Query 035521
Match_columns 302
No_of_seqs 153 out of 898
Neff 6.3
Searched_HMMs 46136
Date Fri Mar 29 03:41:20 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/035521.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/035521hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd02340 ZZ_NBR1_like Zinc fing 98.4 2.5E-07 5.3E-12 63.2 3.1 39 32-76 2-41 (43)
2 PF07649 C1_3: C1-like domain; 98.3 2.4E-07 5.2E-12 58.3 0.7 29 31-59 1-30 (30)
3 PF07649 C1_3: C1-like domain; 98.2 4.5E-07 9.7E-12 57.1 0.8 29 88-116 1-30 (30)
4 PF03107 C1_2: C1 domain; Int 98.1 1.4E-06 3.1E-11 54.8 2.3 29 88-116 1-30 (30)
5 cd02339 ZZ_Mind_bomb Zinc fing 98.0 5.2E-06 1.1E-10 57.2 3.0 40 32-76 2-43 (45)
6 cd02344 ZZ_HERC2 Zinc finger, 97.9 7.1E-06 1.5E-10 56.5 2.8 40 32-76 2-43 (45)
7 PF03107 C1_2: C1 domain; Int 97.9 7E-06 1.5E-10 51.7 2.4 29 31-59 1-30 (30)
8 cd02249 ZZ Zinc finger, ZZ typ 97.9 8.8E-06 1.9E-10 56.1 3.0 43 31-76 1-44 (46)
9 cd02340 ZZ_NBR1_like Zinc fing 97.9 8.8E-06 1.9E-10 55.5 2.5 31 89-119 2-33 (43)
10 cd02338 ZZ_PCMF_like Zinc fing 97.8 1.4E-05 2.9E-10 56.1 2.6 44 32-77 2-48 (49)
11 cd02342 ZZ_UBA_plant Zinc fing 97.8 1.4E-05 3E-10 54.3 1.8 31 32-62 2-34 (43)
12 cd02249 ZZ Zinc finger, ZZ typ 97.7 2.7E-05 5.8E-10 53.7 2.6 33 88-120 1-34 (46)
13 cd02341 ZZ_ZZZ3 Zinc finger, Z 97.6 4E-05 8.7E-10 53.5 2.4 33 88-120 1-37 (48)
14 cd02338 ZZ_PCMF_like Zinc fing 97.6 4.5E-05 9.8E-10 53.4 2.6 43 89-133 2-48 (49)
15 cd02341 ZZ_ZZZ3 Zinc finger, Z 97.6 5E-05 1.1E-09 53.1 2.7 41 32-76 2-46 (48)
16 cd02335 ZZ_ADA2 Zinc finger, Z 97.6 7.3E-05 1.6E-09 52.3 3.2 44 32-77 2-48 (49)
17 cd02345 ZZ_dah Zinc finger, ZZ 97.5 5.1E-05 1.1E-09 53.2 2.3 43 32-76 2-47 (49)
18 cd02334 ZZ_dystrophin Zinc fin 97.5 6.7E-05 1.5E-09 52.6 2.5 31 32-62 2-34 (49)
19 cd02343 ZZ_EF Zinc finger, ZZ 97.5 6.7E-05 1.5E-09 52.3 2.5 33 32-64 2-35 (48)
20 cd02339 ZZ_Mind_bomb Zinc fing 97.5 6.8E-05 1.5E-09 51.7 2.4 30 89-118 2-33 (45)
21 cd02344 ZZ_HERC2 Zinc finger, 97.5 7.7E-05 1.7E-09 51.4 2.6 30 89-118 2-33 (45)
22 cd02343 ZZ_EF Zinc finger, ZZ 97.5 6.7E-05 1.5E-09 52.3 1.9 34 89-122 2-36 (48)
23 cd02335 ZZ_ADA2 Zinc finger, Z 97.4 0.00013 2.9E-09 51.0 2.9 33 89-121 2-36 (49)
24 cd02334 ZZ_dystrophin Zinc fin 97.4 0.00012 2.5E-09 51.4 2.3 32 89-120 2-35 (49)
25 cd02345 ZZ_dah Zinc finger, ZZ 97.3 0.00011 2.5E-09 51.4 2.0 32 89-120 2-35 (49)
26 KOG1280 Uncharacterized conser 97.3 0.00012 2.5E-09 70.0 2.4 103 85-187 6-130 (381)
27 smart00291 ZnF_ZZ Zinc-binding 97.3 0.00017 3.6E-09 49.3 2.0 32 30-61 4-36 (44)
28 PF00569 ZZ: Zinc finger, ZZ t 97.2 9.8E-05 2.1E-09 51.0 0.5 31 30-60 4-36 (46)
29 KOG1280 Uncharacterized conser 97.2 0.00018 3.9E-09 68.8 2.3 50 29-80 7-59 (381)
30 cd02337 ZZ_CBP Zinc finger, ZZ 97.2 0.00024 5.2E-09 48.0 2.2 29 32-61 2-31 (41)
31 cd02337 ZZ_CBP Zinc finger, ZZ 97.2 0.0002 4.2E-09 48.4 1.6 37 89-132 2-39 (41)
32 cd02342 ZZ_UBA_plant Zinc fing 97.1 0.00022 4.7E-09 48.5 1.4 31 89-119 2-34 (43)
33 KOG4582 Uncharacterized conser 97.1 0.00026 5.6E-09 66.7 2.3 42 31-77 153-196 (278)
34 smart00291 ZnF_ZZ Zinc-binding 97.1 0.00035 7.6E-09 47.7 2.1 33 87-119 4-37 (44)
35 PF00569 ZZ: Zinc finger, ZZ t 97.0 0.00025 5.5E-09 48.9 1.2 33 87-119 4-38 (46)
36 PF00130 C1_1: Phorbol esters/ 96.7 0.0012 2.6E-08 46.3 2.2 42 17-61 1-45 (53)
37 PF00130 C1_1: Phorbol esters/ 96.5 0.0026 5.6E-08 44.5 3.2 37 142-178 10-48 (53)
38 KOG0696 Serine/threonine prote 96.3 0.00098 2.1E-08 65.9 -0.3 95 17-119 46-156 (683)
39 KOG4236 Serine/threonine prote 96.2 0.00041 8.9E-09 70.3 -3.3 46 13-61 142-190 (888)
40 KOG0696 Serine/threonine prote 96.1 0.0016 3.5E-08 64.4 0.5 89 86-178 55-158 (683)
41 KOG4582 Uncharacterized conser 95.8 0.0046 1E-07 58.3 1.7 32 88-119 153-186 (278)
42 cd00029 C1 Protein kinase C co 95.6 0.0097 2.1E-07 40.6 2.4 32 30-61 11-45 (50)
43 cd00029 C1 Protein kinase C co 95.0 0.015 3.3E-07 39.6 1.9 32 87-118 11-45 (50)
44 smart00109 C1 Protein kinase C 95.0 0.013 2.8E-07 39.6 1.5 32 30-61 11-44 (49)
45 KOG4236 Serine/threonine prote 94.8 0.0033 7.2E-08 63.9 -2.6 33 86-118 155-190 (888)
46 smart00109 C1 Protein kinase C 94.4 0.015 3.2E-07 39.3 0.6 32 87-118 11-44 (49)
47 KOG0956 PHD finger protein AF1 94.2 0.035 7.6E-07 57.6 3.2 126 31-176 6-157 (900)
48 KOG0954 PHD finger protein [Ge 92.7 0.088 1.9E-06 55.2 3.1 128 29-177 270-414 (893)
49 KOG4286 Dystrophin-like protei 92.3 0.051 1.1E-06 57.0 0.8 46 30-77 603-651 (966)
50 cd02336 ZZ_RSC8 Zinc finger, Z 90.5 0.19 4E-06 34.6 1.8 31 89-119 2-33 (45)
51 KOG0957 PHD finger protein [Ge 89.9 0.14 3E-06 51.6 1.2 136 30-176 119-275 (707)
52 KOG4286 Dystrophin-like protei 89.4 0.17 3.8E-06 53.2 1.5 46 87-134 603-652 (966)
53 KOG0457 Histone acetyltransfer 88.9 0.29 6.2E-06 48.6 2.6 51 29-80 13-65 (438)
54 PF13832 zf-HC5HC2H_2: PHD-zin 88.9 0.51 1.1E-05 37.8 3.6 84 32-119 2-88 (110)
55 cd02336 ZZ_RSC8 Zinc finger, Z 87.9 0.31 6.6E-06 33.6 1.4 30 32-61 2-32 (45)
56 KOG0457 Histone acetyltransfer 87.7 0.29 6.3E-06 48.5 1.7 46 142-187 13-60 (438)
57 KOG0956 PHD finger protein AF1 86.6 0.41 8.9E-06 50.0 2.1 89 29-118 47-156 (900)
58 PF13832 zf-HC5HC2H_2: PHD-zin 86.0 0.64 1.4E-05 37.2 2.6 84 89-177 2-89 (110)
59 KOG1169 Diacylglycerol kinase 83.7 0.45 9.7E-06 49.5 0.9 92 87-178 44-149 (634)
60 KOG2807 RNA polymerase II tran 83.5 0.77 1.7E-05 44.2 2.3 84 92-175 267-362 (378)
61 PF00628 PHD: PHD-finger; Int 80.5 1.6 3.4E-05 29.9 2.4 34 145-178 1-34 (51)
62 TIGR00622 ssl1 transcription f 80.2 1.8 3.9E-05 35.6 3.0 33 143-175 55-98 (112)
63 smart00249 PHD PHD zinc finger 79.2 3.5 7.6E-05 26.7 3.8 32 32-63 1-33 (47)
64 TIGR00622 ssl1 transcription f 77.3 3.6 7.9E-05 33.8 4.0 32 87-118 55-98 (112)
65 COG5114 Histone acetyltransfer 76.2 1.2 2.6E-05 42.8 1.1 51 30-83 5-59 (432)
66 KOG2807 RNA polymerase II tran 75.9 2 4.2E-05 41.5 2.3 88 30-118 263-362 (378)
67 smart00249 PHD PHD zinc finger 74.8 2.6 5.5E-05 27.4 2.1 34 145-178 1-34 (47)
68 COG5114 Histone acetyltransfer 73.4 1.7 3.8E-05 41.8 1.3 46 142-187 4-51 (432)
69 KOG0955 PHD finger protein BR1 72.1 3.2 6.9E-05 45.9 3.1 128 29-178 218-365 (1051)
70 KOG0957 PHD finger protein [Ge 71.1 3.3 7.1E-05 42.2 2.7 34 143-176 544-577 (707)
71 KOG1169 Diacylglycerol kinase 68.6 4.6 9.9E-05 42.3 3.2 140 32-175 46-211 (634)
72 PF14446 Prok-RING_1: Prokaryo 67.6 4.2 9E-05 29.1 1.9 33 29-61 4-38 (54)
73 KOG0193 Serine/threonine prote 66.7 2.9 6.3E-05 43.6 1.4 32 30-61 189-220 (678)
74 smart00396 ZnF_UBR1 Putative z 64.9 7.3 0.00016 29.1 2.9 40 35-80 2-47 (71)
75 PF00628 PHD: PHD-finger; Int 62.3 9.5 0.00021 25.9 2.9 32 89-120 1-33 (51)
76 KOG4301 Beta-dystrobrevin [Cyt 62.1 2.8 6.1E-05 40.7 0.3 32 30-61 240-273 (434)
77 PF07975 C1_4: TFIIH C1-like d 58.6 3.5 7.5E-05 29.2 0.2 29 32-60 1-37 (51)
78 KOG1244 Predicted transcriptio 58.3 4.9 0.00011 38.0 1.1 98 30-151 224-330 (336)
79 KOG4301 Beta-dystrobrevin [Cyt 55.9 3.9 8.4E-05 39.8 0.1 32 87-118 240-273 (434)
80 KOG0694 Serine/threonine prote 54.7 4.2 9E-05 42.9 0.1 100 12-118 154-275 (694)
81 PF07975 C1_4: TFIIH C1-like d 54.6 5.6 0.00012 28.1 0.7 30 146-175 2-38 (51)
82 PF13842 Tnp_zf-ribbon_2: DDE_ 53.6 12 0.00027 23.6 2.1 27 145-171 2-29 (32)
83 PF02318 FYVE_2: FYVE-type zin 53.3 3.5 7.6E-05 33.7 -0.6 56 86-160 53-116 (118)
84 KOG0695 Serine/threonine prote 52.6 4.6 0.0001 39.7 0.0 32 30-61 141-175 (593)
85 COG2888 Predicted Zn-ribbon RN 52.4 6.3 0.00014 28.8 0.7 21 144-167 39-59 (61)
86 KOG1701 Focal adhesion adaptor 50.6 3.1 6.7E-05 41.5 -1.5 30 31-60 275-304 (468)
87 PF07754 DUF1610: Domain of un 50.1 15 0.00032 22.0 1.9 20 90-109 1-24 (24)
88 PF14446 Prok-RING_1: Prokaryo 48.8 13 0.00029 26.6 1.8 33 87-119 5-39 (54)
89 PRK14890 putative Zn-ribbon RN 48.5 8.4 0.00018 28.1 0.8 20 145-167 38-57 (59)
90 KOG0694 Serine/threonine prote 48.4 3.6 7.8E-05 43.3 -1.5 88 87-178 169-278 (694)
91 PF00643 zf-B_box: B-box zinc 48.3 11 0.00023 24.6 1.3 31 87-119 3-33 (42)
92 COG5141 PHD zinc finger-contai 46.7 15 0.00032 37.6 2.4 135 30-176 193-336 (669)
93 KOG2996 Rho guanine nucleotide 46.5 16 0.00035 38.1 2.7 36 143-178 534-571 (865)
94 COG5151 SSL1 RNA polymerase II 45.6 11 0.00024 36.3 1.4 88 87-175 295-405 (421)
95 PF10367 Vps39_2: Vacuolar sor 45.4 16 0.00035 28.3 2.1 31 30-60 78-108 (109)
96 PF02148 zf-UBP: Zn-finger in 43.2 3.2 7E-05 30.1 -2.1 59 33-97 1-59 (63)
97 KOG0695 Serine/threonine prote 41.8 9.9 0.00021 37.4 0.4 33 86-118 140-175 (593)
98 KOG1244 Predicted transcriptio 41.2 18 0.0004 34.2 2.1 86 87-179 224-317 (336)
99 TIGR01384 TFS_arch transcripti 40.9 75 0.0016 24.9 5.3 25 32-56 2-28 (104)
100 KOG0193 Serine/threonine prote 40.7 12 0.00027 39.1 0.9 32 87-118 189-220 (678)
101 KOG1512 PHD Zn-finger protein 40.7 13 0.00029 35.4 1.1 81 30-118 258-346 (381)
102 PF08746 zf-RING-like: RING-li 40.0 9.3 0.0002 25.8 -0.0 31 146-178 1-33 (43)
103 PF04438 zf-HIT: HIT zinc fing 37.6 22 0.00048 22.2 1.4 24 87-113 2-25 (30)
104 PHA00626 hypothetical protein 36.9 20 0.00044 25.9 1.3 23 145-170 13-35 (59)
105 PF12773 DZR: Double zinc ribb 36.9 34 0.00074 23.1 2.4 21 87-107 29-49 (50)
106 PF13831 PHD_2: PHD-finger; PD 36.4 14 0.0003 24.0 0.3 22 157-178 3-24 (36)
107 PF10367 Vps39_2: Vacuolar sor 35.7 28 0.00061 26.9 2.1 31 87-117 78-108 (109)
108 KOG0825 PHD Zn-finger protein 35.6 23 0.0005 38.2 2.0 33 29-61 214-248 (1134)
109 COG4371 Predicted membrane pro 34.9 52 0.0011 31.0 3.9 50 250-300 25-88 (334)
110 PF10571 UPF0547: Uncharacteri 30.8 29 0.00064 21.0 1.1 23 89-111 2-24 (26)
111 KOG2996 Rho guanine nucleotide 30.0 15 0.00033 38.3 -0.4 32 30-61 534-568 (865)
112 PTZ00303 phosphatidylinositol 28.2 47 0.001 36.1 2.7 31 31-61 461-498 (1374)
113 PF13909 zf-H2C2_5: C2H2-type 28.1 31 0.00067 19.6 0.9 10 45-54 1-10 (24)
114 KOG2186 Cell growth-regulating 27.2 24 0.00052 33.1 0.4 32 30-61 3-53 (276)
115 KOG1512 PHD Zn-finger protein 26.6 34 0.00073 32.7 1.3 81 87-175 258-346 (381)
116 PF01363 FYVE: FYVE zinc finge 26.3 53 0.0011 23.7 2.1 37 142-178 8-45 (69)
117 PF13901 DUF4206: Domain of un 26.0 44 0.00096 29.9 1.9 35 141-175 150-189 (202)
118 PF14569 zf-UDP: Zinc-binding 25.8 24 0.00053 27.2 0.2 37 142-178 8-48 (80)
119 COG5151 SSL1 RNA polymerase II 25.6 48 0.001 32.1 2.1 88 30-118 295-405 (421)
120 smart00064 FYVE Protein presen 24.6 76 0.0016 22.7 2.6 33 87-119 10-44 (68)
121 PF02207 zf-UBR: Putative zinc 23.3 38 0.00083 25.0 0.8 46 36-91 3-54 (71)
122 KOG4367 Predicted Zn-finger pr 22.1 30 0.00065 35.0 0.0 86 29-118 161-252 (699)
123 KOG1044 Actin-binding LIM Zn-f 22.1 1.1E+02 0.0024 32.1 4.0 14 30-43 16-29 (670)
124 KOG1356 Putative transcription 21.1 43 0.00093 36.4 0.9 34 28-61 227-260 (889)
125 KOG0955 PHD finger protein BR1 21.0 64 0.0014 36.1 2.3 38 141-178 217-256 (1051)
126 PF07282 OrfB_Zn_ribbon: Putat 21.0 93 0.002 22.4 2.5 29 29-57 27-59 (69)
127 smart00154 ZnF_AN1 AN1-like Zi 21.0 83 0.0018 20.7 2.0 24 33-56 1-24 (39)
128 PF13240 zinc_ribbon_2: zinc-r 20.9 55 0.0012 19.1 1.0 20 90-109 2-21 (23)
129 KOG1356 Putative transcription 20.5 50 0.0011 35.9 1.3 33 87-119 229-261 (889)
130 KOG4317 Predicted Zn-finger pr 20.4 47 0.001 32.2 1.0 30 143-175 7-37 (383)
131 KOG3507 DNA-directed RNA polym 20.1 48 0.001 24.2 0.7 27 142-168 19-47 (62)
No 1
>cd02340 ZZ_NBR1_like Zinc finger, ZZ type. Zinc finger present in Drosophila ref(2)P, NBR1, Human sequestosome 1 and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. Drosophila ref(2)P appears to control the multiplication of sigma rhabdovirus. NBR1 (Next to BRCA1 gene 1 protein) interacts with fasciculation and elongation protein zeta-1 (FEZ1) and calcium and integrin binding protein (CIB), and may function in cell signalling pathways. Sequestosome 1 is a phosphotyrosine independent ligand for the Lck SH2 domain and binds noncovalently to ubiquitin via its UBA domain.
Probab=98.39 E-value=2.5e-07 Score=63.19 Aligned_cols=39 Identities=31% Similarity=0.761 Sum_probs=33.3
Q ss_pred cCccCCCCCCCCcEeecCC-CCCCccccCCCCceecCCCCCCCccc
Q 035521 32 SCSACKLQPSGLMYTCKPC-NFTLHVSCTQMPQLITHPSHPAHSLS 76 (302)
Q Consensus 32 ~Cd~C~~~~~g~~Y~C~~C-~f~lH~~Ca~~P~~i~Hp~Hp~H~L~ 76 (302)
.||+|++++.|.+|+|.+| ||+||.+|.... . |+.|+|.
T Consensus 2 ~Cd~C~~~i~G~ry~C~~C~d~dLC~~C~~~~---~---H~~H~f~ 41 (43)
T cd02340 2 ICDGCQGPIVGVRYKCLVCPDYDLCESCEAKG---V---HPEHAML 41 (43)
T ss_pred CCCCCCCcCcCCeEECCCCCCccchHHhhCcC---C---CCCCCEE
Confidence 6999999999999999999 899999999854 3 3557664
No 2
>PF07649 C1_3: C1-like domain; InterPro: IPR011424 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in IPR002219 from INTERPRO. C1 domains are protein kinase C-like zinc finger structures. Diacylglycerol (DAG) kinases (DGKs) have a two or three commonly conserved cysteine-rich C1 domains []. DGKs modulate the balance between the two signaling lipids, DAG and phosphatidic acid (PA), by phosphorylating DAG to yield PA []. The PKD (protein kinase D) family are novel DAG receptors. They have twin C1 domains, designated C1a and C1b, which bind DAG or phorbol esters. Individual C1 domains differ in ligand-binding activity and selectivity []. ; GO: 0047134 protein-disulfide reductase activity, 0055114 oxidation-reduction process; PDB: 1V5N_A.
