Query 020032
Match_columns 332
No_of_seqs 213 out of 1395
Neff 4.4
Searched_HMMs 46136
Date Fri Mar 29 06:28:50 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/020032.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/020032hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF12861 zf-Apc11: Anaphase-pr 98.9 4.6E-10 9.9E-15 90.9 3.0 39 2-40 43-84 (85)
2 PF13639 zf-RING_2: Ring finge 98.9 3.7E-10 7.9E-15 79.2 1.4 30 5-34 15-44 (44)
3 PF12678 zf-rbx1: RING-H2 zinc 98.9 4.7E-10 1E-14 87.5 2.1 31 4-34 43-73 (73)
4 smart00504 Ubox Modified RING 98.9 3.2E-09 7E-14 78.3 4.7 50 3-52 11-61 (63)
5 KOG0823 Predicted E3 ubiquitin 98.7 6.7E-09 1.4E-13 97.3 2.6 39 4-42 58-99 (230)
6 TIGR00599 rad18 DNA repair pro 98.7 1.3E-08 2.8E-13 102.1 4.7 56 3-58 36-92 (397)
7 PF15227 zf-C3HC4_4: zinc fing 98.7 1.2E-08 2.6E-13 72.0 2.5 31 3-33 8-42 (42)
8 PLN03208 E3 ubiquitin-protein 98.6 2.6E-08 5.6E-13 91.5 3.6 40 3-42 28-83 (193)
9 COG5194 APC11 Component of SCF 98.6 2.3E-08 4.9E-13 80.5 2.0 41 2-42 45-85 (88)
10 PF13920 zf-C3HC4_3: Zinc fing 98.6 4.2E-08 9.1E-13 70.6 2.8 36 3-38 12-48 (50)
11 PF13923 zf-C3HC4_2: Zinc fing 98.5 4.3E-08 9.3E-13 67.3 2.4 30 4-33 9-39 (39)
12 PF04564 U-box: U-box domain; 98.5 1.2E-07 2.6E-12 73.7 4.1 54 3-56 14-69 (73)
13 cd00162 RING RING-finger (Real 98.5 1E-07 2.2E-12 64.0 3.1 31 7-37 14-45 (45)
14 KOG1493 Anaphase-promoting com 98.5 1.8E-08 3.9E-13 80.5 -0.9 39 2-40 42-83 (84)
15 COG5243 HRD1 HRD ubiquitin lig 98.5 6.4E-08 1.4E-12 96.3 2.5 35 6-40 313-347 (491)
16 KOG4628 Predicted E3 ubiquitin 98.4 1.4E-07 3E-12 93.3 2.0 32 7-38 246-278 (348)
17 smart00184 RING Ring finger. E 98.3 3.6E-07 7.9E-12 59.2 2.9 30 4-33 9-39 (39)
18 PF00097 zf-C3HC4: Zinc finger 98.3 4.1E-07 8.8E-12 62.4 2.6 30 4-33 9-41 (41)
19 KOG0287 Postreplication repair 98.3 5.4E-07 1.2E-11 89.0 3.9 56 3-58 33-89 (442)
20 COG5432 RAD18 RING-finger-cont 98.3 5E-07 1.1E-11 87.8 3.3 52 3-54 35-87 (391)
21 PF14634 zf-RING_5: zinc-RING 98.2 5.5E-07 1.2E-11 63.5 2.2 32 4-35 13-44 (44)
22 KOG2164 Predicted E3 ubiquitin 98.1 1.2E-06 2.7E-11 89.8 2.1 38 6-43 199-241 (513)
23 KOG0802 E3 ubiquitin ligase [P 98.0 1.7E-06 3.7E-11 89.4 1.7 33 6-38 309-341 (543)
24 KOG2930 SCF ubiquitin ligase, 98.0 2.8E-06 6.2E-11 71.5 1.7 38 3-40 73-110 (114)
25 KOG2177 Predicted E3 ubiquitin 97.9 8.2E-06 1.8E-10 71.7 3.7 55 3-58 23-77 (386)
26 TIGR00570 cdk7 CDK-activating 97.9 3.6E-06 7.7E-11 82.3 0.2 34 10-43 25-59 (309)
27 PF13445 zf-RING_UBOX: RING-ty 97.8 8.9E-06 1.9E-10 58.1 1.9 27 5-31 13-43 (43)
28 KOG1734 Predicted RING-contain 97.5 3E-05 6.5E-10 74.9 0.3 34 7-40 248-283 (328)
29 PF14835 zf-RING_6: zf-RING of 97.2 0.00013 2.8E-09 56.8 1.5 44 4-49 18-63 (65)
30 KOG4159 Predicted E3 ubiquitin 97.1 0.00033 7.1E-09 70.8 2.6 37 3-39 94-130 (398)
31 KOG0824 Predicted E3 ubiquitin 97.1 0.00025 5.5E-09 69.3 1.8 36 6-41 20-56 (324)
32 KOG0827 Predicted E3 ubiquitin 97.0 0.00033 7.1E-09 70.6 2.1 31 9-39 24-57 (465)
33 PF11793 FANCL_C: FANCL C-term 96.8 0.00024 5.2E-09 55.2 -0.5 32 9-40 26-68 (70)
34 KOG0825 PHD Zn-finger protein 96.7 0.00059 1.3E-08 73.7 1.5 34 8-41 141-174 (1134)
35 KOG2660 Locus-specific chromos 96.6 0.00064 1.4E-08 67.1 0.6 35 7-41 30-64 (331)
36 smart00744 RINGv The RING-vari 96.6 0.0016 3.4E-08 47.5 2.4 31 4-34 12-49 (49)
37 KOG0311 Predicted E3 ubiquitin 96.6 0.00048 1E-08 68.6 -0.5 34 7-40 58-92 (381)
38 KOG1039 Predicted E3 ubiquitin 96.4 0.0013 2.9E-08 65.4 1.6 31 8-38 184-221 (344)
39 KOG0297 TNF receptor-associate 96.4 0.0014 3E-08 65.8 1.4 40 3-42 31-71 (391)
40 KOG1941 Acetylcholine receptor 96.2 0.0014 3.1E-08 66.3 0.7 31 7-37 383-415 (518)
41 PF11789 zf-Nse: Zinc-finger o 96.1 0.0023 4.9E-08 48.3 1.2 31 2-32 20-53 (57)
42 KOG1813 Predicted E3 ubiquitin 96.1 0.0031 6.6E-08 61.7 2.2 48 3-50 251-298 (313)
43 KOG0804 Cytoplasmic Zn-finger 96.0 0.0023 5E-08 65.6 0.9 31 6-38 192-222 (493)
44 KOG4739 Uncharacterized protei 95.2 0.0048 1E-07 58.6 -0.2 33 6-40 18-50 (233)
45 KOG1002 Nucleotide excision re 95.1 0.0084 1.8E-07 62.9 1.1 35 6-40 549-588 (791)
46 KOG1428 Inhibitor of type V ad 95.0 0.017 3.7E-07 66.2 3.2 35 5-39 3501-3545(3738)
47 KOG1785 Tyrosine kinase negati 94.8 0.014 3E-07 59.6 1.6 37 5-41 381-419 (563)
48 KOG1645 RING-finger-containing 94.8 0.021 4.6E-07 58.2 2.9 36 7-42 23-60 (463)
49 PF14447 Prok-RING_4: Prokaryo 94.7 0.015 3.3E-07 44.0 1.3 34 6-41 20-53 (55)
50 KOG4185 Predicted E3 ubiquitin 93.3 0.076 1.7E-06 50.5 3.4 50 5-54 21-77 (296)
51 COG5222 Uncharacterized conser 93.2 0.062 1.3E-06 53.3 2.7 29 8-36 290-319 (427)
52 KOG4172 Predicted E3 ubiquitin 93.1 0.024 5.2E-07 43.4 -0.3 32 7-38 21-54 (62)
53 KOG2932 E3 ubiquitin ligase in 92.4 0.046 1E-06 54.3 0.6 30 7-38 105-134 (389)
54 KOG2114 Vacuolar assembly/sort 91.4 0.078 1.7E-06 58.2 1.0 30 5-37 853-882 (933)
55 PHA03096 p28-like protein; Pro 91.2 0.11 2.4E-06 50.7 1.7 30 7-36 200-232 (284)
56 KOG1001 Helicase-like transcri 91.1 0.064 1.4E-06 57.8 0.1 36 4-39 464-501 (674)
57 PHA02862 5L protein; Provision 90.4 0.14 3.1E-06 45.9 1.5 29 13-41 26-56 (156)
58 PF04641 Rtf2: Rtf2 RING-finge 90.2 0.32 6.8E-06 46.3 3.9 35 7-42 131-165 (260)
59 KOG4445 Uncharacterized conser 89.8 0.083 1.8E-06 52.3 -0.4 33 6-38 131-186 (368)
60 KOG3970 Predicted E3 ubiquitin 88.8 0.23 5E-06 47.7 1.7 32 7-38 66-105 (299)
61 KOG3039 Uncharacterized conser 86.5 0.52 1.1E-05 45.8 2.7 36 7-42 239-274 (303)
62 PHA02825 LAP/PHD finger-like p 85.2 0.57 1.2E-05 42.6 2.1 27 14-40 33-61 (162)
63 PF03854 zf-P11: P-11 zinc fin 85.2 0.33 7.1E-06 36.1 0.5 31 9-39 16-47 (50)
64 PF14570 zf-RING_4: RING/Ubox 84.3 0.75 1.6E-05 34.0 2.0 28 10-37 19-47 (48)
65 KOG0298 DEAD box-containing he 83.6 0.47 1E-05 54.4 1.0 30 7-36 1168-1197(1394)
66 KOG1814 Predicted E3 ubiquitin 80.8 0.91 2E-05 46.7 1.8 30 7-36 201-238 (445)
67 KOG1940 Zn-finger protein [Gen 80.6 1.3 2.9E-05 43.2 2.8 36 4-40 173-208 (276)
68 KOG3800 Predicted E3 ubiquitin 80.0 1.2 2.7E-05 43.9 2.3 35 9-43 21-56 (300)
69 KOG2034 Vacuolar sorting prote 78.4 0.93 2E-05 50.3 1.1 22 5-26 831-852 (911)
70 KOG4692 Predicted E3 ubiquitin 78.2 1.1 2.5E-05 45.5 1.5 32 7-38 436-467 (489)
71 PF12906 RINGv: RING-variant d 77.2 1.2 2.7E-05 32.1 1.1 28 6-33 13-47 (47)
72 KOG1815 Predicted E3 ubiquitin 76.1 1.3 2.9E-05 45.1 1.4 20 4-23 177-196 (444)
73 COG5236 Uncharacterized conser 76.0 1.8 4E-05 44.0 2.3 31 7-37 75-107 (493)
74 KOG0827 Predicted E3 ubiquitin 72.5 0.82 1.8E-05 46.9 -1.1 34 9-42 216-249 (465)
75 KOG0825 PHD Zn-finger protein 71.1 1.7 3.7E-05 48.1 0.8 29 9-37 119-153 (1134)
76 PF06844 DUF1244: Protein of u 68.6 2.8 6E-05 33.2 1.3 13 14-26 11-23 (68)
77 KOG1952 Transcription factor N 68.4 2.2 4.8E-05 47.4 0.9 27 10-36 212-245 (950)
78 PF08746 zf-RING-like: RING-li 65.3 4 8.6E-05 29.1 1.5 24 10-33 18-43 (43)
79 PF04710 Pellino: Pellino; In 64.4 2.2 4.7E-05 43.8 0.0 32 6-40 304-341 (416)
80 smart00647 IBR In Between Ring 60.3 1.7 3.7E-05 31.5 -1.2 14 10-23 45-58 (64)
81 KOG3039 Uncharacterized conser 60.2 5.6 0.00012 38.9 1.9 23 3-25 53-75 (303)
82 KOG3113 Uncharacterized conser 56.6 7 0.00015 38.3 1.9 34 7-42 129-162 (293)
83 KOG3053 Uncharacterized conser 54.3 6 0.00013 38.8 1.1 29 13-41 49-85 (293)
84 COG5183 SSM4 Protein involved 50.2 8 0.00017 43.3 1.3 28 14-41 40-69 (1175)
85 KOG1812 Predicted E3 ubiquitin 49.8 7.3 0.00016 39.5 0.9 32 4-35 322-353 (384)
86 KOG4367 Predicted Zn-finger pr 48.5 7.1 0.00015 41.0 0.6 24 3-26 14-37 (699)
87 KOG4362 Transcriptional regula 48.5 4.5 9.7E-05 44.1 -0.9 37 6-42 34-73 (684)
88 COG3492 Uncharacterized protei 46.6 9 0.0002 32.2 0.8 13 14-26 42-54 (104)
89 KOG4021 Mitochondrial ribosoma 41.1 15 0.00033 34.8 1.5 33 17-49 97-130 (239)
90 KOG3161 Predicted E3 ubiquitin 40.1 16 0.00035 40.1 1.7 27 6-35 28-54 (861)
91 PF07975 C1_4: TFIIH C1-like d 39.4 17 0.00038 27.1 1.3 26 9-34 25-50 (51)
92 KOG1812 Predicted E3 ubiquitin 38.9 14 0.0003 37.5 1.0 32 8-39 165-204 (384)
93 PF09397 Ftsk_gamma: Ftsk gamm 38.8 29 0.00064 27.0 2.5 24 243-266 25-48 (65)
94 PF01485 IBR: IBR domain; Int 38.6 3.6 7.7E-05 29.7 -2.5 14 10-23 45-58 (64)
95 PRK14559 putative protein seri 36.6 24 0.00052 38.4 2.4 36 1-38 1-38 (645)
96 KOG3337 Protein similar to pre 35.8 17 0.00038 33.8 1.0 40 204-243 136-181 (201)
97 PF02891 zf-MIZ: MIZ/SP-RING z 34.8 26 0.00057 25.6 1.6 29 7-36 17-50 (50)
98 KOG1609 Protein involved in mR 34.2 19 0.00042 33.8 1.1 35 6-40 95-136 (323)
99 KOG0824 Predicted E3 ubiquitin 33.3 12 0.00026 37.4 -0.5 29 10-38 123-151 (324)
100 KOG1815 Predicted E3 ubiquitin 32.2 20 0.00043 36.7 0.9 21 6-26 84-104 (444)
101 smart00843 Ftsk_gamma This dom 31.6 40 0.00086 26.2 2.2 25 242-266 23-47 (63)
102 KOG3002 Zn finger protein [Gen 30.6 42 0.00092 33.2 2.8 41 8-53 62-104 (299)
103 COG5175 MOT2 Transcriptional r 30.1 37 0.0008 34.9 2.3 32 9-40 34-66 (480)
104 KOG3842 Adaptor protein Pellin 29.2 22 0.00047 36.1 0.5 28 6-36 317-350 (429)
105 cd00350 rubredoxin_like Rubred 29.0 31 0.00067 23.0 1.1 22 9-36 5-26 (33)
106 PF04423 Rad50_zn_hook: Rad50 28.5 20 0.00044 26.1 0.2 13 29-41 22-34 (54)
107 KOG1356 Putative transcription 28.5 16 0.00035 40.8 -0.5 33 9-41 247-285 (889)
108 PF09723 Zn-ribbon_8: Zinc rib 28.4 14 0.0003 26.0 -0.7 26 9-35 9-34 (42)
109 PF10571 UPF0547: Uncharacteri 25.6 19 0.00042 23.2 -0.3 22 16-37 3-24 (26)
110 PF13240 zinc_ribbon_2: zinc-r 24.9 13 0.00028 23.3 -1.2 10 27-36 13-22 (23)
111 KOG2169 Zn-finger transcriptio 24.6 56 0.0012 35.4 2.7 38 7-44 316-362 (636)
112 PF14311 DUF4379: Domain of un 23.8 47 0.001 24.2 1.4 7 27-33 49-55 (55)
113 smart00132 LIM Zinc-binding do 23.2 40 0.00086 21.5 0.8 20 11-38 19-38 (39)
114 COG4640 Predicted membrane pro 22.7 41 0.00089 35.0 1.1 40 15-54 3-43 (465)
115 PF10497 zf-4CXXC_R1: Zinc-fin 22.3 60 0.0013 27.2 1.9 27 12-38 37-72 (105)
116 PF03895 YadA_anchor: YadA-lik 21.4 71 0.0015 24.9 2.0 16 244-259 1-16 (78)
117 cd07153 Fur_like Ferric uptake 20.8 73 0.0016 25.7 2.0 33 234-266 16-49 (116)
118 KOG2979 Protein involved in DN 20.7 55 0.0012 32.1 1.5 29 7-35 191-221 (262)
119 PLN02248 cellulose synthase-li 20.6 69 0.0015 37.2 2.4 32 10-41 149-180 (1135)
120 PF05883 Baculo_RING: Baculovi 20.6 35 0.00075 30.3 0.1 23 13-35 55-77 (134)
No 1
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=98.94 E-value=4.6e-10 Score=90.94 Aligned_cols=39 Identities=33% Similarity=0.945 Sum_probs=34.2
Q ss_pred CCCCCeecCCCCcccHhhHHHHHhC---CCCCCCcccccccC
Q 020032 2 QFCLFQVTSCKHEYHLQCILEWSQR---SKECPICWQQFVLK 40 (332)
Q Consensus 2 ~fcpPVvlpCGH~FC~~CI~eWlk~---s~sCPmCRq~~s~~ 40 (332)
+-||++...|+|.||.+||.+|+.. +..|||||+++.++
T Consensus 43 d~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~~k 84 (85)
T PF12861_consen 43 DDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWKFK 84 (85)
T ss_pred CCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeeeeC
Confidence 4589999999999999999999986 36899999998754
No 2
>PF13639 zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C 1IYM_A 2EP4_A 2ECT_A 2JRJ_A 2ECN_A 2ECM_A 3NG2_A 2EA6_A ....
