Query 004343
Match_columns 760
No_of_seqs 95 out of 97
Neff 1.7
Searched_HMMs 46136
Date Thu Mar 28 21:48:32 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/004343.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/004343hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF13639 zf-RING_2: Ring finge 98.7 5E-09 1.1E-13 77.4 0.3 43 699-756 2-44 (44)
2 PF12678 zf-rbx1: RING-H2 zinc 98.6 3.4E-08 7.4E-13 81.2 2.7 54 698-756 20-73 (73)
3 PHA02929 N1R/p28-like protein; 98.1 1.7E-06 3.8E-11 85.9 3.6 52 696-757 173-224 (238)
4 cd00162 RING RING-finger (Real 98.1 2E-06 4.4E-11 59.5 2.3 43 699-757 1-43 (45)
5 PF13923 zf-C3HC4_2: Zinc fing 98.0 1.8E-06 4E-11 62.9 1.3 39 700-755 1-39 (39)
6 PLN03208 E3 ubiquitin-protein 98.0 4E-06 8.7E-11 81.8 3.7 49 696-758 17-77 (193)
7 PF14634 zf-RING_5: zinc-RING 98.0 5.8E-06 1.3E-10 61.9 3.6 44 699-757 1-44 (44)
8 smart00184 RING Ring finger. E 98.0 4.6E-06 9.9E-11 55.7 2.2 30 723-755 10-39 (39)
9 PF15227 zf-C3HC4_4: zinc fing 97.8 1.1E-05 2.3E-10 61.1 2.7 42 700-755 1-42 (42)
10 PF12861 zf-Apc11: Anaphase-pr 97.8 1.8E-05 4E-10 69.3 4.2 58 697-757 21-79 (85)
11 KOG4628 Predicted E3 ubiquitin 97.8 9.2E-06 2E-10 84.8 2.2 46 698-757 230-275 (348)
12 PF00097 zf-C3HC4: Zinc finger 97.7 9.3E-06 2E-10 58.6 0.8 41 700-755 1-41 (41)
13 COG5540 RING-finger-containing 97.6 2.6E-05 5.7E-10 81.5 2.1 48 696-757 322-369 (374)
14 smart00504 Ubox Modified RING 97.6 4.7E-05 1E-09 58.3 2.4 42 698-757 2-43 (63)
15 KOG0802 E3 ubiquitin ligase [P 97.5 2.9E-05 6.3E-10 82.9 1.0 49 696-757 290-338 (543)
16 TIGR00599 rad18 DNA repair pro 97.3 0.00013 2.8E-09 77.2 3.0 45 696-758 25-69 (397)
17 KOG0317 Predicted E3 ubiquitin 97.3 0.00016 3.6E-09 74.5 3.3 52 689-758 231-282 (293)
18 PF10367 Vps39_2: Vacuolar sor 97.3 0.00011 2.3E-09 60.6 1.6 32 696-739 77-108 (109)
19 COG5243 HRD1 HRD ubiquitin lig 97.3 0.00013 2.9E-09 77.9 2.6 58 696-758 286-343 (491)
20 PF13920 zf-C3HC4_3: Zinc fing 97.3 0.00013 2.7E-09 55.5 1.7 42 698-757 3-45 (50)
21 KOG0320 Predicted E3 ubiquitin 97.1 0.00038 8.2E-09 68.3 3.0 60 682-757 116-175 (187)
22 PHA02926 zinc finger-like prot 97.0 0.00041 8.9E-09 70.1 2.8 56 696-757 169-227 (242)
23 PF13445 zf-RING_UBOX: RING-ty 97.0 0.00025 5.5E-09 54.8 0.8 43 700-753 1-43 (43)
24 KOG0287 Postreplication repair 96.9 0.00037 8E-09 74.0 1.8 60 682-759 6-67 (442)
25 KOG0828 Predicted E3 ubiquitin 96.8 0.00041 8.8E-09 76.2 1.2 89 660-757 540-631 (636)
26 KOG1734 Predicted RING-contain 96.8 0.00064 1.4E-08 70.5 2.2 55 695-757 222-278 (328)
27 KOG1941 Acetylcholine receptor 96.8 0.00039 8.4E-09 74.9 0.5 51 695-757 363-413 (518)
28 PF04564 U-box: U-box domain; 96.4 0.0022 4.7E-08 52.6 2.5 45 695-756 2-46 (73)
29 KOG2164 Predicted E3 ubiquitin 96.4 0.0012 2.7E-08 72.1 1.2 62 681-757 171-233 (513)
30 KOG2034 Vacuolar sorting prote 96.4 0.0011 2.5E-08 75.9 0.8 36 696-743 816-851 (911)
31 COG5574 PEX10 RING-finger-cont 96.0 0.005 1.1E-07 63.4 3.4 74 668-759 184-261 (271)
32 KOG0804 Cytoplasmic Zn-finger 96.0 0.0032 6.9E-08 68.5 2.1 46 696-757 174-219 (493)
33 KOG2114 Vacuolar assembly/sort 95.9 0.0043 9.4E-08 71.3 2.3 41 697-757 840-880 (933)
34 KOG2177 Predicted E3 ubiquitin 95.9 0.0046 9.9E-08 53.8 1.9 34 696-743 12-45 (386)
35 PF11793 FANCL_C: FANCL C-term 95.8 0.0047 1E-07 51.1 1.6 52 698-757 3-63 (70)
36 COG5194 APC11 Component of SCF 95.3 0.017 3.7E-07 51.6 3.6 57 697-757 20-78 (88)
37 PF04641 Rtf2: Rtf2 RING-finge 95.3 0.01 2.3E-07 58.5 2.4 49 694-757 110-158 (260)
38 KOG0823 Predicted E3 ubiquitin 95.0 0.013 2.8E-07 59.2 2.0 48 695-757 45-92 (230)
39 smart00744 RINGv The RING-vari 94.9 0.018 4E-07 45.2 2.3 31 724-756 14-49 (49)
40 COG5432 RAD18 RING-finger-cont 94.9 0.015 3.2E-07 61.4 2.3 61 681-759 7-69 (391)
41 KOG1493 Anaphase-promoting com 94.9 0.012 2.5E-07 52.3 1.2 56 699-757 22-78 (84)
42 COG5222 Uncharacterized conser 94.8 0.0061 1.3E-07 64.4 -0.8 45 698-758 275-319 (427)
43 KOG4159 Predicted E3 ubiquitin 94.2 0.021 4.6E-07 61.0 1.5 46 695-758 82-127 (398)
44 KOG0825 PHD Zn-finger protein 93.3 0.02 4.3E-07 66.1 -0.6 46 697-757 123-168 (1134)
45 KOG0978 E3 ubiquitin ligase in 93.1 0.02 4.3E-07 64.9 -1.1 44 696-753 642-685 (698)
46 COG5152 Uncharacterized conser 92.7 0.049 1.1E-06 55.3 1.2 44 696-757 195-238 (259)
47 KOG3970 Predicted E3 ubiquitin 92.0 0.093 2E-06 54.1 2.3 59 682-757 40-102 (299)
48 KOG1940 Zn-finger protein [Gen 91.9 0.072 1.6E-06 55.0 1.3 34 720-757 171-204 (276)
49 KOG2932 E3 ubiquitin ligase in 90.0 0.34 7.3E-06 51.9 4.1 82 649-757 46-131 (389)
50 PF11789 zf-Nse: Zinc-finger o 89.0 0.24 5.2E-06 40.3 1.7 44 696-754 10-53 (57)
51 KOG1039 Predicted E3 ubiquitin 88.8 0.19 4.1E-06 53.2 1.3 56 696-758 160-219 (344)
52 KOG1829 Uncharacterized conser 88.1 0.19 4.2E-06 56.3 0.9 49 696-757 510-558 (580)
53 KOG3039 Uncharacterized conser 87.6 0.41 9E-06 50.0 2.8 48 696-757 220-267 (303)
54 PF14835 zf-RING_6: zf-RING of 87.6 0.39 8.5E-06 41.2 2.2 42 697-757 7-48 (65)
55 KOG2930 SCF ubiquitin ligase, 87.3 0.3 6.4E-06 45.6 1.4 58 696-757 45-105 (114)
56 PF05883 Baculo_RING: Baculovi 86.9 0.35 7.6E-06 45.9 1.7 43 696-750 25-73 (134)
57 KOG1002 Nucleotide excision re 86.7 0.24 5.2E-06 55.8 0.6 49 696-758 535-584 (791)
58 COG5219 Uncharacterized conser 86.4 0.26 5.6E-06 58.4 0.6 51 696-757 1468-1520(1525)
59 KOG1571 Predicted E3 ubiquitin 84.7 0.62 1.3E-05 49.9 2.4 59 677-757 286-344 (355)
60 KOG2879 Predicted E3 ubiquitin 82.4 1 2.2E-05 47.4 2.9 48 695-757 237-284 (298)
61 KOG1813 Predicted E3 ubiquitin 81.3 0.82 1.8E-05 48.4 1.7 45 695-757 239-283 (313)
62 KOG0297 TNF receptor-associate 81.1 0.84 1.8E-05 48.2 1.7 45 696-757 20-64 (391)
63 PF13901 DUF4206: Domain of un 79.7 1.2 2.7E-05 43.1 2.3 48 696-759 151-199 (202)
64 KOG1785 Tyrosine kinase negati 79.2 0.99 2.1E-05 49.8 1.6 47 695-757 367-413 (563)
65 smart00249 PHD PHD zinc finger 78.2 1.9 4E-05 30.3 2.2 29 727-755 18-47 (47)
66 KOG2066 Vacuolar assembly/sort 77.0 1.1 2.4E-05 52.2 1.1 37 698-741 785-821 (846)
67 KOG1428 Inhibitor of type V ad 76.5 1.1 2.4E-05 55.4 1.0 122 173-303 2145-2279(3738)
68 COG5109 Uncharacterized conser 75.7 1.8 3.9E-05 46.7 2.3 69 676-756 306-383 (396)
69 COG5236 Uncharacterized conser 75.2 1.7 3.7E-05 47.4 1.9 43 696-757 60-105 (493)
70 KOG4265 Predicted E3 ubiquitin 72.6 2.3 4.9E-05 45.8 2.1 45 696-758 289-334 (349)
71 KOG3113 Uncharacterized conser 65.3 4.2 9.1E-05 42.9 2.2 132 595-757 14-155 (293)
72 KOG1001 Helicase-like transcri 63.4 4.5 9.8E-05 46.1 2.2 43 698-757 455-497 (674)
73 KOG0311 Predicted E3 ubiquitin 63.4 1.4 2.9E-05 47.8 -1.7 46 696-757 42-87 (381)
74 KOG0827 Predicted E3 ubiquitin 56.6 1.6 3.4E-05 48.0 -2.6 54 690-757 189-242 (465)
75 PF04710 Pellino: Pellino; In 55.9 3.8 8.2E-05 45.0 0.0 74 682-757 315-398 (416)
76 KOG4445 Uncharacterized conser 55.3 5.7 0.00012 42.8 1.2 32 698-740 116-147 (368)
77 PF14447 Prok-RING_4: Prokaryo 55.1 5.6 0.00012 33.4 0.9 28 724-757 20-47 (55)
78 PF00628 PHD: PHD-finger; Int 50.2 3.4 7.3E-05 31.1 -1.1 47 699-756 1-49 (51)
79 KOG1100 Predicted E3 ubiquitin 45.1 11 0.00025 37.3 1.4 28 723-758 170-198 (207)
80 KOG3842 Adaptor protein Pellin 44.0 23 0.00049 38.8 3.4 74 682-757 328-411 (429)
81 PF12088 DUF3565: Protein of u 42.8 12 0.00026 32.3 1.0 37 723-759 11-58 (61)
82 cd00350 rubredoxin_like Rubred 42.5 13 0.00028 27.3 1.0 22 727-758 5-26 (33)
83 PHA03096 p28-like protein; Pro 42.4 12 0.00026 39.0 1.1 51 698-756 179-230 (284)
84 PF09723 Zn-ribbon_8: Zinc rib 41.3 18 0.00038 27.8 1.6 27 727-758 9-35 (42)
85 KOG2817 Predicted E3 ubiquitin 41.1 24 0.00051 38.9 3.1 31 725-756 351-381 (394)
86 TIGR02605 CxxC_CxxC_SSSS putat 36.4 24 0.00052 27.1 1.7 27 727-758 9-35 (52)
87 KOG0801 Predicted E3 ubiquitin 35.6 18 0.00039 36.6 1.1 33 692-735 172-204 (205)
88 PHA02825 LAP/PHD finger-like p 33.5 22 0.00047 35.2 1.3 49 694-757 5-56 (162)
89 PF11571 Med27: Mediator compl 32.1 18 0.0004 31.4 0.5 35 697-737 54-89 (90)
90 KOG3005 GIY-YIG type nuclease 31.5 42 0.00092 35.6 3.1 53 698-757 183-240 (276)
91 PF14446 Prok-RING_1: Prokaryo 30.0 37 0.0008 28.5 1.9 37 696-742 4-40 (54)
92 KOG3268 Predicted E3 ubiquitin 29.8 22 0.00048 36.4 0.7 32 726-757 187-225 (234)
93 PHA02862 5L protein; Provision 29.8 30 0.00065 34.2 1.5 25 731-757 26-50 (156)
94 KOG4275 Predicted E3 ubiquitin 28.7 18 0.0004 39.0 -0.0 28 722-757 311-339 (350)
95 PF07227 DUF1423: Protein of u 28.2 28 0.0006 38.8 1.2 34 699-740 130-163 (446)
96 PF00412 LIM: LIM domain; Int 27.3 34 0.00073 25.8 1.2 28 700-739 1-28 (58)
97 PF04710 Pellino: Pellino; In 26.9 21 0.00046 39.5 0.0 32 723-757 303-336 (416)
98 KOG0309 Conserved WD40 repeat- 26.3 29 0.00062 41.4 0.9 35 699-745 1030-1064(1081)
99 KOG3161 Predicted E3 ubiquitin 26.3 27 0.00059 40.9 0.7 36 696-742 10-46 (861)
100 KOG1815 Predicted E3 ubiquitin 26.0 33 0.00072 36.7 1.2 43 697-752 70-112 (444)
101 KOG0298 DEAD box-containing he 25.9 21 0.00044 44.2 -0.3 35 527-565 473-507 (1394)
102 PF08746 zf-RING-like: RING-li 24.3 46 0.00099 25.9 1.4 26 728-755 18-43 (43)
103 KOG1814 Predicted E3 ubiquitin 24.1 39 0.00084 37.8 1.3 56 692-758 179-238 (445)
104 KOG0825 PHD Zn-finger protein 24.1 29 0.00062 41.6 0.4 51 696-759 214-267 (1134)
105 KOG3842 Adaptor protein Pellin 23.3 67 0.0015 35.4 2.9 56 699-757 292-349 (429)
106 PF12906 RINGv: RING-variant d 22.1 14 0.0003 29.0 -1.8 22 732-755 26-47 (47)
107 KOG1952 Transcription factor N 21.4 41 0.00089 40.3 0.9 53 694-756 188-243 (950)
108 COG0675 Transposase and inacti 20.0 52 0.0011 31.1 1.1 28 696-736 308-335 (364)
No 1
>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=98.65 E-value=5e-09 Score=77.35 Aligned_cols=43 Identities=30% Similarity=0.794 Sum_probs=34.9
Q ss_pred ccccccccccCCCcCCccCCCCCCceEEecCCccchHhhhhhcCCCCCCCCCCCCCCC
Q 004343 699 KCDLCNRDLSFASEGQILQPGVRPSTAVLPCGHHFHDYCLQQITPADQTDNPPCIHCD 756 (760)
Q Consensus 699 tCGICsKdLSERSsGRIsrsndLPVVAVLSCGHVFHAECLEA~TpeSqk~DPpCPLCr 756 (760)
.|+||...+.... .+.+|+|||+||.+||+.|... ...||+|+
T Consensus 2 ~C~IC~~~~~~~~-----------~~~~l~C~H~fh~~Ci~~~~~~----~~~CP~CR 44 (44)
T PF13639_consen 2 ECPICLEEFEDGE-----------KVVKLPCGHVFHRSCIKEWLKR----NNSCPVCR 44 (44)
T ss_dssp CETTTTCBHHTTS-----------CEEEETTSEEEEHHHHHHHHHH----SSB-TTTH
T ss_pred CCcCCChhhcCCC-----------eEEEccCCCeeCHHHHHHHHHh----CCcCCccC
Confidence 6999999997632 4679999999999999999944 35999995
No 2
>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=98.56 E-value=3.4e-08 Score=81.22 Aligned_cols=54 Identities=28% Similarity=0.524 Sum_probs=37.0
Q ss_pred cccccccccccCCCcCCccCCCCCCceEEecCCccchHhhhhhcCCCCCCCCCCCCCCC
Q 004343 698 YKCDLCNRDLSFASEGQILQPGVRPSTAVLPCGHHFHDYCLQQITPADQTDNPPCIHCD 756 (760)
Q Consensus 698 qtCGICsKdLSERSsGRIsrsndLPVVAVLSCGHVFHAECLEA~TpeSqk~DPpCPLCr 756 (760)
..|.||...|.+.... ...+.+--.+++..|||.||..||++|.. ....||+|+
T Consensus 20 d~C~IC~~~l~~~~~~-~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~----~~~~CP~CR 73 (73)
T PF12678_consen 20 DNCAICREPLEDPCPE-CQAPQDECPIVWGPCGHIFHFHCISQWLK----QNNTCPLCR 73 (73)
T ss_dssp SBETTTTSBTTSTTCC-HHHCTTTS-EEEETTSEEEEHHHHHHHHT----TSSB-TTSS
T ss_pred CcccccChhhhChhhh-hcCCccccceEecccCCCEEHHHHHHHHh----cCCcCCCCC
Confidence 3599999999665311 11111334568889999999999999994 333999996
No 3
>PHA02929 N1R/p28-like protein; Provisional
Probab=98.12 E-value=1.7e-06 Score=85.86 Aligned_cols=52 Identities=15% Similarity=0.297 Sum_probs=38.5
Q ss_pred CCcccccccccccCCCcCCccCCCCCCceEEecCCccchHhhhhhcCCCCCCCCCCCCCCCC
Q 004343 696 IGYKCDLCNRDLSFASEGQILQPGVRPSTAVLPCGHHFHDYCLQQITPADQTDNPPCIHCDM 757 (760)
Q Consensus 696 dgqtCGICsKdLSERSsGRIsrsndLPVVAVLSCGHVFHAECLEA~TpeSqk~DPpCPLCr~ 757 (760)
....|+||...+.++.- ....+..+++|||+||.+||+.|.. ....||+|+.
T Consensus 173 ~~~eC~ICle~~~~~~~------~~~~~~vl~~C~H~FC~~CI~~Wl~----~~~tCPlCR~ 224 (238)
T PHA02929 173 KDKECAICMEKVYDKEI------KNMYFGILSNCNHVFCIECIDIWKK----EKNTCPVCRT 224 (238)
T ss_pred CCCCCccCCcccccCcc------ccccceecCCCCCcccHHHHHHHHh----cCCCCCCCCC
Confidence 45789999998776530 0112345567999999999999973 4678999985
No 4
>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=98.08 E-value=2e-06 Score=59.48 Aligned_cols=43 Identities=26% Similarity=0.741 Sum_probs=33.2
Q ss_pred ccccccccccCCCcCCccCCCCCCceEEecCCccchHhhhhhcCCCCCCCCCCCCCCCC
Q 004343 699 KCDLCNRDLSFASEGQILQPGVRPSTAVLPCGHHFHDYCLQQITPADQTDNPPCIHCDM 757 (760)
Q Consensus 699 tCGICsKdLSERSsGRIsrsndLPVVAVLSCGHVFHAECLEA~TpeSqk~DPpCPLCr~ 757 (760)
.|.||...+.. .+.+++|||.||.+||+.|... ....||+|+.