Probab=98.26 E-value=2.4e-07 Score=58.31 Aligned_cols=29 Identities=38% Similarity=0.980 Sum_probs=14.1
Q ss_pred ccCccCCCCCCC-CcEeecCCCCCCccccC
Q 035521 31 TSCSACKLQPSG-LMYTCKPCNFTLHVSCT 59 (302)
Q Consensus 31 ~~Cd~C~~~~~g-~~Y~C~~C~f~lH~~Ca 59 (302)
+.|++|++++.+ ..|+|.+|||+||.+||
T Consensus 1 ~~C~~C~~~~~~~~~Y~C~~Cdf~lH~~Ca 30 (30)
T PF07649_consen 1 FRCDACGKPIDGGWFYRCSECDFDLHEECA 30 (30)
T ss_dssp ---TTTS----S--EEE-TTT-----HHHH
T ss_pred CcCCcCCCcCCCCceEECccCCCccChhcC
Confidence 469999999887 89999999999999996
No 3
>PF07649 C1_3: C1-like domain; InterPro: IPR011424 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in IPR002219 from INTERPRO. C1 domains are protein kinase C-like zinc finger structures. Diacylglycerol (DAG) kinases (DGKs) have a two or three commonly conserved cysteine-rich C1 domains []. DGKs modulate the balance between the two signaling lipids, DAG and phosphatidic acid (PA), by phosphorylating DAG to yield PA []. The PKD (protein kinase D) family are novel DAG receptors. They have twin C1 domains, designated C1a and C1b, which bind DAG or phorbol esters. Individual C1 domains differ in ligand-binding activity and selectivity []. ; GO: 0047134 protein-disulfide reductase activity, 0055114 oxidation-reduction process; PDB: 1V5N_A.
Probab=98.19 E-value=4.5e-07 Score=57.05 Aligned_cols=29 Identities=55% Similarity=1.331 Sum_probs=14.1
Q ss_pred eecccCCCCCCC-eeEEcCCCCcccccccc
Q 035521 88 FNCDGCGRQGHG-FSYHCTHCDFDLHILCA 116 (302)
Q Consensus 88 ~~C~~C~~~i~G-~~Y~C~~CdfdlH~~Ca 116 (302)
+.|++|++.+.+ +.|+|.+|||++|..||
T Consensus 1 ~~C~~C~~~~~~~~~Y~C~~Cdf~lH~~Ca 30 (30)
T PF07649_consen 1 FRCDACGKPIDGGWFYRCSECDFDLHEECA 30 (30)
T ss_dssp ---TTTS----S--EEE-TTT-----HHHH
T ss_pred CcCCcCCCcCCCCceEECccCCCccChhcC
Confidence 479999999987 99999999999999996
No 4
>PF03107 C1_2: C1 domain; InterPro: IPR004146 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in DAG_PE-bind (IPR002219 from INTERPRO), therefore we have termed this domain DC1 for divergent C1 domain. This domain probably also binds to two zinc ions. The function of proteins with this domain is uncertain, however this domain may bind to molecules such as diacylglycerol. This family are found in plant proteins.
Probab=98.14 E-value=1.4e-06 Score=54.81 Aligned_cols=29 Identities=55% Similarity=1.228 Sum_probs=27.3
Q ss_pred eecccCCCCCCCe-eEEcCCCCcccccccc
Q 035521 88 FNCDGCGRQGHGF-SYHCTHCDFDLHILCA 116 (302)
Q Consensus 88 ~~C~~C~~~i~G~-~Y~C~~CdfdlH~~Ca 116 (302)
+.|++|++.+.++ .|+|++|+|++|++||
T Consensus 1 ~~C~~C~~~~~~~~~Y~C~~c~f~lh~~Ca 30 (30)
T PF03107_consen 1 FWCDVCRRKIDGFYFYHCSECCFTLHVRCA 30 (30)
T ss_pred CCCCCCCCCcCCCEeEEeCCCCCeEcCccC
Confidence 4799999999999 9999999999999997
No 5
>cd02339 ZZ_Mind_bomb Zinc finger, ZZ type. Zinc finger present in Drosophila Mind bomb (D-mib) and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. Mind bomb is an E3 ubiqitin ligase that has been shown to regulate signaling by the Notch ligand Delta in Drosophila melanogaster.
Probab=98.00 E-value=5.2e-06 Score=57.24 Aligned_cols=40 Identities=25% Similarity=0.652 Sum_probs=31.9
Q ss_pred cCccCCC-CCCCCcEeecCC-CCCCccccCCCCceecCCCCCCCccc
Q 035521 32 SCSACKL-QPSGLMYTCKPC-NFTLHVSCTQMPQLITHPSHPAHSLS 76 (302)
Q Consensus 32 ~Cd~C~~-~~~g~~Y~C~~C-~f~lH~~Ca~~P~~i~Hp~Hp~H~L~ 76 (302)
.||+|++ ++.|.+|+|.+| |||||..|... -.| ++.|+|.
T Consensus 2 ~Cd~C~~~~i~G~RykC~~C~dyDLC~~C~~~---~~H--~~~H~f~ 43 (45)
T cd02339 2 ICDTCRKQGIIGIRWKCAECPNYDLCTTCYHG---DKH--DLEHRFY 43 (45)
T ss_pred CCCCCCCCCcccCeEECCCCCCccchHHHhCC---CCC--CCCCCEE
Confidence 6999995 788999999999 89999999973 222 3456664
No 6
>cd02344 ZZ_HERC2 Zinc finger, ZZ type. Zinc finger present in HERC2 and related proteins. HERC2 is a potential E3 ubiquitin protein ligase and/or guanine nucleotide exchange factor. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding.
Probab=97.93 E-value=7.1e-06 Score=56.52 Aligned_cols=40 Identities=23% Similarity=0.765 Sum_probs=32.5
Q ss_pred cCccCCC-CCCCCcEeecCC-CCCCccccCCCCceecCCCCCCCccc
Q 035521 32 SCSACKL-QPSGLMYTCKPC-NFTLHVSCTQMPQLITHPSHPAHSLS 76 (302)
Q Consensus 32 ~Cd~C~~-~~~g~~Y~C~~C-~f~lH~~Ca~~P~~i~Hp~Hp~H~L~ 76 (302)
.||+|+. +|.|.+|+|.+| ||||++.|... -.|. +.|.|.
T Consensus 2 ~Cd~C~~~pI~G~RykC~~C~dyDLC~~Cf~~---~~H~--~~H~F~ 43 (45)
T cd02344 2 TCDGCQMFPINGPRFKCRNCDDFDFCENCFKT---RKHN--TRHTFG 43 (45)
T ss_pred CCCCCCCCCCccCeEECCCCCCccchHHhhCC---CCcC--CCCcee
Confidence 6999996 799999999999 89999999974 2343 356664
No 7
>PF03107 C1_2: C1 domain; InterPro: IPR004146 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in DAG_PE-bind (IPR002219 from INTERPRO), therefore we have termed this domain DC1 for divergent C1 domain. This domain probably also binds to two zinc ions. The function of proteins with this domain is uncertain, however this domain may bind to molecules such as diacylglycerol. This family are found in plant proteins.
Probab=97.92 E-value=7e-06 Score=51.66 Aligned_cols=29 Identities=41% Similarity=1.048 Sum_probs=27.0
Q ss_pred ccCccCCCCCCCC-cEeecCCCCCCccccC
Q 035521 31 TSCSACKLQPSGL-MYTCKPCNFTLHVSCT 59 (302)
Q Consensus 31 ~~Cd~C~~~~~g~-~Y~C~~C~f~lH~~Ca 59 (302)
+.|++|++.+.+. .|+|++|+|.||..||
T Consensus 1 ~~C~~C~~~~~~~~~Y~C~~c~f~lh~~Ca 30 (30)
T PF03107_consen 1 FWCDVCRRKIDGFYFYHCSECCFTLHVRCA 30 (30)
T ss_pred CCCCCCCCCcCCCEeEEeCCCCCeEcCccC
Confidence 4799999999998 9999999999999996
No 8
>cd02249 ZZ Zinc finger, ZZ type. Zinc finger present in dystrophin, CBP/p300 and many other proteins. The ZZ motif coordinates one or two zinc ions and most likely participates in ligand binding or molecular scaffolding. Many proteins containing ZZ motifs have other zinc-binding motifs as well, and the majority serve as scaffolds in pathways involving acetyltransferase, protein kinase, or ubiqitin-related activity. ZZ proteins can be grouped into the following functional classes: chromatin modifying, cytoskeletal scaffolding, ubiquitin binding or conjugating, and membrane receptor or ion-channel modifying proteins.
Probab=97.91 E-value=8.8e-06 Score=56.10 Aligned_cols=43 Identities=37% Similarity=0.775 Sum_probs=33.9
Q ss_pred ccCccCCCCCCCCcEeecCC-CCCCccccCCCCceecCCCCCCCccc
Q 035521 31 TSCSACKLQPSGLMYTCKPC-NFTLHVSCTQMPQLITHPSHPAHSLS 76 (302)
Q Consensus 31 ~~Cd~C~~~~~g~~Y~C~~C-~f~lH~~Ca~~P~~i~Hp~Hp~H~L~ 76 (302)
+.||+|+.++.|.+|+|.+| ||+|+.+|+.... -.|+ +.|++.
T Consensus 1 ~~C~~C~~~i~g~r~~C~~C~d~dLC~~Cf~~~~-~~H~--~~H~~~ 44 (46)
T cd02249 1 YSCDGCLKPIVGVRYHCLVCEDFDLCSSCYAKGK-KGHP--PDHSFT 44 (46)
T ss_pred CCCcCCCCCCcCCEEECCCCCCCcCHHHHHCcCc-CCCC--CCCCEe
Confidence 36999999999999999999 7999999998654 2333 246654
No 9
>cd02340 ZZ_NBR1_like Zinc finger, ZZ type. Zinc finger present in Drosophila ref(2)P, NBR1, Human sequestosome 1 and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. Drosophila ref(2)P appears to control the multiplication of sigma rhabdovirus. NBR1 (Next to BRCA1 gene 1 protein) interacts with fasciculation and elongation protein zeta-1 (FEZ1) and calcium and integrin binding protein (CIB), and may function in cell signalling pathways. Sequestosome 1 is a phosphotyrosine independent ligand for the Lck SH2 domain and binds noncovalently to ubiquitin via its UBA domain.
Probab=97.88 E-value=8.8e-06 Score=55.51 Aligned_cols=31 Identities=42% Similarity=0.897 Sum_probs=29.2
Q ss_pred ecccCCCCCCCeeEEcCCC-CccccccccCCC
Q 035521 89 NCDGCGRQGHGFSYHCTHC-DFDLHILCATKP 119 (302)
Q Consensus 89 ~C~~C~~~i~G~~Y~C~~C-dfdlH~~Ca~lP 119 (302)
.|+.|++++.|.+|+|.+| ||+||..|....
T Consensus 2 ~Cd~C~~~i~G~ry~C~~C~d~dLC~~C~~~~ 33 (43)
T cd02340 2 ICDGCQGPIVGVRYKCLVCPDYDLCESCEAKG 33 (43)
T ss_pred CCCCCCCcCcCCeEECCCCCCccchHHhhCcC
Confidence 6999999999999999999 899999999875
No 10
>cd02338 ZZ_PCMF_like Zinc finger, ZZ type. Zinc finger present in potassium channel modulatory factor (PCMF) 1 and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. Human potassium channel modulatory factor 1 or FIGC has been shown to possess intrinsic E3 ubiquitin ligase activity and to promote ubiquitination.
Probab=97.81 E-value=1.4e-05 Score=56.07 Aligned_cols=44 Identities=25% Similarity=0.562 Sum_probs=34.1
Q ss_pred cCccCC-CCCCCCcEeecCC-CCCCccccCCCCceecCCCC-CCCcccc
Q 035521 32 SCSACK-LQPSGLMYTCKPC-NFTLHVSCTQMPQLITHPSH-PAHSLSL 77 (302)
Q Consensus 32 ~Cd~C~-~~~~g~~Y~C~~C-~f~lH~~Ca~~P~~i~Hp~H-p~H~L~L 77 (302)
.|++|+ .++.|.+|+|.+| ||+|+.+|+....+. ..| +.|++++
T Consensus 2 ~C~~C~~~~i~g~R~~C~~C~d~dlC~~Cf~~~~~~--~~H~~~H~~~~ 48 (49)
T cd02338 2 SCDGCGKSNFTGRRYKCLICYDYDLCADCYDSGVTT--ERHLFDHPMQC 48 (49)
T ss_pred CCCCCcCCCcEEeeEEeCCCCCCccchhHHhCCCcC--CCCCCCCCEEE
Confidence 699999 5789999999999 999999999865332 223 3576654
No 11
>cd02342 ZZ_UBA_plant Zinc finger, ZZ type. Zinc finger present in plant ubiquitin-associated (UBA) proteins. The ZZ motif coordinates a zinc ion and most likely participates in ligand binding or molecular scaffolding.
Probab=97.76 E-value=1.4e-05 Score=54.29 Aligned_cols=31 Identities=23% Similarity=0.500 Sum_probs=28.3
Q ss_pred cCccCCC-CCCCCcEeecCC-CCCCccccCCCC
Q 035521 32 SCSACKL-QPSGLMYTCKPC-NFTLHVSCTQMP 62 (302)
Q Consensus 32 ~Cd~C~~-~~~g~~Y~C~~C-~f~lH~~Ca~~P 62 (302)
.||+|+. +|.|.+|+|..| ||||++.|....
T Consensus 2 ~CDgCg~~PI~G~RykC~~C~dyDLC~~C~~~~ 34 (43)
T cd02342 2 QCDGCGVLPITGPRYKSKVKEDYDLCTICFSRM 34 (43)
T ss_pred CCCCCCCCcccccceEeCCCCCCccHHHHhhhh
Confidence 6999997 799999999999 999999999753
No 12
>cd02249 ZZ Zinc finger, ZZ type. Zinc finger present in dystrophin, CBP/p300 and many other proteins. The ZZ motif coordinates one or two zinc ions and most likely participates in ligand binding or molecular scaffolding. Many proteins containing ZZ motifs have other zinc-binding motifs as well, and the majority serve as scaffolds in pathways involving acetyltransferase, protein kinase, or ubiqitin-related activity. ZZ proteins can be grouped into the following functional classes: chromatin modifying, cytoskeletal scaffolding, ubiquitin binding or conjugating, and membrane receptor or ion-channel modifying proteins.
Probab=97.70 E-value=2.7e-05 Score=53.69 Aligned_cols=33 Identities=45% Similarity=0.974 Sum_probs=30.1
Q ss_pred eecccCCCCCCCeeEEcCCC-CccccccccCCCc
Q 035521 88 FNCDGCGRQGHGFSYHCTHC-DFDLHILCATKPL 120 (302)
Q Consensus 88 ~~C~~C~~~i~G~~Y~C~~C-dfdlH~~Ca~lP~ 120 (302)
+.|+.|.+.+.|.+|+|.+| +|+||..|.....
T Consensus 1 ~~C~~C~~~i~g~r~~C~~C~d~dLC~~Cf~~~~ 34 (46)
T cd02249 1 YSCDGCLKPIVGVRYHCLVCEDFDLCSSCYAKGK 34 (46)
T ss_pred CCCcCCCCCCcCCEEECCCCCCCcCHHHHHCcCc
Confidence 46999999999999999999 6999999999765
No 13
>cd02341 ZZ_ZZZ3 Zinc finger, ZZ type. Zinc finger present in ZZZ3 (ZZ finger containing 3) and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding.
Probab=97.60 E-value=4e-05 Score=53.53 Aligned_cols=33 Identities=48% Similarity=1.017 Sum_probs=29.6
Q ss_pred eecccCCC-CCCCeeEEcCCCC---ccccccccCCCc
Q 035521 88 FNCDGCGR-QGHGFSYHCTHCD---FDLHILCATKPL 120 (302)
Q Consensus 88 ~~C~~C~~-~i~G~~Y~C~~Cd---fdlH~~Ca~lP~ 120 (302)
+.|++|+. +|.|.+|+|.+|. |||+..|.....
T Consensus 1 y~Cd~C~~~pI~G~R~~C~~C~~~d~DlC~~C~~~~~ 37 (48)
T cd02341 1 FKCDSCGIEPIPGTRYHCSECDDGDFDLCQDCVVKGE 37 (48)
T ss_pred CCCCCCCCCccccceEECCCCCCCCCccCHHHHhCcC
Confidence 46999997 8999999999996 999999998764
No 14
>cd02338 ZZ_PCMF_like Zinc finger, ZZ type. Zinc finger present in potassium channel modulatory factor (PCMF) 1 and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. Human potassium channel modulatory factor 1 or FIGC has been shown to possess intrinsic E3 ubiquitin ligase activity and to promote ubiquitination.
Probab=97.59 E-value=4.5e-05 Score=53.40 Aligned_cols=43 Identities=40% Similarity=0.822 Sum_probs=33.8
Q ss_pred ecccCC-CCCCCeeEEcCCC-CccccccccCCCcceeccccc--ccceE
Q 035521 89 NCDGCG-RQGHGFSYHCTHC-DFDLHILCATKPLTLIHQSHP--HQLQL 133 (302)
Q Consensus 89 ~C~~C~-~~i~G~~Y~C~~C-dfdlH~~Ca~lP~~i~h~~H~--H~L~L 133 (302)
.|+.|+ .++.|.+|+|.+| ||+|+..|.....+. ..|. |++++
T Consensus 2 ~C~~C~~~~i~g~R~~C~~C~d~dlC~~Cf~~~~~~--~~H~~~H~~~~ 48 (49)
T cd02338 2 SCDGCGKSNFTGRRYKCLICYDYDLCADCYDSGVTT--ERHLFDHPMQC 48 (49)
T ss_pred CCCCCcCCCcEEeeEEeCCCCCCccchhHHhCCCcC--CCCCCCCCEEE
Confidence 699999 6889999999999 899999999876432 2333 66543
No 15
>cd02341 ZZ_ZZZ3 Zinc finger, ZZ type. Zinc finger present in ZZZ3 (ZZ finger containing 3) and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding.
Probab=97.59 E-value=5e-05 Score=53.05 Aligned_cols=41 Identities=29% Similarity=0.728 Sum_probs=33.2
Q ss_pred cCccCCC-CCCCCcEeecCCC---CCCccccCCCCceecCCCCCCCccc
Q 035521 32 SCSACKL-QPSGLMYTCKPCN---FTLHVSCTQMPQLITHPSHPAHSLS 76 (302)
Q Consensus 32 ~Cd~C~~-~~~g~~Y~C~~C~---f~lH~~Ca~~P~~i~Hp~Hp~H~L~ 76 (302)
.||+|+. +|.|.+|+|.+|. |||++.|+.... .|. +.|+|.
T Consensus 2 ~Cd~C~~~pI~G~R~~C~~C~~~d~DlC~~C~~~~~--~H~--~~H~~~ 46 (48)
T cd02341 2 KCDSCGIEPIPGTRYHCSECDDGDFDLCQDCVVKGE--SHQ--EDHWLV 46 (48)
T ss_pred CCCCCCCCccccceEECCCCCCCCCccCHHHHhCcC--CCC--CCCcee
Confidence 6999998 8999999999996 999999998654 332 346664
No 16
>cd02335 ZZ_ADA2 Zinc finger, ZZ type. Zinc finger present in ADA2, a putative transcriptional adaptor, and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding.
Probab=97.55 E-value=7.3e-05 Score=52.27 Aligned_cols=44 Identities=23% Similarity=0.569 Sum_probs=33.6
Q ss_pred cCccCCCCCC-CCcEeecCC-CCCCccccCCCCcee-cCCCCCCCcccc
Q 035521 32 SCSACKLQPS-GLMYTCKPC-NFTLHVSCTQMPQLI-THPSHPAHSLSL 77 (302)
Q Consensus 32 ~Cd~C~~~~~-g~~Y~C~~C-~f~lH~~Ca~~P~~i-~Hp~Hp~H~L~L 77 (302)
.||+|.+.+. +.+|+|.+| ||+|+.+|+....+. .|. +.|++.+
T Consensus 2 ~Cd~C~~~~~~g~r~~C~~C~d~dLC~~Cf~~g~~~~~H~--~~H~~~~ 48 (49)
T cd02335 2 HCDYCSKDITGTIRIKCAECPDFDLCLECFSAGAEIGKHR--NDHNYRV 48 (49)
T ss_pred CCCCcCCCCCCCcEEECCCCCCcchhHHhhhCcCCCCCCC--CCCCeEe
Confidence 6999999765 599999999 999999999875432 333 3466654
No 17
>cd02345 ZZ_dah Zinc finger, ZZ type. Zinc finger present in Drosophila dah and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. Dah (discontinuous actin hexagon) is a membrane associated protein essential for cortical furrow formation in Drosophila.
Probab=97.55 E-value=5.1e-05 Score=53.15 Aligned_cols=43 Identities=30% Similarity=0.729 Sum_probs=33.6
Q ss_pred cCccCCC-CCCCCcEeecCC-CCCCccccCCCCc-eecCCCCCCCccc
Q 035521 32 SCSACKL-QPSGLMYTCKPC-NFTLHVSCTQMPQ-LITHPSHPAHSLS 76 (302)
Q Consensus 32 ~Cd~C~~-~~~g~~Y~C~~C-~f~lH~~Ca~~P~-~i~Hp~Hp~H~L~ 76 (302)
.|++|.+ +|.|.+|+|.+| ||+|+..|..... ...|. +.|++.