Probab=98.91 E-value=3.7e-10 Score=79.19 Aligned_cols=30 Identities=37% Similarity=0.964 Sum_probs=26.8
Q ss_pred CCeecCCCCcccHhhHHHHHhCCCCCCCcc
Q 020032 5 LFQVTSCKHEYHLQCILEWSQRSKECPICW 34 (332)
Q Consensus 5 pPVvlpCGH~FC~~CI~eWlk~s~sCPmCR 34 (332)
..+.++|||.||..||.+|++.+.+||+||
T Consensus 15 ~~~~l~C~H~fh~~Ci~~~~~~~~~CP~CR 44 (44)
T PF13639_consen 15 KVVKLPCGHVFHRSCIKEWLKRNNSCPVCR 44 (44)
T ss_dssp CEEEETTSEEEEHHHHHHHHHHSSB-TTTH
T ss_pred eEEEccCCCeeCHHHHHHHHHhCCcCCccC
Confidence 457889999999999999999999999998
No 3
>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=98.91 E-value=4.7e-10 Score=87.50 Aligned_cols=31 Identities=32% Similarity=1.042 Sum_probs=27.6
Q ss_pred CCCeecCCCCcccHhhHHHHHhCCCCCCCcc
Q 020032 4 CLFQVTSCKHEYHLQCILEWSQRSKECPICW 34 (332)
Q Consensus 4 cpPVvlpCGH~FC~~CI~eWlk~s~sCPmCR 34 (332)
|+.+.++|||.||..||.+|++...+||+||
T Consensus 43 ~~i~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR 73 (73)
T PF12678_consen 43 CPIVWGPCGHIFHFHCISQWLKQNNTCPLCR 73 (73)
T ss_dssp S-EEEETTSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred cceEecccCCCEEHHHHHHHHhcCCcCCCCC
Confidence 6778889999999999999999999999998
No 4
>smart00504 Ubox Modified RING finger domain. Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.
Probab=98.85 E-value=3.2e-09 Score=78.29 Aligned_cols=50 Identities=16% Similarity=0.170 Sum_probs=40.6
Q ss_pred CCCCeecCCCCcccHhhHHHHHhCCCCCCCcccccccCCch-hHHHHHHHH
Q 020032 3 FCLFQVTSCKHEYHLQCILEWSQRSKECPICWQQFVLKEPA-CQELLAAIE 52 (332)
Q Consensus 3 fcpPVvlpCGH~FC~~CI~eWlk~s~sCPmCRq~~s~~d~~-s~eL~~~VE 52 (332)
+..|++++|||.||+.||.+|++....||+|++.+...++. +..|.+.++
T Consensus 11 ~~~Pv~~~~G~v~~~~~i~~~~~~~~~cP~~~~~~~~~~l~~~~~l~~~i~ 61 (63)
T smart00504 11 MKDPVILPSGQTYERRAIEKWLLSHGTDPVTGQPLTHEDLIPNLALKSAIQ 61 (63)
T ss_pred CCCCEECCCCCEEeHHHHHHHHHHCCCCCCCcCCCChhhceeCHHHHHHHH
Confidence 45689999999999999999999888999999998766654 445555443
No 5
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.70 E-value=6.7e-09 Score=97.25 Aligned_cols=39 Identities=31% Similarity=0.664 Sum_probs=33.5
Q ss_pred CCCeecCCCCcccHhhHHHHHhCC---CCCCCcccccccCCc
Q 020032 4 CLFQVTSCKHEYHLQCILEWSQRS---KECPICWQQFVLKEP 42 (332)
Q Consensus 4 cpPVvlpCGH~FC~~CI~eWlk~s---~sCPmCRq~~s~~d~ 42 (332)
.+||++.|||.||+.||.+||+.. +.||+||..+.....
T Consensus 58 kdPVvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~v 99 (230)
T KOG0823|consen 58 KDPVVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDTV 99 (230)
T ss_pred CCCEEeecccceehHHHHHHHhhcCCCeeCCccccccccceE
Confidence 378999999999999999999863 579999998875554
No 6
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.70 E-value=1.3e-08 Score=102.14 Aligned_cols=56 Identities=21% Similarity=0.335 Sum_probs=45.9
Q ss_pred CCCCeecCCCCcccHhhHHHHHhCCCCCCCcccccccCCch-hHHHHHHHHHhhhcc
Q 020032 3 FCLFQVTSCKHEYHLQCILEWSQRSKECPICWQQFVLKEPA-CQELLAAIESERLSK 58 (332)
Q Consensus 3 fcpPVvlpCGH~FC~~CI~eWlk~s~sCPmCRq~~s~~d~~-s~eL~~~VE~er~lR 58 (332)
|..|++++|||.||..||..|+.....||+||..+....+. +..|.++|+..+.+|
T Consensus 36 ~~~PvitpCgH~FCs~CI~~~l~~~~~CP~Cr~~~~~~~Lr~N~~L~~iVe~~~~~R 92 (397)
T TIGR00599 36 FDVPVLTSCSHTFCSLCIRRCLSNQPKCPLCRAEDQESKLRSNWLVSEIVESFKNLR 92 (397)
T ss_pred hhCccCCCCCCchhHHHHHHHHhCCCCCCCCCCccccccCccchHHHHHHHHHHHhh
Confidence 45789999999999999999999888899999998765443 666777777776555
No 7
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=98.66 E-value=1.2e-08 Score=72.04 Aligned_cols=31 Identities=23% Similarity=0.500 Sum_probs=24.0
Q ss_pred CCCCeecCCCCcccHhhHHHHHhCC----CCCCCc
Q 020032 3 FCLFQVTSCKHEYHLQCILEWSQRS----KECPIC 33 (332)
Q Consensus 3 fcpPVvlpCGH~FC~~CI~eWlk~s----~sCPmC 33 (332)
|..||+++|||+||..||..||+.. ..||+|
T Consensus 8 ~~~Pv~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 8 FKDPVSLPCGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp -SSEEE-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred hCCccccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 6789999999999999999999864 369998
No 8
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=98.61 E-value=2.6e-08 Score=91.46 Aligned_cols=40 Identities=25% Similarity=0.525 Sum_probs=33.0
Q ss_pred CCCCeecCCCCcccHhhHHHHHhC----------------CCCCCCcccccccCCc
Q 020032 3 FCLFQVTSCKHEYHLQCILEWSQR----------------SKECPICWQQFVLKEP 42 (332)
Q Consensus 3 fcpPVvlpCGH~FC~~CI~eWlk~----------------s~sCPmCRq~~s~~d~ 42 (332)
+.+|++++|||.||+.||.+|+.. ...||+||..+....+
T Consensus 28 ~~dPVvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~L 83 (193)
T PLN03208 28 VRDPVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEATL 83 (193)
T ss_pred CCCcEEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhcE
Confidence 457899999999999999999852 2479999999875443
No 9
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=98.57 E-value=2.3e-08 Score=80.55 Aligned_cols=41 Identities=29% Similarity=0.683 Sum_probs=36.6
Q ss_pred CCCCCeecCCCCcccHhhHHHHHhCCCCCCCcccccccCCc
Q 020032 2 QFCLFQVTSCKHEYHLQCILEWSQRSKECPICWQQFVLKEP 42 (332)
Q Consensus 2 ~fcpPVvlpCGH~FC~~CI~eWlk~s~sCPmCRq~~s~~d~ 42 (332)
+-|+.+.-.|.|+||.+||.+||.....||+||+.+...+.
T Consensus 45 ~eC~v~wG~CnHaFH~HCI~rWL~Tk~~CPld~q~w~~~~~ 85 (88)
T COG5194 45 DECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQTWVLADG 85 (88)
T ss_pred CcceEEEEecchHHHHHHHHHHHhhCCCCCCCCceeEEecc
Confidence 35888999999999999999999999999999999876553
No 10
>PF13920 zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger); PDB: 2YHN_B 2YHO_G 3T6P_A 2CSY_A 2VJE_B 2VJF_B 2HDP_B 2EA5_A 2ECG_A 3EB5_A ....
Probab=98.56 E-value=4.2e-08 Score=70.58 Aligned_cols=36 Identities=28% Similarity=0.525 Sum_probs=31.7
Q ss_pred CCCCeecCCCCc-ccHhhHHHHHhCCCCCCCcccccc
Q 020032 3 FCLFQVTSCKHE-YHLQCILEWSQRSKECPICWQQFV 38 (332)
Q Consensus 3 fcpPVvlpCGH~-FC~~CI~eWlk~s~sCPmCRq~~s 38 (332)
+..++.++|||. ||..|+.+|++....||+||+++.
T Consensus 12 ~~~~~~~pCgH~~~C~~C~~~~~~~~~~CP~Cr~~i~ 48 (50)
T PF13920_consen 12 PRDVVLLPCGHLCFCEECAERLLKRKKKCPICRQPIE 48 (50)
T ss_dssp BSSEEEETTCEEEEEHHHHHHHHHTTSBBTTTTBB-S
T ss_pred CCceEEeCCCChHHHHHHhHHhcccCCCCCcCChhhc
Confidence 345688999999 999999999999899999999875
No 11
>PF13923 zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger); PDB: 3HCU_A 2ECI_A 2JMD_A 3HCS_B 3HCT_A 3ZTG_A 2YUR_A 3L11_A.
Probab=98.54 E-value=4.3e-08 Score=67.34 Aligned_cols=30 Identities=30% Similarity=0.781 Sum_probs=26.3
Q ss_pred CCC-eecCCCCcccHhhHHHHHhCCCCCCCc
Q 020032 4 CLF-QVTSCKHEYHLQCILEWSQRSKECPIC 33 (332)
Q Consensus 4 cpP-VvlpCGH~FC~~CI~eWlk~s~sCPmC 33 (332)
..| +.++|||.||..||.+|++....||+|
T Consensus 9 ~~~~~~~~CGH~fC~~C~~~~~~~~~~CP~C 39 (39)
T PF13923_consen 9 RDPVVVTPCGHSFCKECIEKYLEKNPKCPVC 39 (39)
T ss_dssp SSEEEECTTSEEEEHHHHHHHHHCTSB-TTT
T ss_pred cCcCEECCCCCchhHHHHHHHHHCcCCCcCC
Confidence 445 789999999999999999998899998
No 12
>PF04564 U-box: U-box domain; InterPro: IPR003613 Quality control of intracellular proteins is essential for cellular homeostasis. Molecular chaperones recognise and contribute to the refolding of misfolded or unfolded proteins, whereas the ubiquitin-proteasome system mediates the degradation of such abnormal proteins. Ubiquitin-protein ligases (E3s) determine the substrate specificity for ubiquitylation and have been classified into HECT and RING-finger families. More recently, however, U-box proteins, which contain a domain (the U box) of about 70 amino acids that is conserved from yeast to humans, have been identified as a new type of E3 []. Members of the U-box family of proteins constitute a class of ubiquitin-protein ligases (E3s) distinct from the HECT-type and RING finger-containing E3 families []. Using yeast two-hybrid technology, all mammalian U-box proteins have been reported to interact with molecular chaperones or co-chaperones, including Hsp90, Hsp70, DnaJc7, EKN1, CRN, and VCP. This suggests that the function of U box-type E3s is to mediate the degradation of unfolded or misfolded proteins in conjunction with molecular chaperones as receptors that recognise such abnormal proteins [, ]. Unlike the RING finger domain, IPR001841 from INTERPRO, that is stabilised by Zn2+ ions coordinated by the cysteines and a histidine, the U-box scaffold is probably stabilised by a system of salt-bridges and hydrogen bonds. The charged and polar residues that participate in this network of bonds are more strongly conserved in the U-box proteins than in classic RING fingers, which supports their role in maintaining the stability of the U box. Thus, the U box appears to have evolved from a RING finger domain by appropriation of a new set of residues required to stabilise its structure, concomitant with the loss of the original, metal-chelating residues [].; GO: 0004842 ubiquitin-protein ligase activity, 0016567 protein ubiquitination, 0000151 ubiquitin ligase complex; PDB: 1T1H_A 2C2L_D 2C2V_V 1WGM_A 2KR4_A 3L1Z_B 3L1X_A 2KRE_A 3M63_A 2QIZ_A ....
Probab=98.50 E-value=1.2e-07 Score=73.65 Aligned_cols=54 Identities=19% Similarity=0.180 Sum_probs=42.5
Q ss_pred CCCCeecCCCCcccHhhHHHHHhC-CCCCCCcccccccCCch-hHHHHHHHHHhhh
Q 020032 3 FCLFQVTSCKHEYHLQCILEWSQR-SKECPICWQQFVLKEPA-CQELLAAIESERL 56 (332)
Q Consensus 3 fcpPVvlpCGH~FC~~CI~eWlk~-s~sCPmCRq~~s~~d~~-s~eL~~~VE~er~ 56 (332)
|.+||+++|||.|++.||..|++. ...||+|++++...++. +..|...++....
T Consensus 14 M~dPVi~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~~l~pn~~Lk~~I~~~~~ 69 (73)
T PF04564_consen 14 MRDPVILPSGHTYERSAIERWLEQNGGTDPFTRQPLSESDLIPNRALKSAIEEWCA 69 (73)
T ss_dssp -SSEEEETTSEEEEHHHHHHHHCTTSSB-TTT-SB-SGGGSEE-HHHHHHHHHHHH
T ss_pred hhCceeCCcCCEEcHHHHHHHHHcCCCCCCCCCCcCCcccceECHHHHHHHHHHHH
Confidence 457899999999999999999999 78999999999887766 7788888877644
No 13
>cd00162 RING RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)
Probab=98.49 E-value=1e-07 Score=64.00 Aligned_cols=31 Identities=26% Similarity=0.808 Sum_probs=26.7
Q ss_pred eecCCCCcccHhhHHHHHhC-CCCCCCccccc
Q 020032 7 QVTSCKHEYHLQCILEWSQR-SKECPICWQQF 37 (332)
Q Consensus 7 VvlpCGH~FC~~CI~eWlk~-s~sCPmCRq~~ 37 (332)
++++|||.||..|+..|++. ...||+|++.+
T Consensus 14 ~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~~ 45 (45)
T cd00162 14 VLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI 45 (45)
T ss_pred EecCCCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence 45569999999999999987 67899999863
No 14
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=98.48 E-value=1.8e-08 Score=80.51 Aligned_cols=39 Identities=33% Similarity=0.878 Sum_probs=33.9
Q ss_pred CCCCCeecCCCCcccHhhHHHHHhCC---CCCCCcccccccC
Q 020032 2 QFCLFQVTSCKHEYHLQCILEWSQRS---KECPICWQQFVLK 40 (332)
Q Consensus 2 ~fcpPVvlpCGH~FC~~CI~eWlk~s---~sCPmCRq~~s~~ 40 (332)
+-||.|.-.|.|.||.+||++|+... ..|||||+.+..+
T Consensus 42 DdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~~~ 83 (84)
T KOG1493|consen 42 DDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQFK 83 (84)
T ss_pred CCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeEec
Confidence 46899999999999999999999864 4799999998654
No 15
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=98.47 E-value=6.4e-08 Score=96.32 Aligned_cols=35 Identities=31% Similarity=0.884 Sum_probs=31.8
Q ss_pred CeecCCCCcccHhhHHHHHhCCCCCCCcccccccC
Q 020032 6 FQVTSCKHEYHLQCILEWSQRSKECPICWQQFVLK 40 (332)
Q Consensus 6 PVvlpCGH~FC~~CI~eWlk~s~sCPmCRq~~s~~ 40 (332)
|..++|||+||++|+..|+++..+||+||.++...