T Consensus 1 ~C~iC~~~~~~-------------~~~~~~C~H~~c~~C~~~~~~~---~~~~Cp~C~~ 43 (45)
T cd00162 1 ECPICLEEFRE-------------PVVLLPCGHVFCRSCIDKWLKS---GKNTCPLCRT 43 (45)
T ss_pred CCCcCchhhhC-------------ceEecCCCChhcHHHHHHHHHh---CcCCCCCCCC
Confidence 48999887722 3556779999999999998753 3567999975
No 5
>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=98.03 E-value=1.8e-06 Score=62.86 Aligned_cols=39 Identities=36% Similarity=0.899 Sum_probs=30.9
Q ss_pred cccccccccCCCcCCccCCCCCCceEEecCCccchHhhhhhcCCCCCCCCCCCCCC
Q 004343 700 CDLCNRDLSFASEGQILQPGVRPSTAVLPCGHHFHDYCLQQITPADQTDNPPCIHC 755 (760)
Q Consensus 700 CGICsKdLSERSsGRIsrsndLPVVAVLSCGHVFHAECLEA~TpeSqk~DPpCPLC 755 (760)
|+||.+.+.+ .+.++.|||+|+.+|++.+... ...||+|
T Consensus 1 C~iC~~~~~~-------------~~~~~~CGH~fC~~C~~~~~~~----~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELRD-------------PVVVTPCGHSFCKECIEKYLEK----NPKCPVC 39 (39)
T ss_dssp ETTTTSB-SS-------------EEEECTTSEEEEHHHHHHHHHC----TSB-TTT
T ss_pred CCCCCCcccC-------------cCEECCCCCchhHHHHHHHHHC----cCCCcCC
Confidence 7889877766 3679999999999999999754 3789987
No 6
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=98.01 E-value=4e-06 Score=81.79 Aligned_cols=49 Identities=27% Similarity=0.605 Sum_probs=37.6
Q ss_pred CCcccccccccccCCCcCCccCCCCCCceEEecCCccchHhhhhhcCCC------------CCCCCCCCCCCCCC
Q 004343 696 IGYKCDLCNRDLSFASEGQILQPGVRPSTAVLPCGHHFHDYCLQQITPA------------DQTDNPPCIHCDMH 758 (760)
Q Consensus 696 dgqtCGICsKdLSERSsGRIsrsndLPVVAVLSCGHVFHAECLEA~Tpe------------Sqk~DPpCPLCr~G 758 (760)
+...|.||...+.+ ..|+.|||+|+..||+.|... ..+..+.||+|+..
T Consensus 17 ~~~~CpICld~~~d--------------PVvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~ 77 (193)
T PLN03208 17 GDFDCNICLDQVRD--------------PVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSD 77 (193)
T ss_pred CccCCccCCCcCCC--------------cEEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCc
Confidence 67899999876543 257899999999999998531 13456899999853
No 7
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=98.00 E-value=5.8e-06 Score=61.93 Aligned_cols=44 Identities=25% Similarity=0.667 Sum_probs=36.1
Q ss_pred ccccccccccCCCcCCccCCCCCCceEEecCCccchHhhhhhcCCCCCCCCCCCCCCCC
Q 004343 699 KCDLCNRDLSFASEGQILQPGVRPSTAVLPCGHHFHDYCLQQITPADQTDNPPCIHCDM 757 (760)
Q Consensus 699 tCGICsKdLSERSsGRIsrsndLPVVAVLSCGHVFHAECLEA~TpeSqk~DPpCPLCr~ 757 (760)
.|++|.+.+.+. ....||+|||+|...|++.+. .....||+|+.
T Consensus 1 ~C~~C~~~~~~~-----------~~~~l~~CgH~~C~~C~~~~~----~~~~~CP~C~k 44 (44)
T PF14634_consen 1 HCNICFEKYSEE-----------RRPRLTSCGHIFCEKCLKKLK----GKSVKCPICRK 44 (44)
T ss_pred CCcCcCccccCC-----------CCeEEcccCCHHHHHHHHhhc----CCCCCCcCCCC
Confidence 489998888322 147899999999999999999 56788999974
No 8
>smart00184 RING Ring finger. E3 ubiquitin-protein ligase activity is intrinsic to the RING domain of c-Cbl and is likely to be a general function of this domain; Various RING fingers exhibit binding activity towards E2 ubiquitin-conjugating enzymes (Ubc' s)
Probab=97.97 E-value=4.6e-06 Score=55.75 Aligned_cols=30 Identities=37% Similarity=0.882 Sum_probs=24.6
Q ss_pred ceEEecCCccchHhhhhhcCCCCCCCCCCCCCC
Q 004343 723 STAVLPCGHHFHDYCLQQITPADQTDNPPCIHC 755 (760)
Q Consensus 723 VVAVLSCGHVFHAECLEA~TpeSqk~DPpCPLC 755 (760)
.+.+|+|||+||.+|++.|.. .....||+|
T Consensus 10 ~~~~~~C~H~~c~~C~~~~~~---~~~~~CP~C 39 (39)
T smart00184 10 DPVVLPCGHTFCRSCIRKWLK---SGNNTCPIC 39 (39)
T ss_pred CcEEecCCChHHHHHHHHHHH---hCcCCCCCC
Confidence 467899999999999999975 244669887
No 9
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=97.85 E-value=1.1e-05 Score=61.08 Aligned_cols=42 Identities=29% Similarity=0.698 Sum_probs=32.5
Q ss_pred cccccccccCCCcCCccCCCCCCceEEecCCccchHhhhhhcCCCCCCCCCCCCCC
Q 004343 700 CDLCNRDLSFASEGQILQPGVRPSTAVLPCGHHFHDYCLQQITPADQTDNPPCIHC 755 (760)
Q Consensus 700 CGICsKdLSERSsGRIsrsndLPVVAVLSCGHVFHAECLEA~TpeSqk~DPpCPLC 755 (760)
|+||...|.+. ..|.|||+|-..||+.+-.+.+.....||.|
T Consensus 1 CpiC~~~~~~P--------------v~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKDP--------------VSLPCGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-SSE--------------EE-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhhCCc--------------cccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 88999998873 5799999999999999998777667899998
No 10
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=97.83 E-value=1.8e-05 Score=69.28 Aligned_cols=58 Identities=19% Similarity=0.434 Sum_probs=41.7
Q ss_pred CcccccccccccCC-CcCCccCCCCCCceEEecCCccchHhhhhhcCCCCCCCCCCCCCCCC
Q 004343 697 GYKCDLCNRDLSFA-SEGQILQPGVRPSTAVLPCGHHFHDYCLQQITPADQTDNPPCIHCDM 757 (760)
Q Consensus 697 gqtCGICsKdLSER-SsGRIsrsndLPVVAVLSCGHVFHAECLEA~TpeSqk~DPpCPLCr~ 757 (760)
...||||-..+... +.=+ -.++--.+++-.|+|.||..||.+|.... .....||+||.
T Consensus 21 dd~CgICr~~fdg~Cp~Ck--~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~-~~~~~CPmCR~ 79 (85)
T PF12861_consen 21 DDVCGICRMPFDGCCPDCK--FPGDDCPLVWGKCSHNFHMHCILKWLSTQ-SSKGQCPMCRQ 79 (85)
T ss_pred CCceeeEecccccCCCCcc--CCCCCCceeeccCccHHHHHHHHHHHccc-cCCCCCCCcCC
Confidence 56899999888754 2111 11222244588899999999999999654 45789999985
No 11
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.80 E-value=9.2e-06 Score=84.81 Aligned_cols=46 Identities=26% Similarity=0.642 Sum_probs=39.3
Q ss_pred cccccccccccCCCcCCccCCCCCCceEEecCCccchHhhhhhcCCCCCCCCCCCCCCCC
Q 004343 698 YKCDLCNRDLSFASEGQILQPGVRPSTAVLPCGHHFHDYCLQQITPADQTDNPPCIHCDM 757 (760)
Q Consensus 698 qtCGICsKdLSERSsGRIsrsndLPVVAVLSCGHVFHAECLEA~TpeSqk~DPpCPLCr~ 757 (760)
..|.||..+..+.. -+.+|+|+|.||..|...|.... .-.||+|..
T Consensus 230 ~~CaIClEdY~~Gd-----------klRiLPC~H~FH~~CIDpWL~~~---r~~CPvCK~ 275 (348)
T KOG4628|consen 230 DTCAICLEDYEKGD-----------KLRILPCSHKFHVNCIDPWLTQT---RTFCPVCKR 275 (348)
T ss_pred ceEEEeecccccCC-----------eeeEecCCCchhhccchhhHhhc---CccCCCCCC
Confidence 59999999999875 47789999999999999998543 677999964
No 12
>PF00097 zf-C3HC4: Zinc finger, C3HC4 type (RING finger); InterPro: IPR018957 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C3HC4 type zinc-finger (RING finger) is a cysteine-rich domain of 40 to 60 residues that coordinates two zinc ions, and has the consensus sequence: C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C where X is any amino acid []. Many proteins containing a RING finger play a key role in the ubiquitination pathway []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1CHC_A 2ECW_A 2Y43_B 1V87_A 2DJB_A 2H0D_B 3RPG_C 3KNV_A 2CKL_B 1JM7_A ....
Probab=97.74 E-value=9.3e-06 Score=58.61 Aligned_cols=41 Identities=29% Similarity=0.749 Sum_probs=33.0
Q ss_pred cccccccccCCCcCCccCCCCCCceEEecCCccchHhhhhhcCCCCCCCCCCCCCC
Q 004343 700 CDLCNRDLSFASEGQILQPGVRPSTAVLPCGHHFHDYCLQQITPADQTDNPPCIHC 755 (760)
Q Consensus 700 CGICsKdLSERSsGRIsrsndLPVVAVLSCGHVFHAECLEA~TpeSqk~DPpCPLC 755 (760)
|+||...+... +.++.|||.|+.+||+++... .....||+|
T Consensus 1 C~iC~~~~~~~-------------~~~~~C~H~fC~~C~~~~~~~--~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFEDP-------------VILLPCGHSFCRDCLRKWLEN--SGSVKCPLC 41 (41)
T ss_dssp ETTTSSBCSSE-------------EEETTTSEEEEHHHHHHHHHH--TSSSBTTTT
T ss_pred CCcCCccccCC-------------CEEecCCCcchHHHHHHHHHh--cCCccCCcC
Confidence 77888776663 369999999999999999964 456669988
No 13
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.60 E-value=2.6e-05 Score=81.45 Aligned_cols=48 Identities=27% Similarity=0.608 Sum_probs=40.0
Q ss_pred CCcccccccccccCCCcCCccCCCCCCceEEecCCccchHhhhhhcCCCCCCCCCCCCCCCC
Q 004343 696 IGYKCDLCNRDLSFASEGQILQPGVRPSTAVLPCGHHFHDYCLQQITPADQTDNPPCIHCDM 757 (760)
Q Consensus 696 dgqtCGICsKdLSERSsGRIsrsndLPVVAVLSCGHVFHAECLEA~TpeSqk~DPpCPLCr~ 757 (760)
.+..|.||..+...-. -+.||+|-|+||--|+|.|-. .|...||+|+-
T Consensus 322 ~GveCaICms~fiK~d-----------~~~vlPC~H~FH~~Cv~kW~~---~y~~~CPvCrt 369 (374)
T COG5540 322 KGVECAICMSNFIKND-----------RLRVLPCDHRFHVGCVDKWLL---GYSNKCPVCRT 369 (374)
T ss_pred CCceEEEEhhhhcccc-----------eEEEeccCceechhHHHHHHh---hhcccCCccCC
Confidence 5678999988876322 288999999999999999983 48899999984
No 14
>smart00504 Ubox Modified RING finger domain. Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.
Probab=97.55 E-value=4.7e-05 Score=58.34 Aligned_cols=42 Identities=10% Similarity=0.227 Sum_probs=34.8
Q ss_pred cccccccccccCCCcCCccCCCCCCceEEecCCccchHhhhhhcCCCCCCCCCCCCCCCC
Q 004343 698 YKCDLCNRDLSFASEGQILQPGVRPSTAVLPCGHHFHDYCLQQITPADQTDNPPCIHCDM 757 (760)
Q Consensus 698 qtCGICsKdLSERSsGRIsrsndLPVVAVLSCGHVFHAECLEA~TpeSqk~DPpCPLCr~ 757 (760)
+.|+||.+.+... ++++|||+|..+|++.+... ...||+|..
T Consensus 2 ~~Cpi~~~~~~~P--------------v~~~~G~v~~~~~i~~~~~~----~~~cP~~~~ 43 (63)
T smart00504 2 FLCPISLEVMKDP--------------VILPSGQTYERRAIEKWLLS----HGTDPVTGQ 43 (63)
T ss_pred cCCcCCCCcCCCC--------------EECCCCCEEeHHHHHHHHHH----CCCCCCCcC
Confidence 5799999988762 57899999999999999854 568998864
No 15
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.51 E-value=2.9e-05 Score=82.89 Aligned_cols=49 Identities=31% Similarity=0.653 Sum_probs=39.7
Q ss_pred CCcccccccccccCCCcCCccCCCCCCceEEecCCccchHhhhhhcCCCCCCCCCCCCCCCC
Q 004343 696 IGYKCDLCNRDLSFASEGQILQPGVRPSTAVLPCGHHFHDYCLQQITPADQTDNPPCIHCDM 757 (760)
Q Consensus 696 dgqtCGICsKdLSERSsGRIsrsndLPVVAVLSCGHVFHAECLEA~TpeSqk~DPpCPLCr~ 757 (760)
....|.||-..|..-+. -.+-.|+|||+||..||..|.. ..-.||+|+.
T Consensus 290 ~~~~C~IC~e~l~~~~~---------~~~~rL~C~Hifh~~CL~~W~e----r~qtCP~CR~ 338 (543)
T KOG0802|consen 290 SDELCIICLEELHSGHN---------ITPKRLPCGHIFHDSCLRSWFE----RQQTCPTCRT 338 (543)
T ss_pred cCCeeeeechhhccccc---------cccceeecccchHHHHHHHHHH----HhCcCCcchh
Confidence 35689999999987532 3457999999999999999994 3667999985
No 16
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=97.32 E-value=0.00013 Score=77.22 Aligned_cols=45 Identities=20% Similarity=0.689 Sum_probs=36.1
Q ss_pred CCcccccccccccCCCcCCccCCCCCCceEEecCCccchHhhhhhcCCCCCCCCCCCCCCCCC
Q 004343 696 IGYKCDLCNRDLSFASEGQILQPGVRPSTAVLPCGHHFHDYCLQQITPADQTDNPPCIHCDMH 758 (760)
Q Consensus 696 dgqtCGICsKdLSERSsGRIsrsndLPVVAVLSCGHVFHAECLEA~TpeSqk~DPpCPLCr~G 758 (760)
....|.||...+... .+++|||+|+..|+..+... ...||+|...
T Consensus 25 ~~l~C~IC~d~~~~P--------------vitpCgH~FCs~CI~~~l~~----~~~CP~Cr~~ 69 (397)
T TIGR00599 25 TSLRCHICKDFFDVP--------------VLTSCSHTFCSLCIRRCLSN----QPKCPLCRAE 69 (397)
T ss_pred cccCCCcCchhhhCc--------------cCCCCCCchhHHHHHHHHhC----CCCCCCCCCc
Confidence 567999999888542 37899999999999998743 3479999864
No 17
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=97.29 E-value=0.00016 Score=74.48 Aligned_cols=52 Identities=29% Similarity=0.484 Sum_probs=40.3
Q ss_pred CCCCCCCCCcccccccccccCCCcCCccCCCCCCceEEecCCccchHhhhhhcCCCCCCCCCCCCCCCCC
Q 004343 689 SNRFPQPIGYKCDLCNRDLSFASEGQILQPGVRPSTAVLPCGHHFHDYCLQQITPADQTDNPPCIHCDMH 758 (760)
Q Consensus 689 SEqSVSPdgqtCGICsKdLSERSsGRIsrsndLPVVAVLSCGHVFHAECLEA~TpeSqk~DPpCPLCr~G 758 (760)
++.++......|-||...-...+ -.+|||+|.-.|+..|..+. ..||+|+..
T Consensus 231 ~~~~i~~a~~kC~LCLe~~~~pS--------------aTpCGHiFCWsCI~~w~~ek----~eCPlCR~~ 282 (293)
T KOG0317|consen 231 SLSSIPEATRKCSLCLENRSNPS--------------ATPCGHIFCWSCILEWCSEK----AECPLCREK 282 (293)
T ss_pred CCccCCCCCCceEEEecCCCCCC--------------cCcCcchHHHHHHHHHHccc----cCCCccccc
Confidence 34555567789999987655543 68999999999999999544 449999953
No 18
>PF10367 Vps39_2: Vacuolar sorting protein 39 domain 2; InterPro: IPR019453 This entry represents a domain found in the vacuolar sorting protein Vps39 and transforming growth factor beta receptor-associated protein Trap1. Vps39, a component of the C-Vps complex, is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole [, ]. In Saccharomyces cerevisiae (Baker's yeast), Vps39 has been shown to stimulate nucleotide exchange []. Trap1 plays a role in the TGF-beta/activin signaling pathway. It associates with inactive heteromeric TGF-beta and activin receptor complexes, mainly through the type II receptor, and is released upon activation of signaling [, ]. The precise function of this domain has not been characterised In Vps39 this domain is involved in localisation and in mediating the interactions with Vps11 [].
Probab=97.29 E-value=0.00011 Score=60.57 Aligned_cols=32 Identities=34% Similarity=0.815 Sum_probs=28.2
Q ss_pred CCcccccccccccCCCcCCccCCCCCCceEEecCCccchHhhhh
Q 004343 696 IGYKCDLCNRDLSFASEGQILQPGVRPSTAVLPCGHHFHDYCLQ 739 (760)
Q Consensus 696 dgqtCGICsKdLSERSsGRIsrsndLPVVAVLSCGHVFHAECLE 739 (760)
....|.+|.|.|... +++|.+|||+||..|+.
T Consensus 77 ~~~~C~vC~k~l~~~------------~f~~~p~~~v~H~~C~~ 108 (109)
T PF10367_consen 77 ESTKCSVCGKPLGNS------------VFVVFPCGHVVHYSCIK 108 (109)
T ss_pred CCCCccCcCCcCCCc------------eEEEeCCCeEEeccccc
Confidence 577899999999763 69999999999999975
No 19
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=97.28 E-value=0.00013 Score=77.92 Aligned_cols=58 Identities=21% Similarity=0.442 Sum_probs=39.7
Q ss_pred CCcccccccccccCCCcCCccCCCCCCceEEecCCccchHhhhhhcCCCCCCCCCCCCCCCCC
Q 004343 696 IGYKCDLCNRDLSFASEGQILQPGVRPSTAVLPCGHHFHDYCLQQITPADQTDNPPCIHCDMH 758 (760)
Q Consensus 696 dgqtCGICsKdLSERSsGRIsrsndLPVVAVLSCGHVFHAECLEA~TpeSqk~DPpCPLCr~G 758 (760)
+-..|-||-.-+-+.+.+..-+.-++-+ -=|+|||+||.+||..|-.. .-.||+|+..
T Consensus 286 ~D~~C~ICmde~~h~~~~~~~~~~~~~p-KrLpCGHilHl~CLknW~ER----qQTCPICr~p 343 (491)
T COG5243 286 SDRTCTICMDEMFHPDHEPLPRGLDMTP-KRLPCGHILHLHCLKNWLER----QQTCPICRRP 343 (491)
T ss_pred CCCeEEEecccccCCCCccCcccccCCc-ccccccceeeHHHHHHHHHh----ccCCCcccCc
Confidence 5678999977766554222222222222 35899999999999999843 4479999864
No 20
>PF13920 zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger); PDB: 2YHN_B 2YHO_G 3T6P_A 2CSY_A 2VJE_B 2VJF_B 2HDP_B 2EA5_A 2ECG_A 3EB5_A ....