T Consensus 2 ~C~~C~~~~i~g~R~~C~~C~dydLC~~Cf~~~~~~~~H~--~~H~~~ 47 (49)
T cd02345 2 SCSACRKQDISGIRFPCQVCRDYSLCLGCYTKGRETKRHN--SLHIMY 47 (49)
T ss_pred cCCCCCCCCceEeeEECCCCCCcCchHHHHhCCCcCCCCC--CCCCcc
Confidence 6999998 899999999999 9999999998653 22333 336554
No 18
>cd02334 ZZ_dystrophin Zinc finger, ZZ type. Zinc finger present in dystrophin and dystrobrevin. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. Dystrophin attaches actin filaments to an integral membrane glycoprotein complex in muscle cells. The ZZ domain in dystrophin has been shown to be essential for binding to the membrane protein beta-dystroglycan.
Probab=97.51 E-value=6.7e-05 Score=52.64 Aligned_cols=31 Identities=35% Similarity=0.786 Sum_probs=28.2
Q ss_pred cCccCCC-CCCCCcEeecCC-CCCCccccCCCC
Q 035521 32 SCSACKL-QPSGLMYTCKPC-NFTLHVSCTQMP 62 (302)
Q Consensus 32 ~Cd~C~~-~~~g~~Y~C~~C-~f~lH~~Ca~~P 62 (302)
.||+|+. +|.|.+|+|.+| ||||+..|...-
T Consensus 2 ~Cd~C~~~pi~g~RykC~~C~d~DLC~~Cf~~g 34 (49)
T cd02334 2 KCNICKEFPITGFRYRCLKCFNYDLCQSCFFSG 34 (49)
T ss_pred CCCCCCCCCceeeeEECCCCCCcCchHHHHhCC
Confidence 6999996 789999999999 999999999753
No 19
>cd02343 ZZ_EF Zinc finger, ZZ type. Zinc finger present in proteins with an EF_hand motif. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding.
Probab=97.51 E-value=6.7e-05 Score=52.34 Aligned_cols=33 Identities=24% Similarity=0.493 Sum_probs=29.2
Q ss_pred cCccCCCCCCCCcEeecCC-CCCCccccCCCCce
Q 035521 32 SCSACKLQPSGLMYTCKPC-NFTLHVSCTQMPQL 64 (302)
Q Consensus 32 ~Cd~C~~~~~g~~Y~C~~C-~f~lH~~Ca~~P~~ 64 (302)
.||+|.+.+.+.+|+|.+| ||||+.+|+..-.+
T Consensus 2 ~CdgC~~~~~~~RykCl~C~d~DlC~~Cf~~g~~ 35 (48)
T cd02343 2 SCDGCDEIAPWHRYRCLQCTDMDLCKTCFLGGVK 35 (48)
T ss_pred CCCCCCCcCCCceEECCCCCCchhHHHHHhCCcc
Confidence 5999999878899999999 99999999986443
No 20
>cd02339 ZZ_Mind_bomb Zinc finger, ZZ type. Zinc finger present in Drosophila Mind bomb (D-mib) and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. Mind bomb is an E3 ubiqitin ligase that has been shown to regulate signaling by the Notch ligand Delta in Drosophila melanogaster.
Probab=97.50 E-value=6.8e-05 Score=51.67 Aligned_cols=30 Identities=30% Similarity=0.815 Sum_probs=27.4
Q ss_pred ecccCC-CCCCCeeEEcCCC-CccccccccCC
Q 035521 89 NCDGCG-RQGHGFSYHCTHC-DFDLHILCATK 118 (302)
Q Consensus 89 ~C~~C~-~~i~G~~Y~C~~C-dfdlH~~Ca~l 118 (302)
.|+.|+ .++.|.+|+|.+| |||||..|...
T Consensus 2 ~Cd~C~~~~i~G~RykC~~C~dyDLC~~C~~~ 33 (45)
T cd02339 2 ICDTCRKQGIIGIRWKCAECPNYDLCTTCYHG 33 (45)
T ss_pred CCCCCCCCCcccCeEECCCCCCccchHHHhCC
Confidence 699999 5788999999999 89999999984
No 21
>cd02344 ZZ_HERC2 Zinc finger, ZZ type. Zinc finger present in HERC2 and related proteins. HERC2 is a potential E3 ubiquitin protein ligase and/or guanine nucleotide exchange factor. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding.
Probab=97.50 E-value=7.7e-05 Score=51.42 Aligned_cols=30 Identities=37% Similarity=0.907 Sum_probs=27.7
Q ss_pred ecccCCC-CCCCeeEEcCCC-CccccccccCC
Q 035521 89 NCDGCGR-QGHGFSYHCTHC-DFDLHILCATK 118 (302)
Q Consensus 89 ~C~~C~~-~i~G~~Y~C~~C-dfdlH~~Ca~l 118 (302)
.||.|.. ++.|.+|+|.+| ||||+..|...
T Consensus 2 ~Cd~C~~~pI~G~RykC~~C~dyDLC~~Cf~~ 33 (45)
T cd02344 2 TCDGCQMFPINGPRFKCRNCDDFDFCENCFKT 33 (45)
T ss_pred CCCCCCCCCCccCeEECCCCCCccchHHhhCC
Confidence 6999985 789999999999 79999999986
No 22
>cd02343 ZZ_EF Zinc finger, ZZ type. Zinc finger present in proteins with an EF_hand motif. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding.
Probab=97.45 E-value=6.7e-05 Score=52.34 Aligned_cols=34 Identities=32% Similarity=0.738 Sum_probs=30.0
Q ss_pred ecccCCCCCCCeeEEcCCC-CccccccccCCCcce
Q 035521 89 NCDGCGRQGHGFSYHCTHC-DFDLHILCATKPLTL 122 (302)
Q Consensus 89 ~C~~C~~~i~G~~Y~C~~C-dfdlH~~Ca~lP~~i 122 (302)
.||.|.+.+.+++|+|.+| ||||+..|.....+.
T Consensus 2 ~CdgC~~~~~~~RykCl~C~d~DlC~~Cf~~g~~~ 36 (48)
T cd02343 2 SCDGCDEIAPWHRYRCLQCTDMDLCKTCFLGGVKP 36 (48)
T ss_pred CCCCCCCcCCCceEECCCCCCchhHHHHHhCCccC
Confidence 5999999888999999999 899999999876543
No 23
>cd02335 ZZ_ADA2 Zinc finger, ZZ type. Zinc finger present in ADA2, a putative transcriptional adaptor, and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding.
Probab=97.40 E-value=0.00013 Score=50.97 Aligned_cols=33 Identities=30% Similarity=0.749 Sum_probs=28.8
Q ss_pred ecccCCCCCC-CeeEEcCCC-CccccccccCCCcc
Q 035521 89 NCDGCGRQGH-GFSYHCTHC-DFDLHILCATKPLT 121 (302)
Q Consensus 89 ~C~~C~~~i~-G~~Y~C~~C-dfdlH~~Ca~lP~~ 121 (302)
.|++|.+.+. |.+|+|.+| ||+|+..|.....+
T Consensus 2 ~Cd~C~~~~~~g~r~~C~~C~d~dLC~~Cf~~g~~ 36 (49)
T cd02335 2 HCDYCSKDITGTIRIKCAECPDFDLCLECFSAGAE 36 (49)
T ss_pred CCCCcCCCCCCCcEEECCCCCCcchhHHhhhCcCC
Confidence 6999998764 599999999 99999999997654
No 24
>cd02334 ZZ_dystrophin Zinc finger, ZZ type. Zinc finger present in dystrophin and dystrobrevin. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. Dystrophin attaches actin filaments to an integral membrane glycoprotein complex in muscle cells. The ZZ domain in dystrophin has been shown to be essential for binding to the membrane protein beta-dystroglycan.
Probab=97.38 E-value=0.00012 Score=51.43 Aligned_cols=32 Identities=31% Similarity=0.770 Sum_probs=28.6
Q ss_pred ecccCCC-CCCCeeEEcCCC-CccccccccCCCc
Q 035521 89 NCDGCGR-QGHGFSYHCTHC-DFDLHILCATKPL 120 (302)
Q Consensus 89 ~C~~C~~-~i~G~~Y~C~~C-dfdlH~~Ca~lP~ 120 (302)
.|+.|.+ +|.|.+|+|.+| ||||+..|...-.
T Consensus 2 ~Cd~C~~~pi~g~RykC~~C~d~DLC~~Cf~~g~ 35 (49)
T cd02334 2 KCNICKEFPITGFRYRCLKCFNYDLCQSCFFSGR 35 (49)
T ss_pred CCCCCCCCCceeeeEECCCCCCcCchHHHHhCCC
Confidence 6999996 689999999999 8999999998654
No 25
>cd02345 ZZ_dah Zinc finger, ZZ type. Zinc finger present in Drosophila dah and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. Dah (discontinuous actin hexagon) is a membrane associated protein essential for cortical furrow formation in Drosophila.
Probab=97.35 E-value=0.00011 Score=51.40 Aligned_cols=32 Identities=31% Similarity=0.810 Sum_probs=29.2
Q ss_pred ecccCCC-CCCCeeEEcCCC-CccccccccCCCc
Q 035521 89 NCDGCGR-QGHGFSYHCTHC-DFDLHILCATKPL 120 (302)
Q Consensus 89 ~C~~C~~-~i~G~~Y~C~~C-dfdlH~~Ca~lP~ 120 (302)
.|++|.+ ++.|.+|+|.+| ||||+..|.....
T Consensus 2 ~C~~C~~~~i~g~R~~C~~C~dydLC~~Cf~~~~ 35 (49)
T cd02345 2 SCSACRKQDISGIRFPCQVCRDYSLCLGCYTKGR 35 (49)
T ss_pred cCCCCCCCCceEeeEECCCCCCcCchHHHHhCCC
Confidence 5999998 899999999999 8999999998653
No 26
>KOG1280 consensus Uncharacterized conserved protein containing ZZ-type Zn-finger [General function prediction only]
Probab=97.32 E-value=0.00012 Score=70.03 Aligned_cols=103 Identities=27% Similarity=0.462 Sum_probs=63.2
Q ss_pred CCceecccCCCC-CCCeeEEcCCC-CccccccccCCCcceecccccccceEeecCC-------------Ccccccccccc
Q 035521 85 AGIFNCDGCGRQ-GHGFSYHCTHC-DFDLHILCATKPLTLIHQSHPHQLQLTFDPP-------------YYTEGFSCDIC 149 (302)
Q Consensus 85 ~~~~~C~~C~~~-i~G~~Y~C~~C-dfdlH~~Ca~lP~~i~h~~H~H~L~L~~~~~-------------~~~~~~~C~vC 149 (302)
.....|++|++. ..+.+|+|..| |||||..|......+....+.||+..+-.+. +....+.|-.|
T Consensus 6 He~v~CdgC~k~~~t~rrYkCL~C~DyDlC~sCyen~~tt~~H~~dHPmqcil~~~dfeL~f~Ge~i~~y~~qSftCPyC 85 (381)
T KOG1280|consen 6 HEGVSCDGCGKTAFTFRRYKCLRCSDYDLCFSCYENGATTPIHDEDHPMQCILSRVDFELYFGGEPISHYDPQSFTCPYC 85 (381)
T ss_pred cCCceeccccccceeeeeeEeeeecchhHHHHHhhcCCCCcccCCCCceeEEeeccceeeEecCccccccccccccCCcc
Confidence 347899999986 56778999999 8999999998754433333458876654321 12335667777
Q ss_pred ccccccceeEEcC--CC-----CccccccCccccCCCCCcCCCcc
Q 035521 150 KKVGSAHWLYRCS--LC-----EFDAHLDCAANLLAQPIHTQHQY 187 (302)
Q Consensus 150 ~k~~~~~~~YrC~--~C-----~f~lH~~Ca~~~~~~~~~~~H~~ 187 (302)
++.+...--+.|. .= ...+++-|+..+..++++..+..
T Consensus 86 ~~~Gfte~~f~~Hv~s~Hpda~~~~icp~c~~~~~~qp~~~~~~~ 130 (381)
T KOG1280|consen 86 GIMGFTERQFGTHVLSQHPEASTSVICPLCAANPEMQPIHSKETE 130 (381)
T ss_pred cccccchhHHHHHhhhcCcccCcceeeeccccCcccCchhhhhhh
Confidence 6643211112221 00 23467778877777666555433
No 27
>smart00291 ZnF_ZZ Zinc-binding domain, present in Dystrophin, CREB-binding protein. Putative zinc-binding domain present in dystrophin-like proteins, and CREB-binding protein/p300 homologues. The ZZ in dystrophin appears to bind calmodulin. A missense mutation of one of the conserved cysteines in dystrophin results in a patient with Duchenne muscular dystrophy [3].
Probab=97.26 E-value=0.00017 Score=49.32 Aligned_cols=32 Identities=31% Similarity=0.735 Sum_probs=29.6
Q ss_pred CccCccCCCCCCCCcEeecCC-CCCCccccCCC
Q 035521 30 TTSCSACKLQPSGLMYTCKPC-NFTLHVSCTQM 61 (302)
Q Consensus 30 ~~~Cd~C~~~~~g~~Y~C~~C-~f~lH~~Ca~~ 61 (302)
...|+.|+.++.+.+|+|..| ||+|+.+|...
T Consensus 4 ~~~C~~C~~~i~g~ry~C~~C~d~dlC~~Cf~~ 36 (44)
T smart00291 4 SYSCDTCGKPIVGVRYHCLVCPDYDLCQSCFAK 36 (44)
T ss_pred CcCCCCCCCCCcCCEEECCCCCCccchHHHHhC
Confidence 568999999999999999999 99999999974
No 28
>PF00569 ZZ: Zinc finger, ZZ type; InterPro: IPR000433 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 ZZ-type zinc finger domains, named because of their ability to bind two zinc ions []. These domains contain 4-6 Cys residues that participate in zinc binding (plus additional Ser/His residues), including a Cys-X2-Cys motif found in other zinc finger domains. These zinc fingers are thought to be involved in protein-protein interactions. The structure of the ZZ domain shows that it belongs to the family of cross-brace zinc finger motifs that include the PHD, RING, and FYVE domains []. ZZ-type zinc finger domains are found in: Transcription factors P300 and CBP. Plant proteins involved in light responses, such as Hrb1. E3 ubiquitin ligases MEX and MIB2 (6.3.2 from EC). Dystrophin and its homologues. Single copies of the ZZ zinc finger occur in the transcriptional adaptor/coactivator proteins P300, in cAMP response element-binding protein (CREB)-binding protein (CBP) and ADA2. CBP provides several binding sites for transcriptional coactivators. The site of interaction with the tumour suppressor protein p53 and the oncoprotein E1A with CBP/P300 is a Cys-rich region that incorporates two zinc-binding motifs: ZZ-type and TAZ2-type. The ZZ-type zinc finger of CBP contains two twisted anti-parallel beta-sheets and a short alpha-helix, and binds two zinc ions []. One zinc ion is coordinated by four cysteine residues via 2 Cys-X2-Cys motifs, and the third zinc ion via a third Cys-X-Cys motif and a His-X-His motif. The first zinc cluster is strictly conserved, whereas the second zinc cluster displays variability in the position of the two His residues. In Arabidopsis thaliana (Mouse-ear cress), the hypersensitive to red and blue 1 (Hrb1) protein, which regulating both red and blue light responses, contains a ZZ-type zinc finger domain []. ZZ-type zinc finger domains have also been identified in the testis-specific E3 ubiquitin ligase MEX that promotes death receptor-induced apoptosis []. MEX has four putative zinc finger domains: one ZZ-type, one SWIM-type and two RING-type. The region containing the ZZ-type and RING-type zinc fingers is required for interaction with UbcH5a and MEX self-association, whereas the SWIM domain was critical for MEX ubiquitination. In addition, the Cys-rich domains of dystrophin, utrophin and an 87kDa post-synaptic protein contain a ZZ-type zinc finger with high sequence identity to P300/CBP ZZ-type zinc fingers. In dystrophin and utrophin, the ZZ-type zinc finger lies between a WW domain (flanked by and EF hand) and the C-terminal coiled-coil domain. Dystrophin is thought to act as a link between the actin cytoskeleton and the extracellular matrix, and perturbations of the dystrophin-associated complex, for example, between dystrophin and the transmembrane glycoprotein beta-dystroglycan, may lead to muscular dystrophy. Dystrophin and its autosomal homologue utrophin interact with beta-dystroglycan via their C-terminal regions, which are comprised of a WW domain, an EF hand domain and a ZZ-type zinc finger domain []. The WW domain is the primary site of interaction between dystrophin or utrophin and dystroglycan, while the EF hand and ZZ-type zinc finger domains stabilise and strengthen this interaction. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 1TOT_A 2DIP_A 2FC7_A 2E5R_A.
Probab=97.21 E-value=9.8e-05 Score=50.95 Aligned_cols=31 Identities=26% Similarity=0.719 Sum_probs=25.9
Q ss_pred CccCccCCC-CCCCCcEeecCC-CCCCccccCC
Q 035521 30 TTSCSACKL-QPSGLMYTCKPC-NFTLHVSCTQ 60 (302)
Q Consensus 30 ~~~Cd~C~~-~~~g~~Y~C~~C-~f~lH~~Ca~ 60 (302)
...|++|+. ++.|.+|+|..| ||+|+.+|..
T Consensus 4 ~~~C~~C~~~~i~g~Ry~C~~C~d~dLC~~C~~ 36 (46)
T PF00569_consen 4 GYTCDGCGTDPIIGVRYHCLVCPDYDLCEDCFS 36 (46)
T ss_dssp SCE-SSS-SSSEESSEEEESSSSS-EEEHHHHH
T ss_pred CeECcCCCCCcCcCCeEECCCCCCCchhhHHHh
Confidence 678999998 788999999999 8999999996
No 29
>KOG1280 consensus Uncharacterized conserved protein containing ZZ-type Zn-finger [General function prediction only]
Probab=97.20 E-value=0.00018 Score=68.79 Aligned_cols=50 Identities=26% Similarity=0.537 Sum_probs=38.2
Q ss_pred CCccCccCCCC-CCCCcEeecCC-CCCCccccCCCCceecCCCCC-CCccccccC
Q 035521 29 TTTSCSACKLQ-PSGLMYTCKPC-NFTLHVSCTQMPQLITHPSHP-AHSLSLVPT 80 (302)
Q Consensus 29 ~~~~Cd~C~~~-~~g~~Y~C~~C-~f~lH~~Ca~~P~~i~Hp~Hp-~H~L~L~~~ 80 (302)
+...||+|++. ..+.+|+|..| |||||.+|.+.- ...+.|+ +||+..+-.
T Consensus 7 e~v~CdgC~k~~~t~rrYkCL~C~DyDlC~sCyen~--~tt~~H~~dHPmqcil~ 59 (381)
T KOG1280|consen 7 EGVSCDGCGKTAFTFRRYKCLRCSDYDLCFSCYENG--ATTPIHDEDHPMQCILS 59 (381)
T ss_pred CCceeccccccceeeeeeEeeeecchhHHHHHhhcC--CCCcccCCCCceeEEee
Confidence 37899999985 66889999999 999999999964 3444443 477766543
No 30
>cd02337 ZZ_CBP Zinc finger, ZZ type. Zinc finger present in CBP/p300 and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. CREB-binding protein (CBP) is a large multidomain protein that provides binding sites for transcriptional coactivators, the role of the ZZ domain in CBP/p300 is unclear.
Probab=97.19 E-value=0.00024 Score=48.00 Aligned_cols=29 Identities=24% Similarity=0.807 Sum_probs=25.6
Q ss_pred cCccCCCCCCCCcEeecCC-CCCCccccCCC
Q 035521 32 SCSACKLQPSGLMYTCKPC-NFTLHVSCTQM 61 (302)
Q Consensus 32 ~Cd~C~~~~~g~~Y~C~~C-~f~lH~~Ca~~ 61 (302)
.|+.|.. +.+.+|+|..| ||||+..|...
T Consensus 2 ~C~~C~~-~~~~r~~C~~C~dfDLC~~C~~~ 31 (41)
T cd02337 2 TCNECKH-HVETRWHCTVCEDYDLCITCYNT 31 (41)
T ss_pred cCCCCCC-cCCCceECCCCcchhhHHHHhCC
Confidence 5999987 45799999999 99999999974
No 31
>cd02337 ZZ_CBP Zinc finger, ZZ type. Zinc finger present in CBP/p300 and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. CREB-binding protein (CBP) is a large multidomain protein that provides binding sites for transcriptional coactivators, the role of the ZZ domain in CBP/p300 is unclear.
Probab=97.17 E-value=0.0002 Score=48.42 Aligned_cols=37 Identities=38% Similarity=0.964 Sum_probs=30.2
Q ss_pred ecccCCCCCCCeeEEcCCC-CccccccccCCCcceecccccccce
Q 035521 89 NCDGCGRQGHGFSYHCTHC-DFDLHILCATKPLTLIHQSHPHQLQ 132 (302)
Q Consensus 89 ~C~~C~~~i~G~~Y~C~~C-dfdlH~~Ca~lP~~i~h~~H~H~L~ 132 (302)
.|+.|.+ +.+.+|+|.+| ||||+..|...+ .|+|.|+
T Consensus 2 ~C~~C~~-~~~~r~~C~~C~dfDLC~~C~~~~------~H~H~~~ 39 (41)
T cd02337 2 TCNECKH-HVETRWHCTVCEDYDLCITCYNTK------NHPHKME 39 (41)
T ss_pred cCCCCCC-cCCCceECCCCcchhhHHHHhCCC------CCCcccc
Confidence 6999987 45799999999 899999999863 4667653
No 32
>cd02342 ZZ_UBA_plant Zinc finger, ZZ type. Zinc finger present in plant ubiquitin-associated (UBA) proteins. The ZZ motif coordinates a zinc ion and most likely participates in ligand binding or molecular scaffolding.
