Q ss_pred CCCeeeEeccCCCCCCe--eecccccCCCcceecHHHHHHHHHhcCCCcccCCCcceec
Q 023250 198 EEAVCRICLDICEEGNT--LKMECSCKGALRLVHEECAIRWFSTKGNKNCEVCGKEVQN 254 (285)
Q Consensus 198 e~~~CRICle~~e~g~~--Li~PC~CkGSl~~VH~~CL~kWl~~kg~~~CEICK~ey~~ 254 (285)
..-+|.||.+.....-+ ...||. +.|-.+|+++.+.. ...|+||.....-
T Consensus 220 ~ryiCpvtrd~LtNt~~ca~Lr~sg-----~Vv~~ecvEklir~--D~v~pv~d~plkd 271 (303)
T KOG3039|consen 220 KRYICPVTRDTLTNTTPCAVLRPSG-----HVVTKECVEKLIRK--DMVDPVTDKPLKD 271 (303)
T ss_pred cceecccchhhhcCccceEEeccCC-----cEeeHHHHHHhccc--cccccCCCCcCcc
Confidence 66899999987653222 346665 68999999999965 5699999988764
No 111
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=25.57 E-value=54 Score=32.71 Aligned_cols=58 Identities=16% Similarity=0.323 Sum_probs=43.6
Q ss_pred CCCCCcccccCCCCeeeEeccCCCCCCeeecccccCCCcceecHHHHHHHHHhcCCCcccCCCcce
Q 023250 187 PMENNDEEIAEEEAVCRICLDICEEGNTLKMECSCKGALRLVHEECAIRWFSTKGNKNCEVCGKEV 252 (285)
Q Consensus 187 ~~e~~~ee~~ee~~~CRICle~~e~g~~Li~PC~CkGSl~~VH~~CL~kWl~~kg~~~CEICK~ey 252 (285)
++..+.+..+.....|-+|+.. ..+||.|.-+=..+-..|+.+++.. ...|+|=++..
T Consensus 288 ~~~se~e~l~~~~~~CpvClk~------r~Nptvl~vSGyVfCY~Ci~~Yv~~--~~~CPVT~~p~ 345 (357)
T KOG0826|consen 288 QYNSESELLPPDREVCPVCLKK------RQNPTVLEVSGYVFCYPCIFSYVVN--YGHCPVTGYPA 345 (357)
T ss_pred hcccccccCCCccccChhHHhc------cCCCceEEecceEEeHHHHHHHHHh--cCCCCccCCcc
Confidence 4556777778888999999753 4578887655456788999999985 45899877653
No 112
>KOG3352 consensus Cytochrome c oxidase, subunit Vb/COX4 [Energy production and conversion]
Probab=25.39 E-value=22 Score=31.69 Aligned_cols=25 Identities=24% Similarity=0.644 Sum_probs=18.9
Q ss_pred HHHHhcCCCcccCCCcceeccccee
Q 023250 235 RWFSTKGNKNCEVCGKEVQNLPVTL 259 (285)
Q Consensus 235 kWl~~kg~~~CEICK~ey~~vpvtl 259 (285)
-|+..-....|+.|++-|+.+++..
T Consensus 126 mwl~Kge~~rc~eCG~~fkL~~v~~ 150 (153)
T KOG3352|consen 126 MWLEKGETQRCPECGHYFKLVPVGP 150 (153)
T ss_pred EEEEcCCcccCCcccceEEeeecCC
Confidence 3555545678999999999888643
No 113
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=25.37 E-value=51 Score=33.76 Aligned_cols=63 Identities=14% Similarity=0.228 Sum_probs=44.7
Q ss_pred cCCCCeeeEeccCCCC-CCeeecccccCCCcceecHHHHHHHHHhc------CCCcccCCCcceecccceecccC
Q 023250 196 AEEEAVCRICLDICEE-GNTLKMECSCKGALRLVHEECAIRWFSTK------GNKNCEVCGKEVQNLPVTLLRMS 263 (285)
Q Consensus 196 ~ee~~~CRICle~~e~-g~~Li~PC~CkGSl~~VH~~CL~kWl~~k------g~~~CEICK~ey~~vpvtllR~~ 263 (285)
...--.|-||+++.-. .....+||. |++=+.|+..++..- ....|+-|+..=...|..+-++-
T Consensus 181 ~~slf~C~ICf~e~~G~~c~~~lpC~-----Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C~~~a~~g~vKelv 250 (445)
T KOG1814|consen 181 VNSLFDCCICFEEQMGQHCFKFLPCS-----HVFCKSCLKDYFTIQIQEGQVSCLKCPDPKCGSVAPPGQVKELV 250 (445)
T ss_pred HhhcccceeeehhhcCcceeeecccc-----hHHHHHHHHHHHHHhhhcceeeeecCCCCCCcccCCchHHHHHH
Confidence 4566889999987643 234579998 788899999999652 24689998887655555444443
No 114
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=25.25 E-value=29 Score=37.44 Aligned_cols=48 Identities=21% Similarity=0.571 Sum_probs=36.8
Q ss_pred CCCeeeEeccCCCCCCeeecccccCCCcceecHHHHHHHHHhcCCCcccCCCccee
Q 023250 198 EEAVCRICLDICEEGNTLKMECSCKGALRLVHEECAIRWFSTKGNKNCEVCGKEVQ 253 (285)
Q Consensus 198 e~~~CRICle~~e~g~~Li~PC~CkGSl~~VH~~CL~kWl~~kg~~~CEICK~ey~ 253 (285)
+--.|-.|-... -+.++.=|. |.|=..|+..-+..+ .++||.|+..|.