Probab=97.28 E-value=0.00013 Score=55.49 Aligned_cols=42 Identities=26% Similarity=0.739 Sum_probs=33.9
Q ss_pred cccccccccccCCCcCCccCCCCCCceEEecCCcc-chHhhhhhcCCCCCCCCCCCCCCCC
Q 004343 698 YKCDLCNRDLSFASEGQILQPGVRPSTAVLPCGHH-FHDYCLQQITPADQTDNPPCIHCDM 757 (760)
Q Consensus 698 qtCGICsKdLSERSsGRIsrsndLPVVAVLSCGHV-FHAECLEA~TpeSqk~DPpCPLCr~ 757 (760)
..|.||..... .+++++|||. |..+|++.+.. ....||+|+.
T Consensus 3 ~~C~iC~~~~~--------------~~~~~pCgH~~~C~~C~~~~~~----~~~~CP~Cr~ 45 (50)
T PF13920_consen 3 EECPICFENPR--------------DVVLLPCGHLCFCEECAERLLK----RKKKCPICRQ 45 (50)
T ss_dssp SB-TTTSSSBS--------------SEEEETTCEEEEEHHHHHHHHH----TTSBBTTTTB
T ss_pred CCCccCCccCC--------------ceEEeCCCChHHHHHHhHHhcc----cCCCCCcCCh
Confidence 46888877532 3789999999 99999999984 6888999985
No 21
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.06 E-value=0.00038 Score=68.32 Aligned_cols=60 Identities=23% Similarity=0.507 Sum_probs=44.4
Q ss_pred ccCCCCCCCCCCCCCCcccccccccccCCCcCCccCCCCCCceEEecCCccchHhhhhhcCCCCCCCCCCCCCCCC
Q 004343 682 RLRLPQDSNRFPQPIGYKCDLCNRDLSFASEGQILQPGVRPSTAVLPCGHHFHDYCLQQITPADQTDNPPCIHCDM 757 (760)
Q Consensus 682 RERWS~DSEqSVSPdgqtCGICsKdLSERSsGRIsrsndLPVVAVLSCGHVFHAECLEA~TpeSqk~DPpCPLCr~ 757 (760)
+.+.++|.........+.|+||.-..+++. ..---|||||..+|++... +.--.||+|++
T Consensus 116 p~~~~k~v~~~~~~~~~~CPiCl~~~sek~------------~vsTkCGHvFC~~Cik~al----k~~~~CP~C~k 175 (187)
T KOG0320|consen 116 PNRRDKDVDPLRKEGTYKCPICLDSVSEKV------------PVSTKCGHVFCSQCIKDAL----KNTNKCPTCRK 175 (187)
T ss_pred CCcccccccccccccccCCCceecchhhcc------------ccccccchhHHHHHHHHHH----HhCCCCCCccc
Confidence 344445544444457799999999999984 1225799999999999887 44567999984
No 22
>PHA02926 zinc finger-like protein; Provisional
Probab=97.01 E-value=0.00041 Score=70.12 Aligned_cols=56 Identities=14% Similarity=0.260 Sum_probs=38.6
Q ss_pred CCcccccccccccCCCcCCccCCCCCCce-EEecCCccchHhhhhhcCCCCC--CCCCCCCCCCC
Q 004343 696 IGYKCDLCNRDLSFASEGQILQPGVRPST-AVLPCGHHFHDYCLQQITPADQ--TDNPPCIHCDM 757 (760)
Q Consensus 696 dgqtCGICsKdLSERSsGRIsrsndLPVV-AVLSCGHVFHAECLEA~TpeSq--k~DPpCPLCr~ 757 (760)
.-..|+||...+.++... ++ +.. .+.+|+|+|+..|+..|-.... ...-.||+|+.
T Consensus 169 kE~eCgICmE~I~eK~~~-----~e-RrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~ 227 (242)
T PHA02926 169 KEKECGICYEVVYSKRLE-----ND-RYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRT 227 (242)
T ss_pred CCCCCccCcccccccccc-----cc-ccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcc
Confidence 346899999888776310 01 112 3559999999999999986321 22456999985
No 23
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=96.98 E-value=0.00025 Score=54.82 Aligned_cols=43 Identities=33% Similarity=0.768 Sum_probs=22.9
Q ss_pred cccccccccCCCcCCccCCCCCCceEEecCCccchHhhhhhcCCCCCCCCCCCC
Q 004343 700 CDLCNRDLSFASEGQILQPGVRPSTAVLPCGHHFHDYCLQQITPADQTDNPPCI 753 (760)
Q Consensus 700 CGICsKdLSERSsGRIsrsndLPVVAVLSCGHVFHAECLEA~TpeSqk~DPpCP 753 (760)
|+||.. ..... ....||+|||+|-.+||+.+..........||
T Consensus 1 CpIc~e-~~~~~----------n~P~~L~CGH~~c~~cl~~l~~~~~~~~~kCP 43 (43)
T PF13445_consen 1 CPICKE-FSTEE----------NPPMVLPCGHVFCKDCLQKLSKKSDRNRFKCP 43 (43)
T ss_dssp -TTT-----TTS----------S-EEE-SSS-EEEHHHHHHHHHH-S-S-B--T
T ss_pred CCcccc-ccCCC----------CCCEEEeCccHHHHHHHHHHHhcCCCCeeeCc
Confidence 889988 54322 12457999999999999999875544556665
No 24
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=96.93 E-value=0.00037 Score=74.03 Aligned_cols=60 Identities=20% Similarity=0.508 Sum_probs=46.5
Q ss_pred ccCCCCCCCCCCCC--CCcccccccccccCCCcCCccCCCCCCceEEecCCccchHhhhhhcCCCCCCCCCCCCCCCCCC
Q 004343 682 RLRLPQDSNRFPQP--IGYKCDLCNRDLSFASEGQILQPGVRPSTAVLPCGHHFHDYCLQQITPADQTDNPPCIHCDMHE 759 (760)
Q Consensus 682 RERWS~DSEqSVSP--dgqtCGICsKdLSERSsGRIsrsndLPVVAVLSCGHVFHAECLEA~TpeSqk~DPpCPLCr~GE 759 (760)
..||..-+..+.-- +..+|+||...+.- ..+-+|||.|...|+..+. .+.|.||.|...+
T Consensus 6 ~Sdw~~tsipslk~lD~lLRC~IC~eyf~i--------------p~itpCsHtfCSlCIR~~L----~~~p~CP~C~~~~ 67 (442)
T KOG0287|consen 6 ESDWPPTSIPSLKTLDDLLRCGICFEYFNI--------------PMITPCSHTFCSLCIRKFL----SYKPQCPTCCVTV 67 (442)
T ss_pred cccCCCccCchhhhhHHHHHHhHHHHHhcC--------------ceeccccchHHHHHHHHHh----ccCCCCCceeccc
Confidence 35776554443332 67899999988754 4678899999999999988 7899999998764
No 25
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.83 E-value=0.00041 Score=76.17 Aligned_cols=89 Identities=28% Similarity=0.382 Sum_probs=56.6
Q ss_pred CCCCCCCCCCCCCCCCccccccccCCCCCCCCCCCCCCcccccccccccCCCcCC---ccCCCCCCceEEecCCccchHh
Q 004343 660 SRYPLPHPLQTAHPYSQMAREIRLRLPQDSNRFPQPIGYKCDLCNRDLSFASEGQ---ILQPGVRPSTAVLPCGHHFHDY 736 (760)
Q Consensus 660 ~R~Pl~~~~~~~~~~psvA~SqRERWS~DSEqSVSPdgqtCGICsKdLSERSsGR---IsrsndLPVVAVLSCGHVFHAE 736 (760)
+|-=||.+ .+|+- .+-+-|.++|...+.-++..+|.||-.+.--++.+. ....-..+---|-+|.|+||..
T Consensus 540 sR~FlPkk-----~lpe~-YsY~r~l~~dh~~~~~~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~ 613 (636)
T KOG0828|consen 540 SRCFLPKK-----FLPEK-YSYHRRLQQDHLEAFVRRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQ 613 (636)
T ss_pred cccccchh-----hCccc-cccccccccccccchhhccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHH
Confidence 45555544 44443 455666766655566668889999987775554221 0000000113466999999999
Q ss_pred hhhhcCCCCCCCCCCCCCCCC
Q 004343 737 CLQQITPADQTDNPPCIHCDM 757 (760)
Q Consensus 737 CLEA~TpeSqk~DPpCPLCr~ 757 (760)
||++|-. .+.-.||+|+.
T Consensus 614 CL~~WMd---~ykl~CPvCR~ 631 (636)
T KOG0828|consen 614 CLLQWMD---TYKLICPVCRC 631 (636)
T ss_pred HHHHHHh---hhcccCCccCC
Confidence 9999982 36678999985
No 26
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.80 E-value=0.00064 Score=70.55 Aligned_cols=55 Identities=25% Similarity=0.623 Sum_probs=39.7
Q ss_pred CCCcccccccccccCC-C-cCCccCCCCCCceEEecCCccchHhhhhhcCCCCCCCCCCCCCCCC
Q 004343 695 PIGYKCDLCNRDLSFA-S-EGQILQPGVRPSTAVLPCGHHFHDYCLQQITPADQTDNPPCIHCDM 757 (760)
Q Consensus 695 PdgqtCGICsKdLSER-S-sGRIsrsndLPVVAVLSCGHVFHAECLEA~TpeSqk~DPpCPLCr~ 757 (760)
.+.-.|.+|.+-+-.. + ++ -..-+--|+|+||||..|+..|--- ...+.||.|-+
T Consensus 222 l~d~vCaVCg~~~~~s~~eeg------vienty~LsCnHvFHEfCIrGWciv--GKkqtCPYCKe 278 (328)
T KOG1734|consen 222 LSDSVCAVCGQQIDVSVDEEG------VIENTYKLSCNHVFHEFCIRGWCIV--GKKQTCPYCKE 278 (328)
T ss_pred CCcchhHhhcchheeecchhh------hhhhheeeecccchHHHhhhhheee--cCCCCCchHHH
Confidence 3566899998766432 2 22 1233567999999999999999843 36889999963
No 27
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=96.78 E-value=0.00039 Score=74.86 Aligned_cols=51 Identities=31% Similarity=0.734 Sum_probs=41.2
Q ss_pred CCCcccccccccccCCCcCCccCCCCCCceEEecCCccchHhhhhhcCCCCCCCCCCCCCCCC
Q 004343 695 PIGYKCDLCNRDLSFASEGQILQPGVRPSTAVLPCGHHFHDYCLQQITPADQTDNPPCIHCDM 757 (760)
Q Consensus 695 PdgqtCGICsKdLSERSsGRIsrsndLPVVAVLSCGHVFHAECLEA~TpeSqk~DPpCPLCr~ 757 (760)
..+.-|++|+..+-.|++. .--|+|+|+||+.||..+. .+..+-+||.|++
T Consensus 363 e~~L~Cg~CGe~~Glk~e~----------LqALpCsHIfH~rCl~e~L--~~n~~rsCP~Crk 413 (518)
T KOG1941|consen 363 ETELYCGLCGESIGLKNER----------LQALPCSHIFHLRCLQEIL--ENNGTRSCPNCRK 413 (518)
T ss_pred HHhhhhhhhhhhhcCCccc----------ccccchhHHHHHHHHHHHH--HhCCCCCCccHHH
Confidence 3667899999999888632 3469999999999999877 3456888999983
No 28
>PF04564 U-box: U-box domain; InterPro: IPR003613 Quality control of intracellular proteins is essential for cellular homeostasis. Molecular chaperones recognise and contribute to the refolding of misfolded or unfolded proteins, whereas the ubiquitin-proteasome system mediates the degradation of such abnormal proteins. Ubiquitin-protein ligases (E3s) determine the substrate specificity for ubiquitylation and have been classified into HECT and RING-finger families. More recently, however, U-box proteins, which contain a domain (the U box) of about 70 amino acids that is conserved from yeast to humans, have been identified as a new type of E3 []. Members of the U-box family of proteins constitute a class of ubiquitin-protein ligases (E3s) distinct from the HECT-type and RING finger-containing E3 families []. Using yeast two-hybrid technology, all mammalian U-box proteins have been reported to interact with molecular chaperones or co-chaperones, including Hsp90, Hsp70, DnaJc7, EKN1, CRN, and VCP. This suggests that the function of U box-type E3s is to mediate the degradation of unfolded or misfolded proteins in conjunction with molecular chaperones as receptors that recognise such abnormal proteins [, ]. Unlike the RING finger domain, IPR001841 from INTERPRO, that is stabilised by Zn2+ ions coordinated by the cysteines and a histidine, the U-box scaffold is probably stabilised by a system of salt-bridges and hydrogen bonds. The charged and polar residues that participate in this network of bonds are more strongly conserved in the U-box proteins than in classic RING fingers, which supports their role in maintaining the stability of the U box. Thus, the U box appears to have evolved from a RING finger domain by appropriation of a new set of residues required to stabilise its structure, concomitant with the loss of the original, metal-chelating residues [].; GO: 0004842 ubiquitin-protein ligase activity, 0016567 protein ubiquitination, 0000151 ubiquitin ligase complex; PDB: 1T1H_A 2C2L_D 2C2V_V 1WGM_A 2KR4_A 3L1Z_B 3L1X_A 2KRE_A 3M63_A 2QIZ_A ....
Probab=96.42 E-value=0.0022 Score=52.65 Aligned_cols=45 Identities=13% Similarity=0.312 Sum_probs=34.9
Q ss_pred CCCcccccccccccCCCcCCccCCCCCCceEEecCCccchHhhhhhcCCCCCCCCCCCCCCC
Q 004343 695 PIGYKCDLCNRDLSFASEGQILQPGVRPSTAVLPCGHHFHDYCLQQITPADQTDNPPCIHCD 756 (760)
Q Consensus 695 PdgqtCGICsKdLSERSsGRIsrsndLPVVAVLSCGHVFHAECLEA~TpeSqk~DPpCPLCr 756 (760)
|+.+.|+||...+.+. ++++|||+|=-.|+|+|... ....||+|.
T Consensus 2 P~~f~CpIt~~lM~dP--------------Vi~~~G~tyer~~I~~~l~~---~~~~~P~t~ 46 (73)
T PF04564_consen 2 PDEFLCPITGELMRDP--------------VILPSGHTYERSAIERWLEQ---NGGTDPFTR 46 (73)
T ss_dssp SGGGB-TTTSSB-SSE--------------EEETTSEEEEHHHHHHHHCT---TSSB-TTT-
T ss_pred CcccCCcCcCcHhhCc--------------eeCCcCCEEcHHHHHHHHHc---CCCCCCCCC
Confidence 4678999999998873 68999999999999999965 467788874
No 29
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.38 E-value=0.0012 Score=72.15 Aligned_cols=62 Identities=16% Similarity=0.281 Sum_probs=43.0
Q ss_pred cccCCCCCCCCCCCCCCcccccccccccCCCcCCccCCCCCCceEEecCCccchHhhhhhcCCCC-CCCCCCCCCCCC
Q 004343 681 IRLRLPQDSNRFPQPIGYKCDLCNRDLSFASEGQILQPGVRPSTAVLPCGHHFHDYCLQQITPAD-QTDNPPCIHCDM 757 (760)
Q Consensus 681 qRERWS~DSEqSVSPdgqtCGICsKdLSERSsGRIsrsndLPVVAVLSCGHVFHAECLEA~TpeS-qk~DPpCPLCr~ 757 (760)
..++|+.+ .++.-+..+.|+||+.. .++...-.|||+|.-.||-++..-+ .+.--.||+|+.
T Consensus 171 ~p~~~e~i-~qv~~~t~~~CPICL~~--------------~~~p~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s 233 (513)
T KOG2164|consen 171 APVDWEDI-FQVYGSTDMQCPICLEP--------------PSVPVRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRS 233 (513)
T ss_pred cccchHHh-hhhhcCcCCcCCcccCC--------------CCcccccccCceeeHHHHHHHHhhhcccCCccCCchhh
Confidence 46677333 44333348899999642 2244556799999999999987644 556678999974
No 30
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=96.35 E-value=0.0011 Score=75.93 Aligned_cols=36 Identities=39% Similarity=0.729 Sum_probs=30.9
Q ss_pred CCcccccccccccCCCcCCccCCCCCCceEEecCCccchHhhhhhcCC
Q 004343 696 IGYKCDLCNRDLSFASEGQILQPGVRPSTAVLPCGHHFHDYCLQQITP 743 (760)
Q Consensus 696 dgqtCGICsKdLSERSsGRIsrsndLPVVAVLSCGHVFHAECLEA~Tp 743 (760)
-...|.+|.+.|--+| .-|.+|||.||..||+.-+-
T Consensus 816 p~d~C~~C~~~ll~~p------------F~vf~CgH~FH~~Cl~~~v~ 851 (911)
T KOG2034|consen 816 PQDSCDHCGRPLLIKP------------FYVFPCGHCFHRDCLIRHVL 851 (911)
T ss_pred CccchHHhcchhhcCc------------ceeeeccchHHHHHHHHHHH
Confidence 4568999999998875 67999999999999987543
No 31
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.04 E-value=0.005 Score=63.36 Aligned_cols=74 Identities=26% Similarity=0.426 Sum_probs=47.0
Q ss_pred CCCCCCCCc-cccccccCCCCCCCCCCCC-CCcccccccccccCCCcCCccCCCCCCceEEecCCccchHhhhhh-cCCC
Q 004343 668 LQTAHPYSQ-MAREIRLRLPQDSNRFPQP-IGYKCDLCNRDLSFASEGQILQPGVRPSTAVLPCGHHFHDYCLQQ-ITPA 744 (760)
Q Consensus 668 ~~~~~~~ps-vA~SqRERWS~DSEqSVSP-dgqtCGICsKdLSERSsGRIsrsndLPVVAVLSCGHVFHAECLEA-~Tpe 744 (760)
+|.+-.++- ++.-..+..|....-.+-+ .-++|.||...-.. .+-+.|||+|.-.||-. ||.
T Consensus 184 ~q~sn~~~~~~q~Itken~s~kn~~pfip~~d~kC~lC~e~~~~--------------ps~t~CgHlFC~~Cl~~~~t~- 248 (271)
T COG5574 184 LQPSNNLHTLFQVITKENLSKKNGLPFIPLADYKCFLCLEEPEV--------------PSCTPCGHLFCLSCLLISWTK- 248 (271)
T ss_pred ccccCCcccceeecccccccccccCCcccccccceeeeecccCC--------------cccccccchhhHHHHHHHHHh-
Confidence 344444432 3333344444333333333 67899999875443 45789999999999999 884
Q ss_pred CCCCCCC-CCCCCCCC
Q 004343 745 DQTDNPP-CIHCDMHE 759 (760)
Q Consensus 745 Sqk~DPp-CPLCr~GE 759 (760)
..+- ||+|+..+
T Consensus 249 ---~k~~~CplCRak~ 261 (271)
T COG5574 249 ---KKYEFCPLCRAKV 261 (271)
T ss_pred ---hccccCchhhhhc
Confidence 3444 99998653
No 32
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=96.03 E-value=0.0032 Score=68.54 Aligned_cols=46 Identities=24% Similarity=0.556 Sum_probs=35.9
Q ss_pred CCcccccccccccCCCcCCccCCCCCCceEEecCCccchHhhhhhcCCCCCCCCCCCCCCCC
Q 004343 696 IGYKCDLCNRDLSFASEGQILQPGVRPSTAVLPCGHHFHDYCLQQITPADQTDNPPCIHCDM 757 (760)
Q Consensus 696 dgqtCGICsKdLSERSsGRIsrsndLPVVAVLSCGHVFHAECLEA~TpeSqk~DPpCPLCr~ 757 (760)
..-+|++|+.-+-+.-.| +.-..|-|.||..||..|. |-.||+||.