T Consensus 313 pKrLpCGHilHl~CLknW~ERqQTCPICr~p~ifd 347 (491)
T COG5243 313 PKRLPCGHILHLHCLKNWLERQQTCPICRRPVIFD 347 (491)
T ss_pred cccccccceeeHHHHHHHHHhccCCCcccCccccc
Confidence 57899999999999999999999999999996543
No 16
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.37 E-value=1.4e-07 Score=93.29 Aligned_cols=32 Identities=28% Similarity=0.937 Sum_probs=28.8
Q ss_pred eecCCCCcccHhhHHHHHhCC-CCCCCcccccc
Q 020032 7 QVTSCKHEYHLQCILEWSQRS-KECPICWQQFV 38 (332)
Q Consensus 7 VvlpCGH~FC~~CI~eWlk~s-~sCPmCRq~~s 38 (332)
.+|||+|.||..||++||... ..||+||+++.
T Consensus 246 RiLPC~H~FH~~CIDpWL~~~r~~CPvCK~di~ 278 (348)
T KOG4628|consen 246 RILPCSHKFHVNCIDPWLTQTRTFCPVCKRDIR 278 (348)
T ss_pred eEecCCCchhhccchhhHhhcCccCCCCCCcCC
Confidence 679999999999999999887 46999999764
No 17
>smart00184 RING Ring finger. E3 ubiquitin-protein ligase activity is intrinsic to the RING domain of c-Cbl and is likely to be a general function of this domain; Various RING fingers exhibit binding activity towards E2 ubiquitin-conjugating enzymes (Ubc' s)
Probab=98.34 E-value=3.6e-07 Score=59.17 Aligned_cols=30 Identities=33% Similarity=0.798 Sum_probs=26.5
Q ss_pred CCCeecCCCCcccHhhHHHHHh-CCCCCCCc
Q 020032 4 CLFQVTSCKHEYHLQCILEWSQ-RSKECPIC 33 (332)
Q Consensus 4 cpPVvlpCGH~FC~~CI~eWlk-~s~sCPmC 33 (332)
..++.++|||.||..||..|++ ....||+|
T Consensus 9 ~~~~~~~C~H~~c~~C~~~~~~~~~~~CP~C 39 (39)
T smart00184 9 KDPVVLPCGHTFCRSCIRKWLKSGNNTCPIC 39 (39)
T ss_pred CCcEEecCCChHHHHHHHHHHHhCcCCCCCC
Confidence 4678899999999999999998 55689998
No 18
>PF00097 zf-C3HC4: Zinc finger, C3HC4 type (RING finger); InterPro: IPR018957 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C3HC4 type zinc-finger (RING finger) is a cysteine-rich domain of 40 to 60 residues that coordinates two zinc ions, and has the consensus sequence: C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C where X is any amino acid []. Many proteins containing a RING finger play a key role in the ubiquitination pathway []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1CHC_A 2ECW_A 2Y43_B 1V87_A 2DJB_A 2H0D_B 3RPG_C 3KNV_A 2CKL_B 1JM7_A ....
Probab=98.31 E-value=4.1e-07 Score=62.37 Aligned_cols=30 Identities=27% Similarity=0.765 Sum_probs=25.7
Q ss_pred CCCe-ecCCCCcccHhhHHHHHh--CCCCCCCc
Q 020032 4 CLFQ-VTSCKHEYHLQCILEWSQ--RSKECPIC 33 (332)
Q Consensus 4 cpPV-vlpCGH~FC~~CI~eWlk--~s~sCPmC 33 (332)
-.++ +++|||.||..||.+|++ ....||+|
T Consensus 9 ~~~~~~~~C~H~fC~~C~~~~~~~~~~~~CP~C 41 (41)
T PF00097_consen 9 EDPVILLPCGHSFCRDCLRKWLENSGSVKCPLC 41 (41)
T ss_dssp SSEEEETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred cCCCEEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence 3455 899999999999999998 45689998
No 19
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=98.28 E-value=5.4e-07 Score=88.98 Aligned_cols=56 Identities=20% Similarity=0.436 Sum_probs=45.9
Q ss_pred CCCCeecCCCCcccHhhHHHHHhCCCCCCCcccccccCCchh-HHHHHHHHHhhhcc
Q 020032 3 FCLFQVTSCKHEYHLQCILEWSQRSKECPICWQQFVLKEPAC-QELLAAIESERLSK 58 (332)
Q Consensus 3 fcpPVvlpCGH~FC~~CI~eWlk~s~sCPmCRq~~s~~d~~s-~eL~~~VE~er~lR 58 (332)
|..|++++|||.||.-||..+|..+..||.|+..+...++.+ .-|.++++....+|
T Consensus 33 f~ip~itpCsHtfCSlCIR~~L~~~p~CP~C~~~~~Es~Lr~n~il~Eiv~S~~~~R 89 (442)
T KOG0287|consen 33 FNIPMITPCSHTFCSLCIRKFLSYKPQCPTCCVTVTESDLRNNRILDEIVKSLNFAR 89 (442)
T ss_pred hcCceeccccchHHHHHHHHHhccCCCCCceecccchhhhhhhhHHHHHHHHHHHHH
Confidence 678999999999999999999999999999999998887774 33455666554433
No 20
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=98.27 E-value=5e-07 Score=87.79 Aligned_cols=52 Identities=19% Similarity=0.290 Sum_probs=40.1
Q ss_pred CCCCeecCCCCcccHhhHHHHHhCCCCCCCcccccccCCch-hHHHHHHHHHh
Q 020032 3 FCLFQVTSCKHEYHLQCILEWSQRSKECPICWQQFVLKEPA-CQELLAAIESE 54 (332)
Q Consensus 3 fcpPVvlpCGH~FC~~CI~eWlk~s~sCPmCRq~~s~~d~~-s~eL~~~VE~e 54 (332)
|..|++++|||.||.-||..+|.....||+||.++...-+. +..+.++.|.+
T Consensus 35 i~ip~~TtCgHtFCslCIR~hL~~qp~CP~Cr~~~~esrlr~~s~~~ei~es~ 87 (391)
T COG5432 35 ISIPCETTCGHTFCSLCIRRHLGTQPFCPVCREDPCESRLRGSSGSREINESH 87 (391)
T ss_pred eecceecccccchhHHHHHHHhcCCCCCccccccHHhhhcccchhHHHHHHhh
Confidence 45689999999999999999999999999999987765444 22333444443
No 21
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=98.25 E-value=5.5e-07 Score=63.54 Aligned_cols=32 Identities=31% Similarity=0.695 Sum_probs=28.3
Q ss_pred CCCeecCCCCcccHhhHHHHHhCCCCCCCccc
Q 020032 4 CLFQVTSCKHEYHLQCILEWSQRSKECPICWQ 35 (332)
Q Consensus 4 cpPVvlpCGH~FC~~CI~eWlk~s~sCPmCRq 35 (332)
-++++++|||.||..||..+......||+||+
T Consensus 13 ~~~~l~~CgH~~C~~C~~~~~~~~~~CP~C~k 44 (44)
T PF14634_consen 13 RRPRLTSCGHIFCEKCLKKLKGKSVKCPICRK 44 (44)
T ss_pred CCeEEcccCCHHHHHHHHhhcCCCCCCcCCCC
Confidence 36789999999999999999866679999985
No 22
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.09 E-value=1.2e-06 Score=89.78 Aligned_cols=38 Identities=34% Similarity=0.615 Sum_probs=31.6
Q ss_pred CeecCCCCcccHhhHHHHHhCC-----CCCCCcccccccCCch
Q 020032 6 FQVTSCKHEYHLQCILEWSQRS-----KECPICWQQFVLKEPA 43 (332)
Q Consensus 6 PVvlpCGH~FC~~CI~eWlk~s-----~sCPmCRq~~s~~d~~ 43 (332)
|+.+.|||+||..||+++|... ..||+||..|.++++.
T Consensus 199 p~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kdl~ 241 (513)
T KOG2164|consen 199 PVRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKDLL 241 (513)
T ss_pred ccccccCceeeHHHHHHHHhhhcccCCccCCchhhhcccccee
Confidence 3677899999999999976643 5799999999887765
No 23
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.03 E-value=1.7e-06 Score=89.41 Aligned_cols=33 Identities=27% Similarity=0.761 Sum_probs=30.3
Q ss_pred CeecCCCCcccHhhHHHHHhCCCCCCCcccccc
Q 020032 6 FQVTSCKHEYHLQCILEWSQRSKECPICWQQFV 38 (332)
Q Consensus 6 PVvlpCGH~FC~~CI~eWlk~s~sCPmCRq~~s 38 (332)
+..++|||+||..||.+|+++..+||+||..+.
T Consensus 309 ~~rL~C~Hifh~~CL~~W~er~qtCP~CR~~~~ 341 (543)
T KOG0802|consen 309 PKRLPCGHIFHDSCLRSWFERQQTCPTCRTVLY 341 (543)
T ss_pred cceeecccchHHHHHHHHHHHhCcCCcchhhhh
Confidence 578999999999999999999999999999543
No 24
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=97.97 E-value=2.8e-06 Score=71.50 Aligned_cols=38 Identities=26% Similarity=0.779 Sum_probs=33.3
Q ss_pred CCCCeecCCCCcccHhhHHHHHhCCCCCCCcccccccC
Q 020032 3 FCLFQVTSCKHEYHLQCILEWSQRSKECPICWQQFVLK 40 (332)
Q Consensus 3 fcpPVvlpCGH~FC~~CI~eWlk~s~sCPmCRq~~s~~ 40 (332)
-|-.+...|.|.||++||.+||+..+.||+|.+++.+.
T Consensus 73 EC~VaWG~CNHaFH~hCisrWlktr~vCPLdn~eW~~q 110 (114)
T KOG2930|consen 73 ECTVAWGVCNHAFHFHCISRWLKTRNVCPLDNKEWVFQ 110 (114)
T ss_pred ceEEEeeecchHHHHHHHHHHHhhcCcCCCcCcceeEe
Confidence 45556778999999999999999999999999988654
No 25
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.92 E-value=8.2e-06 Score=71.70 Aligned_cols=55 Identities=18% Similarity=0.288 Sum_probs=38.7
Q ss_pred CCCCeecCCCCcccHhhHHHHHhCCCCCCCcccccccCCchhHHHHHHHHHhhhcc
Q 020032 3 FCLFQVTSCKHEYHLQCILEWSQRSKECPICWQQFVLKEPACQELLAAIESERLSK 58 (332)
Q Consensus 3 fcpPVvlpCGH~FC~~CI~eWlk~s~sCPmCRq~~s~~d~~s~eL~~~VE~er~lR 58 (332)
|..|++++|||+||..||..||.....||.||. ....-..+..+.++++..+...
T Consensus 23 ~~~p~~l~C~H~~c~~C~~~~~~~~~~Cp~cr~-~~~~~~~n~~l~~~~~~~~~~~ 77 (386)
T KOG2177|consen 23 FREPVLLPCGHNFCRACLTRSWEGPLSCPVCRP-PSRNLRPNVLLANLVERLRQLR 77 (386)
T ss_pred hhcCccccccchHhHHHHHHhcCCCcCCcccCC-chhccCccHHHHHHHHHHHhcC
Confidence 456689999999999999998885568999995 2221112555666666655433
No 26
>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1. All proteins in this family for which functions are known are cyclin dependent protein kinases that are components of TFIIH, a complex that is involved in nucleotide excision repair and transcription initiation. Also known as MAT1 (menage a trois 1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=97.85 E-value=3.6e-06 Score=82.28 Aligned_cols=34 Identities=21% Similarity=0.347 Sum_probs=28.0
Q ss_pred CCCCcccHhhHHHHH-hCCCCCCCcccccccCCch
Q 020032 10 SCKHEYHLQCILEWS-QRSKECPICWQQFVLKEPA 43 (332)
Q Consensus 10 pCGH~FC~~CI~eWl-k~s~sCPmCRq~~s~~d~~ 43 (332)
+|||.||..||...| .....||.|+..+....+.
T Consensus 25 ~CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk~~fr 59 (309)
T TIGR00570 25 VCGHTLCESCVDLLFVRGSGSCPECDTPLRKNNFR 59 (309)
T ss_pred CCCCcccHHHHHHHhcCCCCCCCCCCCccchhhcc
Confidence 799999999999955 4456899999988766644
No 27
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=97.83 E-value=8.9e-06 Score=58.13 Aligned_cols=27 Identities=30% Similarity=0.634 Sum_probs=19.0
Q ss_pred CCeecCCCCcccHhhHHHHHhCC----CCCC
Q 020032 5 LFQVTSCKHEYHLQCILEWSQRS----KECP 31 (332)
Q Consensus 5 pPVvlpCGH~FC~~CI~eWlk~s----~sCP 31 (332)
+|++|+|||.||..||.+|++.. ..||
T Consensus 13 ~P~~L~CGH~~c~~cl~~l~~~~~~~~~kCP 43 (43)
T PF13445_consen 13 PPMVLPCGHVFCKDCLQKLSKKSDRNRFKCP 43 (43)
T ss_dssp -EEE-SSS-EEEHHHHHHHHHH-S-S-B--T
T ss_pred CCEEEeCccHHHHHHHHHHHhcCCCCeeeCc
Confidence 49999999999999999998853 3677
No 28
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.46 E-value=3e-05 Score=74.91 Aligned_cols=34 Identities=35% Similarity=0.811 Sum_probs=28.4
Q ss_pred eecCCCCcccHhhHHHHHh--CCCCCCCcccccccC
Q 020032 7 QVTSCKHEYHLQCILEWSQ--RSKECPICWQQFVLK 40 (332)
Q Consensus 7 VvlpCGH~FC~~CI~eWlk--~s~sCPmCRq~~s~~ 40 (332)
..|.|+|.||..||.-|+- .+.+||.|++.+..+
T Consensus 248 y~LsCnHvFHEfCIrGWcivGKkqtCPYCKekVdl~ 283 (328)
T KOG1734|consen 248 YKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKVDLK 283 (328)
T ss_pred eeeecccchHHHhhhhheeecCCCCCchHHHHhhHh
Confidence 3689999999999999965 457999999987543
No 29
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=97.24 E-value=0.00013 Score=56.77 Aligned_cols=44 Identities=20% Similarity=0.444 Sum_probs=21.3
Q ss_pred CCCe-ecCCCCcccHhhHHHHHhCCCCCCCcccccccCCch-hHHHHH
Q 020032 4 CLFQ-VTSCKHEYHLQCILEWSQRSKECPICWQQFVLKEPA-CQELLA 49 (332)
Q Consensus 4 cpPV-vlpCGH~FC~~CI~eWlk~s~sCPmCRq~~s~~d~~-s~eL~~ 49 (332)
..|| +..|.|+||..||..-+. ..||+|+.+.-.+|.. |..|.+
T Consensus 18 ~~pv~l~~CeH~fCs~Ci~~~~~--~~CPvC~~Paw~qD~~~NrqLd~ 63 (65)
T PF14835_consen 18 KEPVCLGGCEHIFCSSCIRDCIG--SECPVCHTPAWIQDIQINRQLDS 63 (65)
T ss_dssp SS-B---SSS--B-TTTGGGGTT--TB-SSS--B-S-SS----HHHHH
T ss_pred cCCceeccCccHHHHHHhHHhcC--CCCCCcCChHHHHHHHhhhhhhc
Confidence 4565 689999999999977444 4699999987666655 444443
No 30
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.05 E-value=0.00033 Score=70.83 Aligned_cols=37 Identities=30% Similarity=0.675 Sum_probs=32.7
Q ss_pred CCCCeecCCCCcccHhhHHHHHhCCCCCCCccccccc
Q 020032 3 FCLFQVTSCKHEYHLQCILEWSQRSKECPICWQQFVL 39 (332)
Q Consensus 3 fcpPVvlpCGH~FC~~CI~eWlk~s~sCPmCRq~~s~ 39 (332)
|=+||+++|||.||..||..-+.....||.||..+..