T Consensus 642 ~~LkCs~Cn~R~--Kd~vI~kC~-----H~FC~~Cvq~r~etR-qRKCP~Cn~aFg 689 (698)
T KOG0978|consen 642 ELLKCSVCNTRW--KDAVITKCG-----HVFCEECVQTRYETR-QRKCPKCNAAFG 689 (698)
T ss_pred hceeCCCccCch--hhHHHHhcc-----hHHHHHHHHHHHHHh-cCCCCCCCCCCC
Confidence 446788887443 245677775 778899999999886 579999999986
No 115
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=23.41 E-value=59 Score=32.19 Aligned_cols=53 Identities=19% Similarity=0.390 Sum_probs=36.2
Q ss_pred CCCCeeeEeccCCCCCCeeecccccCCCcceecHHHHHHHHHhcCCCcccCCCcceec
Q 023250 197 EEEAVCRICLDICEEGNTLKMECSCKGALRLVHEECAIRWFSTKGNKNCEVCGKEVQN 254 (285)
Q Consensus 197 ee~~~CRICle~~e~g~~Li~PC~CkGSl~~VH~~CL~kWl~~kg~~~CEICK~ey~~ 254 (285)
.-...|-||.+..+..+-...||.|.- ..+..|+..=.. +...|+.|+..|..
T Consensus 247 ~v~~s~p~~~~~~~~~d~~~lP~~~~~---~~~l~~~~t~~~--~~~~~~~~rk~~~~ 299 (327)
T KOG2068|consen 247 SVPPSCPICYEDLDLTDSNFLPCPCGF---RLCLFCHKTISD--GDGRCPGCRKPYER 299 (327)
T ss_pred ccCCCCCCCCCcccccccccccccccc---cchhhhhhcccc--cCCCCCccCCcccc
Confidence 344789999987755555678999863 244455444333 36799999988863
No 116
>PF13764 E3_UbLigase_R4: E3 ubiquitin-protein ligase UBR4
Probab=23.00 E-value=64 Score=35.37 Aligned_cols=15 Identities=27% Similarity=0.574 Sum_probs=12.8
Q ss_pred cCCCCeeeEeccCCC
Q 023250 196 AEEEAVCRICLDICE 210 (285)
Q Consensus 196 ~ee~~~CRICle~~e 210 (285)
++.+-.|.||.+++.
T Consensus 465 ee~gl~C~ICrEGy~ 479 (802)
T PF13764_consen 465 EEDGLTCCICREGYK 479 (802)
T ss_pred ccCCCeEEEcCCccc
Confidence 378899999999984
No 117
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=22.53 E-value=42 Score=37.13 Aligned_cols=43 Identities=19% Similarity=0.475 Sum_probs=30.2
Q ss_pred CeeeEeccCCCCCCeeecc-cccCCCcceecHHHHHHHHHhcCCCcccCCCcceec
Q 023250 200 AVCRICLDICEEGNTLKME-CSCKGALRLVHEECAIRWFSTKGNKNCEVCGKEVQN 254 (285)
Q Consensus 200 ~~CRICle~~e~g~~Li~P-C~CkGSl~~VH~~CL~kWl~~kg~~~CEICK~ey~~ 254 (285)
..|-+|-...+ -+.+.- |. |.+|+.|+. .+...|+-|..++..