T Consensus 174 ELPTCpVCLERMD~s~~g----------i~t~~c~Hsfh~~cl~~w~------~~scpvcR~ 219 (493)
T KOG0804|consen 174 ELPTCPVCLERMDSSTTG----------ILTILCNHSFHCSCLMKWW------DSSCPVCRY 219 (493)
T ss_pred cCCCcchhHhhcCccccc----------eeeeecccccchHHHhhcc------cCcChhhhh
Confidence 556899998877654321 3455799999999999999 777999985
No 33
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=95.87 E-value=0.0043 Score=71.30 Aligned_cols=41 Identities=32% Similarity=0.776 Sum_probs=31.1
Q ss_pred CcccccccccccCCCcCCccCCCCCCceEEecCCccchHhhhhhcCCCCCCCCCCCCCCCC
Q 004343 697 GYKCDLCNRDLSFASEGQILQPGVRPSTAVLPCGHHFHDYCLQQITPADQTDNPPCIHCDM 757 (760)
Q Consensus 697 gqtCGICsKdLSERSsGRIsrsndLPVVAVLSCGHVFHAECLEA~TpeSqk~DPpCPLCr~ 757 (760)
..+|..|.-+|-= | ++=..|||.||..|+| ..+-.||.|.-
T Consensus 840 ~skCs~C~~~Ldl------------P-~VhF~CgHsyHqhC~e-------~~~~~CP~C~~ 880 (933)
T KOG2114|consen 840 VSKCSACEGTLDL------------P-FVHFLCGHSYHQHCLE-------DKEDKCPKCLP 880 (933)
T ss_pred eeeecccCCcccc------------c-eeeeecccHHHHHhhc-------cCcccCCccch
Confidence 3599999988854 3 4557899999999999 23445888864
No 34
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.86 E-value=0.0046 Score=53.83 Aligned_cols=34 Identities=29% Similarity=0.664 Sum_probs=30.6
Q ss_pred CCcccccccccccCCCcCCccCCCCCCceEEecCCccchHhhhhhcCC
Q 004343 696 IGYKCDLCNRDLSFASEGQILQPGVRPSTAVLPCGHHFHDYCLQQITP 743 (760)
Q Consensus 696 dgqtCGICsKdLSERSsGRIsrsndLPVVAVLSCGHVFHAECLEA~Tp 743 (760)
+...|.||...+.+. .+|+|||.|-..||+.+..
T Consensus 12 ~~~~C~iC~~~~~~p--------------~~l~C~H~~c~~C~~~~~~ 45 (386)
T KOG2177|consen 12 EELTCPICLEYFREP--------------VLLPCGHNFCRACLTRSWE 45 (386)
T ss_pred ccccChhhHHHhhcC--------------ccccccchHhHHHHHHhcC
Confidence 567899999999884 5999999999999999987
No 35
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=95.77 E-value=0.0047 Score=51.13 Aligned_cols=52 Identities=23% Similarity=0.459 Sum_probs=21.7
Q ss_pred cccccccccccCCCcCCccCCCCCCceEEe--cCCccchHhhhhhcCCCCCC----CCC---CCCCCCC
Q 004343 698 YKCDLCNRDLSFASEGQILQPGVRPSTAVL--PCGHHFHDYCLQQITPADQT----DNP---PCIHCDM 757 (760)
Q Consensus 698 qtCGICsKdLSERSsGRIsrsndLPVVAVL--SCGHVFHAECLEA~TpeSqk----~DP---pCPLCr~ 757 (760)
..|+||-..+-+.. +.+++.-- .|+++||..||..|+....+ ..| .||.|..
T Consensus 3 ~~C~IC~~~~~~~~--------~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~ 63 (70)
T PF11793_consen 3 LECGICYSYRLDDG--------EIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSS 63 (70)
T ss_dssp -S-SSS--SS-TT-------------B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-S
T ss_pred CCCCcCCcEecCCC--------CcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCC
Confidence 47999977654221 22222222 79999999999999763322 334 4999974
No 36
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=95.34 E-value=0.017 Score=51.57 Aligned_cols=57 Identities=21% Similarity=0.334 Sum_probs=41.5
Q ss_pred CcccccccccccCC-Cc-CCccCCCCCCceEEecCCccchHhhhhhcCCCCCCCCCCCCCCCC
Q 004343 697 GYKCDLCNRDLSFA-SE-GQILQPGVRPSTAVLPCGHHFHDYCLQQITPADQTDNPPCIHCDM 757 (760)
Q Consensus 697 gqtCGICsKdLSER-Ss-GRIsrsndLPVVAVLSCGHVFHAECLEA~TpeSqk~DPpCPLCr~ 757 (760)
...|+||-...-+. ++ +.-...++-=+++-=.|-|.||+.|+..|. ++.-.||+|+.
T Consensus 20 id~CaICRnhim~~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL----~Tk~~CPld~q 78 (88)
T COG5194 20 IDVCAICRNHIMGTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWL----DTKGVCPLDRQ 78 (88)
T ss_pred cchhhhhhccccCcCcccccCCCCCCcceEEEEecchHHHHHHHHHHH----hhCCCCCCCCc
Confidence 47899998877665 21 111234444467788899999999999998 45778999985
No 37
>PF04641 Rtf2: Rtf2 RING-finger
Probab=95.31 E-value=0.01 Score=58.53 Aligned_cols=49 Identities=16% Similarity=0.436 Sum_probs=39.6
Q ss_pred CCCCcccccccccccCCCcCCccCCCCCCceEEecCCccchHhhhhhcCCCCCCCCCCCCCCCC
Q 004343 694 QPIGYKCDLCNRDLSFASEGQILQPGVRPSTAVLPCGHHFHDYCLQQITPADQTDNPPCIHCDM 757 (760)
Q Consensus 694 SPdgqtCGICsKdLSERSsGRIsrsndLPVVAVLSCGHVFHAECLEA~TpeSqk~DPpCPLCr~ 757 (760)
....+.|+|+.+.|..+. +.|++.+|||||=.+||+.+. .+-.||+|..
T Consensus 110 ~~~~~~CPvt~~~~~~~~----------~fv~l~~cG~V~s~~alke~k-----~~~~Cp~c~~ 158 (260)
T PF04641_consen 110 SEGRFICPVTGKEFNGKH----------KFVYLRPCGCVFSEKALKELK-----KSKKCPVCGK 158 (260)
T ss_pred CCceeECCCCCcccCCce----------eEEEEcCCCCEeeHHHHHhhc-----ccccccccCC
Confidence 347889999999886643 478999999999999999994 2344999974
No 38
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.96 E-value=0.013 Score=59.23 Aligned_cols=48 Identities=25% Similarity=0.447 Sum_probs=37.0
Q ss_pred CCCcccccccccccCCCcCCccCCCCCCceEEecCCccchHhhhhhcCCCCCCCCCCCCCCCC
Q 004343 695 PIGYKCDLCNRDLSFASEGQILQPGVRPSTAVLPCGHHFHDYCLQQITPADQTDNPPCIHCDM 757 (760)
Q Consensus 695 PdgqtCGICsKdLSERSsGRIsrsndLPVVAVLSCGHVFHAECLEA~TpeSqk~DPpCPLCr~ 757 (760)
-..++|-||+..-.+ + .|=.|||.|.--||=+|. ......-.||+|..
T Consensus 45 ~~~FdCNICLd~akd-P-------------VvTlCGHLFCWpClyqWl-~~~~~~~~cPVCK~ 92 (230)
T KOG0823|consen 45 GGFFDCNICLDLAKD-P-------------VVTLCGHLFCWPCLYQWL-QTRPNSKECPVCKA 92 (230)
T ss_pred CCceeeeeeccccCC-C-------------EEeecccceehHHHHHHH-hhcCCCeeCCcccc
Confidence 367899999854433 3 577799999999999998 44456667899964
No 39
>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=94.92 E-value=0.018 Score=45.16 Aligned_cols=31 Identities=26% Similarity=0.587 Sum_probs=25.1
Q ss_pred eEEecCC-----ccchHhhhhhcCCCCCCCCCCCCCCC
Q 004343 724 TAVLPCG-----HHFHDYCLQQITPADQTDNPPCIHCD 756 (760)
Q Consensus 724 VAVLSCG-----HVFHAECLEA~TpeSqk~DPpCPLCr 756 (760)
.-+++|. |.+|..||+.|..+..+ -.|++|.
T Consensus 14 ~l~~PC~C~G~~~~vH~~Cl~~W~~~~~~--~~C~iC~ 49 (49)
T smart00744 14 PLVSPCRCKGSLKYVHQECLERWINESGN--KTCEICK 49 (49)
T ss_pred eeEeccccCCchhHHHHHHHHHHHHHcCC--CcCCCCC
Confidence 3488996 99999999999976643 4899983
No 40
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=94.89 E-value=0.015 Score=61.38 Aligned_cols=61 Identities=20% Similarity=0.408 Sum_probs=44.9
Q ss_pred cccCCCCCCCCCCCC--CCcccccccccccCCCcCCccCCCCCCceEEecCCccchHhhhhhcCCCCCCCCCCCCCCCCC
Q 004343 681 IRLRLPQDSNRFPQP--IGYKCDLCNRDLSFASEGQILQPGVRPSTAVLPCGHHFHDYCLQQITPADQTDNPPCIHCDMH 758 (760)
Q Consensus 681 qRERWS~DSEqSVSP--dgqtCGICsKdLSERSsGRIsrsndLPVVAVLSCGHVFHAECLEA~TpeSqk~DPpCPLCr~G 758 (760)
.-.+|..-...+.-- ...+|-||.-.++- -.+-+|||.|...|+..-. ...|-||+|+..
T Consensus 7 ~~SD~~~T~IPSL~~LDs~lrC~IC~~~i~i--------------p~~TtCgHtFCslCIR~hL----~~qp~CP~Cr~~ 68 (391)
T COG5432 7 DPSDWNQTKIPSLKGLDSMLRCRICDCRISI--------------PCETTCGHTFCSLCIRRHL----GTQPFCPVCRED 68 (391)
T ss_pred CccccccccCcchhcchhHHHhhhhhheeec--------------ceecccccchhHHHHHHHh----cCCCCCcccccc
Confidence 345776655554332 55689999877654 3577999999999998876 568999999975
Q ss_pred C
Q 004343 759 E 759 (760)
Q Consensus 759 E 759 (760)
+
T Consensus 69 ~ 69 (391)
T COG5432 69 P 69 (391)
T ss_pred H
Confidence 3
No 41
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=94.85 E-value=0.012 Score=52.26 Aligned_cols=56 Identities=21% Similarity=0.415 Sum_probs=37.9
Q ss_pred ccccccccccCC-CcCCccCCCCCCceEEecCCccchHhhhhhcCCCCCCCCCCCCCCCC
Q 004343 699 KCDLCNRDLSFA-SEGQILQPGVRPSTAVLPCGHHFHDYCLQQITPADQTDNPPCIHCDM 757 (760)
Q Consensus 699 tCGICsKdLSER-SsGRIsrsndLPVVAVLSCGHVFHAECLEA~TpeSqk~DPpCPLCr~ 757 (760)
+||||-...... +.=+ +-..+.|. .+=-|.|.||+.|+..|..-. ...-.||+|+.
T Consensus 22 ~CGiCRm~Fdg~Cp~Ck-~PgDdCPL-v~G~C~h~fh~hCI~~wl~~~-tsq~~CPmcRq 78 (84)
T KOG1493|consen 22 TCGICRMPFDGCCPDCK-LPGDDCPL-VWGYCLHAFHAHCILKWLNTP-TSQGQCPMCRQ 78 (84)
T ss_pred ccceEecccCCcCCCCc-CCCCCCcc-HHHHHHHHHHHHHHHHHhcCc-cccccCCcchh
Confidence 899998877654 2111 11124443 233799999999999998544 34588999985
No 42
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=94.82 E-value=0.0061 Score=64.44 Aligned_cols=45 Identities=29% Similarity=0.582 Sum_probs=36.8
Q ss_pred cccccccccccCCCcCCccCCCCCCceEEecCCccchHhhhhhcCCCCCCCCCCCCCCCCC
Q 004343 698 YKCDLCNRDLSFASEGQILQPGVRPSTAVLPCGHHFHDYCLQQITPADQTDNPPCIHCDMH 758 (760)
Q Consensus 698 qtCGICsKdLSERSsGRIsrsndLPVVAVLSCGHVFHAECLEA~TpeSqk~DPpCPLCr~G 758 (760)
..|.+|..+|... +-.-.|||.|..|||+....++ |..||.|.+.
T Consensus 275 LkCplc~~Llrnp-------------~kT~cC~~~fc~eci~~al~ds---Df~CpnC~rk 319 (427)
T COG5222 275 LKCPLCHCLLRNP-------------MKTPCCGHTFCDECIGTALLDS---DFKCPNCSRK 319 (427)
T ss_pred ccCcchhhhhhCc-------------ccCccccchHHHHHHhhhhhhc---cccCCCcccc
Confidence 7899999999874 3346899999999999877654 7889999763
No 43
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.20 E-value=0.021 Score=60.97 Aligned_cols=46 Identities=30% Similarity=0.673 Sum_probs=38.1
Q ss_pred CCCcccccccccccCCCcCCccCCCCCCceEEecCCccchHhhhhhcCCCCCCCCCCCCCCCCC
Q 004343 695 PIGYKCDLCNRDLSFASEGQILQPGVRPSTAVLPCGHHFHDYCLQQITPADQTDNPPCIHCDMH 758 (760)
Q Consensus 695 PdgqtCGICsKdLSERSsGRIsrsndLPVVAVLSCGHVFHAECLEA~TpeSqk~DPpCPLCr~G 758 (760)
+.-+.|.+|.+.|... ++++|||.|-..||++.. .+.+.||.|+.+
T Consensus 82 ~sef~c~vc~~~l~~p--------------v~tpcghs~c~~Cl~r~l----d~~~~cp~Cr~~ 127 (398)
T KOG4159|consen 82 RSEFECCVCSRALYPP--------------VVTPCGHSFCLECLDRSL----DQETECPLCRDE 127 (398)
T ss_pred cchhhhhhhHhhcCCC--------------ccccccccccHHHHHHHh----ccCCCCcccccc
Confidence 5778999998888764 467999999999999944 478899999864
No 44
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=93.31 E-value=0.02 Score=66.08 Aligned_cols=46 Identities=13% Similarity=0.185 Sum_probs=32.6
Q ss_pred CcccccccccccCCCcCCccCCCCCCceEEecCCccchHhhhhhcCCCCCCCCCCCCCCCC
Q 004343 697 GYKCDLCNRDLSFASEGQILQPGVRPSTAVLPCGHHFHDYCLQQITPADQTDNPPCIHCDM 757 (760)
Q Consensus 697 gqtCGICsKdLSERSsGRIsrsndLPVVAVLSCGHVFHAECLEA~TpeSqk~DPpCPLCr~ 757 (760)
...|++|.+...+.- +.+=-.|+|.||.+|++.|+ +..-.||+|+.
T Consensus 123 ~~~CP~Ci~s~~DqL-----------~~~~k~c~H~FC~~Ci~sWs----R~aqTCPiDR~ 168 (1134)
T KOG0825|consen 123 ENQCPNCLKSCNDQL-----------EESEKHTAHYFCEECVGSWS----RCAQTCPVDRG 168 (1134)
T ss_pred hhhhhHHHHHHHHHh-----------hccccccccccHHHHhhhhh----hhcccCchhhh
Confidence 345666655544432 34556899999999999999 44557999975
No 45
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=93.05 E-value=0.02 Score=64.93 Aligned_cols=44 Identities=30% Similarity=0.656 Sum_probs=33.3
Q ss_pred CCcccccccccccCCCcCCccCCCCCCceEEecCCccchHhhhhhcCCCCCCCCCCCC
Q 004343 696 IGYKCDLCNRDLSFASEGQILQPGVRPSTAVLPCGHHFHDYCLQQITPADQTDNPPCI 753 (760)
Q Consensus 696 dgqtCGICsKdLSERSsGRIsrsndLPVVAVLSCGHVFHAECLEA~TpeSqk~DPpCP 753 (760)
...+|+.|.. ..+ .+++.-|||+|..+|.+.++.-.+..+|.|-
T Consensus 642 ~~LkCs~Cn~--R~K------------d~vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn 685 (698)
T KOG0978|consen 642 ELLKCSVCNT--RWK------------DAVITKCGHVFCEECVQTRYETRQRKCPKCN 685 (698)
T ss_pred hceeCCCccC--chh------------hHHHHhcchHHHHHHHHHHHHHhcCCCCCCC
Confidence 5568999982 222 3678899999999999999976666655553
No 46
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=92.69 E-value=0.049 Score=55.32 Aligned_cols=44 Identities=27% Similarity=0.680 Sum_probs=35.8
Q ss_pred CCcccccccccccCCCcCCccCCCCCCceEEecCCccchHhhhhhcCCCCCCCCCCCCCCCC
Q 004343 696 IGYKCDLCNRDLSFASEGQILQPGVRPSTAVLPCGHHFHDYCLQQITPADQTDNPPCIHCDM 757 (760)
Q Consensus 696 dgqtCGICsKdLSERSsGRIsrsndLPVVAVLSCGHVFHAECLEA~TpeSqk~DPpCPLCr~ 757 (760)
--+.|+||.++.... .|--|||.|...|-...+ ..-+.|.+|..
T Consensus 195 IPF~C~iCKkdy~sp--------------vvt~CGH~FC~~Cai~~y----~kg~~C~~Cgk 238 (259)
T COG5152 195 IPFLCGICKKDYESP--------------VVTECGHSFCSLCAIRKY----QKGDECGVCGK 238 (259)
T ss_pred Cceeehhchhhccch--------------hhhhcchhHHHHHHHHHh----ccCCcceecch
Confidence 345899999998774 467899999999988777 45678999964
No 47
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.04 E-value=0.093 Score=54.14 Aligned_cols=59 Identities=32% Similarity=0.530 Sum_probs=42.7
Q ss_pred ccCCCCCCCCCCCCCCcccccccccccCCCcCCccCCCCCCceEEecCCccchHhhhhhcCCC----CCCCCCCCCCCCC
Q 004343 682 RLRLPQDSNRFPQPIGYKCDLCNRDLSFASEGQILQPGVRPSTAVLPCGHHFHDYCLQQITPA----DQTDNPPCIHCDM 757 (760)
Q Consensus 682 RERWS~DSEqSVSPdgqtCGICsKdLSERSsGRIsrsndLPVVAVLSCGHVFHAECLEA~Tpe----Sqk~DPpCPLCr~ 757 (760)
+..|-+|+.- --.|-+|...|.+.. ..=|.|=|+||-.||..+-.- +.--.-.||-|..