Probab=97.12 E-value=0.00022 Score=48.49 Aligned_cols=31 Identities=35% Similarity=0.768 Sum_probs=28.0
Q ss_pred ecccCCC-CCCCeeEEcCCC-CccccccccCCC
Q 035521 89 NCDGCGR-QGHGFSYHCTHC-DFDLHILCATKP 119 (302)
Q Consensus 89 ~C~~C~~-~i~G~~Y~C~~C-dfdlH~~Ca~lP 119 (302)
.||+|+. +|.|.+|+|..| |||||..|....
T Consensus 2 ~CDgCg~~PI~G~RykC~~C~dyDLC~~C~~~~ 34 (43)
T cd02342 2 QCDGCGVLPITGPRYKSKVKEDYDLCTICFSRM 34 (43)
T ss_pred CCCCCCCCcccccceEeCCCCCCccHHHHhhhh
Confidence 5999995 799999999999 899999998764
No 33
>KOG4582 consensus Uncharacterized conserved protein, contains ZZ-type Zn-finger [General function prediction only]
Probab=97.10 E-value=0.00026 Score=66.70 Aligned_cols=42 Identities=26% Similarity=0.628 Sum_probs=35.1
Q ss_pred ccCccCCC-CCCCCcEeecCC-CCCCccccCCCCceecCCCCCCCcccc
Q 035521 31 TSCSACKL-QPSGLMYTCKPC-NFTLHVSCTQMPQLITHPSHPAHSLSL 77 (302)
Q Consensus 31 ~~Cd~C~~-~~~g~~Y~C~~C-~f~lH~~Ca~~P~~i~Hp~Hp~H~L~L 77 (302)
..||.|+. .|.|.+|+|.+| |||||++|... ++.|.+|.|.-
T Consensus 153 v~CD~C~~~~IvG~RyKC~~C~dYDLCe~Ce~~-----~~~h~~H~~lR 196 (278)
T KOG4582|consen 153 VPCDNCGKPGIVGARYKCTVCPDYDLCERCEAG-----NEHHAAHAMLR 196 (278)
T ss_pred ccCCCccCCccccceeeecCCCccchhHHhhcC-----CCCCcccceee
Confidence 68999999 899999999999 99999999963 24566676654
No 34
>smart00291 ZnF_ZZ Zinc-binding domain, present in Dystrophin, CREB-binding protein. Putative zinc-binding domain present in dystrophin-like proteins, and CREB-binding protein/p300 homologues. The ZZ in dystrophin appears to bind calmodulin. A missense mutation of one of the conserved cysteines in dystrophin results in a patient with Duchenne muscular dystrophy [3].
Probab=97.07 E-value=0.00035 Score=47.69 Aligned_cols=33 Identities=42% Similarity=0.989 Sum_probs=30.2
Q ss_pred ceecccCCCCCCCeeEEcCCC-CccccccccCCC
Q 035521 87 IFNCDGCGRQGHGFSYHCTHC-DFDLHILCATKP 119 (302)
Q Consensus 87 ~~~C~~C~~~i~G~~Y~C~~C-dfdlH~~Ca~lP 119 (302)
...|+.|+..+.+.+|+|.+| ||||+..|....
T Consensus 4 ~~~C~~C~~~i~g~ry~C~~C~d~dlC~~Cf~~~ 37 (44)
T smart00291 4 SYSCDTCGKPIVGVRYHCLVCPDYDLCQSCFAKG 37 (44)
T ss_pred CcCCCCCCCCCcCCEEECCCCCCccchHHHHhCc
Confidence 568999999999999999999 899999998764
No 35
>PF00569 ZZ: Zinc finger, ZZ type; InterPro: IPR000433 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 ZZ-type zinc finger domains, named because of their ability to bind two zinc ions []. These domains contain 4-6 Cys residues that participate in zinc binding (plus additional Ser/His residues), including a Cys-X2-Cys motif found in other zinc finger domains. These zinc fingers are thought to be involved in protein-protein interactions. The structure of the ZZ domain shows that it belongs to the family of cross-brace zinc finger motifs that include the PHD, RING, and FYVE domains []. ZZ-type zinc finger domains are found in: Transcription factors P300 and CBP. Plant proteins involved in light responses, such as Hrb1. E3 ubiquitin ligases MEX and MIB2 (6.3.2 from EC). Dystrophin and its homologues. Single copies of the ZZ zinc finger occur in the transcriptional adaptor/coactivator proteins P300, in cAMP response element-binding protein (CREB)-binding protein (CBP) and ADA2. CBP provides several binding sites for transcriptional coactivators. The site of interaction with the tumour suppressor protein p53 and the oncoprotein E1A with CBP/P300 is a Cys-rich region that incorporates two zinc-binding motifs: ZZ-type and TAZ2-type. The ZZ-type zinc finger of CBP contains two twisted anti-parallel beta-sheets and a short alpha-helix, and binds two zinc ions []. One zinc ion is coordinated by four cysteine residues via 2 Cys-X2-Cys motifs, and the third zinc ion via a third Cys-X-Cys motif and a His-X-His motif. The first zinc cluster is strictly conserved, whereas the second zinc cluster displays variability in the position of the two His residues. In Arabidopsis thaliana (Mouse-ear cress), the hypersensitive to red and blue 1 (Hrb1) protein, which regulating both red and blue light responses, contains a ZZ-type zinc finger domain []. ZZ-type zinc finger domains have also been identified in the testis-specific E3 ubiquitin ligase MEX that promotes death receptor-induced apoptosis []. MEX has four putative zinc finger domains: one ZZ-type, one SWIM-type and two RING-type. The region containing the ZZ-type and RING-type zinc fingers is required for interaction with UbcH5a and MEX self-association, whereas the SWIM domain was critical for MEX ubiquitination. In addition, the Cys-rich domains of dystrophin, utrophin and an 87kDa post-synaptic protein contain a ZZ-type zinc finger with high sequence identity to P300/CBP ZZ-type zinc fingers. In dystrophin and utrophin, the ZZ-type zinc finger lies between a WW domain (flanked by and EF hand) and the C-terminal coiled-coil domain. Dystrophin is thought to act as a link between the actin cytoskeleton and the extracellular matrix, and perturbations of the dystrophin-associated complex, for example, between dystrophin and the transmembrane glycoprotein beta-dystroglycan, may lead to muscular dystrophy. Dystrophin and its autosomal homologue utrophin interact with beta-dystroglycan via their C-terminal regions, which are comprised of a WW domain, an EF hand domain and a ZZ-type zinc finger domain []. The WW domain is the primary site of interaction between dystrophin or utrophin and dystroglycan, while the EF hand and ZZ-type zinc finger domains stabilise and strengthen this interaction. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 1TOT_A 2DIP_A 2FC7_A 2E5R_A.
Probab=97.04 E-value=0.00025 Score=48.88 Aligned_cols=33 Identities=45% Similarity=0.986 Sum_probs=26.4
Q ss_pred ceecccCCC-CCCCeeEEcCCC-CccccccccCCC
Q 035521 87 IFNCDGCGR-QGHGFSYHCTHC-DFDLHILCATKP 119 (302)
Q Consensus 87 ~~~C~~C~~-~i~G~~Y~C~~C-dfdlH~~Ca~lP 119 (302)
.+.|+.|+. ++.|.+|+|..| ||||+..|....
T Consensus 4 ~~~C~~C~~~~i~g~Ry~C~~C~d~dLC~~C~~~g 38 (46)
T PF00569_consen 4 GYTCDGCGTDPIIGVRYHCLVCPDYDLCEDCFSKG 38 (46)
T ss_dssp SCE-SSS-SSSEESSEEEESSSSS-EEEHHHHHH-
T ss_pred CeECcCCCCCcCcCCeEECCCCCCCchhhHHHhCc
Confidence 679999997 788999999999 899999998753
No 36
>PF00130 C1_1: Phorbol esters/diacylglycerol binding domain (C1 domain); InterPro: IPR002219 Diacylglycerol (DAG) is an important second messenger. Phorbol esters (PE) are analogues of DAG and potent tumour promoters that cause a variety of physiological changes when administered to both cells and tissues. DAG activates a family of serine/threonine protein kinases, collectively known as protein kinase C (PKC) []. Phorbol esters can directly stimulate PKC. The N-terminal region of PKC, known as C1, has been shown [] to bind PE and DAG in a phospholipid and zinc-dependent fashion. The C1 region contains one or two copies (depending on the isozyme of PKC) of a cysteine-rich domain, which is about 50 amino-acid residues long, and which is essential for DAG/PE-binding. The DAG/PE-binding domain binds two zinc ions; the ligands of these metal ions are probably the six cysteines and two histidines that are conserved in this domain.; GO: 0035556 intracellular signal transduction; PDB: 1RFH_A 2FNF_X 3PFQ_A 1PTQ_A 1PTR_A 2VRW_B 1XA6_A 2ENN_A 1TBN_A 1TBO_A ....
Probab=96.67 E-value=0.0012 Score=46.26 Aligned_cols=42 Identities=21% Similarity=0.402 Sum_probs=30.6
Q ss_pred CCCeeecCCCCCCCccCccCCCCC---CCCcEeecCCCCCCccccCCC
Q 035521 17 HLLELSNPQTLNTTTSCSACKLQP---SGLMYTCKPCNFTLHVSCTQM 61 (302)
Q Consensus 17 HpL~l~~~~~~~~~~~Cd~C~~~~---~g~~Y~C~~C~f~lH~~Ca~~ 61 (302)
|.++..+.. ....|+.|++.+ ....|+|+.|++.+|++|+..
T Consensus 1 H~f~~~~~~---~~~~C~~C~~~i~g~~~~g~~C~~C~~~~H~~C~~~ 45 (53)
T PF00130_consen 1 HHFVPTTFS---KPTYCDVCGKFIWGLGKQGYRCSWCGLVCHKKCLSK 45 (53)
T ss_dssp -EEEEEESS---STEB-TTSSSBECSSSSCEEEETTTT-EEETTGGCT
T ss_pred CeEEEccCC---CCCCCcccCcccCCCCCCeEEECCCCChHhhhhhhh
Confidence 444555443 377999999988 346799999999999999974
No 37
>PF00130 C1_1: Phorbol esters/diacylglycerol binding domain (C1 domain); InterPro: IPR002219 Diacylglycerol (DAG) is an important second messenger. Phorbol esters (PE) are analogues of DAG and potent tumour promoters that cause a variety of physiological changes when administered to both cells and tissues. DAG activates a family of serine/threonine protein kinases, collectively known as protein kinase C (PKC) []. Phorbol esters can directly stimulate PKC. The N-terminal region of PKC, known as C1, has been shown [] to bind PE and DAG in a phospholipid and zinc-dependent fashion. The C1 region contains one or two copies (depending on the isozyme of PKC) of a cysteine-rich domain, which is about 50 amino-acid residues long, and which is essential for DAG/PE-binding. The DAG/PE-binding domain binds two zinc ions; the ligands of these metal ions are probably the six cysteines and two histidines that are conserved in this domain.; GO: 0035556 intracellular signal transduction; PDB: 1RFH_A 2FNF_X 3PFQ_A 1PTQ_A 1PTR_A 2VRW_B 1XA6_A 2ENN_A 1TBN_A 1TBO_A ....
Probab=96.53 E-value=0.0026 Score=44.51 Aligned_cols=37 Identities=30% Similarity=0.614 Sum_probs=28.6
Q ss_pred cccccccccccc--ccceeEEcCCCCccccccCccccCC
Q 035521 142 EGFSCDICKKVG--SAHWLYRCSLCEFDAHLDCAANLLA 178 (302)
Q Consensus 142 ~~~~C~vC~k~~--~~~~~YrC~~C~f~lH~~Ca~~~~~ 178 (302)
....|++|++.. .....|+|.+|++.+|.+|+...+.
T Consensus 10 ~~~~C~~C~~~i~g~~~~g~~C~~C~~~~H~~C~~~~~~ 48 (53)
T PF00130_consen 10 KPTYCDVCGKFIWGLGKQGYRCSWCGLVCHKKCLSKVPP 48 (53)
T ss_dssp STEB-TTSSSBECSSSSCEEEETTTT-EEETTGGCTSSS
T ss_pred CCCCCcccCcccCCCCCCeEEECCCCChHhhhhhhhcCC
Confidence 346899999875 3456899999999999999988655
No 38
>KOG0696 consensus Serine/threonine protein kinase [Signal transduction mechanisms]
Probab=96.27 E-value=0.00098 Score=65.93 Aligned_cols=95 Identities=26% Similarity=0.539 Sum_probs=69.4
Q ss_pred CCCeeecCCCCCCCccCccCCCCCCC---CcEeecCCCCCCccccCCC-----Cce-----ecCCCCCCCccccccCCCC
Q 035521 17 HLLELSNPQTLNTTTSCSACKLQPSG---LMYTCKPCNFTLHVSCTQM-----PQL-----ITHPSHPAHSLSLVPTPIY 83 (302)
Q Consensus 17 HpL~l~~~~~~~~~~~Cd~C~~~~~g---~~Y~C~~C~f~lH~~Ca~~-----P~~-----i~Hp~Hp~H~L~L~~~~~~ 83 (302)
|.+..--.. -...|.-|+.-||| ..|.|..|-|.+|+.|-+. |-. ..-|.. +|.+++.+-
T Consensus 46 HkF~aRFFK---qPTfCsHCkDFiwGfgKQGfQCqvC~fvvHkrChefVtF~CPGadkg~dtDdpr~-kHkf~~~tY--- 118 (683)
T KOG0696|consen 46 HKFIARFFK---QPTFCSHCKDFIWGFGKQGFQCQVCCFVVHKRCHEFVTFSCPGADKGPDTDDPRS-KHKFKIHTY--- 118 (683)
T ss_pred ceeeehhcc---CCchhhhhhhheeccccCceeeeEEeehhhhhhcceEEEECCCCCCCCCCCCccc-ccceeeeec---
Confidence 655543222 26789999998877 4699999999999999985 211 122222 477776543
Q ss_pred CCCceecccCCCCCCC---eeEEcCCCCccccccccCCC
Q 035521 84 PAGIFNCDGCGRQGHG---FSYHCTHCDFDLHILCATKP 119 (302)
Q Consensus 84 ~~~~~~C~~C~~~i~G---~~Y~C~~CdfdlH~~Ca~lP 119 (302)
..+..||.|+..+.| ...+|+.|+..+|.+|...-
T Consensus 119 -ssPTFCDhCGsLLyGl~HQGmKC~~C~mNVH~rCv~nV 156 (683)
T KOG0696|consen 119 -SSPTFCDHCGSLLYGLIHQGMKCDTCDMNVHHRCVENV 156 (683)
T ss_pred -CCCchhhhHHHHHHHHHhcccccccccchHHHHHhhcC
Confidence 347899999987665 35899999999999998754
No 39
>KOG4236 consensus Serine/threonine protein kinase PKC mu/PKD and related proteins [Signal transduction mechanisms]
Probab=96.21 E-value=0.00041 Score=70.28 Aligned_cols=46 Identities=22% Similarity=0.367 Sum_probs=38.0
Q ss_pred CCCCCCCeeecCCCCCCCccCccCCCCCCC---CcEeecCCCCCCccccCCC
Q 035521 13 FSHLHLLELSNPQTLNTTTSCSACKLQPSG---LMYTCKPCNFTLHVSCTQM 61 (302)
Q Consensus 13 ~sH~HpL~l~~~~~~~~~~~Cd~C~~~~~g---~~Y~C~~C~f~lH~~Ca~~ 61 (302)
-.|||-|....+. ....||-|++.++| ...+|.-|+..+|+.|+..
T Consensus 142 ~i~PH~l~vhSY~---~PtFCD~CGEmL~GLvrQGlKC~gCglNyHKRCa~k 190 (888)
T KOG4236|consen 142 QIRPHTLFVHSYK---APTFCDFCGEMLFGLVRQGLKCEGCGLNYHKRCAFK 190 (888)
T ss_pred eeecceeeeeccc---CchHHHHHHHHHHHHHHccccccCCCCcHhhhhhhc
Confidence 3567888877665 37899999998765 6799999999999999974
No 40
>KOG0696 consensus Serine/threonine protein kinase [Signal transduction mechanisms]
Probab=96.14 E-value=0.0016 Score=64.45 Aligned_cols=89 Identities=21% Similarity=0.455 Sum_probs=63.5
Q ss_pred CceecccCCCCCCCe---eEEcCCCCccccccccCCCc-----c-----eecccccccceEeecCCCccccccccccccc
Q 035521 86 GIFNCDGCGRQGHGF---SYHCTHCDFDLHILCATKPL-----T-----LIHQSHPHQLQLTFDPPYYTEGFSCDICKKV 152 (302)
Q Consensus 86 ~~~~C~~C~~~i~G~---~Y~C~~CdfdlH~~Ca~lP~-----~-----i~h~~H~H~L~L~~~~~~~~~~~~C~vC~k~ 152 (302)
.+..|+.|..-|+|+ .|.|..|.|.+|.+|-..-. . ...+.-.|.+.+... .....|+-|+..
T Consensus 55 qPTfCsHCkDFiwGfgKQGfQCqvC~fvvHkrChefVtF~CPGadkg~dtDdpr~kHkf~~~tY----ssPTFCDhCGsL 130 (683)
T KOG0696|consen 55 QPTFCSHCKDFIWGFGKQGFQCQVCCFVVHKRCHEFVTFSCPGADKGPDTDDPRSKHKFKIHTY----SSPTFCDHCGSL 130 (683)
T ss_pred CCchhhhhhhheeccccCceeeeEEeehhhhhhcceEEEECCCCCCCCCCCCcccccceeeeec----CCCchhhhHHHH
Confidence 467999999988875 59999999999999976421 1 111222255544322 344589999975
Q ss_pred cc--cceeEEcCCCCccccccCccccCC
Q 035521 153 GS--AHWLYRCSLCEFDAHLDCAANLLA 178 (302)
Q Consensus 153 ~~--~~~~YrC~~C~f~lH~~Ca~~~~~ 178 (302)
.. -...-+|..|++.+|..|....++
T Consensus 131 LyGl~HQGmKC~~C~mNVH~rCv~nVPs 158 (683)
T KOG0696|consen 131 LYGLIHQGMKCDTCDMNVHHRCVENVPS 158 (683)
T ss_pred HHHHHhcccccccccchHHHHHhhcCCc
Confidence 32 234679999999999999988776
No 41
>KOG4582 consensus Uncharacterized conserved protein, contains ZZ-type Zn-finger [General function prediction only]
Probab=95.76 E-value=0.0046 Score=58.30 Aligned_cols=32 Identities=41% Similarity=0.911 Sum_probs=29.9
Q ss_pred eecccCCC-CCCCeeEEcCCC-CccccccccCCC
Q 035521 88 FNCDGCGR-QGHGFSYHCTHC-DFDLHILCATKP 119 (302)
Q Consensus 88 ~~C~~C~~-~i~G~~Y~C~~C-dfdlH~~Ca~lP 119 (302)
..||.|.+ .|.|.+|+|.+| |||||..|....
T Consensus 153 v~CD~C~~~~IvG~RyKC~~C~dYDLCe~Ce~~~ 186 (278)
T KOG4582|consen 153 VPCDNCGKPGIVGARYKCTVCPDYDLCERCEAGN 186 (278)
T ss_pred ccCCCccCCccccceeeecCCCccchhHHhhcCC
Confidence 68999999 899999999999 999999999874
No 42
>cd00029 C1 Protein kinase C conserved region 1 (C1) . Cysteine-rich zinc binding domain. Some members of this domain family bind phorbol esters and diacylglycerol, some are reported to bind RasGTP. May occur in tandem arrangement. Diacylglycerol (DAG) is a second messenger, released by activation of Phospholipase D. Phorbol Esters (PE) can act as analogues of DAG and mimic its downstream effects in, for example, tumor promotion. Protein Kinases C are activated by DAG/PE, this activation is mediated by their N-terminal conserved region (C1). DAG/PE binding may be phospholipid dependent. C1 domains may also mediate DAG/PE signals in chimaerins (a family of Rac GTPase activating proteins), RasGRPs (exchange factors for Ras/Rap1), and Munc13 isoforms (scaffolding proteins involved in exocytosis).
Probab=95.60 E-value=0.0097 Score=40.62 Aligned_cols=32 Identities=25% Similarity=0.555 Sum_probs=28.6
Q ss_pred CccCccCCCCCCC---CcEeecCCCCCCccccCCC
Q 035521 30 TTSCSACKLQPSG---LMYTCKPCNFTLHVSCTQM 61 (302)
Q Consensus 30 ~~~Cd~C~~~~~g---~~Y~C~~C~f~lH~~Ca~~ 61 (302)
...|+.|.+.+++ ..|+|..|++..|..|+..