T Consensus 94 l~~pv~tpcghs~c~~Cl~r~ld~~~~cp~Cr~~l~e 130 (398)
T KOG4159|consen 94 LYPPVVTPCGHSFCLECLDRSLDQETECPLCRDELVE 130 (398)
T ss_pred cCCCccccccccccHHHHHHHhccCCCCccccccccc
Confidence 4478899999999999999988888899999998764
No 31
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.05 E-value=0.00025 Score=69.30 Aligned_cols=36 Identities=19% Similarity=0.394 Sum_probs=29.6
Q ss_pred CeecCCCCcccHhhHHH-HHhCCCCCCCcccccccCC
Q 020032 6 FQVTSCKHEYHLQCILE-WSQRSKECPICWQQFVLKE 41 (332)
Q Consensus 6 PVvlpCGH~FC~~CI~e-Wlk~s~sCPmCRq~~s~~d 41 (332)
||.+.|+|.||.-||.- .+.....|+|||.+|...-
T Consensus 20 Pv~l~C~HkFCyiCiKGsy~ndk~~CavCR~pids~i 56 (324)
T KOG0824|consen 20 PVNLYCFHKFCYICIKGSYKNDKKTCAVCRFPIDSTI 56 (324)
T ss_pred CccccccchhhhhhhcchhhcCCCCCceecCCCCcch
Confidence 48999999999999985 4555678999999986443
No 32
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.00 E-value=0.00033 Score=70.62 Aligned_cols=31 Identities=32% Similarity=0.903 Sum_probs=25.0
Q ss_pred cCCCCcccHhhHHHHHhC--C-CCCCCccccccc
Q 020032 9 TSCKHEYHLQCILEWSQR--S-KECPICWQQFVL 39 (332)
Q Consensus 9 lpCGH~FC~~CI~eWlk~--s-~sCPmCRq~~s~ 39 (332)
-.|||+||..|+.+|++. + ..||+|+-.+..
T Consensus 24 ~~cGhifh~~cl~qwfe~~Ps~R~cpic~ik~~~ 57 (465)
T KOG0827|consen 24 GTCGHIFHTTCLTQWFEGDPSNRGCPICQIKLQE 57 (465)
T ss_pred cchhhHHHHHHHHHHHccCCccCCCCceeecccc
Confidence 359999999999999986 3 489999944433
No 33
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=96.82 E-value=0.00024 Score=55.23 Aligned_cols=32 Identities=38% Similarity=0.876 Sum_probs=19.2
Q ss_pred cCCCCcccHhhHHHHHhC---C--------CCCCCcccccccC
Q 020032 9 TSCKHEYHLQCILEWSQR---S--------KECPICWQQFVLK 40 (332)
Q Consensus 9 lpCGH~FC~~CI~eWlk~---s--------~sCPmCRq~~s~~ 40 (332)
..|++.||..||.+|+.. . ..||.|++++..+
T Consensus 26 ~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~~~ 68 (70)
T PF11793_consen 26 PSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPISWS 68 (70)
T ss_dssp TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEEGG
T ss_pred cccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeeeEe
Confidence 379999999999999863 1 2599999998643
No 34
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=96.73 E-value=0.00059 Score=73.70 Aligned_cols=34 Identities=21% Similarity=0.493 Sum_probs=30.1
Q ss_pred ecCCCCcccHhhHHHHHhCCCCCCCcccccccCC
Q 020032 8 VTSCKHEYHLQCILEWSQRSKECPICWQQFVLKE 41 (332)
Q Consensus 8 vlpCGH~FC~~CI~eWlk~s~sCPmCRq~~s~~d 41 (332)
..+|+|.||..||..|.+...+||+||..|....
T Consensus 141 ~k~c~H~FC~~Ci~sWsR~aqTCPiDR~EF~~v~ 174 (1134)
T KOG0825|consen 141 EKHTAHYFCEECVGSWSRCAQTCPVDRGEFGEVK 174 (1134)
T ss_pred ccccccccHHHHhhhhhhhcccCchhhhhhheee
Confidence 3689999999999999999999999999886543
No 35
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=96.60 E-value=0.00064 Score=67.09 Aligned_cols=35 Identities=29% Similarity=0.639 Sum_probs=30.9
Q ss_pred eecCCCCcccHhhHHHHHhCCCCCCCcccccccCC
Q 020032 7 QVTSCKHEYHLQCILEWSQRSKECPICWQQFVLKE 41 (332)
Q Consensus 7 VvlpCGH~FC~~CI~eWlk~s~sCPmCRq~~s~~d 41 (332)
+++.|=|.||..||.++|..++.||+|...+-...
T Consensus 30 TI~eCLHTFCkSCivk~l~~~~~CP~C~i~ih~t~ 64 (331)
T KOG2660|consen 30 TITECLHTFCKSCIVKYLEESKYCPTCDIVIHKTH 64 (331)
T ss_pred hHHHHHHHHHHHHHHHHHHHhccCCccceeccCcc
Confidence 56799999999999999999999999998775544
No 36
>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=96.58 E-value=0.0016 Score=47.55 Aligned_cols=31 Identities=32% Similarity=0.696 Sum_probs=25.7
Q ss_pred CCCeecCCC-----CcccHhhHHHHHhCC--CCCCCcc
Q 020032 4 CLFQVTSCK-----HEYHLQCILEWSQRS--KECPICW 34 (332)
Q Consensus 4 cpPVvlpCG-----H~FC~~CI~eWlk~s--~sCPmCR 34 (332)
-.+++.||. |.||..|+.+|+..+ ..||+|+
T Consensus 12 ~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~ 49 (49)
T smart00744 12 GDPLVSPCRCKGSLKYVHQECLERWINESGNKTCEICK 49 (49)
T ss_pred CCeeEeccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence 345788996 999999999999754 5899995
No 37
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.56 E-value=0.00048 Score=68.62 Aligned_cols=34 Identities=29% Similarity=0.761 Sum_probs=28.8
Q ss_pred eecCCCCcccHhhHHHHHhC-CCCCCCcccccccC
Q 020032 7 QVTSCKHEYHLQCILEWSQR-SKECPICWQQFVLK 40 (332)
Q Consensus 7 VvlpCGH~FC~~CI~eWlk~-s~sCPmCRq~~s~~ 40 (332)
++..|+|-||++||..-++. .++||-||+.+..+
T Consensus 58 ttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~Sk 92 (381)
T KOG0311|consen 58 TTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSK 92 (381)
T ss_pred ccHHHHHHHHHHHHHHHHHhcCCCCchHHhhcccc
Confidence 45689999999999998776 57999999987544
No 38
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.42 E-value=0.0013 Score=65.38 Aligned_cols=31 Identities=35% Similarity=0.966 Sum_probs=26.1
Q ss_pred ecCCCCcccHhhHHHHH--hC-----CCCCCCcccccc
Q 020032 8 VTSCKHEYHLQCILEWS--QR-----SKECPICWQQFV 38 (332)
Q Consensus 8 vlpCGH~FC~~CI~eWl--k~-----s~sCPmCRq~~s 38 (332)
+++|.|.||..||..|- .+ ++.||.||-...
T Consensus 184 lpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~ 221 (344)
T KOG1039|consen 184 LPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSS 221 (344)
T ss_pred CCCcchhhhhcHhHhhhhhhccccccccCCCcccCccc
Confidence 47799999999999996 33 478999998754
No 39
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=96.37 E-value=0.0014 Score=65.84 Aligned_cols=40 Identities=28% Similarity=0.588 Sum_probs=33.7
Q ss_pred CCCCee-cCCCCcccHhhHHHHHhCCCCCCCcccccccCCc
Q 020032 3 FCLFQV-TSCKHEYHLQCILEWSQRSKECPICWQQFVLKEP 42 (332)
Q Consensus 3 fcpPVv-lpCGH~FC~~CI~eWlk~s~sCPmCRq~~s~~d~ 42 (332)
+++|+. +.|||.||..||.+|+..+..||.|+..+.....
T Consensus 31 l~~p~~~~~cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~~~ 71 (391)
T KOG0297|consen 31 LRDPVQTTTCGHRFCAGCLLESLSNHQKCPVCRQELTQAEE 71 (391)
T ss_pred ccCCCCCCCCCCcccccccchhhccCcCCcccccccchhhc
Confidence 456777 5999999999999999998899999988765443
No 40
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=96.24 E-value=0.0014 Score=66.28 Aligned_cols=31 Identities=32% Similarity=0.801 Sum_probs=26.3
Q ss_pred eecCCCCcccHhhHHHHHhCC--CCCCCccccc
Q 020032 7 QVTSCKHEYHLQCILEWSQRS--KECPICWQQF 37 (332)
Q Consensus 7 VvlpCGH~FC~~CI~eWlk~s--~sCPmCRq~~ 37 (332)
.-+||.|+||..|+.+.|..+ .+||.||+-.
T Consensus 383 qALpCsHIfH~rCl~e~L~~n~~rsCP~Crklr 415 (518)
T KOG1941|consen 383 QALPCSHIFHLRCLQEILENNGTRSCPNCRKLR 415 (518)
T ss_pred cccchhHHHHHHHHHHHHHhCCCCCCccHHHHH
Confidence 358999999999999998765 5899999543
No 41
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=96.14 E-value=0.0023 Score=48.26 Aligned_cols=31 Identities=35% Similarity=0.670 Sum_probs=21.3
Q ss_pred CCCCCee-cCCCCcccHhhHHHHHhC--CCCCCC
Q 020032 2 QFCLFQV-TSCKHEYHLQCILEWSQR--SKECPI 32 (332)
Q Consensus 2 ~fcpPVv-lpCGH~FC~~CI~eWlk~--s~sCPm 32 (332)
.|-.||. ..|||.|....|.+|+++ ...||+
T Consensus 20 ~~~~PV~s~~C~H~fek~aI~~~i~~~~~~~CPv 53 (57)
T PF11789_consen 20 PFEDPVKSKKCGHTFEKEAILQYIQRNGSKRCPV 53 (57)
T ss_dssp B-SSEEEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred hhhCCcCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence 3556666 599999999999999954 357999
No 42
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.11 E-value=0.0031 Score=61.74 Aligned_cols=48 Identities=31% Similarity=0.432 Sum_probs=37.3
Q ss_pred CCCCeecCCCCcccHhhHHHHHhCCCCCCCcccccccCCchhHHHHHH
Q 020032 3 FCLFQVTSCKHEYHLQCILEWSQRSKECPICWQQFVLKEPACQELLAA 50 (332)
Q Consensus 3 fcpPVvlpCGH~FC~~CI~eWlk~s~sCPmCRq~~s~~d~~s~eL~~~ 50 (332)
|-.||++.|||.||..|-+.-++....|++|-+...-..-...+|...
T Consensus 251 f~~pVvt~c~h~fc~~ca~~~~qk~~~c~vC~~~t~g~~~~akeL~~~ 298 (313)
T KOG1813|consen 251 FYRPVVTKCGHYFCEVCALKPYQKGEKCYVCSQQTHGSFNVAKELLVS 298 (313)
T ss_pred cccchhhcCCceeehhhhccccccCCcceecccccccccchHHHHHHH
Confidence 667899999999999999999999999999999764333323344433
No 43
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=96.02 E-value=0.0023 Score=65.57 Aligned_cols=31 Identities=26% Similarity=0.854 Sum_probs=26.6
Q ss_pred CeecCCCCcccHhhHHHHHhCCCCCCCcccccc
Q 020032 6 FQVTSCKHEYHLQCILEWSQRSKECPICWQQFV 38 (332)
Q Consensus 6 PVvlpCGH~FC~~CI~eWlk~s~sCPmCRq~~s 38 (332)
.+++.|.|.||-.|+..|+.. +||+||.-..
T Consensus 192 i~t~~c~Hsfh~~cl~~w~~~--scpvcR~~q~ 222 (493)
T KOG0804|consen 192 ILTILCNHSFHCSCLMKWWDS--SCPVCRYCQS 222 (493)
T ss_pred eeeeecccccchHHHhhcccC--cChhhhhhcC
Confidence 377899999999999999865 7999998543
No 44
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=95.20 E-value=0.0048 Score=58.56 Aligned_cols=33 Identities=27% Similarity=0.704 Sum_probs=24.9
Q ss_pred CeecCCCCcccHhhHHHHHhCCCCCCCcccccccC
Q 020032 6 FQVTSCKHEYHLQCILEWSQRSKECPICWQQFVLK 40 (332)
Q Consensus 6 PVvlpCGH~FC~~CI~eWlk~s~sCPmCRq~~s~~ 40 (332)
..+|.|+|+||..|..--.. ..||+|++.+...
T Consensus 18 f~LTaC~HvfC~~C~k~~~~--~~C~lCkk~ir~i 50 (233)
T KOG4739|consen 18 FFLTACRHVFCEPCLKASSP--DVCPLCKKSIRII 50 (233)
T ss_pred eeeeechhhhhhhhcccCCc--cccccccceeeee
Confidence 47899999999999643211 2899999987543
No 45
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=95.09 E-value=0.0084 Score=62.88 Aligned_cols=35 Identities=26% Similarity=0.755 Sum_probs=29.2
Q ss_pred CeecCCCCcccHhhHHHHHhC-----CCCCCCcccccccC
Q 020032 6 FQVTSCKHEYHLQCILEWSQR-----SKECPICWQQFVLK 40 (332)
Q Consensus 6 PVvlpCGH~FC~~CI~eWlk~-----s~sCPmCRq~~s~~ 40 (332)
++++.|.|.||+-||.++... +.+||.|-..+...
T Consensus 549 ~i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiD 588 (791)
T KOG1002|consen 549 YIESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSID 588 (791)
T ss_pred hHhhhhhHHHHHHHHHHHHHhhhcccCCCCcccccccccc
Confidence 478999999999999998763 35899999987643
No 46
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=94.98 E-value=0.017 Score=66.24 Aligned_cols=35 Identities=31% Similarity=0.675 Sum_probs=27.3
Q ss_pred CCeecCCCCcccHhhHHH-----HHhCC-----CCCCCccccccc
Q 020032 5 LFQVTSCKHEYHLQCILE-----WSQRS-----KECPICWQQFVL 39 (332)
Q Consensus 5 pPVvlpCGH~FC~~CI~e-----Wlk~s-----~sCPmCRq~~s~ 39 (332)
|.+.|.|+|.||++|... |+.-. -+||+|+.++.-
T Consensus 3501 P~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~InH 3545 (3738)
T KOG1428|consen 3501 PAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKINH 3545 (3738)
T ss_pred cceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhhh
Confidence 557899999999999865 54421 379999999864
No 47
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=94.78 E-value=0.014 Score=59.62 Aligned_cols=37 Identities=22% Similarity=0.632 Sum_probs=30.1
Q ss_pred CCeecCCCCcccHhhHHHHHhC--CCCCCCcccccccCC
Q 020032 5 LFQVTSCKHEYHLQCILEWSQR--SKECPICWQQFVLKE 41 (332)
Q Consensus 5 pPVvlpCGH~FC~~CI~eWlk~--s~sCPmCRq~~s~~d 41 (332)
+..+-+|||..|..|+-.|-.. ...||.||..|.-..
T Consensus 381 dvkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKGte 419 (563)
T KOG1785|consen 381 DVKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIKGTE 419 (563)
T ss_pred CcccccccchHHHHHHHhhcccCCCCCCCceeeEecccc
Confidence 4467899999999999999654 478999999876443
No 48
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.77 E-value=0.021 Score=58.21 Aligned_cols=36 Identities=25% Similarity=0.652 Sum_probs=29.4
Q ss_pred eecCCCCcccHhhHHHHHhCC--CCCCCcccccccCCc
Q 020032 7 QVTSCKHEYHLQCILEWSQRS--KECPICWQQFVLKEP 42 (332)
Q Consensus 7 VvlpCGH~FC~~CI~eWlk~s--~sCPmCRq~~s~~d~ 42 (332)
+.+.|||.|-.+||..||..+ ..||.|.-+..+..+
T Consensus 23 vsl~cghlFgs~cie~wl~k~~~~~cp~c~~katkr~i 60 (463)
T KOG1645|consen 23 VSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKATKRQI 60 (463)
T ss_pred eeecccccccHHHHHHHHhhhhhhhCcccCChhHHHHH
Confidence 679999999999999999643 579999987655443
No 49
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=94.70 E-value=0.015 Score=44.04 Aligned_cols=34 Identities=26% Similarity=0.561 Sum_probs=26.6
Q ss_pred CeecCCCCcccHhhHHHHHhCCCCCCCcccccccCC
Q 020032 6 FQVTSCKHEYHLQCILEWSQRSKECPICWQQFVLKE 41 (332)
Q Consensus 6 PVvlpCGH~FC~~CI~eWlk~s~sCPmCRq~~s~~d 41 (332)
.++++|||..|..|-.- ++-+-||.|-.+|...+
T Consensus 20 ~~~~pCgH~I~~~~f~~--~rYngCPfC~~~~~~~~ 53 (55)
T PF14447_consen 20 GTVLPCGHLICDNCFPG--ERYNGCPFCGTPFEFDD 53 (55)
T ss_pred cccccccceeeccccCh--hhccCCCCCCCcccCCC
Confidence 36899999999999443 34567999999987554
No 50
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.27 E-value=0.076 Score=50.47 Aligned_cols=50 Identities=26% Similarity=0.406 Sum_probs=35.7
Q ss_pred CCeecCCCCcccHhhHHHHHhCC-CCCCCccccccc--CCch----hHHHHHHHHHh
Q 020032 5 LFQVTSCKHEYHLQCILEWSQRS-KECPICWQQFVL--KEPA----CQELLAAIESE 54 (332)
Q Consensus 5 pPVvlpCGH~FC~~CI~eWlk~s-~sCPmCRq~~s~--~d~~----s~eL~~~VE~e 54 (332)
.|.+|.|||.||..|+..-+... ..||-||..... .+.. +..+.++++..