T Consensus 40 YLqWL~DsDY-----~pNC~LC~t~La~gd------------t~RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~ 102 (299)
T KOG3970|consen 40 YLQWLQDSDY-----NPNCRLCNTPLASGD------------TTRLVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQ 102 (299)
T ss_pred HHHHHhhcCC-----CCCCceeCCccccCc------------ceeehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCC
Confidence 5567666544 247999999999874 567999999999999887541 1123456888863
No 48
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=91.89 E-value=0.072 Score=54.96 Aligned_cols=34 Identities=26% Similarity=0.611 Sum_probs=28.4
Q ss_pred CCCceEEecCCccchHhhhhhcCCCCCCCCCCCCCCCC
Q 004343 720 VRPSTAVLPCGHHFHDYCLQQITPADQTDNPPCIHCDM 757 (760)
Q Consensus 720 dLPVVAVLSCGHVFHAECLEA~TpeSqk~DPpCPLCr~ 757 (760)
-.+.+.+|.|||.-|..|+|.+.-+ .-.||+|.+
T Consensus 171 s~~~~~~~~CgH~~h~~cf~e~~~~----~y~CP~C~~ 204 (276)
T KOG1940|consen 171 SFEDAGVLKCGHYMHSRCFEEMICE----GYTCPICSK 204 (276)
T ss_pred ccccCCccCcccchHHHHHHHHhcc----CCCCCcccc
Confidence 3567899999999999999999843 367999976
No 49
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=89.97 E-value=0.34 Score=51.87 Aligned_cols=82 Identities=22% Similarity=0.385 Sum_probs=53.5
Q ss_pred cchhhhhhcccCCCCCCCCCCCCCCCCccccccccCCCCC----CCCCCCCCCcccccccccccCCCcCCccCCCCCCce
Q 004343 649 RTADFLRTLSQSRYPLPHPLQTAHPYSQMAREIRLRLPQD----SNRFPQPIGYKCDLCNRDLSFASEGQILQPGVRPST 724 (760)
Q Consensus 649 ~~a~~~~~~~~~R~Pl~~~~~~~~~~psvA~SqRERWS~D----SEqSVSPdgqtCGICsKdLSERSsGRIsrsndLPVV 724 (760)
.+-+--..|++--.|+--.+-..++ |..|.+- .|+..-+...-|.-|.+.+.-- |
T Consensus 46 ~tv~~e~~~~~~~~p~f~~~~r~pp--------hl~w~~~V~~~gek~l~p~VHfCd~Cd~PI~IY--G----------- 104 (389)
T KOG2932|consen 46 VTVACEDHLVLADLPVFKGIGRVPP--------HLTWIKPVGRRGEKQLGPRVHFCDRCDFPIAIY--G----------- 104 (389)
T ss_pred eeeccchhhhhcCCchhcccccCCC--------ceeeeeecccccccccCcceEeecccCCcceee--e-----------
Confidence 3444445566666666555433333 7888654 3445555677899998876542 2
Q ss_pred EEecCCccchHhhhhhcCCCCCCCCCCCCCCCC
Q 004343 725 AVLPCGHHFHDYCLQQITPADQTDNPPCIHCDM 757 (760)
Q Consensus 725 AVLSCGHVFHAECLEA~TpeSqk~DPpCPLCr~ 757 (760)
.+.+|-|||..+|-..-. |-.||.|..
T Consensus 105 RmIPCkHvFCl~CAr~~~------dK~Cp~C~d 131 (389)
T KOG2932|consen 105 RMIPCKHVFCLECARSDS------DKICPLCDD 131 (389)
T ss_pred cccccchhhhhhhhhcCc------cccCcCccc
Confidence 378999999888865433 667999974
No 50
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=89.01 E-value=0.24 Score=40.29 Aligned_cols=44 Identities=20% Similarity=0.409 Sum_probs=29.2
Q ss_pred CCcccccccccccCCCcCCccCCCCCCceEEecCCccchHhhhhhcCCCCCCCCCCCCC
Q 004343 696 IGYKCDLCNRDLSFASEGQILQPGVRPSTAVLPCGHHFHDYCLQQITPADQTDNPPCIH 754 (760)
Q Consensus 696 dgqtCGICsKdLSERSsGRIsrsndLPVVAVLSCGHVFHAECLEA~TpeSqk~DPpCPL 754 (760)
...+|+|..+.|.+. |.=..|||+|=-+.++++. .....-.||+
T Consensus 10 ~~~~CPiT~~~~~~P-------------V~s~~C~H~fek~aI~~~i--~~~~~~~CPv 53 (57)
T PF11789_consen 10 ISLKCPITLQPFEDP-------------VKSKKCGHTFEKEAILQYI--QRNGSKRCPV 53 (57)
T ss_dssp --SB-TTTSSB-SSE-------------EEESSS--EEEHHHHHHHC--TTTS-EE-SC
T ss_pred eccCCCCcCChhhCC-------------cCcCCCCCeecHHHHHHHH--HhcCCCCCCC
Confidence 557899999998873 4455899999999999999 3456778998
No 51
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=88.83 E-value=0.19 Score=53.17 Aligned_cols=56 Identities=20% Similarity=0.543 Sum_probs=41.3
Q ss_pred CCcccccccccccCCCcCCccCCCCCCceEEec-CCccchHhhhhhcCCCC---CCCCCCCCCCCCC
Q 004343 696 IGYKCDLCNRDLSFASEGQILQPGVRPSTAVLP-CGHHFHDYCLQQITPAD---QTDNPPCIHCDMH 758 (760)
Q Consensus 696 dgqtCGICsKdLSERSsGRIsrsndLPVVAVLS-CGHVFHAECLEA~TpeS---qk~DPpCPLCr~G 758 (760)
...+||||..-+.++. +. ....++|+ |-|.|--.|+..|-... .+.-..||.|+..
T Consensus 160 ~~k~CGICme~i~ek~-~~------~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~ 219 (344)
T KOG1039|consen 160 SEKECGICMETINEKA-AS------ERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVP 219 (344)
T ss_pred ccccceehhhhccccc-hh------hhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCc
Confidence 5668999999999886 32 23345555 99999999999998433 3346788888753
No 52
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=88.13 E-value=0.19 Score=56.26 Aligned_cols=49 Identities=29% Similarity=0.669 Sum_probs=32.4
Q ss_pred CCcccccccccccCCCcCCccCCCCCCceEEecCCccchHhhhhhcCCCCCCCCCCCCCCCC
Q 004343 696 IGYKCDLCNRDLSFASEGQILQPGVRPSTAVLPCGHHFHDYCLQQITPADQTDNPPCIHCDM 757 (760)
Q Consensus 696 dgqtCGICsKdLSERSsGRIsrsndLPVVAVLSCGHVFHAECLEA~TpeSqk~DPpCPLCr~ 757 (760)
-++.|-|| +.. ..|..-..-.+..=+.||+|||.+|++..-.- ||.|.+
T Consensus 510 ~gfiCe~C-----q~~-~iiyPF~~~~~~rC~~C~avfH~~C~~r~s~~-------CPrC~R 558 (580)
T KOG1829|consen 510 KGFICELC-----QHN-DIIYPFETRNTRRCSTCLAVFHKKCLRRKSPC-------CPRCER 558 (580)
T ss_pred Ceeeeeec-----cCC-CcccccccccceeHHHHHHHHHHHHHhccCCC-------CCchHH
Confidence 56677777 111 11222224556778999999999999876532 999965
No 53
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=87.64 E-value=0.41 Score=49.98 Aligned_cols=48 Identities=19% Similarity=0.368 Sum_probs=40.0
Q ss_pred CCcccccccccccCCCcCCccCCCCCCceEEecCCccchHhhhhhcCCCCCCCCCCCCCCCC
Q 004343 696 IGYKCDLCNRDLSFASEGQILQPGVRPSTAVLPCGHHFHDYCLQQITPADQTDNPPCIHCDM 757 (760)
Q Consensus 696 dgqtCGICsKdLSERSsGRIsrsndLPVVAVLSCGHVFHAECLEA~TpeSqk~DPpCPLCr~ 757 (760)
.-+.|++|.-.|+. ..|-+++-+|||||--+|.|.+. ..|-.||+|.+
T Consensus 220 ~ryiCpvtrd~LtN----------t~~ca~Lr~sg~Vv~~ecvEkli----r~D~v~pv~d~ 267 (303)
T KOG3039|consen 220 KRYICPVTRDTLTN----------TTPCAVLRPSGHVVTKECVEKLI----RKDMVDPVTDK 267 (303)
T ss_pred cceecccchhhhcC----------ccceEEeccCCcEeeHHHHHHhc----cccccccCCCC
Confidence 67899999888876 45678888999999999999998 45777888864
No 54
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=87.62 E-value=0.39 Score=41.21 Aligned_cols=42 Identities=21% Similarity=0.514 Sum_probs=22.1
Q ss_pred CcccccccccccCCCcCCccCCCCCCceEEecCCccchHhhhhhcCCCCCCCCCCCCCCCC
Q 004343 697 GYKCDLCNRDLSFASEGQILQPGVRPSTAVLPCGHHFHDYCLQQITPADQTDNPPCIHCDM 757 (760)
Q Consensus 697 gqtCGICsKdLSERSsGRIsrsndLPVVAVLSCGHVFHAECLEA~TpeSqk~DPpCPLCr~ 757 (760)
..+|.+|...|.+ +|-+-.|.|+|-..|...... + .||+|..
T Consensus 7 lLrCs~C~~~l~~-------------pv~l~~CeH~fCs~Ci~~~~~-~-----~CPvC~~ 48 (65)
T PF14835_consen 7 LLRCSICFDILKE-------------PVCLGGCEHIFCSSCIRDCIG-S-----ECPVCHT 48 (65)
T ss_dssp TTS-SSS-S--SS--------------B---SSS--B-TTTGGGGTT-T-----B-SSS--
T ss_pred hcCCcHHHHHhcC-------------CceeccCccHHHHHHhHHhcC-C-----CCCCcCC
Confidence 4689999998887 466889999999999977553 2 2999974
No 55
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=87.30 E-value=0.3 Score=45.57 Aligned_cols=58 Identities=16% Similarity=0.280 Sum_probs=40.4
Q ss_pred CCcccccccccccCC---CcCCccCCCCCCceEEecCCccchHhhhhhcCCCCCCCCCCCCCCCC
Q 004343 696 IGYKCDLCNRDLSFA---SEGQILQPGVRPSTAVLPCGHHFHDYCLQQITPADQTDNPPCIHCDM 757 (760)
Q Consensus 696 dgqtCGICsKdLSER---SsGRIsrsndLPVVAVLSCGHVFHAECLEA~TpeSqk~DPpCPLCr~ 757 (760)
....|.||-.-+-+. =+..-....+-=+||==.|-|.||..|+-.|. ++.-.||+|.+
T Consensus 45 ~vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWl----ktr~vCPLdn~ 105 (114)
T KOG2930|consen 45 VVDNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWL----KTRNVCPLDNK 105 (114)
T ss_pred eechhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHH----hhcCcCCCcCc
Confidence 456899996544221 11111333444567888999999999999999 67778999975
No 56
>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=86.87 E-value=0.35 Score=45.93 Aligned_cols=43 Identities=14% Similarity=0.406 Sum_probs=30.1
Q ss_pred CCcccccccccccCCCcCCccCCCCCCceEEecCC------ccchHhhhhhcCCCCCCCCC
Q 004343 696 IGYKCDLCNRDLSFASEGQILQPGVRPSTAVLPCG------HHFHDYCLQQITPADQTDNP 750 (760)
Q Consensus 696 dgqtCGICsKdLSERSsGRIsrsndLPVVAVLSCG------HVFHAECLEA~TpeSqk~DP 750 (760)
....|.||...+... . -|..++|| |.||++|++.|. ...+.||
T Consensus 25 ~~~EC~IC~~~I~~~-~----------GvV~vt~~g~lnLEkmfc~~C~~rw~-~~~~rDP 73 (134)
T PF05883_consen 25 CTVECQICFDRIDNN-D----------GVVYVTDGGTLNLEKMFCADCDKRWR-RERNRDP 73 (134)
T ss_pred cCeeehhhhhhhhcC-C----------CEEEEecCCeehHHHHHHHHHHHHHH-hhccCCC
Confidence 356799998777661 1 25556666 899999999996 3334555
No 57
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=86.73 E-value=0.24 Score=55.84 Aligned_cols=49 Identities=20% Similarity=0.485 Sum_probs=37.5
Q ss_pred CCcccccccccccCCCcCCccCCCCCCceEEecCCccchHhhh-hhcCCCCCCCCCCCCCCCCC
Q 004343 696 IGYKCDLCNRDLSFASEGQILQPGVRPSTAVLPCGHHFHDYCL-QQITPADQTDNPPCIHCDMH 758 (760)
Q Consensus 696 dgqtCGICsKdLSERSsGRIsrsndLPVVAVLSCGHVFHAECL-EA~TpeSqk~DPpCPLCr~G 758 (760)
....|+||...-.+ ..+-+|+|+|.-.|+ |-+..+.+...-.||.|..+
T Consensus 535 ~~~~C~lc~d~aed--------------~i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~ 584 (791)
T KOG1002|consen 535 GEVECGLCHDPAED--------------YIESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIG 584 (791)
T ss_pred CceeecccCChhhh--------------hHhhhhhHHHHHHHHHHHHHhhhcccCCCCcccccc
Confidence 56789999754333 246689999999999 55566667777999999865
No 58
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=86.40 E-value=0.26 Score=58.40 Aligned_cols=51 Identities=25% Similarity=0.486 Sum_probs=37.7
Q ss_pred CCccccccccccc--CCCcCCccCCCCCCceEEecCCccchHhhhhhcCCCCCCCCCCCCCCCC
Q 004343 696 IGYKCDLCNRDLS--FASEGQILQPGVRPSTAVLPCGHHFHDYCLQQITPADQTDNPPCIHCDM 757 (760)
Q Consensus 696 dgqtCGICsKdLS--ERSsGRIsrsndLPVVAVLSCGHVFHAECLEA~TpeSqk~DPpCPLCr~ 757 (760)
+...|.||=--|. +|+ +|--.-=.|-|-||+.||=.|..-+. .-.||+||.
T Consensus 1468 G~eECaICYsvL~~vdr~---------lPskrC~TCknKFH~~CLyKWf~Ss~--~s~CPlCRs 1520 (1525)
T COG5219 1468 GHEECAICYSVLDMVDRS---------LPSKRCATCKNKFHTRCLYKWFASSA--RSNCPLCRS 1520 (1525)
T ss_pred CcchhhHHHHHHHHHhcc---------CCccccchhhhhhhHHHHHHHHHhcC--CCCCCcccc
Confidence 6778999976664 443 11222446999999999999996554 667999984
No 59
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=84.69 E-value=0.62 Score=49.94 Aligned_cols=59 Identities=25% Similarity=0.484 Sum_probs=38.6
Q ss_pred cccccccCCCCCCCCCCCCCCcccccccccccCCCcCCccCCCCCCceEEecCCccchHhhhhhcCCCCCCCCCCCCCCC
Q 004343 677 MAREIRLRLPQDSNRFPQPIGYKCDLCNRDLSFASEGQILQPGVRPSTAVLPCGHHFHDYCLQQITPADQTDNPPCIHCD 756 (760)
Q Consensus 677 vA~SqRERWS~DSEqSVSPdgqtCGICsKdLSERSsGRIsrsndLPVVAVLSCGHVFHAECLEA~TpeSqk~DPpCPLCr 756 (760)
-++--||.| .+..+-..+.-..|-+|..- .+ -+.-++|||+-- | |..+ +.-|.||+|+
T Consensus 286 g~~gtr~~~-~~~~~~~~~~p~lcVVcl~e--~~------------~~~fvpcGh~cc--c----t~cs-~~l~~CPvCR 343 (355)
T KOG1571|consen 286 GVRGTRIQN-ENGTFRELPQPDLCVVCLDE--PK------------SAVFVPCGHVCC--C----TLCS-KHLPQCPVCR 343 (355)
T ss_pred ccccccccc-ccCcccccCCCCceEEecCC--cc------------ceeeecCCcEEE--c----hHHH-hhCCCCchhH
Confidence 344558888 66666666677789999531 11 268999999933 3 2222 3567799998
Q ss_pred C
Q 004343 757 M 757 (760)
Q Consensus 757 ~ 757 (760)
.
T Consensus 344 ~ 344 (355)
T KOG1571|consen 344 Q 344 (355)
T ss_pred H
Confidence 4
No 60
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=82.39 E-value=1 Score=47.39 Aligned_cols=48 Identities=21% Similarity=0.526 Sum_probs=35.4
Q ss_pred CCCcccccccccccCCCcCCccCCCCCCceEEecCCccchHhhhhhcCCCCCCCCCCCCCCCC
Q 004343 695 PIGYKCDLCNRDLSFASEGQILQPGVRPSTAVLPCGHHFHDYCLQQITPADQTDNPPCIHCDM 757 (760)
Q Consensus 695 PdgqtCGICsKdLSERSsGRIsrsndLPVVAVLSCGHVFHAECLEA~TpeSqk~DPpCPLCr~ 757 (760)
.+..+|++|+++=+- +-....|||+|.-.|+..-...+. -..||.|..
T Consensus 237 t~~~~C~~Cg~~Pti-------------P~~~~~C~HiyCY~Ci~ts~~~~a--sf~Cp~Cg~ 284 (298)
T KOG2879|consen 237 TSDTECPVCGEPPTI-------------PHVIGKCGHIYCYYCIATSRLWDA--SFTCPLCGE 284 (298)
T ss_pred cCCceeeccCCCCCC-------------Ceeeccccceeehhhhhhhhcchh--hcccCccCC
Confidence 478899999876443 235678999999999988764331 356999963
No 61
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=81.31 E-value=0.82 Score=48.41 Aligned_cols=45 Identities=24% Similarity=0.608 Sum_probs=35.8
Q ss_pred CCCcccccccccccCCCcCCccCCCCCCceEEecCCccchHhhhhhcCCCCCCCCCCCCCCCC
Q 004343 695 PIGYKCDLCNRDLSFASEGQILQPGVRPSTAVLPCGHHFHDYCLQQITPADQTDNPPCIHCDM 757 (760)
Q Consensus 695 PdgqtCGICsKdLSERSsGRIsrsndLPVVAVLSCGHVFHAECLEA~TpeSqk~DPpCPLCr~ 757 (760)
...+.|.||.+..... +|-.|||.|...|--.-+ ..-+.|++|..
T Consensus 239 ~~Pf~c~icr~~f~~p--------------Vvt~c~h~fc~~ca~~~~----qk~~~c~vC~~ 283 (313)
T KOG1813|consen 239 LLPFKCFICRKYFYRP--------------VVTKCGHYFCEVCALKPY----QKGEKCYVCSQ 283 (313)
T ss_pred cCCccccccccccccc--------------hhhcCCceeehhhhcccc----ccCCcceeccc
Confidence 4667899999988764 477999999999976655 34488999975
No 62
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=81.10 E-value=0.84 Score=48.20 Aligned_cols=45 Identities=24% Similarity=0.510 Sum_probs=36.8
Q ss_pred CCcccccccccccCCCcCCccCCCCCCceEEecCCccchHhhhhhcCCCCCCCCCCCCCCCC
Q 004343 696 IGYKCDLCNRDLSFASEGQILQPGVRPSTAVLPCGHHFHDYCLQQITPADQTDNPPCIHCDM 757 (760)
Q Consensus 696 dgqtCGICsKdLSERSsGRIsrsndLPVVAVLSCGHVFHAECLEA~TpeSqk~DPpCPLCr~ 757 (760)
.-..|.+|-..|.+.. =...|||.|-+.|+..+... .+.||.|+.
T Consensus 20 ~~l~C~~C~~vl~~p~-------------~~~~cgh~fC~~C~~~~~~~----~~~cp~~~~ 64 (391)
T KOG0297|consen 20 ENLLCPICMSVLRDPV-------------QTTTCGHRFCAGCLLESLSN----HQKCPVCRQ 64 (391)
T ss_pred ccccCccccccccCCC-------------CCCCCCCcccccccchhhcc----CcCCccccc
Confidence 4578999999998853 11589999999999999944 889999964
No 63
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=79.75 E-value=1.2 Score=43.07 Aligned_cols=48 Identities=27% Similarity=0.718 Sum_probs=32.9
Q ss_pred CCcccccccccccCCCcCCccCCCCC-CceEEecCCccchHhhhhhcCCCCCCCCCCCCCCCCCC
Q 004343 696 IGYKCDLCNRDLSFASEGQILQPGVR-PSTAVLPCGHHFHDYCLQQITPADQTDNPPCIHCDMHE 759 (760)
Q Consensus 696 dgqtCGICsKdLSERSsGRIsrsndL-PVVAVLSCGHVFHAECLEA~TpeSqk~DPpCPLCr~GE 759 (760)
-++.|-+|... .++=+.+. .++.=-.|+-|||.+|.+. -.||.|.+..