T Consensus 11 ~~~C~~C~~~i~~~~~~~~~C~~C~~~~H~~C~~~ 45 (50)
T cd00029 11 PTFCDVCRKSIWGLFKQGLRCSWCKVKCHKKCADK 45 (50)
T ss_pred CCChhhcchhhhccccceeEcCCCCCchhhhhhcc
Confidence 5689999998875 7899999999999999974
No 43
>cd00029 C1 Protein kinase C conserved region 1 (C1) . Cysteine-rich zinc binding domain. Some members of this domain family bind phorbol esters and diacylglycerol, some are reported to bind RasGTP. May occur in tandem arrangement. Diacylglycerol (DAG) is a second messenger, released by activation of Phospholipase D. Phorbol Esters (PE) can act as analogues of DAG and mimic its downstream effects in, for example, tumor promotion. Protein Kinases C are activated by DAG/PE, this activation is mediated by their N-terminal conserved region (C1). DAG/PE binding may be phospholipid dependent. C1 domains may also mediate DAG/PE signals in chimaerins (a family of Rac GTPase activating proteins), RasGRPs (exchange factors for Ras/Rap1), and Munc13 isoforms (scaffolding proteins involved in exocytosis).
Probab=95.00 E-value=0.015 Score=39.62 Aligned_cols=32 Identities=31% Similarity=0.629 Sum_probs=28.6
Q ss_pred ceecccCCCCCCC---eeEEcCCCCccccccccCC
Q 035521 87 IFNCDGCGRQGHG---FSYHCTHCDFDLHILCATK 118 (302)
Q Consensus 87 ~~~C~~C~~~i~G---~~Y~C~~CdfdlH~~Ca~l 118 (302)
...|+.|.+.+.+ ..|+|+.|++.+|.+|+..
T Consensus 11 ~~~C~~C~~~i~~~~~~~~~C~~C~~~~H~~C~~~ 45 (50)
T cd00029 11 PTFCDVCRKSIWGLFKQGLRCSWCKVKCHKKCADK 45 (50)
T ss_pred CCChhhcchhhhccccceeEcCCCCCchhhhhhcc
Confidence 5689999999875 6899999999999999875
No 44
>smart00109 C1 Protein kinase C conserved region 1 (C1) domains (Cysteine-rich domains). Some bind phorbol esters and diacylglycerol. Some bind RasGTP. Zinc-binding domains.
Probab=94.97 E-value=0.013 Score=39.60 Aligned_cols=32 Identities=25% Similarity=0.589 Sum_probs=28.2
Q ss_pred CccCccCCCCCCC--CcEeecCCCCCCccccCCC
Q 035521 30 TTSCSACKLQPSG--LMYTCKPCNFTLHVSCTQM 61 (302)
Q Consensus 30 ~~~Cd~C~~~~~g--~~Y~C~~C~f~lH~~Ca~~ 61 (302)
...|+.|.+.+++ ..|+|..|++..|+.|+..
T Consensus 11 ~~~C~~C~~~i~~~~~~~~C~~C~~~~H~~C~~~ 44 (49)
T smart00109 11 PTKCCVCRKSIWGSFQGLRCSWCKVKCHKKCAEK 44 (49)
T ss_pred CCCccccccccCcCCCCcCCCCCCchHHHHHHhh
Confidence 5689999998876 4899999999999999974
No 45
>KOG4236 consensus Serine/threonine protein kinase PKC mu/PKD and related proteins [Signal transduction mechanisms]
Probab=94.82 E-value=0.0033 Score=63.92 Aligned_cols=33 Identities=33% Similarity=0.647 Sum_probs=28.3
Q ss_pred CceecccCCCCCCC---eeEEcCCCCccccccccCC
Q 035521 86 GIFNCDGCGRQGHG---FSYHCTHCDFDLHILCATK 118 (302)
Q Consensus 86 ~~~~C~~C~~~i~G---~~Y~C~~CdfdlH~~Ca~l 118 (302)
.+.+||-|++-+.| ...+|.-|+..+|.+||..
T Consensus 155 ~PtFCD~CGEmL~GLvrQGlKC~gCglNyHKRCa~k 190 (888)
T KOG4236|consen 155 APTFCDFCGEMLFGLVRQGLKCEGCGLNYHKRCAFK 190 (888)
T ss_pred CchHHHHHHHHHHHHHHccccccCCCCcHhhhhhhc
Confidence 47899999997765 4589999999999999874
No 46
>smart00109 C1 Protein kinase C conserved region 1 (C1) domains (Cysteine-rich domains). Some bind phorbol esters and diacylglycerol. Some bind RasGTP. Zinc-binding domains.
Probab=94.40 E-value=0.015 Score=39.31 Aligned_cols=32 Identities=28% Similarity=0.586 Sum_probs=28.3
Q ss_pred ceecccCCCCCCC--eeEEcCCCCccccccccCC
Q 035521 87 IFNCDGCGRQGHG--FSYHCTHCDFDLHILCATK 118 (302)
Q Consensus 87 ~~~C~~C~~~i~G--~~Y~C~~CdfdlH~~Ca~l 118 (302)
..+|+.|++.+.+ ..|+|..|++.+|.+|+..
T Consensus 11 ~~~C~~C~~~i~~~~~~~~C~~C~~~~H~~C~~~ 44 (49)
T smart00109 11 PTKCCVCRKSIWGSFQGLRCSWCKVKCHKKCAEK 44 (49)
T ss_pred CCCccccccccCcCCCCcCCCCCCchHHHHHHhh
Confidence 5689999999876 3799999999999999875
No 47
>KOG0956 consensus PHD finger protein AF10 [General function prediction only]
Probab=94.24 E-value=0.035 Score=57.63 Aligned_cols=126 Identities=23% Similarity=0.494 Sum_probs=82.2
Q ss_pred ccCccCCC-CCC--CCcEeec--CCCCCCccccCCCCceecCCCCCCCccccccCCCCCCCceecccCCCCCCCeeEEcC
Q 035521 31 TSCSACKL-QPS--GLMYTCK--PCNFTLHVSCTQMPQLITHPSHPAHSLSLVPTPIYPAGIFNCDGCGRQGHGFSYHCT 105 (302)
Q Consensus 31 ~~Cd~C~~-~~~--g~~Y~C~--~C~f~lH~~Ca~~P~~i~Hp~Hp~H~L~L~~~~~~~~~~~~C~~C~~~i~G~~Y~C~ 105 (302)
.-|-+|.. ..| .....|+ .|.+.+|+.|.. |. ..| .+.|+|.-|...-...+++|+
T Consensus 6 GGCCVCSDErGWaeNPLVYCDG~nCsVAVHQaCYG----Iv------------qVP---tGpWfCrKCesqeraarvrCe 66 (900)
T KOG0956|consen 6 GGCCVCSDERGWAENPLVYCDGHNCSVAVHQACYG----IV------------QVP---TGPWFCRKCESQERAARVRCE 66 (900)
T ss_pred cceeeecCcCCCccCceeeecCCCceeeeehhcce----eE------------ecC---CCchhhhhhhhhhhhccceee
Confidence 34777864 455 4568897 599999999996 21 112 357899999876666779999
Q ss_pred CCCcc------------ccccccCCCcceecc-ccc-ccceEeecCCCccccccccccccccc-----cceeEEcCC--C
Q 035521 106 HCDFD------------LHILCATKPLTLIHQ-SHP-HQLQLTFDPPYYTEGFSCDICKKVGS-----AHWLYRCSL--C 164 (302)
Q Consensus 106 ~Cdfd------------lH~~Ca~lP~~i~h~-~H~-H~L~L~~~~~~~~~~~~C~vC~k~~~-----~~~~YrC~~--C 164 (302)
-|-++ .|.-||.+-.+++.. .|. -|++|...| .+.....|.||.+.+. .+-.-.|++ |
T Consensus 67 LCP~kdGALKkTDn~GWAHVVCALYIPEVrFgNV~TMEPIiLq~VP-~dRfnKtCYIC~E~GrpnkA~~GACMtCNKs~C 145 (900)
T KOG0956|consen 67 LCPHKDGALKKTDNGGWAHVVCALYIPEVRFGNVHTMEPIILQDVP-HDRFNKTCYICNEEGRPNKAAKGACMTCNKSGC 145 (900)
T ss_pred cccCcccceecccCCCceEEEEEeeccceeecccccccceeeccCc-hhhhcceeeeecccCCccccccccceecccccc
Confidence 88543 478888864444432 333 455554433 2334568999987631 344556653 6
Q ss_pred CccccccCcccc
Q 035521 165 EFDAHLDCAANL 176 (302)
Q Consensus 165 ~f~lH~~Ca~~~ 176 (302)
.=.+|+.|+...
T Consensus 146 kqaFHVTCAQ~~ 157 (900)
T KOG0956|consen 146 KQAFHVTCAQRA 157 (900)
T ss_pred hhhhhhhHhhhh
Confidence 788999999653
No 48
>KOG0954 consensus PHD finger protein [General function prediction only]
Probab=92.70 E-value=0.088 Score=55.16 Aligned_cols=128 Identities=22% Similarity=0.416 Sum_probs=72.5
Q ss_pred CCccCccCCCCC---CCCcEeecCCCCCCccccCCCCceecCCCCCCCccccccCCCCCCCceecccCCCCCCCeeEEcC
Q 035521 29 TTTSCSACKLQP---SGLMYTCKPCNFTLHVSCTQMPQLITHPSHPAHSLSLVPTPIYPAGIFNCDGCGRQGHGFSYHCT 105 (302)
Q Consensus 29 ~~~~Cd~C~~~~---~g~~Y~C~~C~f~lH~~Ca~~P~~i~Hp~Hp~H~L~L~~~~~~~~~~~~C~~C~~~i~G~~Y~C~ 105 (302)
+...||+|..+. ....-.|..||..+|+.|+.. |++ | ++.|.|..|...+.-...-|.
T Consensus 270 edviCDvCrspD~e~~neMVfCd~Cn~cVHqaCyGI-------------le~---p---~gpWlCr~Calg~~ppCvLCP 330 (893)
T KOG0954|consen 270 EDVICDVCRSPDSEEANEMVFCDKCNICVHQACYGI-------------LEV---P---EGPWLCRTCALGIEPPCVLCP 330 (893)
T ss_pred ccceeceecCCCccccceeEEeccchhHHHHhhhce-------------eec---C---CCCeeehhccccCCCCeeecc
Confidence 478999999864 346799999999999999973 111 1 235555555443222222222
Q ss_pred C---------C-CccccccccC-CCcce-ecccccccceEeecCCCccccccccccccccccceeEEcC--CCCcccccc
Q 035521 106 H---------C-DFDLHILCAT-KPLTL-IHQSHPHQLQLTFDPPYYTEGFSCDICKKVGSAHWLYRCS--LCEFDAHLD 171 (302)
Q Consensus 106 ~---------C-dfdlH~~Ca~-lP~~i-~h~~H~H~L~L~~~~~~~~~~~~C~vC~k~~~~~~~YrC~--~C~f~lH~~ 171 (302)
. = ---.|..||. .|+++ ..+--.-|++-+...+.......|++|+.. .+-.-+|. .|.-.+|+.
T Consensus 331 kkGGamK~~~sgT~wAHvsCALwIPEVsie~~ekmePItkfs~IpesRwslvC~LCk~k--~GACIqCs~k~C~t~fHv~ 408 (893)
T KOG0954|consen 331 KKGGAMKPTKSGTKWAHVSCALWIPEVSIECPEKMEPITKFSHIPESRWSLVCNLCKVK--SGACIQCSNKTCRTAFHVT 408 (893)
T ss_pred ccCCcccccCCCCeeeEeeeeeccceeeccCHhhcCcccccCCCcHHHHHHHHHHhccc--CcceEEecccchhhhccch
Confidence 1 0 0235667776 34321 111111232221111112234589999875 24566776 588999999
Q ss_pred CccccC
Q 035521 172 CAANLL 177 (302)
Q Consensus 172 Ca~~~~ 177 (302)
||...-
T Consensus 409 CA~~aG 414 (893)
T KOG0954|consen 409 CAFEAG 414 (893)
T ss_pred hhhhcC
Confidence 996543
No 49
>KOG4286 consensus Dystrophin-like protein [Cell motility; Signal transduction mechanisms; Cytoskeleton]
Probab=92.27 E-value=0.051 Score=56.98 Aligned_cols=46 Identities=22% Similarity=0.359 Sum_probs=35.6
Q ss_pred CccCccCCC-CCCCCcEeecCC-CCCCccccCCCCce-ecCCCCCCCcccc
Q 035521 30 TTSCSACKL-QPSGLMYTCKPC-NFTLHVSCTQMPQL-ITHPSHPAHSLSL 77 (302)
Q Consensus 30 ~~~Cd~C~~-~~~g~~Y~C~~C-~f~lH~~Ca~~P~~-i~Hp~Hp~H~L~L 77 (302)
..+|++|++ +|.|++|+|..| |+++|..|+..-.. ..|-.| ||+.-
T Consensus 603 ~~kCniCk~~pIvG~RyR~l~~fn~dlCq~CF~sgraak~hk~~--~pM~E 651 (966)
T KOG4286|consen 603 QAKCNICKECPIIGFRYRSLKHFNYDICQSCFFSGRAAKGHKMH--YPMVE 651 (966)
T ss_pred hhhcchhhhCccceeeeeehhhcChhHHhhHhhhcccccCCCCC--CCcee
Confidence 468999998 899999999999 99999999986432 344444 55543
No 50
>cd02336 ZZ_RSC8 Zinc finger, ZZ type. Zinc finger present in RSC8 and related proteins. RSC8 is a component of the RSC complex, which is closely related to the SWI/SNF complex and is involved in remodeling chromatin structure. The ZZ motif coordinates a zinc ion and most likely participates in ligand binding or molecular scaffolding.
Probab=90.46 E-value=0.19 Score=34.63 Aligned_cols=31 Identities=26% Similarity=0.560 Sum_probs=27.8
Q ss_pred ecccCCCCCCCeeEEcCCC-CccccccccCCC
Q 035521 89 NCDGCGRQGHGFSYHCTHC-DFDLHILCATKP 119 (302)
Q Consensus 89 ~C~~C~~~i~G~~Y~C~~C-dfdlH~~Ca~lP 119 (302)
.|+.|+..+...+|+|..+ +++||+.|....
T Consensus 2 ~C~~Cg~D~t~vryh~~~~~~~dLC~~CF~~G 33 (45)
T cd02336 2 HCFTCGNDCTRVRYHNLKAKKYDLCPSCYQEG 33 (45)
T ss_pred cccCCCCccCceEEEecCCCccccChHHHhCc
Confidence 6999999998899999988 699999998754
No 51
>KOG0957 consensus PHD finger protein [General function prediction only]
Probab=89.90 E-value=0.14 Score=51.63 Aligned_cols=136 Identities=22% Similarity=0.413 Sum_probs=80.0
Q ss_pred CccCccCCCC-C--CCCcEeecCCCCCCccccCCCCceecCCCCCCCccccccCCCCCCCceecccCCCCCCCeeEEcCC
Q 035521 30 TTSCSACKLQ-P--SGLMYTCKPCNFTLHVSCTQMPQLITHPSHPAHSLSLVPTPIYPAGIFNCDGCGRQGHGFSYHCTH 106 (302)
Q Consensus 30 ~~~Cd~C~~~-~--~g~~Y~C~~C~f~lH~~Ca~~P~~i~Hp~Hp~H~L~L~~~~~~~~~~~~C~~C~~~i~G~~Y~C~~ 106 (302)
...|-+|-.. + .+....|..|+..+|+.|...-..+..+.-. . .-....|+|++|.-.+.- =+|+-
T Consensus 119 ~~iCcVClg~rs~da~ei~qCd~CGi~VHEgCYGv~dn~si~s~~--------s-~~stepWfCeaC~~Gvs~--P~CEl 187 (707)
T KOG0957|consen 119 AVICCVCLGQRSVDAGEILQCDKCGINVHEGCYGVLDNVSIPSGS--------S-DCSTEPWFCEACLYGVSL--PHCEL 187 (707)
T ss_pred ceEEEEeecCccccccceeeccccCceecccccccccccccCCCC--------c-cCCCCchhhhhHhcCCCC--Ccccc
Confidence 4489899642 2 4678999999999999999854332222110 0 001137999999864321 46666
Q ss_pred C-C-----------ccccccccCCCcceec-cccc-ccceEeecCCCccccccccccccccc--cceeEEcC--CCCccc
Q 035521 107 C-D-----------FDLHILCATKPLTLIH-QSHP-HQLQLTFDPPYYTEGFSCDICKKVGS--AHWLYRCS--LCEFDA 168 (302)
Q Consensus 107 C-d-----------fdlH~~Ca~lP~~i~h-~~H~-H~L~L~~~~~~~~~~~~C~vC~k~~~--~~~~YrC~--~C~f~l 168 (302)
| + --+|.-||.+-.-+.. ..|. -+++|.......-+...|.+|..... .+..-+|. .|.-++
T Consensus 188 CPn~~GifKetDigrWvH~iCALYvpGVafg~~~~l~~Vtl~em~ysk~Gak~Cs~Ced~~fARtGvci~CdaGMCk~Yf 267 (707)
T KOG0957|consen 188 CPNRFGIFKETDIGRWVHAICALYVPGVAFGQTHTLCGVTLEEMDYSKFGAKTCSACEDKIFARTGVCIRCDAGMCKEYF 267 (707)
T ss_pred CCCcCCcccccchhhHHHHHHHhhcCccccccccccccccHHHhhhhhhccchhccccchhhhhcceeeeccchhhhhhh
Confidence 5 1 1367888876433222 2222 22233221111134578999986432 34566775 478999
Q ss_pred cccCcccc
Q 035521 169 HLDCAANL 176 (302)
Q Consensus 169 H~~Ca~~~ 176 (302)
|+.|+...
T Consensus 268 HVTCAQk~ 275 (707)
T KOG0957|consen 268 HVTCAQKL 275 (707)
T ss_pred hhhHHhhh
Confidence 99999654
No 52
>KOG4286 consensus Dystrophin-like protein [Cell motility; Signal transduction mechanisms; Cytoskeleton]
Probab=89.42 E-value=0.17 Score=53.17 Aligned_cols=46 Identities=17% Similarity=0.315 Sum_probs=35.4
Q ss_pred ceecccCCC-CCCCeeEEcCCC-CccccccccCCCcceeccccc--ccceEe
Q 035521 87 IFNCDGCGR-QGHGFSYHCTHC-DFDLHILCATKPLTLIHQSHP--HQLQLT 134 (302)
Q Consensus 87 ~~~C~~C~~-~i~G~~Y~C~~C-dfdlH~~Ca~lP~~i~h~~H~--H~L~L~ 134 (302)
..+|++|++ +|.|++|+|..| |+|+|..|......- ..|. ||+.-.
T Consensus 603 ~~kCniCk~~pIvG~RyR~l~~fn~dlCq~CF~sgraa--k~hk~~~pM~Ey 652 (966)
T KOG4286|consen 603 QAKCNICKECPIIGFRYRSLKHFNYDICQSCFFSGRAA--KGHKMHYPMVEY 652 (966)
T ss_pred hhhcchhhhCccceeeeeehhhcChhHHhhHhhhcccc--cCCCCCCCceee
Confidence 579999996 689999999999 999999999865433 2333 666433
No 53
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=88.93 E-value=0.29 Score=48.57 Aligned_cols=51 Identities=24% Similarity=0.576 Sum_probs=39.2
Q ss_pred CCccCccCCCCCCCCc-EeecCC-CCCCccccCCCCceecCCCCCCCccccccC
Q 035521 29 TTTSCSACKLQPSGLM-YTCKPC-NFTLHVSCTQMPQLITHPSHPAHSLSLVPT 80 (302)
Q Consensus 29 ~~~~Cd~C~~~~~g~~-Y~C~~C-~f~lH~~Ca~~P~~i~Hp~Hp~H~L~L~~~ 80 (302)
....|+.|.+.+.+.. .+|.+| +||||..|+..-.++. +.++.|+-+++..
T Consensus 13 ~ky~C~~C~~dit~~i~ikCaeCp~fdLCl~CFs~GaE~~-~H~~~H~Yrim~~ 65 (438)
T KOG0457|consen 13 GKYNCDYCSLDITGLIRIKCAECPDFDLCLQCFSVGAETG-KHQNDHPYRIMDT 65 (438)
T ss_pred CCCCCccHhHHhccceEEEeecCCCcchhHHHHhcccccC-CCCCCCCceeecC
Confidence 4789999999998755 999999 6999999998654432 2234577887765
No 54
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=88.89 E-value=0.51 Score=37.76 Aligned_cols=84 Identities=25% Similarity=0.515 Sum_probs=52.9
Q ss_pred cCccCCCCCCCCcEeecCCCCCCccccCCC-CceecCCCCCCCccccccCCCCCCCceecccCCCCCCCeeEEcCC--CC
Q 035521 32 SCSACKLQPSGLMYTCKPCNFTLHVSCTQM-PQLITHPSHPAHSLSLVPTPIYPAGIFNCDGCGRQGHGFSYHCTH--CD 108 (302)
Q Consensus 32 ~Cd~C~~~~~g~~Y~C~~C~f~lH~~Ca~~-P~~i~Hp~Hp~H~L~L~~~~~~~~~~~~C~~C~~~i~G~~Y~C~~--Cd 108 (302)
.|..|... +..++-..-+-.+|..|+.. |+.+.......=+..+...+ .......|..|++. .|..-+|.. |+
T Consensus 2 ~C~lC~~~--~Galk~t~~~~WvHv~Cal~~~~~~~~~~~~~~~v~~~~i~-~~~~~~~C~iC~~~-~G~~i~C~~~~C~ 77 (110)
T PF13832_consen 2 SCVLCPKR--GGALKRTSDGQWVHVLCALWIPEVIFNNGESMEPVDISNIP-PSRFKLKCSICGKS-GGACIKCSHPGCS 77 (110)
T ss_pred ccEeCCCC--CCcccCccCCcEEEeEccceeCccEEeechhcCcccceeec-chhcCCcCcCCCCC-CceeEEcCCCCCC
Confidence 47778765 33455556678999999986 33222111100011111111 11247899999987 578899998 99
Q ss_pred ccccccccCCC
Q 035521 109 FDLHILCATKP 119 (302)
Q Consensus 109 fdlH~~Ca~lP 119 (302)
..+|+.||...