T Consensus 21 ~p~~l~c~h~~c~~c~~~l~~~~~i~cpfcR~~~~~~~~~~~~l~kNf~ll~~~~~~ 77 (296)
T KOG4185|consen 21 IPRVLKCGHTICQNCASKLLGNSRILCPFCRETTEIPDGDVKSLQKNFALLQAIEHM 77 (296)
T ss_pred CCcccccCceehHhHHHHHhcCceeeccCCCCcccCCchhHhhhhhhHHHHHHHHHH
Confidence 46788899999999999887775 479999998422 2221 45566665554
No 51
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=93.18 E-value=0.062 Score=53.27 Aligned_cols=29 Identities=24% Similarity=0.544 Sum_probs=23.7
Q ss_pred ecCCCCcccHhhHHHHHhC-CCCCCCcccc
Q 020032 8 VTSCKHEYHLQCILEWSQR-SKECPICWQQ 36 (332)
Q Consensus 8 vlpCGH~FC~~CI~eWlk~-s~sCPmCRq~ 36 (332)
+..|||.||..||..-|-. -..||.|-..
T Consensus 290 T~cC~~~fc~eci~~al~dsDf~CpnC~rk 319 (427)
T COG5222 290 TPCCGHTFCDECIGTALLDSDFKCPNCSRK 319 (427)
T ss_pred CccccchHHHHHHhhhhhhccccCCCcccc
Confidence 3489999999999986554 4789999763
No 52
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.09 E-value=0.024 Score=43.36 Aligned_cols=32 Identities=25% Similarity=0.525 Sum_probs=25.8
Q ss_pred eecCCCCc-ccHhhHHHHHh-CCCCCCCcccccc
Q 020032 7 QVTSCKHE-YHLQCILEWSQ-RSKECPICWQQFV 38 (332)
Q Consensus 7 VvlpCGH~-FC~~CI~eWlk-~s~sCPmCRq~~s 38 (332)
|+--|||- .|+.|-.+-|+ .+.+||+||+++.
T Consensus 21 VlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~ 54 (62)
T KOG4172|consen 21 VLYTCGHMCMCYACGLRLKKALHGCCPICRAPIK 54 (62)
T ss_pred HHHHcchHHhHHHHHHHHHHccCCcCcchhhHHH
Confidence 55689995 79999988555 6789999999864
No 53
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=92.38 E-value=0.046 Score=54.29 Aligned_cols=30 Identities=30% Similarity=0.787 Sum_probs=22.7
Q ss_pred eecCCCCcccHhhHHHHHhCCCCCCCcccccc
Q 020032 7 QVTSCKHEYHLQCILEWSQRSKECPICWQQFV 38 (332)
Q Consensus 7 VvlpCGH~FC~~CI~eWlk~s~sCPmCRq~~s 38 (332)
.+++|+|+||++|-.. ...+.||.|-.++.
T Consensus 105 RmIPCkHvFCl~CAr~--~~dK~Cp~C~d~Vq 134 (389)
T KOG2932|consen 105 RMIPCKHVFCLECARS--DSDKICPLCDDRVQ 134 (389)
T ss_pred cccccchhhhhhhhhc--CccccCcCcccHHH
Confidence 4589999999999543 22468999987653
No 54
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=91.39 E-value=0.078 Score=58.21 Aligned_cols=30 Identities=30% Similarity=0.835 Sum_probs=24.8
Q ss_pred CCeecCCCCcccHhhHHHHHhCCCCCCCccccc
Q 020032 5 LFQVTSCKHEYHLQCILEWSQRSKECPICWQQF 37 (332)
Q Consensus 5 pPVvlpCGH~FC~~CI~eWlk~s~sCPmCRq~~ 37 (332)
|.|...|||.||.+|+. .....||-|+-.+
T Consensus 853 P~VhF~CgHsyHqhC~e---~~~~~CP~C~~e~ 882 (933)
T KOG2114|consen 853 PFVHFLCGHSYHQHCLE---DKEDKCPKCLPEL 882 (933)
T ss_pred ceeeeecccHHHHHhhc---cCcccCCccchhh
Confidence 45778999999999988 4457899999854
No 55
>PHA03096 p28-like protein; Provisional
Probab=91.16 E-value=0.11 Score=50.68 Aligned_cols=30 Identities=27% Similarity=0.505 Sum_probs=22.9
Q ss_pred eecCCCCcccHhhHHHHHhCC---CCCCCcccc
Q 020032 7 QVTSCKHEYHLQCILEWSQRS---KECPICWQQ 36 (332)
Q Consensus 7 VvlpCGH~FC~~CI~eWlk~s---~sCPmCRq~ 36 (332)
++..|.|.||..||..|-... ..||.||.-
T Consensus 200 il~~c~h~fc~~ci~~wr~~~~~~e~~~~c~~~ 232 (284)
T PHA03096 200 ILSEIKHEFNIFCIKIWMTESLYKETEPENRRL 232 (284)
T ss_pred ccccCCcHHHHHHHHHHHHhhhhcccCccccch
Confidence 456899999999999996642 456666654
No 56
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=91.14 E-value=0.064 Score=57.81 Aligned_cols=36 Identities=28% Similarity=0.678 Sum_probs=29.6
Q ss_pred CCCeecCCCCcccHhhHHHHHhCC--CCCCCccccccc
Q 020032 4 CLFQVTSCKHEYHLQCILEWSQRS--KECPICWQQFVL 39 (332)
Q Consensus 4 cpPVvlpCGH~FC~~CI~eWlk~s--~sCPmCRq~~s~ 39 (332)
-.++++.|||.||..|+.+-++.. ..||+||..+..
T Consensus 464 ~~~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~ 501 (674)
T KOG1001|consen 464 DSFFITRCGHDFCVECLKKSIQQSENAPCPLCRNVLKE 501 (674)
T ss_pred ccceeecccchHHHHHHHhccccccCCCCcHHHHHHHH
Confidence 356899999999999999977654 369999997653
No 57
>PHA02862 5L protein; Provisional
Probab=90.37 E-value=0.14 Score=45.87 Aligned_cols=29 Identities=31% Similarity=0.814 Sum_probs=23.6
Q ss_pred CcccHhhHHHHHhCC--CCCCCcccccccCC
Q 020032 13 HEYHLQCILEWSQRS--KECPICWQQFVLKE 41 (332)
Q Consensus 13 H~FC~~CI~eWlk~s--~sCPmCRq~~s~~d 41 (332)
..-|..|+.+|++.+ ..||+|+.++..+.
T Consensus 26 K~VHq~CL~~WIn~S~k~~CeLCkteY~Ik~ 56 (156)
T PHA02862 26 KVVHIKCMQLWINYSKKKECNLCKTKYNIKK 56 (156)
T ss_pred hhHHHHHHHHHHhcCCCcCccCCCCeEEEEE
Confidence 456999999999865 58999999986543
No 58
>PF04641 Rtf2: Rtf2 RING-finger
Probab=90.24 E-value=0.32 Score=46.30 Aligned_cols=35 Identities=23% Similarity=0.582 Sum_probs=28.1
Q ss_pred eecCCCCcccHhhHHHHHhCCCCCCCcccccccCCc
Q 020032 7 QVTSCKHEYHLQCILEWSQRSKECPICWQQFVLKEP 42 (332)
Q Consensus 7 VvlpCGH~FC~~CI~eWlk~s~sCPmCRq~~s~~d~ 42 (332)
.+-+|||+|+..||.+-- ....||+|-++|...+.
T Consensus 131 ~l~~cG~V~s~~alke~k-~~~~Cp~c~~~f~~~Di 165 (260)
T PF04641_consen 131 YLRPCGCVFSEKALKELK-KSKKCPVCGKPFTEEDI 165 (260)
T ss_pred EEcCCCCEeeHHHHHhhc-ccccccccCCccccCCE
Confidence 445999999999999873 34579999999885553
No 59
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=89.84 E-value=0.083 Score=52.32 Aligned_cols=33 Identities=30% Similarity=0.863 Sum_probs=26.2
Q ss_pred CeecCCCCcccHhhHHHHHh------------------C-----CCCCCCcccccc
Q 020032 6 FQVTSCKHEYHLQCILEWSQ------------------R-----SKECPICWQQFV 38 (332)
Q Consensus 6 PVvlpCGH~FC~~CI~eWlk------------------~-----s~sCPmCRq~~s 38 (332)
.+++.|-|.||+.|+-.+|. . ...||+||..|.
T Consensus 131 ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~ 186 (368)
T KOG4445|consen 131 FTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIK 186 (368)
T ss_pred eeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhcc
Confidence 47899999999999987754 1 125999999874
No 60
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=88.81 E-value=0.23 Score=47.68 Aligned_cols=32 Identities=28% Similarity=0.692 Sum_probs=26.6
Q ss_pred eecCCCCcccHhhHHHHHhC--------CCCCCCcccccc
Q 020032 7 QVTSCKHEYHLQCILEWSQR--------SKECPICWQQFV 38 (332)
Q Consensus 7 VvlpCGH~FC~~CI~eWlk~--------s~sCPmCRq~~s 38 (332)
+-|.|=|.||+.|+.+|-.. -.+||-|-++|-
T Consensus 66 ~RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiF 105 (299)
T KOG3970|consen 66 TRLVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIF 105 (299)
T ss_pred eeehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccC
Confidence 67899999999999999653 247999999764
No 61
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=86.52 E-value=0.52 Score=45.79 Aligned_cols=36 Identities=8% Similarity=0.149 Sum_probs=32.1
Q ss_pred eecCCCCcccHhhHHHHHhCCCCCCCcccccccCCc
Q 020032 7 QVTSCKHEYHLQCILEWSQRSKECPICWQQFVLKEP 42 (332)
Q Consensus 7 VvlpCGH~FC~~CI~eWlk~s~sCPmCRq~~s~~d~ 42 (332)
++-+|||+||..|+.+.+..-..||+|-.++..++.
T Consensus 239 ~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkdrdi 274 (303)
T KOG3039|consen 239 VLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKDRDI 274 (303)
T ss_pred EeccCCcEeeHHHHHHhccccccccCCCCcCcccce
Confidence 567999999999999999988999999999876664
No 62
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=85.23 E-value=0.57 Score=42.56 Aligned_cols=27 Identities=37% Similarity=0.813 Sum_probs=22.0
Q ss_pred cccHhhHHHHHhCC--CCCCCcccccccC
Q 020032 14 EYHLQCILEWSQRS--KECPICWQQFVLK 40 (332)
Q Consensus 14 ~FC~~CI~eWlk~s--~sCPmCRq~~s~~ 40 (332)
.-|..|+.+|+..+ ..|++|++++...
T Consensus 33 ~VH~sCL~rWi~~s~~~~CeiC~~~Y~i~ 61 (162)
T PHA02825 33 IVHKECLEEWINTSKNKSCKICNGPYNIK 61 (162)
T ss_pred HHHHHHHHHHHhcCCCCcccccCCeEEEE
Confidence 34999999999865 5899999987543
No 63
>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=85.21 E-value=0.33 Score=36.13 Aligned_cols=31 Identities=32% Similarity=0.685 Sum_probs=22.6
Q ss_pred cCCC-CcccHhhHHHHHhCCCCCCCccccccc
Q 020032 9 TSCK-HEYHLQCILEWSQRSKECPICWQQFVL 39 (332)
Q Consensus 9 lpCG-H~FC~~CI~eWlk~s~sCPmCRq~~s~ 39 (332)
..|. |-.|+.|+.--+..+..||+|++++..
T Consensus 16 i~C~dHYLCl~CLt~ml~~s~~C~iC~~~LPt 47 (50)
T PF03854_consen 16 IKCSDHYLCLNCLTLMLSRSDRCPICGKPLPT 47 (50)
T ss_dssp EE-SS-EEEHHHHHHT-SSSSEETTTTEE---
T ss_pred eeecchhHHHHHHHHHhccccCCCcccCcCcc
Confidence 4454 999999999999999999999998764
No 64
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=84.31 E-value=0.75 Score=34.01 Aligned_cols=28 Identities=18% Similarity=0.547 Sum_probs=15.6
Q ss_pred CCCCcccHhhHHHHHhC-CCCCCCccccc
Q 020032 10 SCKHEYHLQCILEWSQR-SKECPICWQQF 37 (332)
Q Consensus 10 pCGH~FC~~CI~eWlk~-s~sCPmCRq~~ 37 (332)
+||+..|+.|-..=++. ...||-||+++
T Consensus 19 ~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y 47 (48)
T PF14570_consen 19 ECGFQICRFCYHDILENEGGRCPGCREPY 47 (48)
T ss_dssp TTS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred cCCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence 79999999997777653 57899999975
No 65
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=83.60 E-value=0.47 Score=54.41 Aligned_cols=30 Identities=33% Similarity=0.697 Sum_probs=27.5
Q ss_pred eecCCCCcccHhhHHHHHhCCCCCCCcccc
Q 020032 7 QVTSCKHEYHLQCILEWSQRSKECPICWQQ 36 (332)
Q Consensus 7 VvlpCGH~FC~~CI~eWlk~s~sCPmCRq~ 36 (332)
.+..|||.||..|+..|+..+..||+|+..
T Consensus 1168 ~I~~cgh~~c~~c~~~~l~~~s~~~~~ksi 1197 (1394)
T KOG0298|consen 1168 GIAGCGHEPCCRCDELWLYASSRCPICKSI 1197 (1394)
T ss_pred CeeeechhHhhhHHHHHHHHhccCcchhhh
Confidence 467899999999999999999999999954
No 66
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=80.80 E-value=0.91 Score=46.71 Aligned_cols=30 Identities=17% Similarity=0.408 Sum_probs=24.1
Q ss_pred eecCCCCcccHhhHHHHHhC--------CCCCCCcccc
Q 020032 7 QVTSCKHEYHLQCILEWSQR--------SKECPICWQQ 36 (332)
Q Consensus 7 VvlpCGH~FC~~CI~eWlk~--------s~sCPmCRq~ 36 (332)
+.++|+|.||+.|+..+... .-.||-|...
T Consensus 201 ~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C~ 238 (445)
T KOG1814|consen 201 KFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKCG 238 (445)
T ss_pred eecccchHHHHHHHHHHHHHhhhcceeeeecCCCCCCc
Confidence 57999999999999998642 2369988865
No 67
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=80.62 E-value=1.3 Score=43.24 Aligned_cols=36 Identities=28% Similarity=0.351 Sum_probs=30.0
Q ss_pred CCCeecCCCCcccHhhHHHHHhCCCCCCCcccccccC
Q 020032 4 CLFQVTSCKHEYHLQCILEWSQRSKECPICWQQFVLK 40 (332)
Q Consensus 4 cpPVvlpCGH~FC~~CI~eWlk~s~sCPmCRq~~s~~ 40 (332)
-.+..++|||.-|..|..+.......||+|.+ +...