T Consensus 151 kGfiCe~C~~~-------~~IfPF~~~~~~~C~~C~~v~H~~C~~~---------~~CpkC~R~~ 199 (202)
T PF13901_consen 151 KGFICEICNSD-------DIIFPFQIDTTVRCPKCKSVFHKSCFRK---------KSCPKCARRQ 199 (202)
T ss_pred CCCCCccCCCC-------CCCCCCCCCCeeeCCcCccccchhhcCC---------CCCCCcHhHh
Confidence 56677777432 22333344 6777889999999999984 1299998653
No 64
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=79.23 E-value=0.99 Score=49.83 Aligned_cols=47 Identities=23% Similarity=0.582 Sum_probs=35.7
Q ss_pred CCCcccccccccccCCCcCCccCCCCCCceEEecCCccchHhhhhhcCCCCCCCCCCCCCCCC
Q 004343 695 PIGYKCDLCNRDLSFASEGQILQPGVRPSTAVLPCGHHFHDYCLQQITPADQTDNPPCIHCDM 757 (760)
Q Consensus 695 PdgqtCGICsKdLSERSsGRIsrsndLPVVAVLSCGHVFHAECLEA~TpeSqk~DPpCPLCr~ 757 (760)
..++-|.||-.- ++ .|-+=+|||.....||-+|-..++ --.||+|+-
T Consensus 367 sTFeLCKICaen--dK------------dvkIEPCGHLlCt~CLa~WQ~sd~--gq~CPFCRc 413 (563)
T KOG1785|consen 367 STFELCKICAEN--DK------------DVKIEPCGHLLCTSCLAAWQDSDE--GQTCPFCRC 413 (563)
T ss_pred chHHHHHHhhcc--CC------------CcccccccchHHHHHHHhhcccCC--CCCCCceee
Confidence 366789999542 22 366889999999999999985443 567999984
No 65
>smart00249 PHD PHD zinc finger. The plant homeodomain (PHD) finger is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in epigenetics and chromatin-mediated transcriptional regulation. The PHD finger binds two zinc ions using the so-called 'cross-brace' motif and is thus structurally related to the KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=76.96 E-value=1.1 Score=52.23 Aligned_cols=37 Identities=27% Similarity=0.483 Sum_probs=26.8
Q ss_pred cccccccccccCCCcCCccCCCCCCceEEecCCccchHhhhhhc
Q 004343 698 YKCDLCNRDLSFASEGQILQPGVRPSTAVLPCGHHFHDYCLQQI 741 (760)
Q Consensus 698 qtCGICsKdLSERSsGRIsrsndLPVVAVLSCGHVFHAECLEA~ 741 (760)
.+|..|-...-- +..++--+.||-|||+||-+|+-.-
T Consensus 785 ~rc~~c~~~~l~-------~~~~~~~~~v~~c~h~yhk~c~~~~ 821 (846)
T KOG2066|consen 785 ERCSSCFEPNLP-------SGAAFDSVVVFHCGHMYHKECLMME 821 (846)
T ss_pred hhhhhhcccccc-------cCcccceeeEEEccchhhhcccccH
Confidence 378888654432 2234678999999999999998543
No 67
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=76.53 E-value=1.1 Score=55.42 Aligned_cols=122 Identities=22% Similarity=0.212 Sum_probs=56.3
Q ss_pred ccccccccccccccccccceeeeecc-cCCCCCCCccceEEeeCCCCCCCCceEEEeecCCceecccC-ccccccccccC
Q 004343 173 STVQNESEFFYPAQNMHDWTLNKNVD-FIPGFGGNMGATFQIVDSNTGFPGLQFQVYQNNPVQTVEDG-FFPERKRLRLP 250 (760)
Q Consensus 173 s~vQnv~~f~~psqNe~grtLsl~vD-~~sG~g~n~~arF~~Vd~ntgf~Gf~~~~~~~~~~~~~~~~-~~~~~~~~~~~ 250 (760)
|.+---.++-||.+-.--++.++-|- -++|+- +-+-++.+--|.-|..-|-.-|.-|- ---.-+-|||-
T Consensus 2145 G~I~~~t~~~k~ks~~~~~kV~~~~akD~aGlR---------iR~~~sLqSeqiGiv~~~~~itFIdEi~NDDG~WlRLn 2215 (3738)
T KOG1428|consen 2145 GMIPPGTQLVKPKSEPQPNKVRKFVAKDSAGLR---------IRSHPSLQSEQIGIVKVNGTITFIDEIHNDDGVWLRLN 2215 (3738)
T ss_pred CccCCCccccCcccCCCCcccceeeccccccce---------eecCCccccceeeEEEcCCEEEehhhhcCCCceEEEec
Confidence 55555556666666665666655443 122221 12233444444545544443332221 12233556665
Q ss_pred CCCCCCC----------CCCcchhcccccccccccc-CCCCCCCCCCCCCccCcceeeeeccCC
Q 004343 251 GQQLPAY----------QDSPVQTVGKRLFPERIGL-QLPDLNIPDTKGSAAQGQVMPVARGGG 303 (760)
Q Consensus 251 ~~~~~~~----------~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~ 303 (760)
....-.| --+--|-+||.|.+-.-.- -.-|+|.--..-...|.|-||..|||-
T Consensus 2216 DET~~~Y~~N~G~~eaWCLsf~q~L~ksLl~~~~esD~~K~in~~~~q~at~qe~d~~~~~~~~ 2279 (3738)
T KOG1428|consen 2216 DETIKKYVPNMGYTEAWCLSFNQHLGKSLLVPVDESDFFKDINSCCPQEATMQEQDMPFLRGGP 2279 (3738)
T ss_pred hHHHHHhcCCCCcchhhhhhcchhcccccccccchhHHHHHHhhhCchhhhhhccCcccccCCC
Confidence 5443333 2233456677665532111 112233222233446778888888763
No 68
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=75.66 E-value=1.8 Score=46.65 Aligned_cols=69 Identities=16% Similarity=0.267 Sum_probs=46.3
Q ss_pred ccccccccCCCCCCCCCCC---C------CCcccccccccccCCCcCCccCCCCCCceEEecCCccchHhhhhhcCCCCC
Q 004343 676 QMAREIRLRLPQDSNRFPQ---P------IGYKCDLCNRDLSFASEGQILQPGVRPSTAVLPCGHHFHDYCLQQITPADQ 746 (760)
Q Consensus 676 svA~SqRERWS~DSEqSVS---P------dgqtCGICsKdLSERSsGRIsrsndLPVVAVLSCGHVFHAECLEA~TpeSq 746 (760)
|+----|.+|..+++-.++ | ..++|+.=+..-++-- +-..|.||||.--+-|.+..-..
T Consensus 306 si~~~kHvdWT~~~eLP~eIklp~~~hfHs~FiCPVlKe~~t~EN-----------pP~ml~CgHVIskeal~~LS~nG- 373 (396)
T COG5109 306 SILFDKHVDWTDDSELPMEIKLPKGRHFHSLFICPVLKELCTDEN-----------PPVMLECGHVISKEALSVLSQNG- 373 (396)
T ss_pred hHHHhhccCccCCCCCceEEecCCcccccceeeccccHhhhcccC-----------CCeeeeccceeeHHHHHHHhhcC-
Confidence 3444468899888877443 1 4567877555444421 23589999999999998877433
Q ss_pred CCCCCCCCCC
Q 004343 747 TDNPPCIHCD 756 (760)
Q Consensus 747 k~DPpCPLCr 756 (760)
.....||.|-
T Consensus 374 ~~~FKCPYCP 383 (396)
T COG5109 374 VLSFKCPYCP 383 (396)
T ss_pred cEEeeCCCCC
Confidence 2367788884
No 69
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=75.18 E-value=1.7 Score=47.41 Aligned_cols=43 Identities=26% Similarity=0.726 Sum_probs=33.3
Q ss_pred CCcccccccccccCCCcCCccCCCCCCceEEecCCccchHhh---hhhcCCCCCCCCCCCCCCCC
Q 004343 696 IGYKCDLCNRDLSFASEGQILQPGVRPSTAVLPCGHHFHDYC---LQQITPADQTDNPPCIHCDM 757 (760)
Q Consensus 696 dgqtCGICsKdLSERSsGRIsrsndLPVVAVLSCGHVFHAEC---LEA~TpeSqk~DPpCPLCr~ 757 (760)
+-+.|.||-+.++. ++|++|+|-...-| |.+.+. .-.|++|+-
T Consensus 60 en~~C~ICA~~~TY--------------s~~~PC~H~~CH~Ca~RlRALY~-----~K~C~~CrT 105 (493)
T COG5236 60 ENMNCQICAGSTTY--------------SARYPCGHQICHACAVRLRALYM-----QKGCPLCRT 105 (493)
T ss_pred ccceeEEecCCceE--------------EEeccCCchHHHHHHHHHHHHHh-----ccCCCcccc
Confidence 56789999999988 57999999888888 444553 334999974
No 70
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=72.60 E-value=2.3 Score=45.75 Aligned_cols=45 Identities=27% Similarity=0.608 Sum_probs=32.4
Q ss_pred CCcccccccccccCCCcCCccCCCCCCceEEecCCcc-chHhhhhhcCCCCCCCCCCCCCCCCC
Q 004343 696 IGYKCDLCNRDLSFASEGQILQPGVRPSTAVLPCGHH-FHDYCLQQITPADQTDNPPCIHCDMH 758 (760)
Q Consensus 696 dgqtCGICsKdLSERSsGRIsrsndLPVVAVLSCGHV-FHAECLEA~TpeSqk~DPpCPLCr~G 758 (760)
.+-.|-||.-... .++||+|.|. -...|-+..- -+---||+||..
T Consensus 289 ~gkeCVIClse~r--------------dt~vLPCRHLCLCs~Ca~~Lr----~q~n~CPICRqp 334 (349)
T KOG4265|consen 289 SGKECVICLSESR--------------DTVVLPCRHLCLCSGCAKSLR----YQTNNCPICRQP 334 (349)
T ss_pred CCCeeEEEecCCc--------------ceEEecchhhehhHhHHHHHH----HhhcCCCccccc
Confidence 4678999975443 4799999997 4677777766 223359999863
No 71
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=65.32 E-value=4.2 Score=42.86 Aligned_cols=132 Identities=18% Similarity=0.265 Sum_probs=72.4
Q ss_pred cccCCCCCCCcccccccccccccccccCCCccccCCCCCCCCCCCCCCCCCCCccchhhh-hhcccCCCCCCCCCCCCCC
Q 004343 595 AIRAPSIASPGQRRATIHSSVLASAQTGSPLTRRSQTAPVPPQAPTAASFPSFPRTADFL-RTLSQSRYPLPHPLQTAHP 673 (760)
Q Consensus 595 ai~~p~~a~~~~rr~t~~~~~~~~~~~~~p~~r~s~~~~~p~~~p~~~~~ps~p~~a~~~-~~~~~~R~Pl~~~~~~~~~ 673 (760)
-|+-|.-...+-.-+.+-+-..--+.|-.||-||-.-- -+--+=--++.+ +.|+-+ ++|-. ++|
T Consensus 14 LVk~~kK~ek~Dkd~~r~sqw~~CaLtqepL~~Piv~c----------~lGrLYNKe~vi~~LL~Ks--~~pks---aSh 78 (293)
T KOG3113|consen 14 LVKEPKKVEKVDKDAERVSQWRNCALTQEPLRRPIVAC----------GLGRLYNKESVIEFLLDKS--SLPKS---ASH 78 (293)
T ss_pred hhhCCCCcCccChhHHHHHHHhhcccccCccccceeee----------hhhccccHHHHHHHHHhcc--cCCcc---hhh
Confidence 34445544444444444555555666777776653321 111111122222 234443 44444 455
Q ss_pred CCcccc------ccccCCCCCC---CCCCCCCCcccccccccccCCCcCCccCCCCCCceEEecCCccchHhhhhhcCCC
Q 004343 674 YSQMAR------EIRLRLPQDS---NRFPQPIGYKCDLCNRDLSFASEGQILQPGVRPSTAVLPCGHHFHDYCLQQITPA 744 (760)
Q Consensus 674 ~psvA~------SqRERWS~DS---EqSVSPdgqtCGICsKdLSERSsGRIsrsndLPVVAVLSCGHVFHAECLEA~Tpe 744 (760)
+-+++- +.--.|.-|. -.-.....+.|+|=.--...+ .+-+++-.|||||-..-|.++-..
T Consensus 79 IKslKDvveLklt~n~~~~gD~~~~~~D~~~a~fiCPvtgleMng~----------~~F~~l~~CGcV~SerAlKeikas 148 (293)
T KOG3113|consen 79 IKSLKDVVELKLTLNPAFEGDKGNKHDDTQRARFICPVTGLEMNGK----------YRFCALRCCGCVFSERALKEIKAS 148 (293)
T ss_pred hcchhhHhheecccCcccccccCccccccccceeecccccceecce----------EEEEEEeccceeccHHHHHHhhhc
Confidence 555432 2233343232 223445678888866655554 456889999999999999999843
Q ss_pred CCCCCCCCCCCCC
Q 004343 745 DQTDNPPCIHCDM 757 (760)
Q Consensus 745 Sqk~DPpCPLCr~ 757 (760)
.|++|..
T Consensus 149 ------~C~~C~a 155 (293)
T KOG3113|consen 149 ------VCHVCGA 155 (293)
T ss_pred ------cccccCC
Confidence 4888853
No 72
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=63.40 E-value=4.5 Score=46.14 Aligned_cols=43 Identities=28% Similarity=0.659 Sum_probs=34.7
Q ss_pred cccccccccccCCCcCCccCCCCCCceEEecCCccchHhhhhhcCCCCCCCCCCCCCCCC
Q 004343 698 YKCDLCNRDLSFASEGQILQPGVRPSTAVLPCGHHFHDYCLQQITPADQTDNPPCIHCDM 757 (760)
Q Consensus 698 qtCGICsKdLSERSsGRIsrsndLPVVAVLSCGHVFHAECLEA~TpeSqk~DPpCPLCr~ 757 (760)
..|.+|.. .. ...+-.|||.|--+|++.....++.. +||.|+.
T Consensus 455 ~~c~ic~~---~~------------~~~it~c~h~~c~~c~~~~i~~~~~~--~~~~cr~ 497 (674)
T KOG1001|consen 455 HWCHICCD---LD------------SFFITRCGHDFCVECLKKSIQQSENA--PCPLCRN 497 (674)
T ss_pred cccccccc---cc------------cceeecccchHHHHHHHhccccccCC--CCcHHHH
Confidence 89999988 22 24577899999999999888777655 9999974
No 73
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=63.37 E-value=1.4 Score=47.78 Aligned_cols=46 Identities=24% Similarity=0.441 Sum_probs=35.8
Q ss_pred CCcccccccccccCCCcCCccCCCCCCceEEecCCccchHhhhhhcCCCCCCCCCCCCCCCC
Q 004343 696 IGYKCDLCNRDLSFASEGQILQPGVRPSTAVLPCGHHFHDYCLQQITPADQTDNPPCIHCDM 757 (760)
Q Consensus 696 dgqtCGICsKdLSERSsGRIsrsndLPVVAVLSCGHVFHAECLEA~TpeSqk~DPpCPLCr~ 757 (760)
....|+||+-+|... ..+--|+|-|..+|+-...-.. ...||.|+.
T Consensus 42 ~~v~c~icl~llk~t-------------mttkeClhrfc~~ci~~a~r~g---n~ecptcRk 87 (381)
T KOG0311|consen 42 IQVICPICLSLLKKT-------------MTTKECLHRFCFDCIWKALRSG---NNECPTCRK 87 (381)
T ss_pred hhhccHHHHHHHHhh-------------cccHHHHHHHHHHHHHHHHHhc---CCCCchHHh
Confidence 455899999999885 4578899999999997766444 456777764
No 74
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=56.63 E-value=1.6 Score=47.98 Aligned_cols=54 Identities=15% Similarity=0.275 Sum_probs=39.0
Q ss_pred CCCCCCCCcccccccccccCCCcCCccCCCCCCceEEecCCccchHhhhhhcCCCCCCCCCCCCCCCC
Q 004343 690 NRFPQPIGYKCDLCNRDLSFASEGQILQPGVRPSTAVLPCGHHFHDYCLQQITPADQTDNPPCIHCDM 757 (760)
Q Consensus 690 EqSVSPdgqtCGICsKdLSERSsGRIsrsndLPVVAVLSCGHVFHAECLEA~TpeSqk~DPpCPLCr~ 757 (760)
+++.+..+-.|.||-++|.+... -..-+.|||.||++||++|... .-.||.|++
T Consensus 189 ~~~~~slv~sl~I~~~slK~~y~----------k~~~~~~g~~~~~~kL~k~L~~----~~kl~~~~r 242 (465)
T KOG0827|consen 189 SQPTSSLVGSLSICFESLKQNYD----------KISAIVCGHIYHHGKLSKWLAT----KRKLPSCRR 242 (465)
T ss_pred cCchHHHHhhhHhhHHHHHHHHH----------HHHHHhhcccchhhHHHHHHHH----HHHhHHHHh
Confidence 34555677889999999987521 1234789999999999999854 334676654
No 75
>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=55.86 E-value=3.8 Score=44.96 Aligned_cols=74 Identities=23% Similarity=0.409 Sum_probs=0.0
Q ss_pred ccCCCCCCCCCCCCCCcccccccccccCCC--cC---CccCCCCCCceEEecCCccchHhhhhhcCC-----CCCCCCCC
Q 004343 682 RLRLPQDSNRFPQPIGYKCDLCNRDLSFAS--EG---QILQPGVRPSTAVLPCGHHFHDYCLQQITP-----ADQTDNPP 751 (760)
Q Consensus 682 RERWS~DSEqSVSPdgqtCGICsKdLSERS--sG---RIsrsndLPVVAVLSCGHVFHAECLEA~Tp-----eSqk~DPp 751 (760)
+..|-.+.+.- ....+|+||...=..-+ +| -+.-....|.-|--+|||+--..+-.-|-. ..+...+.
T Consensus 315 ~h~Wg~~~~~~--~~~r~CPlCr~~g~~V~L~mG~E~afyvD~~~pthaF~PCGHv~SekTa~yWs~i~lPhGt~~f~a~ 392 (416)
T PF04710_consen 315 YHNWGQDSDRD--PRSRTCPLCRQVGPYVPLWMGCEPAFYVDSGPPTHAFNPCGHVCSEKTAKYWSQIPLPHGTHAFHAA 392 (416)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred ecccccccccc--cccccCCCccccCCceeEeeccccceeecCCCCceeecccccccchhhhhhhhcCCCCCCccccccc
Confidence 44674433321 13679999986544433 22 233455778889999999976655555542 45567899
Q ss_pred CCCCCC
Q 004343 752 CIHCDM 757 (760)
Q Consensus 752 CPLCr~ 757 (760)
||+|..
T Consensus 393 CPFCa~ 398 (416)
T PF04710_consen 393 CPFCAT 398 (416)
T ss_dssp ------
T ss_pred CCcccC
Confidence 999974
No 76
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=55.32 E-value=5.7 Score=42.79 Aligned_cols=32 Identities=25% Similarity=0.547 Sum_probs=26.6
Q ss_pred cccccccccccCCCcCCccCCCCCCceEEecCCccchHhhhhh
Q 004343 698 YKCDLCNRDLSFASEGQILQPGVRPSTAVLPCGHHFHDYCLQQ 740 (760)
Q Consensus 698 qtCGICsKdLSERSsGRIsrsndLPVVAVLSCGHVFHAECLEA 740 (760)
..|.||+-.++..+ .+-|-.|=|.||..||..
T Consensus 116 gqCvICLygfa~~~-----------~ft~T~C~Hy~H~~ClaR 147 (368)
T KOG4445|consen 116 GQCVICLYGFASSP-----------AFTVTACDHYMHFACLAR 147 (368)
T ss_pred CceEEEEEeecCCC-----------ceeeehhHHHHHHHHHHH
Confidence 46899988888765 577899999999999854
No 77
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=55.11 E-value=5.6 Score=33.42 Aligned_cols=28 Identities=36% Similarity=0.774 Sum_probs=20.3
Q ss_pred eEEecCCccchHhhhhhcCCCCCCCCCCCCCCCC
Q 004343 724 TAVLPCGHHFHDYCLQQITPADQTDNPPCIHCDM 757 (760)
Q Consensus 724 VAVLSCGHVFHAECLEA~TpeSqk~DPpCPLCr~ 757 (760)
=.||+|||+--..|-.-.- --.||+|-.