T Consensus 78 ~~fH~~CA~~~ 88 (110)
T PF13832_consen 78 TAFHPTCARKA 88 (110)
T ss_pred cCCCHHHHHHC
Confidence 99999999864
No 55
>cd02336 ZZ_RSC8 Zinc finger, ZZ type. Zinc finger present in RSC8 and related proteins. RSC8 is a component of the RSC complex, which is closely related to the SWI/SNF complex and is involved in remodeling chromatin structure. The ZZ motif coordinates a zinc ion and most likely participates in ligand binding or molecular scaffolding.
Probab=87.90 E-value=0.31 Score=33.57 Aligned_cols=30 Identities=23% Similarity=0.420 Sum_probs=27.2
Q ss_pred cCccCCCCCCCCcEeecCC-CCCCccccCCC
Q 035521 32 SCSACKLQPSGLMYTCKPC-NFTLHVSCTQM 61 (302)
Q Consensus 32 ~Cd~C~~~~~g~~Y~C~~C-~f~lH~~Ca~~ 61 (302)
.|+.|+.++...+|+|..+ +++|+..|+..
T Consensus 2 ~C~~Cg~D~t~vryh~~~~~~~dLC~~CF~~ 32 (45)
T cd02336 2 HCFTCGNDCTRVRYHNLKAKKYDLCPSCYQE 32 (45)
T ss_pred cccCCCCccCceEEEecCCCccccChHHHhC
Confidence 6999999988899999998 79999999973
No 56
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=87.72 E-value=0.29 Score=48.53 Aligned_cols=46 Identities=24% Similarity=0.529 Sum_probs=36.4
Q ss_pred ccccccccccccccceeEEcCCC-CccccccCccccCCCCC-cCCCcc
Q 035521 142 EGFSCDICKKVGSAHWLYRCSLC-EFDAHLDCAANLLAQPI-HTQHQY 187 (302)
Q Consensus 142 ~~~~C~vC~k~~~~~~~YrC~~C-~f~lH~~Ca~~~~~~~~-~~~H~~ 187 (302)
..+.|+.|.+......+.+|.+| +|+||..|...-.-.+. +..|.+
T Consensus 13 ~ky~C~~C~~dit~~i~ikCaeCp~fdLCl~CFs~GaE~~~H~~~H~Y 60 (438)
T KOG0457|consen 13 GKYNCDYCSLDITGLIRIKCAECPDFDLCLQCFSVGAETGKHQNDHPY 60 (438)
T ss_pred CCCCCccHhHHhccceEEEeecCCCcchhHHHHhcccccCCCCCCCCc
Confidence 46789999998766677999999 59999999977655444 555776
No 57
>KOG0956 consensus PHD finger protein AF10 [General function prediction only]
Probab=86.60 E-value=0.41 Score=50.05 Aligned_cols=89 Identities=24% Similarity=0.481 Sum_probs=62.9
Q ss_pred CCccCccCCCCCCCCcEeecCCCC------------CCccccCCC-CceecCCCCCCCccccccCCCCCCCceecccCCC
Q 035521 29 TTTSCSACKLQPSGLMYTCKPCNF------------TLHVSCTQM-PQLITHPSHPAHSLSLVPTPIYPAGIFNCDGCGR 95 (302)
Q Consensus 29 ~~~~Cd~C~~~~~g~~Y~C~~C~f------------~lH~~Ca~~-P~~i~Hp~Hp~H~L~L~~~~~~~~~~~~C~~C~~ 95 (302)
..|.|.-|...-...+++|+-|-+ .-|.-|+.+ |+.-.-..|..-|+.|...|. +.....|.+|.+
T Consensus 47 GpWfCrKCesqeraarvrCeLCP~kdGALKkTDn~GWAHVVCALYIPEVrFgNV~TMEPIiLq~VP~-dRfnKtCYIC~E 125 (900)
T KOG0956|consen 47 GPWFCRKCESQERAARVRCELCPHKDGALKKTDNGGWAHVVCALYIPEVRFGNVHTMEPIILQDVPH-DRFNKTCYICNE 125 (900)
T ss_pred CchhhhhhhhhhhhccceeecccCcccceecccCCCceEEEEEeeccceeecccccccceeeccCch-hhhcceeeeecc
Confidence 489999999877778899999954 479999987 544333345444555544432 123678999987
Q ss_pred CC------CCeeEEcC--CCCccccccccCC
Q 035521 96 QG------HGFSYHCT--HCDFDLHILCATK 118 (302)
Q Consensus 96 ~i------~G~~Y~C~--~CdfdlH~~Ca~l 118 (302)
.. .|-...|+ .|.-.+|..||..
T Consensus 126 ~GrpnkA~~GACMtCNKs~CkqaFHVTCAQ~ 156 (900)
T KOG0956|consen 126 EGRPNKAAKGACMTCNKSGCKQAFHVTCAQR 156 (900)
T ss_pred cCCccccccccceecccccchhhhhhhHhhh
Confidence 53 35668888 4888999999975
No 58
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=86.05 E-value=0.64 Score=37.16 Aligned_cols=84 Identities=24% Similarity=0.372 Sum_probs=52.4
Q ss_pred ecccCCCCCCCeeEEcCCCCccccccccCCCcceecc-ccc-ccceEeecCCCccccccccccccccccceeEEcCC--C
Q 035521 89 NCDGCGRQGHGFSYHCTHCDFDLHILCATKPLTLIHQ-SHP-HQLQLTFDPPYYTEGFSCDICKKVGSAHWLYRCSL--C 164 (302)
Q Consensus 89 ~C~~C~~~i~G~~Y~C~~CdfdlH~~Ca~lP~~i~h~-~H~-H~L~L~~~~~~~~~~~~C~vC~k~~~~~~~YrC~~--C 164 (302)
.|..|.+. +-.++-+.-+--+|..|+..-..+... ... -++.+...+ .......|.+|++. .+..-+|.. |
T Consensus 2 ~C~lC~~~--~Galk~t~~~~WvHv~Cal~~~~~~~~~~~~~~~v~~~~i~-~~~~~~~C~iC~~~--~G~~i~C~~~~C 76 (110)
T PF13832_consen 2 SCVLCPKR--GGALKRTSDGQWVHVLCALWIPEVIFNNGESMEPVDISNIP-PSRFKLKCSICGKS--GGACIKCSHPGC 76 (110)
T ss_pred ccEeCCCC--CCcccCccCCcEEEeEccceeCccEEeechhcCcccceeec-chhcCCcCcCCCCC--CceeEEcCCCCC
Confidence 47788765 234555555667999999864433221 111 112211111 12346799999986 356789987 9
Q ss_pred CccccccCccccC
Q 035521 165 EFDAHLDCAANLL 177 (302)
Q Consensus 165 ~f~lH~~Ca~~~~ 177 (302)
...+|+.||....
T Consensus 77 ~~~fH~~CA~~~g 89 (110)
T PF13832_consen 77 STAFHPTCARKAG 89 (110)
T ss_pred CcCCCHHHHHHCC
Confidence 9999999997643
No 59
>KOG1169 consensus Diacylglycerol kinase [Lipid transport and metabolism; Signal transduction mechanisms]
Probab=83.72 E-value=0.45 Score=49.55 Aligned_cols=92 Identities=17% Similarity=0.215 Sum_probs=59.4
Q ss_pred ceecccCCCCCCCeeEEcCCCCccccccccCCCcc---------eecccccccceEeecCCCccccccccccccccc-c-
Q 035521 87 IFNCDGCGRQGHGFSYHCTHCDFDLHILCATKPLT---------LIHQSHPHQLQLTFDPPYYTEGFSCDICKKVGS-A- 155 (302)
Q Consensus 87 ~~~C~~C~~~i~G~~Y~C~~CdfdlH~~Ca~lP~~---------i~h~~H~H~L~L~~~~~~~~~~~~C~vC~k~~~-~- 155 (302)
...|..|.+......-+|+.|+..+|..|.....+ ..+..|.+.-..+..+........|.+|.+.+. .
T Consensus 44 ~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~s~~~~~~~~~~~~~~~k~~~~~~~~~~~~~~~~~c~~c~~~c~~~~ 123 (634)
T KOG1169|consen 44 QMVCCVCLWSEMAPSVDCDVDGGVSHEECVSGAASDCPLLVLLGFENQRHKTDGDHVWRPKHLWKPAYCFVCPKSCGSCG 123 (634)
T ss_pred hhhhhhhhhcccccccceeccccchhhhhhcccccchHHHHHHHhhhhhhhccCceeccCCCCCCCceEEeccccccchh
Confidence 34899998855556789999999999999775322 123323211111222222245667888887641 1
Q ss_pred ---ceeEEcCCCCccccccCccccCC
Q 035521 156 ---HWLYRCSLCEFDAHLDCAANLLA 178 (302)
Q Consensus 156 ---~~~YrC~~C~f~lH~~Ca~~~~~ 178 (302)
...+.|..|...+|..|...+..
T Consensus 124 ~~~~~g~~C~~C~~~vh~~C~~~~~~ 149 (634)
T KOG1169|consen 124 VGIKQGLCCDWCGRTVHERCVRRADP 149 (634)
T ss_pred hcccCceeeccccchHHHHHHhhcCc
Confidence 23599999999999999977655
No 60
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=83.48 E-value=0.77 Score=44.21 Aligned_cols=84 Identities=26% Similarity=0.415 Sum_probs=46.4
Q ss_pred cCCCCCCCeeEEcCCCCccccccccCCC---ccee------ccc-ccccceEeecCCCc--cccccccccccccccceeE
Q 035521 92 GCGRQGHGFSYHCTHCDFDLHILCATKP---LTLI------HQS-HPHQLQLTFDPPYY--TEGFSCDICKKVGSAHWLY 159 (302)
Q Consensus 92 ~C~~~i~G~~Y~C~~CdfdlH~~Ca~lP---~~i~------h~~-H~H~L~L~~~~~~~--~~~~~C~vC~k~~~~~~~Y 159 (302)
+|...+.+-.|.|..|.-.+|..=+.-| ..+. ... |.-||.-..+-|.. .+...|-+|.........|
T Consensus 267 ~CH~~~~~~Gy~CP~CkakvCsLP~eCpiC~ltLVss~hLARSyhhL~PL~~F~Eip~~~~~~~~~Cf~C~~~~~~~~~y 346 (378)
T KOG2807|consen 267 ACHSELSGGGYFCPQCKAKVCSLPIECPICSLTLVSSPHLARSYHHLFPLKPFVEIPETEYNGSRFCFACQGELLSSGRY 346 (378)
T ss_pred eeccccccCceeCCcccCeeecCCccCCccceeEecchHHHHHHHhhcCCcchhhccccccCCCcceeeeccccCCCCcE
Confidence 4666677778999998755543211111 1111 111 22333322222221 2344699995433345699
Q ss_pred EcCCCCccccccCccc
Q 035521 160 RCSLCEFDAHLDCAAN 175 (302)
Q Consensus 160 rC~~C~f~lH~~Ca~~ 175 (302)
+|..|.-.+|..|-..
T Consensus 347 ~C~~Ck~~FCldCDv~ 362 (378)
T KOG2807|consen 347 RCESCKNVFCLDCDVF 362 (378)
T ss_pred EchhccceeeccchHH
Confidence 9999998888888655
No 61
>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=80.47 E-value=1.6 Score=29.87 Aligned_cols=34 Identities=18% Similarity=0.439 Sum_probs=27.6
Q ss_pred cccccccccccceeEEcCCCCccccccCccccCC
Q 035521 145 SCDICKKVGSAHWLYRCSLCEFDAHLDCAANLLA 178 (302)
Q Consensus 145 ~C~vC~k~~~~~~~YrC~~C~f~lH~~Ca~~~~~ 178 (302)
.|.+|++.........|..|+-.+|..|+..+..
T Consensus 1 ~C~vC~~~~~~~~~i~C~~C~~~~H~~C~~~~~~ 34 (51)
T PF00628_consen 1 YCPVCGQSDDDGDMIQCDSCNRWYHQECVGPPEK 34 (51)
T ss_dssp EBTTTTSSCTTSSEEEBSTTSCEEETTTSTSSHS
T ss_pred eCcCCCCcCCCCCeEEcCCCChhhCcccCCCChh
Confidence 4788988544567888999999999999987654
No 62
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=80.16 E-value=1.8 Score=35.56 Aligned_cols=33 Identities=21% Similarity=0.372 Sum_probs=24.4
Q ss_pred cccccccccccc-----------cceeEEcCCCCccccccCccc
Q 035521 143 GFSCDICKKVGS-----------AHWLYRCSLCEFDAHLDCAAN 175 (302)
Q Consensus 143 ~~~C~vC~k~~~-----------~~~~YrC~~C~f~lH~~Ca~~ 175 (302)
...|.+|.+... ...+|+|.+|.-+++.+|-..
T Consensus 55 ~~~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~f 98 (112)
T TIGR00622 55 SRFCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVF 98 (112)
T ss_pred CCcccCcCCCCCCcccccccccccccceeCCCCCCccccccchh
Confidence 346999987421 135899999998888888655
No 63
>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 TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=77.25 E-value=3.6 Score=33.77 Aligned_cols=32 Identities=22% Similarity=0.399 Sum_probs=25.1
Q ss_pred ceecccCCCCCC------------CeeEEcCCCCccccccccCC
Q 035521 87 IFNCDGCGRQGH------------GFSYHCTHCDFDLHILCATK 118 (302)
Q Consensus 87 ~~~C~~C~~~i~------------G~~Y~C~~CdfdlH~~Ca~l 118 (302)
...|.+|...+. ..+|.|..|.-+++..|-..
T Consensus 55 ~~~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~f 98 (112)
T TIGR00622 55 SRFCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVF 98 (112)
T ss_pred CCcccCcCCCCCCcccccccccccccceeCCCCCCccccccchh
Confidence 356999988542 34799999999999998753
No 65
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=76.17 E-value=1.2 Score=42.78 Aligned_cols=51 Identities=22% Similarity=0.470 Sum_probs=37.3
Q ss_pred CccCccCCCCCC-CCcEeecCC-CCCCccccCCCCc--eecCCCCCCCccccccCCCC
Q 035521 30 TTSCSACKLQPS-GLMYTCKPC-NFTLHVSCTQMPQ--LITHPSHPAHSLSLVPTPIY 83 (302)
Q Consensus 30 ~~~Cd~C~~~~~-g~~Y~C~~C-~f~lH~~Ca~~P~--~i~Hp~Hp~H~L~L~~~~~~ 83 (302)
.+.||+|...+. ..+-+|.+| +||||..|+..-. ...|| -|+.+++.+..|
T Consensus 5 k~hCdvC~~d~T~~~~i~C~eC~~~DLC~pCF~~g~~tg~H~p---yH~YRiietnsy 59 (432)
T COG5114 5 KIHCDVCFLDMTDLTFIKCNECPAVDLCLPCFVNGIETGVHSP---YHGYRIIETNSY 59 (432)
T ss_pred eeeehHHHHhhhcceeeeeecccccceehhhhhccccccccCC---CCCeeEeeccCc
Confidence 678999999764 567999999 9999999997532 23444 455777655443
No 66
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=75.88 E-value=2 Score=41.50 Aligned_cols=88 Identities=20% Similarity=0.343 Sum_probs=48.9
Q ss_pred CccCccCCCCCCCCcEeecCCCCCC------ccccCCCC---ceecCCCCCCCccccccCCCCCC--CceecccCC-CCC
Q 035521 30 TTSCSACKLQPSGLMYTCKPCNFTL------HVSCTQMP---QLITHPSHPAHSLSLVPTPIYPA--GIFNCDGCG-RQG 97 (302)
Q Consensus 30 ~~~Cd~C~~~~~g~~Y~C~~C~f~l------H~~Ca~~P---~~i~Hp~Hp~H~L~L~~~~~~~~--~~~~C~~C~-~~i 97 (302)
...| +|-+.+.+..|.|.+|.-.+ |.-|...- .-+.-.+|.--||+-...-+... +...|.+|. +..
T Consensus 263 ps~C-~CH~~~~~~Gy~CP~CkakvCsLP~eCpiC~ltLVss~hLARSyhhL~PL~~F~Eip~~~~~~~~~Cf~C~~~~~ 341 (378)
T KOG2807|consen 263 PSFC-ACHSELSGGGYFCPQCKAKVCSLPIECPICSLTLVSSPHLARSYHHLFPLKPFVEIPETEYNGSRFCFACQGELL 341 (378)
T ss_pred cchh-eeccccccCceeCCcccCeeecCCccCCccceeEecchHHHHHHHhhcCCcchhhccccccCCCcceeeeccccC
Confidence 4445 35566777789999986543 33343310 00111123111233222111111 345699994 445
Q ss_pred CCeeEEcCCCCccccccccCC
Q 035521 98 HGFSYHCTHCDFDLHILCATK 118 (302)
Q Consensus 98 ~G~~Y~C~~CdfdlH~~Ca~l 118 (302)
.+.+|+|..|.-.+|..|-.+
T Consensus 342 ~~~~y~C~~Ck~~FCldCDv~ 362 (378)
T KOG2807|consen 342 SSGRYRCESCKNVFCLDCDVF 362 (378)
T ss_pred CCCcEEchhccceeeccchHH
Confidence 678999999999999988753
No 67
>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 COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=73.43 E-value=1.7 Score=41.76 Aligned_cols=46 Identities=24% Similarity=0.488 Sum_probs=35.4
Q ss_pred ccccccccccccccceeEEcCCC-CccccccCccccCCCCC-cCCCcc
Q 035521 142 EGFSCDICKKVGSAHWLYRCSLC-EFDAHLDCAANLLAQPI-HTQHQY 187 (302)
Q Consensus 142 ~~~~C~vC~k~~~~~~~YrC~~C-~f~lH~~Ca~~~~~~~~-~~~H~~ 187 (302)
..+.|++|-.+.....+-+|.+| +||+|.-|........- +.-|.+
T Consensus 4 ~k~hCdvC~~d~T~~~~i~C~eC~~~DLC~pCF~~g~~tg~H~pyH~Y 51 (432)
T COG5114 4 VKIHCDVCFLDMTDLTFIKCNECPAVDLCLPCFVNGIETGVHSPYHGY 51 (432)
T ss_pred ceeeehHHHHhhhcceeeeeecccccceehhhhhccccccccCCCCCe
Confidence 35789999987777789999999 89999999977655332 444555
No 69
>KOG0955 consensus PHD finger protein BR140/LIN-49 [General function prediction only]
Probab=72.09 E-value=3.2 Score=45.90 Aligned_cols=128 Identities=23% Similarity=0.427 Sum_probs=74.2
Q ss_pred CCccCccCCCC-CC--CCcEeecCCCCCCccccCCCCceecCCCCCCCccccccCCCCCCCceecccCCCCCCCeeEEcC
Q 035521 29 TTTSCSACKLQ-PS--GLMYTCKPCNFTLHVSCTQMPQLITHPSHPAHSLSLVPTPIYPAGIFNCDGCGRQGHGFSYHCT 105 (302)
Q Consensus 29 ~~~~Cd~C~~~-~~--g~~Y~C~~C~f~lH~~Ca~~P~~i~Hp~Hp~H~L~L~~~~~~~~~~~~C~~C~~~i~G~~Y~C~ 105 (302)
....|..|.+- .. ..-..|..||..+|.+|...|. .+++.|.|..|...-.+. -.|.
T Consensus 218 ~D~~C~iC~~~~~~n~n~ivfCD~Cnl~VHq~Cygi~~-------------------ipeg~WlCr~Cl~s~~~~-v~c~ 277 (1051)
T KOG0955|consen 218 EDAVCCICLDGECQNSNVIVFCDGCNLAVHQECYGIPF-------------------IPEGQWLCRRCLQSPQRP-VRCL 277 (1051)
T ss_pred CCccceeecccccCCCceEEEcCCCcchhhhhccCCCC-------------------CCCCcEeehhhccCcCcc-cceE
Confidence 47799999984 33 6779999999999999997211 123466777775432222 3343
Q ss_pred CC------------CccccccccCCCcceecccccccceEeecC---CCccccccccccccccccceeEEcC--CCCccc
Q 035521 106 HC------------DFDLHILCATKPLTLIHQSHPHQLQLTFDP---PYYTEGFSCDICKKVGSAHWLYRCS--LCEFDA 168 (302)
Q Consensus 106 ~C------------dfdlH~~Ca~lP~~i~h~~H~H~L~L~~~~---~~~~~~~~C~vC~k~~~~~~~YrC~--~C~f~l 168 (302)
.| +--.|..||..-..+. ..+.+.+..+... +.......|.+|++.+ .+-.-.|. .|--.+
T Consensus 278 ~cp~~~gAFkqt~dgrw~Hv~caiwipev~-F~nt~~~E~I~~i~~i~~aRwkL~cy~cK~~~-~gaciqcs~~~c~~a~ 355 (1051)
T KOG0955|consen 278 LCPSKGGAFKQTDDGRWAHVVCAIWIPEVS-FANTVFLEPIDSIENIPPARWKLTCYICKQKG-LGACIQCSKANCYTAF 355 (1051)
T ss_pred eccCCCCcceeccCCceeeeehhhcccccc-cccchhhccccchhcCcHhhhhceeeeeccCC-CCcceecchhhhhhhh
Confidence 33 2235777776432221 1111222222111 1012356899998764 24455675 477899
Q ss_pred cccCccccCC
Q 035521 169 HLDCAANLLA 178 (302)
Q Consensus 169 H~~Ca~~~~~ 178 (302)
|+.|+.....