T Consensus 173 ~~~~~~~CgH~~h~~cf~e~~~~~y~CP~C~~-~~d~ 208 (276)
T KOG1940|consen 173 EDAGVLKCGHYMHSRCFEEMICEGYTCPICSK-PGDM 208 (276)
T ss_pred ccCCccCcccchHHHHHHHHhccCCCCCcccc-hHHH
Confidence 35678999999999999998777799999999 5433
No 68
>KOG3800 consensus Predicted E3 ubiquitin ligase containing RING finger, subunit of transcription/repair factor TFIIH and CDK-activating kinase assembly factor [Posttranslational modification, protein turnover, chaperones]
Probab=79.98 E-value=1.2 Score=43.86 Aligned_cols=35 Identities=17% Similarity=0.367 Sum_probs=27.6
Q ss_pred cCCCCcccHhhHHHHHhC-CCCCCCcccccccCCch
Q 020032 9 TSCKHEYHLQCILEWSQR-SKECPICWQQFVLKEPA 43 (332)
Q Consensus 9 lpCGH~FC~~CI~eWlk~-s~sCPmCRq~~s~~d~~ 43 (332)
-+|||.-|..|+..-+.. ...||.|-..+......
T Consensus 21 n~C~H~lCEsCvd~iF~~g~~~CpeC~~iLRk~nfr 56 (300)
T KOG3800|consen 21 NECGHRLCESCVDRIFSLGPAQCPECMVILRKNNFR 56 (300)
T ss_pred ccccchHHHHHHHHHHhcCCCCCCcccchhhhcccc
Confidence 499999999999986554 57999999877554443
No 69
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=78.44 E-value=0.93 Score=50.31 Aligned_cols=22 Identities=27% Similarity=0.632 Sum_probs=18.6
Q ss_pred CCeecCCCCcccHhhHHHHHhC
Q 020032 5 LFQVTSCKHEYHLQCILEWSQR 26 (332)
Q Consensus 5 pPVvlpCGH~FC~~CI~eWlk~ 26 (332)
|-++.+|||.||..||.+-...
T Consensus 831 pF~vf~CgH~FH~~Cl~~~v~~ 852 (911)
T KOG2034|consen 831 PFYVFPCGHCFHRDCLIRHVLS 852 (911)
T ss_pred cceeeeccchHHHHHHHHHHHc
Confidence 5678999999999999987543
No 70
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=78.21 E-value=1.1 Score=45.50 Aligned_cols=32 Identities=22% Similarity=0.514 Sum_probs=29.8
Q ss_pred eecCCCCcccHhhHHHHHhCCCCCCCcccccc
Q 020032 7 QVTSCKHEYHLQCILEWSQRSKECPICWQQFV 38 (332)
Q Consensus 7 VvlpCGH~FC~~CI~eWlk~s~sCPmCRq~~s 38 (332)
|..||+|.-|..||.+.+-..+.|=.|+..+.
T Consensus 436 vf~PC~H~SC~~CI~qHlmN~k~CFfCktTv~ 467 (489)
T KOG4692|consen 436 VFAPCSHRSCYGCITQHLMNCKRCFFCKTTVI 467 (489)
T ss_pred hccCCCCchHHHHHHHHHhcCCeeeEecceee
Confidence 77899999999999999999999999999765
No 71
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=77.15 E-value=1.2 Score=32.08 Aligned_cols=28 Identities=25% Similarity=0.858 Sum_probs=19.1
Q ss_pred CeecCCC-----CcccHhhHHHHHhC--CCCCCCc
Q 020032 6 FQVTSCK-----HEYHLQCILEWSQR--SKECPIC 33 (332)
Q Consensus 6 PVvlpCG-----H~FC~~CI~eWlk~--s~sCPmC 33 (332)
+++.||+ -.-|..|+.+|+.. ...|++|
T Consensus 13 ~li~pC~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C 47 (47)
T PF12906_consen 13 PLISPCRCKGSMKYVHRSCLERWIRESGNRKCEIC 47 (47)
T ss_dssp -EE-SSS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred ceecccccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence 4666765 36799999999874 4689998
No 72
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=76.06 E-value=1.3 Score=45.14 Aligned_cols=20 Identities=25% Similarity=0.394 Sum_probs=16.9
Q ss_pred CCCeecCCCCcccHhhHHHH
Q 020032 4 CLFQVTSCKHEYHLQCILEW 23 (332)
Q Consensus 4 cpPVvlpCGH~FC~~CI~eW 23 (332)
+..|.=.|||.||+.|..+|
T Consensus 177 ~~~v~C~~g~~FC~~C~~~~ 196 (444)
T KOG1815|consen 177 SVEVDCGCGHEFCFACGEES 196 (444)
T ss_pred ccceeCCCCchhHhhccccc
Confidence 45677899999999998776
No 73
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=75.98 E-value=1.8 Score=43.99 Aligned_cols=31 Identities=23% Similarity=0.548 Sum_probs=25.9
Q ss_pred eecCCCCcccHhhHHHH--HhCCCCCCCccccc
Q 020032 7 QVTSCKHEYHLQCILEW--SQRSKECPICWQQF 37 (332)
Q Consensus 7 VvlpCGH~FC~~CI~eW--lk~s~sCPmCRq~~ 37 (332)
-++||+|..|..|-..- |-..+.||+||..+
T Consensus 75 ~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~ 107 (493)
T COG5236 75 ARYPCGHQICHACAVRLRALYMQKGCPLCRTET 107 (493)
T ss_pred EeccCCchHHHHHHHHHHHHHhccCCCcccccc
Confidence 46899999999998864 55568999999876
No 74
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=72.55 E-value=0.82 Score=46.86 Aligned_cols=34 Identities=21% Similarity=0.486 Sum_probs=29.8
Q ss_pred cCCCCcccHhhHHHHHhCCCCCCCcccccccCCc
Q 020032 9 TSCKHEYHLQCILEWSQRSKECPICWQQFVLKEP 42 (332)
Q Consensus 9 lpCGH~FC~~CI~eWlk~s~sCPmCRq~~s~~d~ 42 (332)
+-|||.+|..||.+||.....||-|+..+....+
T Consensus 216 ~~~g~~~~~~kL~k~L~~~~kl~~~~rel~~~~~ 249 (465)
T KOG0827|consen 216 IVCGHIYHHGKLSKWLATKRKLPSCRRELPKNGF 249 (465)
T ss_pred HhhcccchhhHHHHHHHHHHHhHHHHhhhhhhhH
Confidence 5799999999999999998899999998765443
No 75
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=71.11 E-value=1.7 Score=48.07 Aligned_cols=29 Identities=7% Similarity=0.151 Sum_probs=23.2
Q ss_pred cCCCCcccHhhHHHHHhC------CCCCCCccccc
Q 020032 9 TSCKHEYHLQCILEWSQR------SKECPICWQQF 37 (332)
Q Consensus 9 lpCGH~FC~~CI~eWlk~------s~sCPmCRq~~ 37 (332)
-.|+|.||..||..|.++ ...|+.|..-|
T Consensus 119 ~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci 153 (1134)
T KOG0825|consen 119 QTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECV 153 (1134)
T ss_pred hhhhhhhhhHHHHHHHHHhhccccccccccHHHHh
Confidence 359999999999999874 24688888654
No 76
>PF06844 DUF1244: Protein of unknown function (DUF1244); InterPro: IPR009654 This family consists of several short bacterial proteins of around 100 residues in length. The function of this family is unknown.; PDB: 2O35_A 3FYB_B.
Probab=68.61 E-value=2.8 Score=33.16 Aligned_cols=13 Identities=15% Similarity=0.746 Sum_probs=9.3
Q ss_pred cccHhhHHHHHhC
Q 020032 14 EYHLQCILEWSQR 26 (332)
Q Consensus 14 ~FC~~CI~eWlk~ 26 (332)
-||+.|+.+|...
T Consensus 11 gFCRNCLskWy~~ 23 (68)
T PF06844_consen 11 GFCRNCLSKWYRE 23 (68)
T ss_dssp S--HHHHHHHHHH
T ss_pred HHHHHHHHHHHHH
Confidence 4999999999764
No 77
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=68.40 E-value=2.2 Score=47.42 Aligned_cols=27 Identities=44% Similarity=1.080 Sum_probs=21.0
Q ss_pred CCCCcccHhhHHHHHhCC-------CCCCCcccc
Q 020032 10 SCKHEYHLQCILEWSQRS-------KECPICWQQ 36 (332)
Q Consensus 10 pCGH~FC~~CI~eWlk~s-------~sCPmCRq~ 36 (332)
.|=|+||+.||.+|-... -.||.|+..
T Consensus 212 sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv 245 (950)
T KOG1952|consen 212 SCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSV 245 (950)
T ss_pred hhhhhhhHHHHHHHHHHhhhccCccccCCcccch
Confidence 588999999999996532 259999943
No 78
>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=65.31 E-value=4 Score=29.05 Aligned_cols=24 Identities=25% Similarity=0.805 Sum_probs=15.7
Q ss_pred CCCCcccHhhHHHHHhCCC--CCCCc
Q 020032 10 SCKHEYHLQCILEWSQRSK--ECPIC 33 (332)
Q Consensus 10 pCGH~FC~~CI~eWlk~s~--sCPmC 33 (332)
.|+=.+|..|+..+++... .||.|
T Consensus 18 ~C~~r~H~~C~~~y~r~~~~~~CP~C 43 (43)
T PF08746_consen 18 DCNVRLHDDCFKKYFRHRSNPKCPNC 43 (43)
T ss_dssp -S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred ccCchHHHHHHHHHHhcCCCCCCcCC
Confidence 5888899999999988753 69998
No 79
>PF04710 Pellino: Pellino; InterPro: IPR006800 Pellino is involved in Toll-like signalling pathways, and associates with the kinase domain of the Pelle Ser/Thr kinase [, , ].; PDB: 3EGB_B 3EGA_A.
Probab=64.44 E-value=2.2 Score=43.81 Aligned_cols=32 Identities=28% Similarity=0.622 Sum_probs=0.0
Q ss_pred CeecCCCCcccHhhHHHHHhC------CCCCCCcccccccC
Q 020032 6 FQVTSCKHEYHLQCILEWSQR------SKECPICWQQFVLK 40 (332)
Q Consensus 6 PVvlpCGH~FC~~CI~eWlk~------s~sCPmCRq~~s~~ 40 (332)
=|-+.|||++-.+ .|-.. ...||+||+.-...
T Consensus 304 ~VYl~CGHVhG~h---~Wg~~~~~~~~~r~CPlCr~~g~~V 341 (416)
T PF04710_consen 304 WVYLNCGHVHGYH---NWGQDSDRDPRSRTCPLCRQVGPYV 341 (416)
T ss_dssp -----------------------------------------
T ss_pred eeeccccceeeec---ccccccccccccccCCCccccCCce
Confidence 3678999998765 57432 35799999875443
No 80
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=60.34 E-value=1.7 Score=31.52 Aligned_cols=14 Identities=21% Similarity=1.018 Sum_probs=13.0
Q ss_pred CCCCcccHhhHHHH
Q 020032 10 SCKHEYHLQCILEW 23 (332)
Q Consensus 10 pCGH~FC~~CI~eW 23 (332)
.|||.||+.|..+|
T Consensus 45 ~C~~~fC~~C~~~~ 58 (64)
T smart00647 45 KCGFSFCFRCKVPW 58 (64)
T ss_pred CCCCeECCCCCCcC
Confidence 79999999999888
No 81
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=60.18 E-value=5.6 Score=38.90 Aligned_cols=23 Identities=17% Similarity=0.034 Sum_probs=20.3
Q ss_pred CCCCeecCCCCcccHhhHHHHHh
Q 020032 3 FCLFQVTSCKHEYHLQCILEWSQ 25 (332)
Q Consensus 3 fcpPVvlpCGH~FC~~CI~eWlk 25 (332)
|.+||+++=||.||+.||++++-
T Consensus 53 c~dPvit~~GylfdrEaILe~il 75 (303)
T KOG3039|consen 53 CRDPVITPDGYLFDREAILEYIL 75 (303)
T ss_pred ccCCccCCCCeeeeHHHHHHHHH
Confidence 56789999999999999999854
No 82
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=56.59 E-value=7 Score=38.28 Aligned_cols=34 Identities=12% Similarity=0.369 Sum_probs=26.4
Q ss_pred eecCCCCcccHhhHHHHHhCCCCCCCcccccccCCc
Q 020032 7 QVTSCKHEYHLQCILEWSQRSKECPICWQQFVLKEP 42 (332)
Q Consensus 7 VvlpCGH~FC~~CI~eWlk~s~sCPmCRq~~s~~d~ 42 (332)
++-+|||+|-..-+.+-- ...|++|.+.+...+.
T Consensus 129 ~l~~CGcV~SerAlKeik--as~C~~C~a~y~~~dv 162 (293)
T KOG3113|consen 129 ALRCCGCVFSERALKEIK--ASVCHVCGAAYQEDDV 162 (293)
T ss_pred EEeccceeccHHHHHHhh--hccccccCCcccccCe
Confidence 567999999988776642 5689999999875553
No 83
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=54.28 E-value=6 Score=38.76 Aligned_cols=29 Identities=21% Similarity=0.665 Sum_probs=22.5
Q ss_pred CcccHhhHHHHHhCC--------CCCCCcccccccCC
Q 020032 13 HEYHLQCILEWSQRS--------KECPICWQQFVLKE 41 (332)
Q Consensus 13 H~FC~~CI~eWlk~s--------~sCPmCRq~~s~~d 41 (332)
|--|..||..|...+ ..||.|+..+...-
T Consensus 49 KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYiiv~ 85 (293)
T KOG3053|consen 49 KWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYIIVF 85 (293)
T ss_pred HHHHHHHHHHHHhHHhcCCCCceeechhhcchheeec
Confidence 778999999998642 36999999875443
No 84
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=50.22 E-value=8 Score=43.30 Aligned_cols=28 Identities=36% Similarity=0.934 Sum_probs=23.2
Q ss_pred cccHhhHHHHHhCC--CCCCCcccccccCC
Q 020032 14 EYHLQCILEWSQRS--KECPICWQQFVLKE 41 (332)
Q Consensus 14 ~FC~~CI~eWlk~s--~sCPmCRq~~s~~d 41 (332)
--|..|+.+|+..+ +.|-+|+.++..++
T Consensus 40 YiH~eCL~eW~~~s~~~kCdiChy~~~Fk~ 69 (1175)
T COG5183 40 YIHRECLMEWMECSGTKKCDICHYEYKFKD 69 (1175)
T ss_pred HHHHHHHHHHHhcCCCcceeeecceeeeee
Confidence 46999999999865 57999999887654
No 85
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=49.83 E-value=7.3 Score=39.48 Aligned_cols=32 Identities=25% Similarity=0.718 Sum_probs=24.4
Q ss_pred CCCeecCCCCcccHhhHHHHHhCCCCCCCccc
Q 020032 4 CLFQVTSCKHEYHLQCILEWSQRSKECPICWQ 35 (332)
Q Consensus 4 cpPVvlpCGH~FC~~CI~eWlk~s~sCPmCRq 35 (332)
|.-++=.|||.||..|...|......|..|-.
T Consensus 322 Cnhm~CrC~~~fcy~C~~~~~~~~~~~~~~~r 353 (384)
T KOG1812|consen 322 CNHMTCRCGHQFCYMCGGDWKTHNGECYECCR 353 (384)
T ss_pred cceEEeeccccchhhcCcchhhCCccccCccc
Confidence 44455569999999999999887776765544
No 86
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=48.52 E-value=7.1 Score=40.98 Aligned_cols=24 Identities=13% Similarity=0.245 Sum_probs=20.1
Q ss_pred CCCCeecCCCCcccHhhHHHHHhC
Q 020032 3 FCLFQVTSCKHEYHLQCILEWSQR 26 (332)
Q Consensus 3 fcpPVvlpCGH~FC~~CI~eWlk~ 26 (332)
|..|++|+|||+.|..|-..-+..
T Consensus 14 ~~epiil~c~h~lc~~ca~~~~~~ 37 (699)
T KOG4367|consen 14 YREPIILPCSHNLCQACARNILVQ 37 (699)
T ss_pred ccCceEeecccHHHHHHHHhhccc
Confidence 678999999999999998865443
No 87
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=48.49 E-value=4.5 Score=44.11 Aligned_cols=37 Identities=19% Similarity=0.470 Sum_probs=28.1
Q ss_pred CeecCCCCcccHhhHHH--HHhC-CCCCCCcccccccCCc
Q 020032 6 FQVTSCKHEYHLQCILE--WSQR-SKECPICWQQFVLKEP 42 (332)
Q Consensus 6 PVvlpCGH~FC~~CI~e--Wlk~-s~sCPmCRq~~s~~d~ 42 (332)
|+.+.|-|.||..|+.. |++. ...||+|+..+.....