T Consensus 20 ~~~~pCgH~I~~~~f~~~r------YngCPfC~~ 47 (55)
T PF14447_consen 20 GTVLPCGHLICDNCFPGER------YNGCPFCGT 47 (55)
T ss_pred cccccccceeeccccChhh------ccCCCCCCC
Confidence 3699999999877754433 446999964
No 78
>PF00628 PHD: PHD-finger; InterPro: IPR019787 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the PHD (homeodomain) zinc finger domain [,], which is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in chromatin-mediated transcriptional regulation. The PHD finger motif is reminiscent of, but distinct from the C3HC4 type RING finger. The function of this domain is not yet known but in analogy with the LIM domain it could be involved in protein-protein interaction and be important for the assembly or activity of multicomponent complexes involved in transcriptional activation or repression. Alternatively, the interactions could be intra-molecular and be important in maintaining the structural integrity of the protein. In similarity to the RING finger and the LIM domain, the PHD finger is thought to bind two zinc ions. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0005515 protein binding; PDB: 3ZVY_A 2LGG_A 3SOW_A 3SOU_B 3ASL_A 3ASK_A 3ZVZ_B 3T6R_A 2LGK_A 3SOX_B ....
Probab=50.18 E-value=3.4 Score=31.10 Aligned_cols=47 Identities=15% Similarity=0.379 Sum_probs=29.8
Q ss_pred ccccccccccCCCcCCccCCCCCCceEEecCCccchHhhhhhcCC--CCCCCCCCCCCCC
Q 004343 699 KCDLCNRDLSFASEGQILQPGVRPSTAVLPCGHHFHDYCLQQITP--ADQTDNPPCIHCD 756 (760)
Q Consensus 699 tCGICsKdLSERSsGRIsrsndLPVVAVLSCGHVFHAECLEA~Tp--eSqk~DPpCPLCr 756 (760)
.|.+|.+.-... ..+.=-.|+-.||..|+.-... .....+-.|+.|.
T Consensus 1 ~C~vC~~~~~~~-----------~~i~C~~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~ 49 (51)
T PF00628_consen 1 YCPVCGQSDDDG-----------DMIQCDSCNRWYHQECVGPPEKAEEIPSGDWYCPNCR 49 (51)
T ss_dssp EBTTTTSSCTTS-----------SEEEBSTTSCEEETTTSTSSHSHHSHHSSSBSSHHHH
T ss_pred eCcCCCCcCCCC-----------CeEEcCCCChhhCcccCCCChhhccCCCCcEECcCCc
Confidence 488898822222 1334446899999999987665 2222366777764
No 79
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=45.07 E-value=11 Score=37.29 Aligned_cols=28 Identities=25% Similarity=0.516 Sum_probs=19.2
Q ss_pred ceEEecCCccch-HhhhhhcCCCCCCCCCCCCCCCCC
Q 004343 723 STAVLPCGHHFH-DYCLQQITPADQTDNPPCIHCDMH 758 (760)
Q Consensus 723 VVAVLSCGHVFH-AECLEA~TpeSqk~DPpCPLCr~G 758 (760)
-|.+|||-|+-| -.|-+. -..||+|...
T Consensus 170 ~VlllPCrHl~lC~~C~~~--------~~~CPiC~~~ 198 (207)
T KOG1100|consen 170 TVLLLPCRHLCLCGICDES--------LRICPICRSP 198 (207)
T ss_pred eEEeecccceEeccccccc--------CccCCCCcCh
Confidence 489999999754 445442 3349999863
No 80
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=43.95 E-value=23 Score=38.79 Aligned_cols=74 Identities=16% Similarity=0.287 Sum_probs=43.2
Q ss_pred ccCCCCCCCCCCCCCCcccccccccccCCC--cC---CccCCCCCCceEEecCCccchHhhhhhcC-----CCCCCCCCC
Q 004343 682 RLRLPQDSNRFPQPIGYKCDLCNRDLSFAS--EG---QILQPGVRPSTAVLPCGHHFHDYCLQQIT-----PADQTDNPP 751 (760)
Q Consensus 682 RERWS~DSEqSVSPdgqtCGICsKdLSERS--sG---RIsrsndLPVVAVLSCGHVFHAECLEA~T-----peSqk~DPp 751 (760)
+-.|-.+++.. ..-..|++|...=..-+ .| ...-....+.-|.-+|||+--..-..-|. -..+.+++.
T Consensus 328 ~H~WG~~e~~g--~~~r~CPmC~~~gp~V~L~lG~E~~f~vD~G~pthaF~PCGHv~sekt~~YWs~iplPhGT~~f~a~ 405 (429)
T KOG3842|consen 328 YHNWGVRENTG--QRERECPMCRVVGPYVPLWLGCEAGFYVDAGPPTHAFNPCGHVCSEKTVKYWSQIPLPHGTHAFHAA 405 (429)
T ss_pred ccccccccccC--cccCcCCeeeeecceeeeeccccceeEecCCCcccccCCcccccchhhhhHhhcCcCCCcccccccc
Confidence 45675444331 23568999965322212 22 23344567778889999984333322221 156678999
Q ss_pred CCCCCC
Q 004343 752 CIHCDM 757 (760)
Q Consensus 752 CPLCr~ 757 (760)
||+|..
T Consensus 406 CPFC~~ 411 (429)
T KOG3842|consen 406 CPFCAT 411 (429)
T ss_pred Ccchhh
Confidence 999974
No 81
>PF12088 DUF3565: Protein of unknown function (DUF3565); InterPro: IPR021948 This family of proteins is functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 30 to 78 amino acids in length. This protein has two conserved sequence motifs: WVA and CGH.
Probab=42.80 E-value=12 Score=32.27 Aligned_cols=37 Identities=24% Similarity=0.282 Sum_probs=22.1
Q ss_pred ceEEecCCccchHhhhhhcCCC-----------CCCCCCCCCCCCCCC
Q 004343 723 STAVLPCGHHFHDYCLQQITPA-----------DQTDNPPCIHCDMHE 759 (760)
Q Consensus 723 VVAVLSCGHVFHAECLEA~Tpe-----------Sqk~DPpCPLCr~GE 759 (760)
=||.|+|||.=|..=---|... --.+...|-.|..++
T Consensus 11 WVA~L~CGH~QHvRH~PPw~~RpWV~t~~gR~~~lG~~l~C~kCd~~~ 58 (61)
T PF12088_consen 11 WVAELSCGHTQHVRHDPPWQNRPWVLTEEGRQSMLGQELNCKKCDRGA 58 (61)
T ss_pred EEEEecccccccccCCCCCcccCcEEcHHHHHHhcCCeecccccccCC
Confidence 4899999999886433222210 012455677777664
No 82
>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=42.52 E-value=13 Score=27.26 Aligned_cols=22 Identities=18% Similarity=0.277 Sum_probs=15.2
Q ss_pred ecCCccchHhhhhhcCCCCCCCCCCCCCCCCC
Q 004343 727 LPCGHHFHDYCLQQITPADQTDNPPCIHCDMH 758 (760)
Q Consensus 727 LSCGHVFHAECLEA~TpeSqk~DPpCPLCr~G 758 (760)
..|||+|-.+- .+-.||+|...
T Consensus 5 ~~CGy~y~~~~----------~~~~CP~Cg~~ 26 (33)
T cd00350 5 PVCGYIYDGEE----------APWVCPVCGAP 26 (33)
T ss_pred CCCCCEECCCc----------CCCcCcCCCCc
Confidence 46888886543 45579999753
No 83
>PHA03096 p28-like protein; Provisional
Probab=42.37 E-value=12 Score=38.97 Aligned_cols=51 Identities=14% Similarity=0.237 Sum_probs=33.1
Q ss_pred cccccccccccCCCcCCccCCCCCCceEEe-cCCccchHhhhhhcCCCCCCCCCCCCCCC
Q 004343 698 YKCDLCNRDLSFASEGQILQPGVRPSTAVL-PCGHHFHDYCLQQITPADQTDNPPCIHCD 756 (760)
Q Consensus 698 qtCGICsKdLSERSsGRIsrsndLPVVAVL-SCGHVFHAECLEA~TpeSqk~DPpCPLCr 756 (760)
-.|+||..-..++.- +. ...++| .|-|+|-..|...|-.+.. +.-.||.|+
T Consensus 179 k~c~ic~e~~~~k~~--~~-----~~fgil~~c~h~fc~~ci~~wr~~~~-~~e~~~~c~ 230 (284)
T PHA03096 179 KICGICLENIKAKYI--IK-----KYYGILSEIKHEFNIFCIKIWMTESL-YKETEPENR 230 (284)
T ss_pred hhcccchhhhhhhcc--cc-----ccccccccCCcHHHHHHHHHHHHhhh-hcccCcccc
Confidence 679999877776640 00 123444 7999999999998876554 334444443
No 84
>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=41.32 E-value=18 Score=27.76 Aligned_cols=27 Identities=30% Similarity=0.730 Sum_probs=18.9
Q ss_pred ecCCccchHhhhhhcCCCCCCCCCCCCCCCCC
Q 004343 727 LPCGHHFHDYCLQQITPADQTDNPPCIHCDMH 758 (760)
Q Consensus 727 LSCGHVFHAECLEA~TpeSqk~DPpCPLCr~G 758 (760)
..|||.|.. +.+.++.....||.|...
T Consensus 9 ~~Cg~~fe~-----~~~~~~~~~~~CP~Cg~~ 35 (42)
T PF09723_consen 9 EECGHEFEV-----LQSISEDDPVPCPECGST 35 (42)
T ss_pred CCCCCEEEE-----EEEcCCCCCCcCCCCCCC
Confidence 369999954 344444678899999863
No 85
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=41.08 E-value=24 Score=38.87 Aligned_cols=31 Identities=23% Similarity=0.519 Sum_probs=23.2
Q ss_pred EEecCCccchHhhhhhcCCCCCCCCCCCCCCC
Q 004343 725 AVLPCGHHFHDYCLQQITPADQTDNPPCIHCD 756 (760)
Q Consensus 725 AVLSCGHVFHAECLEA~TpeSqk~DPpCPLCr 756 (760)
--|+||||.--+=|..+.-..- ....||.|=
T Consensus 351 m~L~CGHVISkdAlnrLS~ng~-~sfKCPYCP 381 (394)
T KOG2817|consen 351 MMLICGHVISKDALNRLSKNGS-QSFKCPYCP 381 (394)
T ss_pred eeeeccceecHHHHHHHhhCCC-eeeeCCCCC
Confidence 4799999998888888875433 357788884
No 86
>TIGR02605 CxxC_CxxC_SSSS putative regulatory protein, FmdB family. This model represents a region of about 50 amino acids found in a number of small proteins in a wide range of bacteria. The region begins usually with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One member of this family is has been noted as a putative regulatory protein, designated FmdB (PubMed:8841393). Most members of this family have a C-terminal region containing highly degenerate sequence, such as SSTSESTKSSGSSGSSGSSESKASGSTEKSTSSTTAAAAV in Mycobacterium tuberculosis and VAVGGSAPAPSPAPRAGGGGGGCCGGGCCG in Streptomyces avermitilis. These low complexity regions, which are not included in the model, resemble low-complexity C-terminal regions of some heterocycle-containing bacteriocin precursors.
Probab=36.43 E-value=24 Score=27.05 Aligned_cols=27 Identities=22% Similarity=0.564 Sum_probs=16.9
Q ss_pred ecCCccchHhhhhhcCCCCCCCCCCCCCCCCC
Q 004343 727 LPCGHHFHDYCLQQITPADQTDNPPCIHCDMH 758 (760)
Q Consensus 727 LSCGHVFHAECLEA~TpeSqk~DPpCPLCr~G 758 (760)
..|||.|-. |...++.....||.|...
T Consensus 9 ~~Cg~~fe~-----~~~~~~~~~~~CP~Cg~~ 35 (52)
T TIGR02605 9 TACGHRFEV-----LQKMSDDPLATCPECGGE 35 (52)
T ss_pred CCCCCEeEE-----EEecCCCCCCCCCCCCCC
Confidence 468888863 333233455679999863
No 87
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=35.62 E-value=18 Score=36.57 Aligned_cols=33 Identities=27% Similarity=0.475 Sum_probs=25.6
Q ss_pred CCCCCCcccccccccccCCCcCCccCCCCCCceEEecCCccchH
Q 004343 692 FPQPIGYKCDLCNRDLSFASEGQILQPGVRPSTAVLPCGHHFHD 735 (760)
Q Consensus 692 SVSPdgqtCGICsKdLSERSsGRIsrsndLPVVAVLSCGHVFHA 735 (760)
+..-+.-.|.||+++|..-. .+|-|+|=-+||-
T Consensus 172 VL~ddkGECvICLEdL~~Gd-----------tIARLPCLCIYHK 204 (205)
T KOG0801|consen 172 VLKDDKGECVICLEDLEAGD-----------TIARLPCLCIYHK 204 (205)
T ss_pred hhcccCCcEEEEhhhccCCC-----------ceeccceEEEeec
Confidence 33457788999999998754 5788999888883
No 88
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=33.47 E-value=22 Score=35.23 Aligned_cols=49 Identities=20% Similarity=0.461 Sum_probs=31.7
Q ss_pred CCCCcccccccccccCCCcCCccCCCCCCceEEecCCc---cchHhhhhhcCCCCCCCCCCCCCCCC
Q 004343 694 QPIGYKCDLCNRDLSFASEGQILQPGVRPSTAVLPCGH---HFHDYCLQQITPADQTDNPPCIHCDM 757 (760)
Q Consensus 694 SPdgqtCGICsKdLSERSsGRIsrsndLPVVAVLSCGH---VFHAECLEA~TpeSqk~DPpCPLCr~ 757 (760)
+.....|-||...-. . ....=-|.. .-|.+||+.|-..+ ....|++|..
T Consensus 5 s~~~~~CRIC~~~~~-----~--------~~~PC~CkGs~k~VH~sCL~rWi~~s--~~~~CeiC~~ 56 (162)
T PHA02825 5 SLMDKCCWICKDEYD-----V--------VTNYCNCKNENKIVHKECLEEWINTS--KNKSCKICNG 56 (162)
T ss_pred CCCCCeeEecCCCCC-----C--------ccCCcccCCCchHHHHHHHHHHHhcC--CCCcccccCC
Confidence 345678999943311 1 112233444 55999999999755 5888999964
No 89
>PF11571 Med27: Mediator complex subunit 27; InterPro: IPR021627 Mediator is a large complex of up to 33 proteins that is conserved from plants to fungi to humans - the number and representation of individual subunits varying with species. It is arranged into four different sections, a core, a head, a tail and a kinase-activity part, and the number of subunits within each of these is what varies with species. Overall, Mediator regulates the transcriptional activity of RNA polymerase II but it would appear that each of the four different sections has a slightly different function []. Mediator exists in two major forms in human cells: a smaller form that interacts strongly with pol II and activates transcription, and a large form that does not interact strongly with pol II and does not directly activate transcription. The ubiquitous expression of Med27 mRNA suggests a universal requirement for Med27 in transcriptional initiation. Loss of Crsp34/Med27 decreases amacrine cell number, but increases the number of rod photoreceptor cells [].
Probab=32.10 E-value=18 Score=31.36 Aligned_cols=35 Identities=20% Similarity=0.352 Sum_probs=20.6
Q ss_pred CcccccccccccCCC-cCCccCCCCCCceEEecCCccchHhh
Q 004343 697 GYKCDLCNRDLSFAS-EGQILQPGVRPSTAVLPCGHHFHDYC 737 (760)
Q Consensus 697 gqtCGICsKdLSERS-sGRIsrsndLPVVAVLSCGHVFHAEC 737 (760)
...|..|+|.|...- ...+.+..+. .-.+.||..|
T Consensus 54 s~pC~~C~klL~~~~~LPP~~r~~~~------~~~~ayH~~C 89 (90)
T PF11571_consen 54 STPCKKCGKLLSSKAFLPPVRRPKDF------RSWEAYHEGC 89 (90)
T ss_pred cchhhHHHhHhhhcccCCCeeecccC------CCCcccCccc
Confidence 347999999993321 1222222222 2278999998
No 90
>KOG3005 consensus GIY-YIG type nuclease [General function prediction only]
Probab=31.52 E-value=42 Score=35.58 Aligned_cols=53 Identities=19% Similarity=0.386 Sum_probs=35.7
Q ss_pred cccccccccccCCCcCCccCCCCCCceEEecCCccchHhhhhhcCCCC-CC----CCCCCCCCCC
Q 004343 698 YKCDLCNRDLSFASEGQILQPGVRPSTAVLPCGHHFHDYCLQQITPAD-QT----DNPPCIHCDM 757 (760)
Q Consensus 698 qtCGICsKdLSERSsGRIsrsndLPVVAVLSCGHVFHAECLEA~TpeS-qk----~DPpCPLCr~ 757 (760)
..|-||.+...+..|.+.-+.+.. |+-++|..||-.-.... .. ..--||.|.+
T Consensus 183 ~~celc~~ei~e~~~~~a~c~~~~-------c~~~~h~~CLa~~~~~~e~g~~~p~eg~cp~C~~ 240 (276)
T KOG3005|consen 183 VECELCEKEILETDWSRATCPNPD-------CDSLNHLTCLAEELLEVEPGQLIPLEGMCPKCEK 240 (276)
T ss_pred hhhHHHHHHhccccceeccCCCCC-------CCchhhhhhhhHHHhccCCCceeccCCCCCchhc
Confidence 489999999977655554455443 99999999998722111 11 2346888864
No 91
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=30.01 E-value=37 Score=28.53 Aligned_cols=37 Identities=22% Similarity=0.577 Sum_probs=28.8
Q ss_pred CCcccccccccccCCCcCCccCCCCCCceEEecCCccchHhhhhhcC
Q 004343 696 IGYKCDLCNRDLSFASEGQILQPGVRPSTAVLPCGHHFHDYCLQQIT 742 (760)
Q Consensus 696 dgqtCGICsKdLSERSsGRIsrsndLPVVAVLSCGHVFHAECLEA~T 742 (760)
...+|.+|.+.|.... -+|.=-.||=.||.+|-+...
T Consensus 4 ~~~~C~~Cg~~~~~~d----------DiVvCp~CgapyHR~C~~~~g 40 (54)
T PF14446_consen 4 EGCKCPVCGKKFKDGD----------DIVVCPECGAPYHRDCWEKAG 40 (54)
T ss_pred cCccChhhCCcccCCC----------CEEECCCCCCcccHHHHhhCC
Confidence 4568999999997432 156667899999999998765
No 92
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=29.85 E-value=22 Score=36.38 Aligned_cols=32 Identities=28% Similarity=0.527 Sum_probs=22.7
Q ss_pred EecCCccchHhhhhhcCCCC----CCC---CCCCCCCCC
Q 004343 726 VLPCGHHFHDYCLQQITPAD----QTD---NPPCIHCDM 757 (760)
Q Consensus 726 VLSCGHVFHAECLEA~TpeS----qk~---DPpCPLCr~ 757 (760)
=..||.-||.-||-.|.-.. +.. ---||.|..
T Consensus 187 N~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~ 225 (234)
T KOG3268|consen 187 NIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSD 225 (234)
T ss_pred ccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCC
Confidence 46899999999998885422 221 245999975
No 93
>PHA02862 5L protein; Provisional
Probab=29.83 E-value=30 Score=34.22 Aligned_cols=25 Identities=20% Similarity=0.383 Sum_probs=19.8
Q ss_pred ccchHhhhhhcCCCCCCCCCCCCCCCC
Q 004343 731 HHFHDYCLQQITPADQTDNPPCIHCDM 757 (760)
Q Consensus 731 HVFHAECLEA~TpeSqk~DPpCPLCr~ 757 (760)
..-|.+||++|-.. ...-.|++|..