T Consensus 356 hvtca~~agl 365 (1051)
T KOG0955|consen 356 HVTCARRAGL 365 (1051)
T ss_pred hhhhHhhcCc
Confidence 9999976544
No 70
>KOG0957 consensus PHD finger protein [General function prediction only]
Probab=71.06 E-value=3.3 Score=42.17 Aligned_cols=34 Identities=38% Similarity=0.876 Sum_probs=28.8
Q ss_pred cccccccccccccceeEEcCCCCccccccCcccc
Q 035521 143 GFSCDICKKVGSAHWLYRCSLCEFDAHLDCAANL 176 (302)
Q Consensus 143 ~~~C~vC~k~~~~~~~YrC~~C~f~lH~~Ca~~~ 176 (302)
.+.|.+|++.........|..|...+|..|..-|
T Consensus 544 ~ysCgiCkks~dQHll~~CDtC~lhYHlGCL~PP 577 (707)
T KOG0957|consen 544 NYSCGICKKSTDQHLLTQCDTCHLHYHLGCLSPP 577 (707)
T ss_pred ceeeeeeccchhhHHHhhcchhhceeeccccCCc
Confidence 4789999987556678899999999999998653
No 71
>KOG1169 consensus Diacylglycerol kinase [Lipid transport and metabolism; Signal transduction mechanisms]
Probab=68.63 E-value=4.6 Score=42.30 Aligned_cols=140 Identities=17% Similarity=0.276 Sum_probs=80.9
Q ss_pred cCccCCCCCCCCcEeecCCCCCCccccCCCCce---------ecCCCCC---CCccccccCCCCCCCceecccCCCCC--
Q 035521 32 SCSACKLQPSGLMYTCKPCNFTLHVSCTQMPQL---------ITHPSHP---AHSLSLVPTPIYPAGIFNCDGCGRQG-- 97 (302)
Q Consensus 32 ~Cd~C~~~~~g~~Y~C~~C~f~lH~~Ca~~P~~---------i~Hp~Hp---~H~L~L~~~~~~~~~~~~C~~C~~~i-- 97 (302)
.|..|........-.|+.|+..+|.+|.....+ ..|..|. .|..+.... ....+|..|.+..
T Consensus 46 ~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~s~~~~~~~~~~~~~~~k~~~~~~~~~~~~----~~~~~c~~c~~~c~~ 121 (634)
T KOG1169|consen 46 VCCVCLWSEMAPSVDCDVDGGVSHEECVSGAASDCPLLVLLGFENQRHKTDGDHVWRPKHL----WKPAYCFVCPKSCGS 121 (634)
T ss_pred hhhhhhhcccccccceeccccchhhhhhcccccchHHHHHHHhhhhhhhccCceeccCCCC----CCCceEEeccccccc
Confidence 788888755556788999999999999975321 1222221 132332211 2367788887764
Q ss_pred C----CeeEEcCCCCccccccccCCCcc-eeccccc-ccceEeecCC---Ccccccccccccccc---ccceeEEcCCCC
Q 035521 98 H----GFSYHCTHCDFDLHILCATKPLT-LIHQSHP-HQLQLTFDPP---YYTEGFSCDICKKVG---SAHWLYRCSLCE 165 (302)
Q Consensus 98 ~----G~~Y~C~~CdfdlH~~Ca~lP~~-i~h~~H~-H~L~L~~~~~---~~~~~~~C~vC~k~~---~~~~~YrC~~C~ 165 (302)
. ...+.|.-|.+.+|..|...+.+ +.-.... +--+.+..+. .......|..|.+.. .....++|.+|.
T Consensus 122 ~~~~~~~g~~C~~C~~~vh~~C~~~~~~~~~~~~~~~~~r~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~~ 201 (634)
T KOG1169|consen 122 CGVGIKQGLCCDWCGRTVHERCVRRADPECQCKCDLGRLRKIVLDHPWVKGNAGEAKCDQCLKSVKADQGLTGPRCGWCQ 201 (634)
T ss_pred hhhcccCceeeccccchHHHHHHhhcCcccccccccccccceeecCcccccccCCccchhhhccccccccccccccceee
Confidence 1 23499999999999999886532 1000000 0000001111 112345677776542 122468999999
Q ss_pred ccccccCccc
Q 035521 166 FDAHLDCAAN 175 (302)
Q Consensus 166 f~lH~~Ca~~ 175 (302)
..+|.+|...
T Consensus 202 ~~~h~~~~~~ 211 (634)
T KOG1169|consen 202 IRVHDKCKSE 211 (634)
T ss_pred eeeecchHHH
Confidence 9999999643
No 72
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=67.55 E-value=4.2 Score=29.14 Aligned_cols=33 Identities=18% Similarity=0.478 Sum_probs=29.4
Q ss_pred CCccCccCCCCC--CCCcEeecCCCCCCccccCCC
Q 035521 29 TTTSCSACKLQP--SGLMYTCKPCNFTLHVSCTQM 61 (302)
Q Consensus 29 ~~~~Cd~C~~~~--~g~~Y~C~~C~f~lH~~Ca~~ 61 (302)
...+|..|++++ .+..-.|.+|.--.|++|.+.
T Consensus 4 ~~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~ 38 (54)
T PF14446_consen 4 EGCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK 38 (54)
T ss_pred cCccChhhCCcccCCCCEEECCCCCCcccHHHHhh
Confidence 367899999988 678899999999999999974
No 73
>KOG0193 consensus Serine/threonine protein kinase RAF [Signal transduction mechanisms]
Probab=66.68 E-value=2.9 Score=43.60 Aligned_cols=32 Identities=22% Similarity=0.582 Sum_probs=28.2
Q ss_pred CccCccCCCCCCCCcEeecCCCCCCccccCCC
Q 035521 30 TTSCSACKLQPSGLMYTCKPCNFTLHVSCTQM 61 (302)
Q Consensus 30 ~~~Cd~C~~~~~g~~Y~C~~C~f~lH~~Ca~~ 61 (302)
...|+.|..++.-..++|..|+|.+|+.|+..
T Consensus 189 ~~fC~~~~~~~l~~gfrC~~C~~KfHq~Cs~~ 220 (678)
T KOG0193|consen 189 LAFCDSCCNKFLFTGFRCQTCGYKFHQSCSPR 220 (678)
T ss_pred hhhhhhhcchhhhcccccCCCCCccccccCCC
Confidence 66788888888888899999999999999974
No 74
>smart00396 ZnF_UBR1 Putative zinc finger in N-recognin, a recognition component of the N-end rule pathway. Domain is involved in recognition of N-end rule substrates in yeast Ubr1p
Probab=64.89 E-value=7.3 Score=29.14 Aligned_cols=40 Identities=28% Similarity=0.668 Sum_probs=26.7
Q ss_pred cCCCCC--CCCcEeecCCCC----CCccccCCCCceecCCCCCCCccccccC
Q 035521 35 ACKLQP--SGLMYTCKPCNF----TLHVSCTQMPQLITHPSHPAHSLSLVPT 80 (302)
Q Consensus 35 ~C~~~~--~g~~Y~C~~C~f----~lH~~Ca~~P~~i~Hp~Hp~H~L~L~~~ 80 (302)
.|.... ....|+|..|.. .++..|++ +..|++|...+...
T Consensus 2 ~C~~~~~~~~~~y~C~tC~~~~~~~iC~~Cf~------~~~H~gH~~~~~~~ 47 (71)
T smart00396 2 VCTYKFTGGEVIYRCKTCGLDPTCVLCSDCFR------SNCHKGHDYSLKTS 47 (71)
T ss_pred CCCCccCCCCEEEECcCCCCCCCEeEChHHCC------CCCCCCCCEEEEEe
Confidence 466543 346699999964 58888885 23456787777654
No 75
>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=62.30 E-value=9.5 Score=25.87 Aligned_cols=32 Identities=28% Similarity=0.627 Sum_probs=26.2
Q ss_pred ecccCCCCC-CCeeEEcCCCCccccccccCCCc
Q 035521 89 NCDGCGRQG-HGFSYHCTHCDFDLHILCATKPL 120 (302)
Q Consensus 89 ~C~~C~~~i-~G~~Y~C~~CdfdlH~~Ca~lP~ 120 (302)
+|.+|++.. .+....|..|+-.+|..|...+.
T Consensus 1 ~C~vC~~~~~~~~~i~C~~C~~~~H~~C~~~~~ 33 (51)
T PF00628_consen 1 YCPVCGQSDDDGDMIQCDSCNRWYHQECVGPPE 33 (51)
T ss_dssp EBTTTTSSCTTSSEEEBSTTSCEEETTTSTSSH
T ss_pred eCcCCCCcCCCCCeEEcCCCChhhCcccCCCCh
Confidence 478888743 46789999999999999998764
No 76
>KOG4301 consensus Beta-dystrobrevin [Cytoskeleton]
Probab=62.07 E-value=2.8 Score=40.72 Aligned_cols=32 Identities=31% Similarity=0.774 Sum_probs=28.5
Q ss_pred CccCccCCC-CCCCCcEeecCC-CCCCccccCCC
Q 035521 30 TTSCSACKL-QPSGLMYTCKPC-NFTLHVSCTQM 61 (302)
Q Consensus 30 ~~~Cd~C~~-~~~g~~Y~C~~C-~f~lH~~Ca~~ 61 (302)
...|+.|.. ++-|++|+|..| +|.+|..|+-.
T Consensus 240 pv~cs~c~srs~~gfry~cq~C~nyqlcq~cfwr 273 (434)
T KOG4301|consen 240 PVECSYCRSRSMMGFRYRCQQCHNYQLCQQCFWR 273 (434)
T ss_pred CccCcceecccccchhhhHhhcCCccccchhhcc
Confidence 678999975 688999999999 99999999963
No 77
>PF07975 C1_4: TFIIH C1-like domain; InterPro: IPR004595 All proteins in this domain for which functions are known are components of the TFIIH complex which is involved in the initiation of transcription and nucleotide excision repair. It includes the yeast transcription factor Ssl1 (Suppressor of stem-loop protein 1) that is essential for translation initiation and affects UV resistance. The C-terminal region is essential for transcription activity. This regions binds three zinc atoms through two independent domain. The first contains a C4 zinc finger motif, whereas the second is characterised by a CX(2)CX(2-4)FCADCD motif. The solution structure of the second C-terminal domain revealed homology with the regulatory domain of protein kinase C [].; GO: 0006281 DNA repair, 0005634 nucleus; PDB: 1Z60_A.
Probab=58.60 E-value=3.5 Score=29.18 Aligned_cols=29 Identities=21% Similarity=0.598 Sum_probs=17.2
Q ss_pred cCccCCCCCCC--------CcEeecCCCCCCccccCC
Q 035521 32 SCSACKLQPSG--------LMYTCKPCNFTLHVSCTQ 60 (302)
Q Consensus 32 ~Cd~C~~~~~g--------~~Y~C~~C~f~lH~~Ca~ 60 (302)
.|-+|.+++.. .+|+|..|.-.++.+|--
T Consensus 1 ~CfgC~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~ 37 (51)
T PF07975_consen 1 YCFGCQKPFPDGPEKKADSSRYRCPKCKNHFCIDCDV 37 (51)
T ss_dssp EETTTTEE-TTS-------EEE--TTTT--B-HHHHH
T ss_pred CCccCCCCCCCcccccccCCeEECCCCCCccccCcCh
Confidence 37788886543 579999998888888863
No 78
>KOG1244 consensus Predicted transcription factor Requiem/NEURO-D4 [Transcription]
Probab=58.30 E-value=4.9 Score=37.99 Aligned_cols=98 Identities=22% Similarity=0.570 Sum_probs=56.7
Q ss_pred CccCccCCCC--C---C---CCcEeecCCCCCCccccCCCCceecCCCCCCCccccccCCCCCCCceecccCCCCC-CCe
Q 035521 30 TTSCSACKLQ--P---S---GLMYTCKPCNFTLHVSCTQMPQLITHPSHPAHSLSLVPTPIYPAGIFNCDGCGRQG-HGF 100 (302)
Q Consensus 30 ~~~Cd~C~~~--~---~---g~~Y~C~~C~f~lH~~Ca~~P~~i~Hp~Hp~H~L~L~~~~~~~~~~~~C~~C~~~i-~G~ 100 (302)
...||.|-.. + . ....+|..|+-.-|.+|.+....+....- .-.+.-+ .-..|++|+..- ...
T Consensus 224 n~YCDFclgdsr~nkkt~~peelvscsdcgrsghpsclqft~nm~~avk-~yrwqci-------eck~csicgtsenddq 295 (336)
T KOG1244|consen 224 NPYCDFCLGDSRENKKTGMPEELVSCSDCGRSGHPSCLQFTANMIAAVK-TYRWQCI-------ECKYCSICGTSENDDQ 295 (336)
T ss_pred CcccceeccccccccccCCchhhcchhhcCCCCCcchhhhhHHHHHHHH-hheeeee-------ecceeccccCcCCCce
Confidence 4567777432 1 1 13467777777777777764322110000 0001110 124677777543 346
Q ss_pred eEEcCCCCccccccccCCCcceecccccccceEeecCCCcccccccccccc
Q 035521 101 SYHCTHCDFDLHILCATKPLTLIHQSHPHQLQLTFDPPYYTEGFSCDICKK 151 (302)
Q Consensus 101 ~Y~C~~CdfdlH~~Ca~lP~~i~h~~H~H~L~L~~~~~~~~~~~~C~vC~k 151 (302)
...|.+||--+|+-|..-|. .+|| .++|.|..|-+
T Consensus 296 llfcddcdrgyhmyclsppm--------------~epp--egswsc~KOG~ 330 (336)
T KOG1244|consen 296 LLFCDDCDRGYHMYCLSPPM--------------VEPP--EGSWSCHLCLE 330 (336)
T ss_pred eEeecccCCceeeEecCCCc--------------CCCC--CCchhHHHHHH
Confidence 78999999999999986431 1333 67899999864
No 79
>KOG4301 consensus Beta-dystrobrevin [Cytoskeleton]
Probab=55.93 E-value=3.9 Score=39.81 Aligned_cols=32 Identities=31% Similarity=0.820 Sum_probs=28.1
Q ss_pred ceecccCC-CCCCCeeEEcCCC-CccccccccCC
Q 035521 87 IFNCDGCG-RQGHGFSYHCTHC-DFDLHILCATK 118 (302)
Q Consensus 87 ~~~C~~C~-~~i~G~~Y~C~~C-dfdlH~~Ca~l 118 (302)
+..|+.|. +.+-|++|+|..| ++.+|+.|.-.
T Consensus 240 pv~cs~c~srs~~gfry~cq~C~nyqlcq~cfwr 273 (434)
T KOG4301|consen 240 PVECSYCRSRSMMGFRYRCQQCHNYQLCQQCFWR 273 (434)
T ss_pred CccCcceecccccchhhhHhhcCCccccchhhcc
Confidence 67899998 4578999999999 89999999864
No 80
>KOG0694 consensus Serine/threonine protein kinase [Signal transduction mechanisms]
Probab=54.72 E-value=4.2 Score=42.85 Aligned_cols=100 Identities=21% Similarity=0.351 Sum_probs=65.6
Q ss_pred cCCCCCCCeeecCCCCCCCccCccCCCCCCC---CcEeecCCCCCCccccCCCCc--e--ecC-----------CCCCC-
Q 035521 12 HFSHLHLLELSNPQTLNTTTSCSACKLQPSG---LMYTCKPCNFTLHVSCTQMPQ--L--ITH-----------PSHPA- 72 (302)
Q Consensus 12 H~sH~HpL~l~~~~~~~~~~~Cd~C~~~~~g---~~Y~C~~C~f~lH~~Ca~~P~--~--i~H-----------p~Hp~- 72 (302)
|-.+.|-+.-+.... ...|..|.+-+++ ..|.|..|.++.|+.|...-- . +.. +.+..
T Consensus 154 hei~gH~F~aT~l~Q---pt~Cs~C~kFi~gL~kqGyQCqvC~~vvHKkCh~kvv~~C~~~~~~n~e~q~~~~~~~~~~P 230 (694)
T KOG0694|consen 154 HEIDGHKFGATSLRQ---PTFCSWCQKFIWGLRKQGYQCQVCWRVVHKKCHVKVVTLCDFLDNLNSEPQGFLFEFTFRNP 230 (694)
T ss_pred EEeeCcEEEEeeccC---cchhhhhhhheeccCCCceEEeeeeehHhhhhHHHHHHhccCcCccCcCCccccccccccCC
Confidence 444446666554432 6789999997665 469999999999999986410 0 000 11110
Q ss_pred CccccccCCCCCCCceecccCCCCCCC---eeEEcCCCCccccccccCC
Q 035521 73 HSLSLVPTPIYPAGIFNCDGCGRQGHG---FSYHCTHCDFDLHILCATK 118 (302)
Q Consensus 73 H~L~L~~~~~~~~~~~~C~~C~~~i~G---~~Y~C~~CdfdlH~~Ca~l 118 (302)
|.+... .......|+-|+....+ ....|..|.-..|.+|..+
T Consensus 231 hrf~~~----~~q~ptFc~hCGs~L~r~~qqGlkCs~Cg~n~H~~c~~~ 275 (694)
T KOG0694|consen 231 HRFVKL----NRQRPTFCDHCGSVLYRLRQQGLKCSTCGRNVHNRCVEN 275 (694)
T ss_pred Ccchhh----hccCccHHHhcchhhhhhcccCeeehhhhccccHHHHHh
Confidence 222211 12357899999986544 4589999999999999875
No 81
>PF07975 C1_4: TFIIH C1-like domain; InterPro: IPR004595 All proteins in this domain for which functions are known are components of the TFIIH complex which is involved in the initiation of transcription and nucleotide excision repair. It includes the yeast transcription factor Ssl1 (Suppressor of stem-loop protein 1) that is essential for translation initiation and affects UV resistance. The C-terminal region is essential for transcription activity. This regions binds three zinc atoms through two independent domain. The first contains a C4 zinc finger motif, whereas the second is characterised by a CX(2)CX(2-4)FCADCD motif. The solution structure of the second C-terminal domain revealed homology with the regulatory domain of protein kinase C [].; GO: 0006281 DNA repair, 0005634 nucleus; PDB: 1Z60_A.
Probab=54.58 E-value=5.6 Score=28.14 Aligned_cols=30 Identities=30% Similarity=0.562 Sum_probs=14.5
Q ss_pred cccccccccc-------ceeEEcCCCCccccccCccc
Q 035521 146 CDICKKVGSA-------HWLYRCSLCEFDAHLDCAAN 175 (302)
Q Consensus 146 C~vC~k~~~~-------~~~YrC~~C~f~lH~~Ca~~ 175 (302)
|-+|.+.... ..+|+|..|.-+++.+|-..
T Consensus 2 CfgC~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~f 38 (51)
T PF07975_consen 2 CFGCQKPFPDGPEKKADSSRYRCPKCKNHFCIDCDVF 38 (51)
T ss_dssp ETTTTEE-TTS-------EEE--TTTT--B-HHHHHT
T ss_pred CccCCCCCCCcccccccCCeEECCCCCCccccCcChh
Confidence 5566654322 25788888877777777544
No 82
>PF13842 Tnp_zf-ribbon_2: DDE_Tnp_1-like zinc-ribbon
Probab=53.63 E-value=12 Score=23.63 Aligned_cols=27 Identities=26% Similarity=0.671 Sum_probs=18.9
Q ss_pred cccccccccc-cceeEEcCCCCcccccc
Q 035521 145 SCDICKKVGS-AHWLYRCSLCEFDAHLD 171 (302)
Q Consensus 145 ~C~vC~k~~~-~~~~YrC~~C~f~lH~~ 171 (302)
.|.+|.+... +.-.|.|..|+..||..
T Consensus 2 rC~vC~~~k~rk~T~~~C~~C~v~lC~~ 29 (32)
T PF13842_consen 2 RCKVCSKKKRRKDTRYMCSKCDVPLCVE 29 (32)
T ss_pred CCeECCcCCccceeEEEccCCCCcccCC
Confidence 4778875422 23689999999777764
No 83
>PF02318 FYVE_2: FYVE-type zinc finger; InterPro: IPR003315 This entry represents the zinc-binding domain found in rabphilin Rab3A. The small G protein Rab3A plays an important role in the regulation of neurotransmitter release. The crystal structure of the small G protein Rab3A complexed with the effector domain of rabphilin-3A shows that the effector domain of rabphilin-3A contacts Rab3A in two distinct areas. The first interface involves the Rab3A switch I and switch II regions, which are sensitive to the nucleotide-binding state of Rab3A. The second interface consists of a deep pocket in Rab3A that interacts with a SGAWFF structural element of rabphilin-3A. Sequence and structure analysis, and biochemical data suggest that this pocket, or Rab complementarity-determining region (RabCDR), establishes a specific interaction between each Rab protein and its effectors. It has been suggested that RabCDRs could be major determinants of effector specificity during vesicle trafficking and fusion [].; GO: 0008270 zinc ion binding, 0017137 Rab GTPase binding, 0006886 intracellular protein transport; PDB: 2CSZ_A 2ZET_C 1ZBD_B 3BC1_B 2CJS_C 2A20_A.