T Consensus 841 skCs~C~~~Ld--lP~VhF~Cg-----HsyHqhC~e-----~~~~~CP~C~~e~~~ 884 (933)
T KOG2114|consen 841 SKCSACEGTLD--LPFVHFLCG-----HSYHQHCLE-----DKEDKCPKCLPELRG 884 (933)
T ss_pred eeecccCCccc--cceeeeecc-----cHHHHHhhc-----cCcccCCccchhhhh
Confidence 48999954332 244433 54 789999988 446789999998764
No 118
>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=22.29 E-value=59 Score=23.20 Aligned_cols=25 Identities=20% Similarity=0.553 Sum_probs=10.1
Q ss_pred ceecHHHH--HHHHHh---cCCCcccCCCc
Q 023250 226 RLVHEECA--IRWFST---KGNKNCEVCGK 250 (285)
Q Consensus 226 ~~VH~~CL--~kWl~~---kg~~~CEICK~ 250 (285)
.-.|.+|+ +.||.. .+.+.|++|++
T Consensus 20 ~C~H~~CFDl~~fl~~~~~~~~W~CPiC~~ 49 (50)
T PF02891_consen 20 NCKHLQCFDLESFLESNQRTPKWKCPICNK 49 (50)
T ss_dssp T--SS--EEHHHHHHHHHHS---B-TTT--
T ss_pred cCcccceECHHHHHHHhhccCCeECcCCcC
Confidence 34677885 456643 45799999986
No 119
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=21.45 E-value=1e+02 Score=30.09 Aligned_cols=53 Identities=15% Similarity=0.326 Sum_probs=37.9
Q ss_pred cccCCCCeeeEeccCCCCCCee-ecccccCCCcceecHHHHHHHHHhcCCCcccCCCccee
Q 023250 194 EIAEEEAVCRICLDICEEGNTL-KMECSCKGALRLVHEECAIRWFSTKGNKNCEVCGKEVQ 253 (285)
Q Consensus 194 e~~ee~~~CRICle~~e~g~~L-i~PC~CkGSl~~VH~~CL~kWl~~kg~~~CEICK~ey~ 253 (285)
...+...+|-+|-+.. -.+. +.+|. |.+=..|+..=+...-..+|+.|+....
T Consensus 234 s~~t~~~~C~~Cg~~P--tiP~~~~~C~-----HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~ 287 (298)
T KOG2879|consen 234 STGTSDTECPVCGEPP--TIPHVIGKCG-----HIYCYYCIATSRLWDASFTCPLCGENVE 287 (298)
T ss_pred ccccCCceeeccCCCC--CCCeeecccc-----ceeehhhhhhhhcchhhcccCccCCCCc
Confidence 3346778999996542 3455 45686 5677789887776655679999999865
No 120
>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=20.94 E-value=51 Score=24.37 Aligned_cols=43 Identities=26% Similarity=0.576 Sum_probs=22.7
Q ss_pred eeeEeccCCCCCCeeecccccCCCcceecHHHHHHHHHhcCCCcccCCCccee
Q 023250 201 VCRICLDICEEGNTLKMECSCKGALRLVHEECAIRWFSTKGNKNCEVCGKEVQ 253 (285)
Q Consensus 201 ~CRICle~~e~g~~Li~PC~CkGSl~~VH~~CL~kWl~~kg~~~CEICK~ey~ 253 (285)
-|.-|+... ..|+ -|. -||.-..||..-+.. +..|+||+++.+
T Consensus 4 nCKsCWf~~---k~Li-~C~----dHYLCl~CLt~ml~~--s~~C~iC~~~LP 46 (50)
T PF03854_consen 4 NCKSCWFAN---KGLI-KCS----DHYLCLNCLTLMLSR--SDRCPICGKPLP 46 (50)
T ss_dssp ---SS-S-----SSEE-E-S----S-EEEHHHHHHT-SS--SSEETTTTEE--
T ss_pred cChhhhhcC---CCee-eec----chhHHHHHHHHHhcc--ccCCCcccCcCc
Confidence 366666532 2244 333 378888998887765 469999999854
No 121
>PF09943 DUF2175: Uncharacterized protein conserved in archaea (DUF2175); InterPro: IPR018686 This family of various hypothetical archaeal proteins has no known function.
Probab=20.93 E-value=85 Score=26.20 Aligned_cols=35 Identities=31% Similarity=0.359 Sum_probs=23.2
Q ss_pred eeeEeccCCCCCCeeecccccCCCcceecHHHHHHHHHhc
Q 023250 201 VCRICLDICEEGNTLKMECSCKGALRLVHEECAIRWFSTK 240 (285)
Q Consensus 201 ~CRICle~~e~g~~Li~PC~CkGSl~~VH~~CL~kWl~~k 240 (285)
.|-||-..--.|+.+.-.=+ ..||..||.+=+..+
T Consensus 4 kC~iCg~~I~~gqlFTF~~k-----G~VH~~C~~~~~~~k 38 (101)
T PF09943_consen 4 KCYICGKPIYEGQLFTFTKK-----GPVHYECFREKASKK 38 (101)
T ss_pred EEEecCCeeeecceEEEecC-----CcEeHHHHHHHHhhh
Confidence 69999877656665532211 369999988766543
Done!