T Consensus 26 K~VHq~CL~~WIn~--S~k~~CeLCkt 50 (156)
T PHA02862 26 KVVHIKCMQLWINY--SKKKECNLCKT 50 (156)
T ss_pred hhHHHHHHHHHHhc--CCCcCccCCCC
Confidence 35699999999954 45778999974
No 94
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=28.74 E-value=18 Score=38.97 Aligned_cols=28 Identities=25% Similarity=0.617 Sum_probs=18.8
Q ss_pred CceEEecCCccc-hHhhhhhcCCCCCCCCCCCCCCCC
Q 004343 722 PSTAVLPCGHHF-HDYCLQQITPADQTDNPPCIHCDM 757 (760)
Q Consensus 722 PVVAVLSCGHVF-HAECLEA~TpeSqk~DPpCPLCr~ 757 (760)
..-..|.|||.- .-+|-..|- .||+|+.
T Consensus 311 ~DCvfLeCGHmVtCt~CGkrm~--------eCPICRq 339 (350)
T KOG4275|consen 311 RDCVFLECGHMVTCTKCGKRMN--------ECPICRQ 339 (350)
T ss_pred cceEEeecCcEEeehhhccccc--------cCchHHH
Confidence 345799999953 445544443 5999974
No 95
>PF07227 DUF1423: Protein of unknown function (DUF1423); InterPro: IPR004082 A total of 715 potential protein-coding genes have been identified in the nucleotide sequence of Arabidopsis thaliana chromosome 5, with an average gene density of 1 gene per 4001 bp []. Amongst the gene products is a well-conserved family of 130.7kDa proteins that share no sequence similarity with any other known proteins, other than in plants. The sequences are characterised by an N-terminal domain of variable length, a central cysteine-rich region and a relatively acidic C-terminal domain. The sequences may possess a PHD finger.
Probab=28.19 E-value=28 Score=38.84 Aligned_cols=34 Identities=21% Similarity=0.387 Sum_probs=21.1
Q ss_pred ccccccccccCCCcCCccCCCCCCceEEecCCccchHhhhhh
Q 004343 699 KCDLCNRDLSFASEGQILQPGVRPSTAVLPCGHHFHDYCLQQ 740 (760)
Q Consensus 699 tCGICsKdLSERSsGRIsrsndLPVVAVLSCGHVFHAECLEA 740 (760)
.|.||.|.-....--.|+.-. .|||+-|.+|--.
T Consensus 130 ~C~iC~kfD~~~n~~~Wi~Cd--------~CgH~cH~dCALr 163 (446)
T PF07227_consen 130 MCCICSKFDDNKNTCSWIGCD--------VCGHWCHLDCALR 163 (446)
T ss_pred CccccCCcccCCCCeeEEecc--------CCCceehhhhhcc
Confidence 588887743332111344322 7999999999655
No 96
>PF00412 LIM: LIM domain; InterPro: IPR001781 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents LIM-type zinc finger (Znf) domains. LIM domains coordinate one or more zinc atoms, and are named after the three proteins (LIN-11, Isl1 and MEC-3) in which they were first found. They consist of two zinc-binding motifs that resemble GATA-like Znf's, however the residues holding the zinc atom(s) are variable, involving Cys, His, Asp or Glu residues. LIM domains are involved in proteins with differing functions, including gene expression, and cytoskeleton organisation and development [, ]. Protein containing LIM Znf domains include: Caenorhabditis elegans mec-3; a protein required for the differentiation of the set of six touch receptor neurons in this nematode. C. elegans. lin-11; a protein required for the asymmetric division of vulval blast cells. Vertebrate insulin gene enhancer binding protein isl-1. Isl-1 binds to one of the two cis-acting protein-binding domains of the insulin gene. Vertebrate homeobox proteins lim-1, lim-2 (lim-5) and lim3. Vertebrate lmx-1, which acts as a transcriptional activator by binding to the FLAT element; a beta-cell-specific transcriptional enhancer found in the insulin gene. Mammalian LH-2, a transcriptional regulatory protein involved in the control of cell differentiation in developing lymphoid and neural cell types. Drosophila melanogaster (Fruit fly) protein apterous, required for the normal development of the wing and halter imaginal discs. Vertebrate protein kinases LIMK-1 and LIMK-2. Mammalian rhombotins. Rhombotin 1 (RBTN1 or TTG-1) and rhombotin-2 (RBTN2 or TTG-2) are proteins of about 160 amino acids whose genes are disrupted by chromosomal translocations in T-cell leukemia. Mammalian and avian cysteine-rich protein (CRP), a 192 amino-acid protein of unknown function. Seems to interact with zyxin. Mammalian cysteine-rich intestinal protein (CRIP), a small protein which seems to have a role in zinc absorption and may function as an intracellular zinc transport protein. Vertebrate paxillin, a cytoskeletal focal adhesion protein. Mus musculus (Mouse) testin which should not be confused with rat testin which is a thiol protease homologue (see IPR000169 from INTERPRO). Helianthus annuus (Common sunflower) pollen specific protein SF3. Chicken zyxin. Zyxin is a low-abundance adhesion plaque protein which has been shown to interact with CRP. Yeast protein LRG1 which is involved in sporulation []. Saccharomyces cerevisiae (Baker's yeast) rho-type GTPase activating protein RGA1/DBM1. C. elegans homeobox protein ceh-14. C. elegans homeobox protein unc-97. S. cerevisiae hypothetical protein YKR090w. C. elegans hypothetical proteins C28H8.6. These proteins generally contain two tandem copies of the LIM domain in their N-terminal section. Zyxin and paxillin are exceptions in that they contain respectively three and four LIM domains at their C-terminal extremity. In apterous, isl-1, LH-2, lin-11, lim-1 to lim-3, lmx-1 and ceh-14 and mec-3 there is a homeobox domain some 50 to 95 amino acids after the LIM domains. LIM domains contain seven conserved cysteine residues and a histidine. The arrangement followed by these conserved residues is: C-x(2)-C-x(16,23)-H-x(2)-[CH]-x(2)-C-x(2)-C-x(16,21)-C-x(2,3)-[CHD] LIM domains bind two zinc ions []. LIM does not bind DNA, rather it seems to act as an interface for protein-protein interaction. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2CO8_A 2EGQ_A 2CUR_A 3IXE_B 1CTL_A 1B8T_A 1X62_A 2DFY_C 1IML_A 2CUQ_A ....
Probab=27.30 E-value=34 Score=25.80 Aligned_cols=28 Identities=18% Similarity=0.567 Sum_probs=20.1
Q ss_pred cccccccccCCCcCCccCCCCCCceEEecCCccchHhhhh
Q 004343 700 CDLCNRDLSFASEGQILQPGVRPSTAVLPCGHHFHDYCLQ 739 (760)
Q Consensus 700 CGICsKdLSERSsGRIsrsndLPVVAVLSCGHVFHAECLE 739 (760)
|.-|.+.+.... +.+..-|..||.+|+.
T Consensus 1 C~~C~~~I~~~~------------~~~~~~~~~~H~~Cf~ 28 (58)
T PF00412_consen 1 CARCGKPIYGTE------------IVIKAMGKFWHPECFK 28 (58)
T ss_dssp BTTTSSBESSSS------------EEEEETTEEEETTTSB
T ss_pred CCCCCCCccCcE------------EEEEeCCcEEEccccc
Confidence 677888777542 3345789999999874
No 97
>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=26.94 E-value=21 Score=39.47 Aligned_cols=32 Identities=19% Similarity=0.353 Sum_probs=0.0
Q ss_pred ceEEecCCccchHhhhhhcCCCCC--CCCCCCCCCCC
Q 004343 723 STAVLPCGHHFHDYCLQQITPADQ--TDNPPCIHCDM 757 (760)
Q Consensus 723 VVAVLSCGHVFHAECLEA~TpeSq--k~DPpCPLCr~ 757 (760)
+-+-|.||||+=. ..|-.+.+ ...-.||+|+.
T Consensus 303 P~VYl~CGHVhG~---h~Wg~~~~~~~~~r~CPlCr~ 336 (416)
T PF04710_consen 303 PWVYLNCGHVHGY---HNWGQDSDRDPRSRTCPLCRQ 336 (416)
T ss_dssp -------------------------------------
T ss_pred ceeeccccceeee---cccccccccccccccCCCccc
Confidence 4568999998632 23433222 24778999984
No 98
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=26.31 E-value=29 Score=41.41 Aligned_cols=35 Identities=23% Similarity=0.487 Sum_probs=24.6
Q ss_pred ccccccccccCCCcCCccCCCCCCceEEecCCccchHhhhhhcCCCC
Q 004343 699 KCDLCNRDLSFASEGQILQPGVRPSTAVLPCGHHFHDYCLQQITPAD 745 (760)
Q Consensus 699 tCGICsKdLSERSsGRIsrsndLPVVAVLSCGHVFHAECLEA~TpeS 745 (760)
.|.+|-..+...+ ..-+-||||-|..|-..|..--
T Consensus 1030 ~C~~C~l~V~gss------------~~Cg~C~Hv~H~sc~~eWf~~g 1064 (1081)
T KOG0309|consen 1030 QCAICHLAVRGSS------------NFCGTCGHVGHTSCMMEWFRTG 1064 (1081)
T ss_pred eeeeEeeEeeccc------------hhhccccccccHHHHHHHHhcC
Confidence 3666655554443 3457899999999999998543
No 99
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=26.30 E-value=27 Score=40.94 Aligned_cols=36 Identities=31% Similarity=0.581 Sum_probs=27.4
Q ss_pred CCcccccc-cccccCCCcCCccCCCCCCceEEecCCccchHhhhhhcC
Q 004343 696 IGYKCDLC-NRDLSFASEGQILQPGVRPSTAVLPCGHHFHDYCLQQIT 742 (760)
Q Consensus 696 dgqtCGIC-sKdLSERSsGRIsrsndLPVVAVLSCGHVFHAECLEA~T 742 (760)
++.-|.|| .+...++-. -.-|-|||+..-.|+|..+
T Consensus 10 ~~l~c~ic~n~f~~~~~~-----------Pvsl~cghtic~~c~~~ly 46 (861)
T KOG3161|consen 10 LLLLCDICLNLFVVQRLE-----------PVSLQCGHTICGHCVQLLY 46 (861)
T ss_pred HHhhchHHHHHHHHHhcC-----------cccccccchHHHHHHHhHh
Confidence 55679999 555565521 2468999999999999887
No 100
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=25.99 E-value=33 Score=36.74 Aligned_cols=43 Identities=19% Similarity=0.396 Sum_probs=29.8
Q ss_pred CcccccccccccCCCcCCccCCCCCCceEEecCCccchHhhhhhcCCCCCCCCCCC
Q 004343 697 GYKCDLCNRDLSFASEGQILQPGVRPSTAVLPCGHHFHDYCLQQITPADQTDNPPC 752 (760)
Q Consensus 697 gqtCGICsKdLSERSsGRIsrsndLPVVAVLSCGHVFHAECLEA~TpeSqk~DPpC 752 (760)
...|+||-..+.. .+..+.|||.|-..|-+.........++.|
T Consensus 70 ~~~c~ic~~~~~~-------------~~~~~~c~H~~c~~cw~~yl~~kI~~~~~~ 112 (444)
T KOG1815|consen 70 DVQCGICVESYDG-------------EIIGLGCGHPFCPPCWTGYLGTKIHEGEEA 112 (444)
T ss_pred cccCCcccCCCcc-------------hhhhcCCCcHHHHHHHHHHhhheeeccccc
Confidence 3678888666544 356899999999999988554433444443
No 101
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=25.87 E-value=21 Score=44.20 Aligned_cols=35 Identities=20% Similarity=0.218 Sum_probs=17.6
Q ss_pred cccccccccccCCCCCCCCCCCCCCCcCCCCccccCCCC
Q 004343 527 STTVPTLAETVHPPPPMGKEKPPPRASKGKSKINVPTRP 565 (760)
Q Consensus 527 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 565 (760)
-||--+|++.+|-. .++-++|--.-+++--+|+.|
T Consensus 473 lTtYdiLr~El~ht----e~~~~~R~lR~qsr~~~~~SP 507 (1394)
T KOG0298|consen 473 LTTYDILRNELYHT----EDFGSDRQLRHQSRYMRPNSP 507 (1394)
T ss_pred EeehHHHHhHhhcc----cccCChhhhhcccCCCCCCCc
Confidence 35555555554433 344455555555555555444
No 102
>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=24.31 E-value=46 Score=25.90 Aligned_cols=26 Identities=31% Similarity=0.823 Sum_probs=15.1
Q ss_pred cCCccchHhhhhhcCCCCCCCCCCCCCC
Q 004343 728 PCGHHFHDYCLQQITPADQTDNPPCIHC 755 (760)
Q Consensus 728 SCGHVFHAECLEA~TpeSqk~DPpCPLC 755 (760)
.|+=-+|..|++.+.... .++.||.|
T Consensus 18 ~C~~r~H~~C~~~y~r~~--~~~~CP~C 43 (43)
T PF08746_consen 18 DCNVRLHDDCFKKYFRHR--SNPKCPNC 43 (43)
T ss_dssp -S--EE-HHHHHHHTTT---SS-B-TTT
T ss_pred ccCchHHHHHHHHHHhcC--CCCCCcCC
Confidence 355669999999998433 35589987
No 103
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=24.14 E-value=39 Score=37.77 Aligned_cols=56 Identities=20% Similarity=0.307 Sum_probs=37.5
Q ss_pred CCCCCCcccccccccccCCCcCCccCCCCCCceEEecCCccchHhhhhhcCC----CCCCCCCCCCCCCCC
Q 004343 692 FPQPIGYKCDLCNRDLSFASEGQILQPGVRPSTAVLPCGHHFHDYCLQQITP----ADQTDNPPCIHCDMH 758 (760)
Q Consensus 692 SVSPdgqtCGICsKdLSERSsGRIsrsndLPVVAVLSCGHVFHAECLEA~Tp----eSqk~DPpCPLCr~G 758 (760)
.+....+.|.||-.--...- -+-.|+|+|||.-.||..-+. +.....-.||-|-=+
T Consensus 179 ~F~~slf~C~ICf~e~~G~~-----------c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C~ 238 (445)
T KOG1814|consen 179 KFVNSLFDCCICFEEQMGQH-----------CFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKCG 238 (445)
T ss_pred HHHhhcccceeeehhhcCcc-----------eeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCCCc
Confidence 34558889999954333211 367899999999999986553 344456667765433
No 104
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=24.11 E-value=29 Score=41.57 Aligned_cols=51 Identities=25% Similarity=0.575 Sum_probs=33.6
Q ss_pred CCcccccccccccCCCcCCccCCCCCCceEEe--cCCcc-chHhhhhhcCCCCCCCCCCCCCCCCCC
Q 004343 696 IGYKCDLCNRDLSFASEGQILQPGVRPSTAVL--PCGHH-FHDYCLQQITPADQTDNPPCIHCDMHE 759 (760)
Q Consensus 696 dgqtCGICsKdLSERSsGRIsrsndLPVVAVL--SCGHV-FHAECLEA~TpeSqk~DPpCPLCr~GE 759 (760)
....|.||...=.+ .|-+| .|--+ ||..||.--..++-...-.|+-|..++
T Consensus 214 E~~~C~IC~~~DpE-------------dVLLLCDsCN~~~YH~YCLDPdl~eiP~~eWYC~NC~dL~ 267 (1134)
T KOG0825|consen 214 EEVKCDICTVHDPE-------------DVLLLCDSCNKVYYHVYCLDPDLSESPVNEWYCTNCSLLE 267 (1134)
T ss_pred ccccceeeccCChH-------------HhheeecccccceeeccccCcccccccccceecCcchhhh
Confidence 55689999754322 23333 57778 999999985544445556688887654
No 105
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=23.35 E-value=67 Score=35.35 Aligned_cols=56 Identities=20% Similarity=0.469 Sum_probs=33.1
Q ss_pred ccccccccccCCCcCCccCCCCCCceEEecCCcc--chHhhhhhcCCCCCCCCCCCCCCCC
Q 004343 699 KCDLCNRDLSFASEGQILQPGVRPSTAVLPCGHH--FHDYCLQQITPADQTDNPPCIHCDM 757 (760)
Q Consensus 699 tCGICsKdLSERSsGRIsrsndLPVVAVLSCGHV--FHAECLEA~TpeSqk~DPpCPLCr~ 757 (760)
.|+.=+..|...+..+-....+-.+-+-|.|||| ||.-=-.. ++...+-.||+|+.
T Consensus 292 QCPVglnTL~~P~~~~~~~~~~~QP~vYl~CGHV~G~H~WG~~e---~~g~~~r~CPmC~~ 349 (429)
T KOG3842|consen 292 QCPVGLNTLAFPSKRRKRVVDEKQPWVYLNCGHVHGYHNWGVRE---NTGQRERECPMCRV 349 (429)
T ss_pred CCCcccceeecccccccccccccCCeEEEecccccccccccccc---ccCcccCcCCeeee
Confidence 4777777777765332233344556789999998 56421111 22234567999974
No 106
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=22.08 E-value=14 Score=29.01 Aligned_cols=22 Identities=27% Similarity=0.578 Sum_probs=15.3
Q ss_pred cchHhhhhhcCCCCCCCCCCCCCC
Q 004343 732 HFHDYCLQQITPADQTDNPPCIHC 755 (760)
Q Consensus 732 VFHAECLEA~TpeSqk~DPpCPLC 755 (760)
.-|.+||++|.... ..-.|++|
T Consensus 26 ~vH~~CL~~W~~~~--~~~~C~~C 47 (47)
T PF12906_consen 26 YVHRSCLERWIRES--GNRKCEIC 47 (47)
T ss_dssp SEECCHHHHHHHHH--T-SB-TTT
T ss_pred hhHHHHHHHHHHhc--CCCcCCCC
Confidence 66999999998653 34448877
No 107
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=21.44 E-value=41 Score=40.33 Aligned_cols=53 Identities=21% Similarity=0.534 Sum_probs=37.7
Q ss_pred CCCCcccccccccccCCCcCCccCCCCCCceEEecCCccchHhhhhhcCCCCCCC---CCCCCCCC
Q 004343 694 QPIGYKCDLCNRDLSFASEGQILQPGVRPSTAVLPCGHHFHDYCLQQITPADQTD---NPPCIHCD 756 (760)
Q Consensus 694 SPdgqtCGICsKdLSERSsGRIsrsndLPVVAVLSCGHVFHAECLEA~TpeSqk~---DPpCPLCr 756 (760)
+.+.+.|.||-..+...- ++-+-=+|=||||..|+..|-..+++. ---||.|.
T Consensus 188 ~~~~yeCmIC~e~I~~t~----------~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cq 243 (950)
T KOG1952|consen 188 SNRKYECMICTERIKRTA----------PVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQ 243 (950)
T ss_pred hcCceEEEEeeeeccccC----------CceecchhhhhhhHHHHHHHHHHhhhccCccccCCccc
Confidence 347889999987776652 233444678999999999997654443 45688875
No 108
>COG0675 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=20.02 E-value=52 Score=31.11 Aligned_cols=28 Identities=21% Similarity=0.303 Sum_probs=20.2
Q ss_pred CCcccccccccccCCCcCCccCCCCCCceEEecCCccchHh
Q 004343 696 IGYKCDLCNRDLSFASEGQILQPGVRPSTAVLPCGHHFHDY 736 (760)
Q Consensus 696 dgqtCGICsKdLSERSsGRIsrsndLPVVAVLSCGHVFHAE 736 (760)
.-..|..|+. |..+ ...-..|||++|++
T Consensus 308 tS~~C~~cg~-~~~r------------~~~C~~cg~~~~rD 335 (364)
T COG0675 308 TSKTCPCCGH-LSGR------------LFKCPRCGFVHDRD 335 (364)
T ss_pred CcccccccCC-ccce------------eEECCCCCCeehhh
Confidence 5578999998 4433 23455799999986
Done!