T Consensus 34 p~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~eK~s~ 73 (684)
T KOG4362|consen 34 PSLLKCDHIFLKFCLNKLFESKKGPKQCALCKSDIEKRSL 73 (684)
T ss_pred cchhhhhHHHHhhhhhceeeccCccccchhhhhhhhhhhc
Confidence 46789999999999975 4444 5789999977655443
No 88
>COG3492 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=46.64 E-value=9 Score=32.24 Aligned_cols=13 Identities=15% Similarity=0.738 Sum_probs=11.3
Q ss_pred cccHhhHHHHHhC
Q 020032 14 EYHLQCILEWSQR 26 (332)
Q Consensus 14 ~FC~~CI~eWlk~ 26 (332)
-||+.|+..|...
T Consensus 42 gFCRNCLs~Wy~e 54 (104)
T COG3492 42 GFCRNCLSNWYRE 54 (104)
T ss_pred HHHHHHHHHHHHH
Confidence 4999999999875
No 89
>KOG4021 consensus Mitochondrial ribosomal protein S18b [Translation, ribosomal structure and biogenesis]
Probab=41.12 E-value=15 Score=34.84 Aligned_cols=33 Identities=24% Similarity=0.532 Sum_probs=23.5
Q ss_pred HhhHHHHHh-CCCCCCCcccccccCCchhHHHHH
Q 020032 17 LQCILEWSQ-RSKECPICWQQFVLKEPACQELLA 49 (332)
Q Consensus 17 ~~CI~eWlk-~s~sCPmCRq~~s~~d~~s~eL~~ 49 (332)
..||.+--. ..+-||+||-.....+..|..|.+
T Consensus 97 ktCIrkn~~~~gnpCPICRDeyL~~DyRN~~LlE 130 (239)
T KOG4021|consen 97 KTCIRKNGRFLGNPCPICRDEYLYFDYRNPGLLE 130 (239)
T ss_pred hHHHhhcCeecCCCCCccccceEEEeccCHHHHH
Confidence 468877533 346799999987777776766654
No 90
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=40.10 E-value=16 Score=40.05 Aligned_cols=27 Identities=19% Similarity=0.352 Sum_probs=21.4
Q ss_pred CeecCCCCcccHhhHHHHHhCCCCCCCccc
Q 020032 6 FQVTSCKHEYHLQCILEWSQRSKECPICWQ 35 (332)
Q Consensus 6 PVvlpCGH~FC~~CI~eWlk~s~sCPmCRq 35 (332)
||.+.|||..|.+|+..-.. .+|| |+.
T Consensus 28 Pvsl~cghtic~~c~~~lyn--~scp-~~~ 54 (861)
T KOG3161|consen 28 PVSLQCGHTICGHCVQLLYN--ASCP-TKR 54 (861)
T ss_pred cccccccchHHHHHHHhHhh--ccCC-CCc
Confidence 67999999999999886543 4788 654
No 91
>PF07975 C1_4: TFIIH C1-like domain; InterPro: IPR004595 All proteins in this domain for which functions are known are components of the TFIIH complex which is involved in the initiation of transcription and nucleotide excision repair. It includes the yeast transcription factor Ssl1 (Suppressor of stem-loop protein 1) that is essential for translation initiation and affects UV resistance. The C-terminal region is essential for transcription activity. This regions binds three zinc atoms through two independent domain. The first contains a C4 zinc finger motif, whereas the second is characterised by a CX(2)CX(2-4)FCADCD motif. The solution structure of the second C-terminal domain revealed homology with the regulatory domain of protein kinase C [].; GO: 0006281 DNA repair, 0005634 nucleus; PDB: 1Z60_A.
Probab=39.44 E-value=17 Score=27.14 Aligned_cols=26 Identities=23% Similarity=0.645 Sum_probs=13.5
Q ss_pred cCCCCcccHhhHHHHHhCCCCCCCcc
Q 020032 9 TSCKHEYHLQCILEWSQRSKECPICW 34 (332)
Q Consensus 9 lpCGH~FC~~CI~eWlk~s~sCPmCR 34 (332)
..|++.||.+|=.=--+.--.||-|-
T Consensus 25 ~~C~~~FC~dCD~fiHE~LH~CPGC~ 50 (51)
T PF07975_consen 25 PKCKNHFCIDCDVFIHETLHNCPGCE 50 (51)
T ss_dssp TTTT--B-HHHHHTTTTTS-SSSTT-
T ss_pred CCCCCccccCcChhhhccccCCcCCC
Confidence 47999999999443222334788874
No 92
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=38.95 E-value=14 Score=37.53 Aligned_cols=32 Identities=25% Similarity=0.634 Sum_probs=23.2
Q ss_pred ecCCCCcccHhhHHHHHhCC------CCCC--Cccccccc
Q 020032 8 VTSCKHEYHLQCILEWSQRS------KECP--ICWQQFVL 39 (332)
Q Consensus 8 vlpCGH~FC~~CI~eWlk~s------~sCP--mCRq~~s~ 39 (332)
+..|+|.||.+|+.+.++.. -.|| .|...+..
T Consensus 165 ~~~C~H~fC~~C~k~~iev~~~~~~~~~C~~~~C~~~l~~ 204 (384)
T KOG1812|consen 165 VLKCGHRFCKDCVKQHIEVKLLSGTVIRCPHDGCESRLTL 204 (384)
T ss_pred HhcccchhhhHHhHHHhhhhhccCCCccCCCCCCCccCCH
Confidence 57899999999999987742 3565 46665543
No 93
>PF09397 Ftsk_gamma: Ftsk gamma domain; InterPro: IPR018541 This domain directs oriented DNA translocation and forms a winged helix structure []. Mutated proteins with substitutions in the FtsK gamma DNA-recognition helix are impaired in DNA binding []. ; PDB: 2VE9_B 2VE8_E 2J5O_A 2J5P_A.
Probab=38.75 E-value=29 Score=26.98 Aligned_cols=24 Identities=25% Similarity=0.459 Sum_probs=19.8
Q ss_pred HHHHhhhhhHHHHHHHHHhhccCC
Q 020032 243 EVQREMSAGIAGVAKMIERLDLAS 266 (332)
Q Consensus 243 ~v~re~~agia~v~rm~e~l~~~~ 266 (332)
-.||.+.-|-.-.+|+||+||...
T Consensus 25 ~lQR~~rIGynrAariid~LE~~G 48 (65)
T PF09397_consen 25 LLQRKFRIGYNRAARIIDQLEEEG 48 (65)
T ss_dssp HHHHHHT--HHHHHHHHHHHHHCT
T ss_pred HHHHHhCCCHHHHHHHHHHHHHCC
Confidence 479999999999999999999764
No 94
>PF01485 IBR: IBR domain; InterPro: IPR002867 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a cysteine-rich (C6HC) zinc finger domain that is present in Triad1, and which is conserved in other proteins encoded by various eukaryotes. The C6HC consensus pattern is: C-x(4)-C-x(14-30)-C-x(1-4)-C-x(4)-C-x(2)-C-x(4)-H-x(4)-C The C6HC zinc finger motif is the fourth family member of the zinc-binding RING, LIM, and LAP/PHD fingers. Strikingly, in most of the proteins the C6HC domain is flanked by two RING finger structures IPR001841 from INTERPRO. The novel C6HC motif has been called DRIL (double RING finger linked). The strong conservation of the larger tripartite TRIAD (twoRING fingers and DRIL) structure indicates that the three subdomains are functionally linked and identifies a novel class of proteins []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2CT7_A 1WD2_A 2JMO_A 1WIM_A.
Probab=38.61 E-value=3.6 Score=29.74 Aligned_cols=14 Identities=36% Similarity=0.978 Sum_probs=12.1
Q ss_pred CCCCcccHhhHHHH
Q 020032 10 SCKHEYHLQCILEW 23 (332)
Q Consensus 10 pCGH~FC~~CI~eW 23 (332)
.|++.||+.|-.+|
T Consensus 45 ~C~~~fC~~C~~~~ 58 (64)
T PF01485_consen 45 SCGTEFCFKCGEPW 58 (64)
T ss_dssp SCCSEECSSSTSES
T ss_pred CCCCcCccccCccc
Confidence 39999999998777
No 95
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=36.60 E-value=24 Score=38.36 Aligned_cols=36 Identities=19% Similarity=0.390 Sum_probs=20.1
Q ss_pred CCCCCC--eecCCCCcccHhhHHHHHhCCCCCCCcccccc
Q 020032 1 MQFCLF--QVTSCKHEYHLQCILEWSQRSKECPICWQQFV 38 (332)
Q Consensus 1 m~fcpP--VvlpCGH~FC~~CI~eWlk~s~sCPmCRq~~s 38 (332)
|-+||- ...+=++.||..|=.. +. .+.||.|-+.+.
T Consensus 1 M~~Cp~Cg~~n~~~akFC~~CG~~-l~-~~~Cp~CG~~~~ 38 (645)
T PRK14559 1 MLICPQCQFENPNNNRFCQKCGTS-LT-HKPCPQCGTEVP 38 (645)
T ss_pred CCcCCCCCCcCCCCCccccccCCC-CC-CCcCCCCCCCCC
Confidence 677765 1122234499999322 11 246888887654
No 96
>KOG3337 consensus Protein similar to predicted member of the intramitochondrial sorting protein family [Intracellular trafficking, secretion, and vesicular transport]
Probab=35.81 E-value=17 Score=33.85 Aligned_cols=40 Identities=25% Similarity=0.376 Sum_probs=27.0
Q ss_pred hhhhhhhh-hhhhhhhhhccchhhhh---hhh--ccccchhhhcHH
Q 020032 204 VKSKWSAA-SARYKESISKGTRSLKE---RLL--SRNTSVKELSKE 243 (332)
Q Consensus 204 ~ksr~~a~-s~rykesisk~trg~ke---r~~--sr~~s~~~l~~~ 243 (332)
++++.+.- -||+||+|+|+++|+-+ ++| +++...++-..|
T Consensus 136 ~~r~Vqe~sl~rFkenv~ktrkGl~yvlqk~fg~a~~~~~~~~~~~ 181 (201)
T KOG3337|consen 136 VSRAVQEFSLARFKENVTKTRKGLEYVLQKLFGEANSKTLKMTAIE 181 (201)
T ss_pred hHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHhccccchHHHHHHHH
Confidence 44444433 48999999999999975 455 566665554443
No 97
>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=34.76 E-value=26 Score=25.56 Aligned_cols=29 Identities=24% Similarity=0.595 Sum_probs=11.7
Q ss_pred eecCCCCcccHhhHHHHHhC---C--CCCCCcccc
Q 020032 7 QVTSCKHEYHLQCILEWSQR---S--KECPICWQQ 36 (332)
Q Consensus 7 VvlpCGH~FC~~CI~eWlk~---s--~sCPmCRq~ 36 (332)
....|.|.-|++ +..|++. . -.||+|.++
T Consensus 17 Rg~~C~H~~CFD-l~~fl~~~~~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 17 RGKNCKHLQCFD-LESFLESNQRTPKWKCPICNKP 50 (50)
T ss_dssp EETT--SS--EE-HHHHHHHHHHS---B-TTT---
T ss_pred cCCcCcccceEC-HHHHHHHhhccCCeECcCCcCc
Confidence 456788886643 3345443 2 369999874
No 98
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=34.22 E-value=19 Score=33.81 Aligned_cols=35 Identities=23% Similarity=0.614 Sum_probs=26.8
Q ss_pred CeecCCC-----CcccHhhHHHHHh--CCCCCCCcccccccC
Q 020032 6 FQVTSCK-----HEYHLQCILEWSQ--RSKECPICWQQFVLK 40 (332)
Q Consensus 6 PVvlpCG-----H~FC~~CI~eWlk--~s~sCPmCRq~~s~~ 40 (332)
++..+|. +..|..|+..|+. ....|.+|+..+...
T Consensus 95 ~l~~pC~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~~~ 136 (323)
T KOG1609|consen 95 LLISPCSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFINV 136 (323)
T ss_pred ccccCccccCcHHHHHHHHHHhhhccccCeeeecccccceec
Confidence 4566664 5679999999988 456899999976543
No 99
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=33.27 E-value=12 Score=37.38 Aligned_cols=29 Identities=21% Similarity=0.538 Sum_probs=26.5
Q ss_pred CCCCcccHhhHHHHHhCCCCCCCcccccc
Q 020032 10 SCKHEYHLQCILEWSQRSKECPICWQQFV 38 (332)
Q Consensus 10 pCGH~FC~~CI~eWlk~s~sCPmCRq~~s 38 (332)
.|.|.||..|.-.|....+-||.|+..+.
T Consensus 123 g~w~qf~~~~p~~~~~~~~~~~d~~~~~~ 151 (324)
T KOG0824|consen 123 GCWHQFCYVCPKSNFAMGNDCPDCRGKIS 151 (324)
T ss_pred CceeeeeecCCchhhhhhhccchhhcCcC
Confidence 59999999999999999899999998764
No 100
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=32.17 E-value=20 Score=36.71 Aligned_cols=21 Identities=14% Similarity=0.327 Sum_probs=18.5
Q ss_pred CeecCCCCcccHhhHHHHHhC
Q 020032 6 FQVTSCKHEYHLQCILEWSQR 26 (332)
Q Consensus 6 PVvlpCGH~FC~~CI~eWlk~ 26 (332)
.+.+.|||.||..|+..++..
T Consensus 84 ~~~~~c~H~~c~~cw~~yl~~ 104 (444)
T KOG1815|consen 84 IIGLGCGHPFCPPCWTGYLGT 104 (444)
T ss_pred hhhcCCCcHHHHHHHHHHhhh
Confidence 467899999999999999875
No 101
>smart00843 Ftsk_gamma This domain directs oriented DNA translocation and forms a winged helix structure. Mutated proteins with substitutions in the FtsK gamma DNA-recognition helix are impaired in DNA binding.
Probab=31.57 E-value=40 Score=26.23 Aligned_cols=25 Identities=24% Similarity=0.452 Sum_probs=22.2
Q ss_pred HHHHHhhhhhHHHHHHHHHhhccCC
Q 020032 242 KEVQREMSAGIAGVAKMIERLDLAS 266 (332)
Q Consensus 242 ~~v~re~~agia~v~rm~e~l~~~~ 266 (332)
+-+||.+.-|-.--+|+||+||...
T Consensus 23 S~lQR~~~IGynrAariid~lE~~G 47 (63)
T smart00843 23 SLLQRRLRIGYNRAARLIDQLEEEG 47 (63)
T ss_pred HHHHHHHhcchhHHHHHHHHHHHCc
Confidence 3479999999999999999999764
No 102
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=30.58 E-value=42 Score=33.21 Aligned_cols=41 Identities=22% Similarity=0.484 Sum_probs=26.9
Q ss_pred ecCC--CCcccHhhHHHHHhCCCCCCCcccccccCCchhHHHHHHHHH
Q 020032 8 VTSC--KHEYHLQCILEWSQRSKECPICWQQFVLKEPACQELLAAIES 53 (332)
Q Consensus 8 vlpC--GH~FC~~CI~eWlk~s~sCPmCRq~~s~~d~~s~eL~~~VE~ 53 (332)
+..| ||.-|..|=. +..+.||.||.++. +.....+..++|.
T Consensus 62 i~QC~nGHlaCssC~~---~~~~~CP~Cr~~~g--~~R~~amEkV~e~ 104 (299)
T KOG3002|consen 62 IFQCDNGHLACSSCRT---KVSNKCPTCRLPIG--NIRCRAMEKVAEA 104 (299)
T ss_pred ceecCCCcEehhhhhh---hhcccCCccccccc--cHHHHHHHHHHHh
Confidence 4466 6888888844 44678999999976 4344444444444
No 103
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=30.09 E-value=37 Score=34.86 Aligned_cols=32 Identities=19% Similarity=0.460 Sum_probs=22.3
Q ss_pred cCCCCcccHhhHHHHHhC-CCCCCCcccccccC
Q 020032 9 TSCKHEYHLQCILEWSQR-SKECPICWQQFVLK 40 (332)
Q Consensus 9 lpCGH~FC~~CI~eWlk~-s~sCPmCRq~~s~~ 40 (332)
-+||-..|..|--.--+. +..||-||..+...
T Consensus 34 c~cgy~ic~fc~~~irq~lngrcpacrr~y~de 66 (480)
T COG5175 34 CPCGYQICQFCYNNIRQNLNGRCPACRRKYDDE 66 (480)
T ss_pred CCcccHHHHHHHHHHHhhccCCChHhhhhcccc
Confidence 489999888884432222 46899999986543
No 104
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=29.20 E-value=22 Score=36.09 Aligned_cols=28 Identities=29% Similarity=0.790 Sum_probs=19.5
Q ss_pred CeecCCCCcccHhhHHHHHhC------CCCCCCcccc
Q 020032 6 FQVTSCKHEYHLQCILEWSQR------SKECPICWQQ 36 (332)
Q Consensus 6 PVvlpCGH~FC~~CI~eWlk~------s~sCPmCRq~ 36 (332)
-|-+.|||+--.+ .|-.+ ...|||||..
T Consensus 317 ~vYl~CGHV~G~H---~WG~~e~~g~~~r~CPmC~~~ 350 (429)
T KOG3842|consen 317 WVYLNCGHVHGYH---NWGVRENTGQRERECPMCRVV 350 (429)
T ss_pred eEEEecccccccc---ccccccccCcccCcCCeeeee
Confidence 3779999975543 57432 3579999975
No 105
>cd00350 rubredoxin_like Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=28.97 E-value=31 Score=22.99 Aligned_cols=22 Identities=23% Similarity=0.468 Sum_probs=15.2
Q ss_pred cCCCCcccHhhHHHHHhCCCCCCCcccc
Q 020032 9 TSCKHEYHLQCILEWSQRSKECPICWQQ 36 (332)
Q Consensus 9 lpCGH~FC~~CI~eWlk~s~sCPmCRq~ 36 (332)
..|||+|-..- ....||+|...
T Consensus 5 ~~CGy~y~~~~------~~~~CP~Cg~~ 26 (33)
T cd00350 5 PVCGYIYDGEE------APWVCPVCGAP 26 (33)
T ss_pred CCCCCEECCCc------CCCcCcCCCCc
Confidence 35888876543 33489999874
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=28.52 E-value=20 Score=26.08 Aligned_cols=13 Identities=23% Similarity=0.657 Sum_probs=6.9
Q ss_pred CCCCcccccccCC
Q 020032 29 ECPICWQQFVLKE 41 (332)
Q Consensus 29 sCPmCRq~~s~~d 41 (332)
.||+|..+|...+
T Consensus 22 ~CPlC~r~l~~e~ 34 (54)
T PF04423_consen 22 CCPLCGRPLDEEH 34 (54)
T ss_dssp E-TTT--EE-HHH
T ss_pred cCCCCCCCCCHHH
Confidence 8999999986443
No 107
>KOG1356 consensus Putative transcription factor 5qNCA, contains JmjC domain [Transcription]
Probab=28.46 E-value=16 Score=40.83 Aligned_cols=33 Identities=18% Similarity=0.591 Sum_probs=25.5
Q ss_pred cCCCCcccHhhHHHHH-hC-----CCCCCCcccccccCC
Q 020032 9 TSCKHEYHLQCILEWS-QR-----SKECPICWQQFVLKE 41 (332)
Q Consensus 9 lpCGH~FC~~CI~eWl-k~-----s~sCPmCRq~~s~~d 41 (332)
..|||.||..|+..|. .. ...|+.||..+....
T Consensus 247 ~~C~~~~Cl~C~r~~~p~~~~~e~a~k~~~~~~~C~~~q 285 (889)
T KOG1356|consen 247 PRCGFGVCLDCYRKWYPRLSKEEVAEKCEFSWLKCNKGQ 285 (889)
T ss_pred cccCCeeeecchhhccccchHhHhhhhhhHHHHhcCCcc
Confidence 5799999999999994 21 247999998876543
No 108
>PF09723 Zn-ribbon_8: Zinc ribbon domain; InterPro: IPR013429 This entry represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB []. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=28.40 E-value=14 Score=25.97 Aligned_cols=26 Identities=23% Similarity=0.555 Sum_probs=17.4
Q ss_pred cCCCCcccHhhHHHHHhCCCCCCCccc
Q 020032 9 TSCKHEYHLQCILEWSQRSKECPICWQ 35 (332)
Q Consensus 9 lpCGH~FC~~CI~eWlk~s~sCPmCRq 35 (332)
..|||.|-...-..= .....||.|..
T Consensus 9 ~~Cg~~fe~~~~~~~-~~~~~CP~Cg~ 34 (42)
T PF09723_consen 9 EECGHEFEVLQSISE-DDPVPCPECGS 34 (42)
T ss_pred CCCCCEEEEEEEcCC-CCCCcCCCCCC
Confidence 479999987542211 23457999998
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=25.63 E-value=19 Score=23.22 Aligned_cols=22 Identities=32% Similarity=0.573 Sum_probs=11.2
Q ss_pred cHhhHHHHHhCCCCCCCccccc
Q 020032 16 HLQCILEWSQRSKECPICWQQF 37 (332)
Q Consensus 16 C~~CI~eWlk~s~sCPmCRq~~ 37 (332)
|..|-..|......||.|-..|
T Consensus 3 CP~C~~~V~~~~~~Cp~CG~~F 24 (26)
T PF10571_consen 3 CPECGAEVPESAKFCPHCGYDF 24 (26)
T ss_pred CCCCcCCchhhcCcCCCCCCCC
Confidence 3344444444455666665544
No 110
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=24.94 E-value=13 Score=23.26 Aligned_cols=10 Identities=40% Similarity=0.800 Sum_probs=5.3
Q ss_pred CCCCCCcccc
Q 020032 27 SKECPICWQQ 36 (332)
Q Consensus 27 s~sCPmCRq~ 36 (332)
.+.||.|-++
T Consensus 13 ~~fC~~CG~~ 22 (23)
T PF13240_consen 13 AKFCPNCGTP 22 (23)
T ss_pred CcchhhhCCc
Confidence 3456666543
No 111
>KOG2169 consensus Zn-finger transcription factor [Transcription]
Probab=24.62 E-value=56 Score=35.37 Aligned_cols=38 Identities=16% Similarity=0.223 Sum_probs=28.8
Q ss_pred eecCCCCcccH--hhHHH-HH-hCC-----CCCCCcccccccCCchh
Q 020032 7 QVTSCKHEYHL--QCILE-WS-QRS-----KECPICWQQFVLKEPAC 44 (332)
Q Consensus 7 VvlpCGH~FC~--~CI~e-Wl-k~s-----~sCPmCRq~~s~~d~~s 44 (332)
..++|.+.+|. +|.+. |+ +.+ -.||+|.+.+.+.++..
T Consensus 316 m~~P~r~~~CkHlQcFD~~~~lq~n~~~pTW~CPVC~~~~~~e~l~i 362 (636)
T KOG2169|consen 316 MSLPARGHTCKHLQCFDALSYLQMNEQKPTWRCPVCQKAAPFEGLII 362 (636)
T ss_pred eecCCcccccccceecchhhhHHhccCCCeeeCccCCccccccchhh
Confidence 56899999988 99974 64 322 25999999988877763
No 112
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=23.78 E-value=47 Score=24.18 Aligned_cols=7 Identities=57% Similarity=1.554 Sum_probs=4.3
Q ss_pred CCCCCCc
Q 020032 27 SKECPIC 33 (332)
Q Consensus 27 s~sCPmC 33 (332)
...||.|
T Consensus 49 ~~~CP~C 55 (55)
T PF14311_consen 49 GKGCPYC 55 (55)
T ss_pred CCCCCCC
Confidence 3567776
No 113
>smart00132 LIM Zinc-binding domain present in Lin-11, Isl-1, Mec-3. Zinc-binding domain family. Some LIM domains bind protein partners via tyrosine-containing motifs. LIM domains are found in many key regulators of developmental pathways.
Probab=23.22 E-value=40 Score=21.48 Aligned_cols=20 Identities=20% Similarity=0.539 Sum_probs=15.1
Q ss_pred CCCcccHhhHHHHHhCCCCCCCcccccc
Q 020032 11 CKHEYHLQCILEWSQRSKECPICWQQFV 38 (332)
Q Consensus 11 CGH~FC~~CI~eWlk~s~sCPmCRq~~s 38 (332)
=+..||..| ..|..|...|.
T Consensus 19 ~~~~~H~~C--------f~C~~C~~~L~ 38 (39)
T smart00132 19 LGKVWHPEC--------FKCSKCGKPLG 38 (39)
T ss_pred CCccccccC--------CCCcccCCcCc
Confidence 467888888 67888888753
No 114
>COG4640 Predicted membrane protein [Function unknown]
Probab=22.68 E-value=41 Score=35.03 Aligned_cols=40 Identities=13% Similarity=0.342 Sum_probs=23.4
Q ss_pred ccHhhHHHHHhCCCCCCCcccccccCCch-hHHHHHHHHHh
Q 020032 15 YHLQCILEWSQRSKECPICWQQFVLKEPA-CQELLAAIESE 54 (332)
Q Consensus 15 FC~~CI~eWlk~s~sCPmCRq~~s~~d~~-s~eL~~~VE~e 54 (332)
||..|=.+-.+....||.|-.++...... ++.+.+.++.+
T Consensus 3 fC~kcG~qk~Ed~~qC~qCG~~~t~~~sqan~~tn~i~~tr 43 (465)
T COG4640 3 FCPKCGSQKAEDDVQCTQCGHKFTSRQSQANKSTNEIIQTR 43 (465)
T ss_pred cccccccccccccccccccCCcCCchhhhhhHHHHHHHHhh
Confidence 44445433445556799999988655443 44455555444
No 115
>PF10497 zf-4CXXC_R1: Zinc-finger domain of monoamine-oxidase A repressor R1; InterPro: IPR018866 R1 is a transcription factor repressor that inhibits monoamine oxidase A gene expression. This domain is a four-CXXC zinc finger putative DNA-binding domain found at the C-terminal end of R1. The domain carries 12 cysteines of which four pairs are of the CXXC type [].
Probab=22.33 E-value=60 Score=27.25 Aligned_cols=27 Identities=15% Similarity=0.364 Sum_probs=20.0
Q ss_pred CCcccHhhHHHHHhC---------CCCCCCcccccc
Q 020032 12 KHEYHLQCILEWSQR---------SKECPICWQQFV 38 (332)
Q Consensus 12 GH~FC~~CI~eWlk~---------s~sCPmCRq~~s 38 (332)
.=.||..||..+... .-.||.||-..+
T Consensus 37 ~~~fC~~CL~~ryge~~~ev~~~~~W~CP~CrgiCn 72 (105)
T PF10497_consen 37 RGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRGICN 72 (105)
T ss_pred cceehHhHHHHHHhhhHHHHhcCCceECCCCCCeeC
Confidence 667999999987542 236999997543
No 116
>PF03895 YadA_anchor: YadA-like C-terminal region; InterPro: IPR005594 This region represents the C-terminal 120 amino acids of a family of surface-exposed bacterial proteins. YadA, an adhesin from Yersinia, was the first member of this family to be characterised. UspA2 from Moraxella was second. The Eib immunoglobulin-binding proteins from E. coli were third, followed by the DsrA proteins of Haemophilus ducreyi, amongst others. These proteins are homologous at their C-terminal and have predicted signal sequences, but they diverge elsewhere. The C-terminal 9 amino acids, consisting of alternating hydrophobic amino acids ending in F or W, comprise a targeting motif for the outer membrane of the Gram negative cell envelope. This region is important for oligomerisation [].; PDB: 3LT6_C 3LT7_B 3H7X_D 3H7Z_A 2GR8_E 2GR7_F 3EMO_C 2XZR_A.
Probab=21.36 E-value=71 Score=24.91 Aligned_cols=16 Identities=31% Similarity=0.428 Sum_probs=13.4
Q ss_pred HHHhhhhhHHHHHHHH
Q 020032 244 VQREMSAGIAGVAKMI 259 (332)
Q Consensus 244 v~re~~agia~v~rm~ 259 (332)
|++|+|+|||...=|=
T Consensus 1 l~~~~~~g~A~a~Ama 16 (78)
T PF03895_consen 1 LDKRANRGIAMAAAMA 16 (78)
T ss_dssp HHHHHHHHHHHHHHHH
T ss_pred ChhHHHHHHHHHHHHH
Confidence 6899999999887653
No 117
>cd07153 Fur_like Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators. Ferric uptake regulator (Fur) and related metalloregulatory proteins are iron-dependent, DNA-binding repressors and activators mainly involved in iron metabolism. A general model for Fur repression under iron-rich conditions is that activated Fur (a dimer having one Fe2+ coordinated per monomer) binds to specific DNA sequences (Fur boxes) in the promoter region of iron-responsive genes, hindering access of RNA polymerase, and repressing transcription. Positive regulation by Fur can be direct or indirect, as in the Fur repression of an anti-sense regulatory small RNA. Some members sense metal ions other than Fe2+. For example, the zinc uptake regulator (Zur) responds to Zn2+, the manganese uptake regulator (Mur) responds to Mn2+, and the nickel uptake regulator (Nur) responds to Ni2+. Other members sense signals other than metal ions.
Probab=20.76 E-value=73 Score=25.74 Aligned_cols=33 Identities=21% Similarity=0.331 Sum_probs=26.4
Q ss_pred ccchhhhcHHHHHhh-hhhHHHHHHHHHhhccCC
Q 020032 234 NTSVKELSKEVQREM-SAGIAGVAKMIERLDLAS 266 (332)
Q Consensus 234 ~~s~~~l~~~v~re~-~agia~v~rm~e~l~~~~ 266 (332)
.-|+.||-..++++. +.+.|+|.|.++.|....
T Consensus 16 ~~sa~ei~~~l~~~~~~i~~~TVYR~L~~L~~~G 49 (116)
T cd07153 16 HLTAEEIYERLRKKGPSISLATVYRTLELLEEAG 49 (116)
T ss_pred CCCHHHHHHHHHhcCCCCCHHHHHHHHHHHHhCC
Confidence 457888888887764 789999999999987543
No 118
>KOG2979 consensus Protein involved in DNA repair [General function prediction only]
Probab=20.74 E-value=55 Score=32.08 Aligned_cols=29 Identities=21% Similarity=0.386 Sum_probs=23.0
Q ss_pred eecCCCCcccHhhHHHHHhCC--CCCCCccc
Q 020032 7 QVTSCKHEYHLQCILEWSQRS--KECPICWQ 35 (332)
Q Consensus 7 VvlpCGH~FC~~CI~eWlk~s--~sCPmCRq 35 (332)
+...|||+|-+.=|.+.+... --||+=-.
T Consensus 191 iSkkC~HvydrDsI~~~l~~~~~i~CPv~gC 221 (262)
T KOG2979|consen 191 ISKKCGHVYDRDSIMQILCDEITIRCPVLGC 221 (262)
T ss_pred hhcCcCcchhhhhHHHHhccCceeecccccC
Confidence 557999999999999998774 35887433
No 119
>PLN02248 cellulose synthase-like protein
Probab=20.62 E-value=69 Score=37.22 Aligned_cols=32 Identities=16% Similarity=0.523 Sum_probs=27.9
Q ss_pred CCCCcccHhhHHHHHhCCCCCCCcccccccCC
Q 020032 10 SCKHEYHLQCILEWSQRSKECPICWQQFVLKE 41 (332)
Q Consensus 10 pCGH~FC~~CI~eWlk~s~sCPmCRq~~s~~d 41 (332)
.|++-.|++|-..-++....||-|+.++...+
T Consensus 149 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 180 (1135)
T PLN02248 149 ECGFKICRDCYIDAVKSGGICPGCKEPYKVTD 180 (1135)
T ss_pred cccchhHHhHhhhhhhcCCCCCCCcccccccc
Confidence 69999999999999888889999999985444
No 120
>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=20.60 E-value=35 Score=30.33 Aligned_cols=23 Identities=13% Similarity=0.403 Sum_probs=15.7
Q ss_pred CcccHhhHHHHHhCCCCCCCccc
Q 020032 13 HEYHLQCILEWSQRSKECPICWQ 35 (332)
Q Consensus 13 H~FC~~CI~eWlk~s~sCPmCRq 35 (332)
|.||..|+.+|-+..+.=|.=|.
T Consensus 55 kmfc~~C~~rw~~~~~rDPfnR~ 77 (134)
T PF05883_consen 55 KMFCADCDKRWRRERNRDPFNRN 77 (134)
T ss_pred HHHHHHHHHHHHhhccCCCcccc
Confidence 88999999999443333444443
Done!