Probab=53.29 E-value=3.5 Score=33.74 Aligned_cols=56 Identities=23% Similarity=0.595 Sum_probs=38.4
Q ss_pred CceecccCCCCC---CCeeEEcCCCCccccccccCCCcceecccccccceEeecCCCcccccccccccccc-----ccce
Q 035521 86 GIFNCDGCGRQG---HGFSYHCTHCDFDLHILCATKPLTLIHQSHPHQLQLTFDPPYYTEGFSCDICKKVG-----SAHW 157 (302)
Q Consensus 86 ~~~~C~~C~~~i---~G~~Y~C~~CdfdlH~~Ca~lP~~i~h~~H~H~L~L~~~~~~~~~~~~C~vC~k~~-----~~~~ 157 (302)
+...|..|.++. .+..-.|.+|...+|..|... . .....|.|.+|.+.. +..|
T Consensus 53 ~~~~C~~C~~~fg~l~~~~~~C~~C~~~VC~~C~~~-----------------~--~~~~~WlC~vC~k~rel~~~sG~W 113 (118)
T PF02318_consen 53 GERHCARCGKPFGFLFNRGRVCVDCKHRVCKKCGVY-----------------S--KKEPIWLCKVCQKQRELKKKSGEW 113 (118)
T ss_dssp CCSB-TTTS-BCSCTSTTCEEETTTTEEEETTSEEE-----------------T--SSSCCEEEHHHHHHHHHHHHCSHH
T ss_pred CCcchhhhCCcccccCCCCCcCCcCCccccCccCCc-----------------C--CCCCCEEChhhHHHHHHHHHhhhH
Confidence 356899998753 345689999999999999864 1 124568999998642 3457
Q ss_pred eEE
Q 035521 158 LYR 160 (302)
Q Consensus 158 ~Yr 160 (302)
+|.
T Consensus 114 f~~ 116 (118)
T PF02318_consen 114 FYE 116 (118)
T ss_dssp HHC
T ss_pred Hhc
Confidence 763
No 84
>KOG0695 consensus Serine/threonine protein kinase [Signal transduction mechanisms]
Probab=52.63 E-value=4.6 Score=39.68 Aligned_cols=32 Identities=25% Similarity=0.652 Sum_probs=28.7
Q ss_pred CccCccCCCCCCC---CcEeecCCCCCCccccCCC
Q 035521 30 TTSCSACKLQPSG---LMYTCKPCNFTLHVSCTQM 61 (302)
Q Consensus 30 ~~~Cd~C~~~~~g---~~Y~C~~C~f~lH~~Ca~~ 61 (302)
...|-.|...||| ..|+|..|.+.+|+.|-.+
T Consensus 141 r~~c~ic~d~iwglgrqgyrcinckl~vhkkch~~ 175 (593)
T KOG0695|consen 141 RAYCGICSDRIWGLGRQGYRCINCKLLVHKKCHGL 175 (593)
T ss_pred ceeeeechhhhhhcccccceeecceeehhhhhccc
Confidence 6789999999887 5699999999999999875
No 85
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=52.45 E-value=6.3 Score=28.78 Aligned_cols=21 Identities=43% Similarity=1.214 Sum_probs=16.2
Q ss_pred ccccccccccccceeEEcCCCCcc
Q 035521 144 FSCDICKKVGSAHWLYRCSLCEFD 167 (302)
Q Consensus 144 ~~C~vC~k~~~~~~~YrC~~C~f~ 167 (302)
+.|.-|++.+ ..|+|.+|+|.
T Consensus 39 ~Rc~~CRk~g---~~Y~Cp~CGF~ 59 (61)
T COG2888 39 YRCAKCRKLG---NPYRCPKCGFE 59 (61)
T ss_pred ehhhhHHHcC---CceECCCcCcc
Confidence 4678888754 58999999984
No 86
>KOG1701 consensus Focal adhesion adaptor protein Paxillin and related LIM proteins [Signal transduction mechanisms]
Probab=50.61 E-value=3.1 Score=41.50 Aligned_cols=30 Identities=23% Similarity=0.442 Sum_probs=21.8
Q ss_pred ccCccCCCCCCCCcEeecCCCCCCccccCC
Q 035521 31 TSCSACKLQPSGLMYTCKPCNFTLHVSCTQ 60 (302)
Q Consensus 31 ~~Cd~C~~~~~g~~Y~C~~C~f~lH~~Ca~ 60 (302)
.+|..|.+.+.+..--|+.=+-.+|.+|+.
T Consensus 275 ~iC~~C~K~V~g~~~ac~Am~~~fHv~CFt 304 (468)
T KOG1701|consen 275 GICAFCHKTVSGQGLAVEAMDQLFHVQCFT 304 (468)
T ss_pred hhhhhcCCcccCcchHHHHhhhhhccccee
Confidence 489999999988766666555566666664
No 87
>PF07754 DUF1610: Domain of unknown function (DUF1610); InterPro: IPR011668 This domain is found in archaeal species. It is likely to bind zinc via its four well-conserved cysteine residues.
Probab=50.12 E-value=15 Score=22.03 Aligned_cols=20 Identities=35% Similarity=1.125 Sum_probs=13.3
Q ss_pred cccCCCCC----CCeeEEcCCCCc
Q 035521 90 CDGCGRQG----HGFSYHCTHCDF 109 (302)
Q Consensus 90 C~~C~~~i----~G~~Y~C~~Cdf 109 (302)
|..|+..+ .+..|.|..|+|
T Consensus 1 C~sC~~~i~~r~~~v~f~CPnCG~ 24 (24)
T PF07754_consen 1 CTSCGRPIAPREQAVPFPCPNCGF 24 (24)
T ss_pred CccCCCcccCcccCceEeCCCCCC
Confidence 56675543 256799988875
No 88
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=48.76 E-value=13 Score=26.58 Aligned_cols=33 Identities=24% Similarity=0.414 Sum_probs=29.0
Q ss_pred ceecccCCCCC--CCeeEEcCCCCccccccccCCC
Q 035521 87 IFNCDGCGRQG--HGFSYHCTHCDFDLHILCATKP 119 (302)
Q Consensus 87 ~~~C~~C~~~i--~G~~Y~C~~CdfdlH~~Ca~lP 119 (302)
..+|.+|++.+ ....-.|.+|.--.|-.|...-
T Consensus 5 ~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~~ 39 (54)
T PF14446_consen 5 GCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEKA 39 (54)
T ss_pred CccChhhCCcccCCCCEEECCCCCCcccHHHHhhC
Confidence 57899999998 6788999999999999998754
No 89
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=48.53 E-value=8.4 Score=28.08 Aligned_cols=20 Identities=35% Similarity=1.001 Sum_probs=15.6
Q ss_pred cccccccccccceeEEcCCCCcc
Q 035521 145 SCDICKKVGSAHWLYRCSLCEFD 167 (302)
Q Consensus 145 ~C~vC~k~~~~~~~YrC~~C~f~ 167 (302)
.|.-|++.. ..|+|.+|+|.
T Consensus 38 RC~~CRk~~---~~Y~CP~CGF~ 57 (59)
T PRK14890 38 RCEKCRKQS---NPYTCPKCGFE 57 (59)
T ss_pred echhHHhcC---CceECCCCCCc
Confidence 578888753 57999999884
No 90
>KOG0694 consensus Serine/threonine protein kinase [Signal transduction mechanisms]
Probab=48.41 E-value=3.6 Score=43.28 Aligned_cols=88 Identities=25% Similarity=0.365 Sum_probs=58.9
Q ss_pred ceecccCCCCCCC---eeEEcCCCCccccccccCCCcc---------eec------cccc--ccceEeecCCCccccccc
Q 035521 87 IFNCDGCGRQGHG---FSYHCTHCDFDLHILCATKPLT---------LIH------QSHP--HQLQLTFDPPYYTEGFSC 146 (302)
Q Consensus 87 ~~~C~~C~~~i~G---~~Y~C~~CdfdlH~~Ca~lP~~---------i~h------~~H~--H~L~L~~~~~~~~~~~~C 146 (302)
...|+.|.+-+++ ..|+|..|.++.|.+|..+-.. ... ..+. |.. ....+.....|
T Consensus 169 pt~Cs~C~kFi~gL~kqGyQCqvC~~vvHKkCh~kvv~~C~~~~~~n~e~q~~~~~~~~~~Phrf----~~~~~q~ptFc 244 (694)
T KOG0694|consen 169 PTFCSWCQKFIWGLRKQGYQCQVCWRVVHKKCHVKVVTLCDFLDNLNSEPQGFLFEFTFRNPHRF----VKLNRQRPTFC 244 (694)
T ss_pred cchhhhhhhheeccCCCceEEeeeeehHhhhhHHHHHHhccCcCccCcCCccccccccccCCCcc----hhhhccCccHH
Confidence 6789999987655 3699999999999999774210 000 1111 211 11122455689
Q ss_pred cccccccc--cceeEEcCCCCccccccCccccCC
Q 035521 147 DICKKVGS--AHWLYRCSLCEFDAHLDCAANLLA 178 (302)
Q Consensus 147 ~vC~k~~~--~~~~YrC~~C~f~lH~~Ca~~~~~ 178 (302)
+-|+.... ..-..+|..|+..+|.+|..+...
T Consensus 245 ~hCGs~L~r~~qqGlkCs~Cg~n~H~~c~~~va~ 278 (694)
T KOG0694|consen 245 DHCGSVLYRLRQQGLKCSTCGRNVHNRCVENLAP 278 (694)
T ss_pred HhcchhhhhhcccCeeehhhhccccHHHHHhccc
Confidence 99987532 234689999999999999987655
No 91
>PF00643 zf-B_box: B-box zinc finger; InterPro: IPR000315 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 B-box-type zinc finger domains, which are around 40 residues in length. B-box zinc fingers can be divided into two groups, where types 1 and 2 B-box domains differ in their consensus sequence and in the spacing of the 7-8 zinc-binding residues. Several proteins contain both types 1 and 2 B-boxes, suggesting some level of cooperativity between these two domains. B-box domains are found in over 1500 proteins from a variety of organisms. They are found in TRIM (tripartite motif) proteins that consist of an N-terminal RING finger (originally called an A-box), followed by 1-2 B-box domains and a coiled-coil domain (also called RBCC for Ring, B-box, Coiled-Coil). TRIM proteins contain a type 2 B-box domain, and may also contain a type 1 B-box. In proteins that do not contain RING or coiled-coil domains, the B-box domain is primarily type 2. Many type 2 B-box proteins are involved in ubiquitinylation. Proteins containing a B-box zinc finger domain include transcription factors, ribonucleoproteins and proto-oncoproteins; for example, MID1, MID2, TRIM9, TNL, TRIM36, TRIM63, TRIFIC, NCL1 and CONSTANS-like proteins []. The microtubule-associated E3 ligase MID1 (6.3.2 from EC) contains a type 1 B-box zinc finger domain. MID1 specifically binds Alpha-4, which in turn recruits the catalytic subunit of phosphatase 2A (PP2Ac). This complex is required for targeting of PP2Ac for proteasome-mediated degradation. The MID1 B-box coordinates two zinc ions and adopts a beta/beta/alpha cross-brace structure similar to that of ZZ, PHD, RING and FYVE zinc fingers [, ]. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 3DDT_B 2D8U_A 3Q1D_A 2EGM_A 2YVR_B 2DJA_A 2DQ5_A 2JUN_A 2YRG_A 2DID_A ....
Probab=48.28 E-value=11 Score=24.60 Aligned_cols=31 Identities=19% Similarity=0.384 Sum_probs=23.8
Q ss_pred ceecccCCCCCCCeeEEcCCCCccccccccCCC
Q 035521 87 IFNCDGCGRQGHGFSYHCTHCDFDLHILCATKP 119 (302)
Q Consensus 87 ~~~C~~C~~~i~G~~Y~C~~CdfdlH~~Ca~lP 119 (302)
...|..+.+. ...|.|.+|+..++..|+...
T Consensus 3 ~~~C~~H~~~--~~~~~C~~C~~~~C~~C~~~~ 33 (42)
T PF00643_consen 3 EPKCPEHPEE--PLSLFCEDCNEPLCSECTVSG 33 (42)
T ss_dssp SSB-SSTTTS--BEEEEETTTTEEEEHHHHHTS
T ss_pred CccCccCCcc--ceEEEecCCCCccCccCCCCC
Confidence 3567777764 367999999999999999753
No 92
>COG5141 PHD zinc finger-containing protein [General function prediction only]
Probab=46.69 E-value=15 Score=37.58 Aligned_cols=135 Identities=24% Similarity=0.373 Sum_probs=67.1
Q ss_pred CccCccCCCCC---CCCcEeecCCCCCCccccCCCCceecCCCCCCCccccccCCCCCCCc-eecccCCCCCCCeeEEcC
Q 035521 30 TTSCSACKLQP---SGLMYTCKPCNFTLHVSCTQMPQLITHPSHPAHSLSLVPTPIYPAGI-FNCDGCGRQGHGFSYHCT 105 (302)
Q Consensus 30 ~~~Cd~C~~~~---~g~~Y~C~~C~f~lH~~Ca~~P~~i~Hp~Hp~H~L~L~~~~~~~~~~-~~C~~C~~~i~G~~Y~C~ 105 (302)
.-.|..|...- +..--.|.-|+..+|++|...+- -|+- +-|..+-.+.... ..|.-|-..- | .|+=+
T Consensus 193 d~~C~~c~~t~~eN~naiVfCdgC~i~VHq~CYGI~f------~peG-~WlCrkCi~~~~~i~~C~fCps~d-G-aFkqT 263 (669)
T COG5141 193 DDICTKCTSTHNENSNAIVFCDGCEICVHQSCYGIQF------LPEG-FWLCRKCIYGEYQIRCCSFCPSSD-G-AFKQT 263 (669)
T ss_pred hhhhHhccccccCCcceEEEecCcchhhhhhccccee------cCcc-hhhhhhhcccccceeEEEeccCCC-C-ceeec
Confidence 44677776643 35679999999999999997211 1100 0010000111111 2244443211 1 12111
Q ss_pred CCCccccccccCCCcceecccccccceEeec---CCCccccccccccccccccceeEEcCC--CCccccccCcccc
Q 035521 106 HCDFDLHILCATKPLTLIHQSHPHQLQLTFD---PPYYTEGFSCDICKKVGSAHWLYRCSL--CEFDAHLDCAANL 176 (302)
Q Consensus 106 ~CdfdlH~~Ca~lP~~i~h~~H~H~L~L~~~---~~~~~~~~~C~vC~k~~~~~~~YrC~~--C~f~lH~~Ca~~~ 176 (302)
.=+--.|.-||..-+.+. ..|.|.+.++.. -+.......|-+|.+.. +-.-+|.+ |--..|..||..+
T Consensus 264 ~dgrW~H~iCA~~~pels-F~~l~~~dpI~~i~sVs~srwkl~C~iCk~~~--GtcIqCs~~nC~~aYHVtCArra 336 (669)
T COG5141 264 SDGRWGHVICAMFNPELS-FGHLLSKDPIDNIASVSSSRWKLGCLICKEFG--GTCIQCSYFNCTRAYHVTCARRA 336 (669)
T ss_pred cCCchHhHhHHHhcchhc-cccccccchhhhhcccchhhHhheeeEEcccC--cceeeecccchhhhhhhhhhhhc
Confidence 112346888887544432 234444444331 11112345799998863 33455542 5557899998654
No 93
>KOG2996 consensus Rho guanine nucleotide exchange factor VAV3 [Signal transduction mechanisms]
Probab=46.52 E-value=16 Score=38.13 Aligned_cols=36 Identities=31% Similarity=0.713 Sum_probs=28.6
Q ss_pred cccccccccc--cccceeEEcCCCCccccccCccccCC
Q 035521 143 GFSCDICKKV--GSAHWLYRCSLCEFDAHLDCAANLLA 178 (302)
Q Consensus 143 ~~~C~vC~k~--~~~~~~YrC~~C~f~lH~~Ca~~~~~ 178 (302)
...|.+|.+. +.....|+|..|+-++|..|....+.
T Consensus 534 ~tsCkvC~mllrGtfYQGY~C~~c~~~ahkecl~~vp~ 571 (865)
T KOG2996|consen 534 TTSCKVCQMLLRGTFYQGYKCEKCGADAHKECLGRVPP 571 (865)
T ss_pred CcchHHHHHHhhhhhhcceeeeeccccHHHHhccCCCC
Confidence 3579999864 33335799999999999999987666
No 94
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=45.58 E-value=11 Score=36.31 Aligned_cols=88 Identities=23% Similarity=0.421 Sum_probs=48.3
Q ss_pred ceecccCCCCCCCeeEEcCCCCccccccccCCCc---------ceecccc-cccceEeecCCCc--ccccccccccccc-
Q 035521 87 IFNCDGCGRQGHGFSYHCTHCDFDLHILCATKPL---------TLIHQSH-PHQLQLTFDPPYY--TEGFSCDICKKVG- 153 (302)
Q Consensus 87 ~~~C~~C~~~i~G~~Y~C~~CdfdlH~~Ca~lP~---------~i~h~~H-~H~L~L~~~~~~~--~~~~~C~vC~k~~- 153 (302)
+..| +|.....+-.|.|..|.-.+|..=..-|. .+....| .-||+-..+.|.. ..+--|-+|..+-
T Consensus 295 Ps~C-aCHs~~~~gGy~CP~CktkVCsLPi~CP~Csl~LilsthLarSyhhL~PLk~f~E~p~~~~~ks~~Cf~CQ~~fp 373 (421)
T COG5151 295 PSVC-ACHSEVKGGGYECPVCKTKVCSLPISCPICSLQLILSTHLARSYHHLYPLKPFVEKPEGTNPKSTHCFVCQGPFP 373 (421)
T ss_pred ccce-eeeeeeccCceeCCcccceeecCCccCcchhHHHHHHHHHHHHHHhhccCcccccccCCCCCCCccceeccCCCC
Confidence 4455 57776777789999887655432111111 0111122 2344332222221 2344599997521
Q ss_pred ----------ccceeEEcCCCCccccccCccc
Q 035521 154 ----------SAHWLYRCSLCEFDAHLDCAAN 175 (302)
Q Consensus 154 ----------~~~~~YrC~~C~f~lH~~Ca~~ 175 (302)
....+|+|..|.-.+|..|-..
T Consensus 374 ~~~~~~~~~~~ss~rY~Ce~CK~~FC~dCdvf 405 (421)
T COG5151 374 KPPVSPFDESTSSGRYQCELCKSTFCSDCDVF 405 (421)
T ss_pred CCCCCcccccccccceechhhhhhhhhhhHHH
Confidence 1245999999988888888654
No 95
>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=45.41 E-value=16 Score=28.30 Aligned_cols=31 Identities=29% Similarity=0.715 Sum_probs=25.3
Q ss_pred CccCccCCCCCCCCcEeecCCCCCCccccCC
Q 035521 30 TTSCSACKLQPSGLMYTCKPCNFTLHVSCTQ 60 (302)
Q Consensus 30 ~~~Cd~C~~~~~g~~Y~C~~C~f~lH~~Ca~ 60 (302)
...|..|++++....+.=..|+-.+|..|+.
T Consensus 78 ~~~C~vC~k~l~~~~f~~~p~~~v~H~~C~~ 108 (109)
T PF10367_consen 78 STKCSVCGKPLGNSVFVVFPCGHVVHYSCIK 108 (109)
T ss_pred CCCccCcCCcCCCceEEEeCCCeEEeccccc
Confidence 5679999999876666666788889999985
No 96
>PF02148 zf-UBP: Zn-finger in ubiquitin-hydrolases and other protein; InterPro: IPR001607 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 UBP-type zinc finger domains, which display some similarity with the Zn-binding domain of the insulinase family. The UBP-type zinc finger domain is found only in a small subfamily of ubiquitin C-terminal hydrolases (deubiquitinases or UBP) [, ], All members of this subfamily are isopeptidase-T, which are known to cleave isopeptide bonds between ubiquitin moieties. Some of the proteins containing an UBP zinc finger include: Homo sapiens (Human) deubiquitinating enzyme 13 (UBPD) Human deubiquitinating enzyme 5 (UBP5) Dictyostelium discoideum (Slime mold) deubiquitinating enzyme A (UBPA) Saccharomyces cerevisiae (Baker's yeast) deubiquitinating enzyme 8 (UBP8) Yeast deubiquitinating enzyme 14 (UBP14) More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3GV4_A 3PHD_B 3C5K_A 2UZG_A 3IHP_B 2G43_B 2G45_D 2I50_A 3MHH_A 3MHS_A ....
Probab=43.23 E-value=3.2 Score=30.07 Aligned_cols=59 Identities=19% Similarity=0.451 Sum_probs=33.2
Q ss_pred CccCCCCCCCCcEeecCCCCCCccccCCCCceecCCCCCCCccccccCCCCCCCceecccCCCCC
Q 035521 33 CSACKLQPSGLMYTCKPCNFTLHVSCTQMPQLITHPSHPAHSLSLVPTPIYPAGIFNCDGCGRQG 97 (302)
Q Consensus 33 Cd~C~~~~~g~~Y~C~~C~f~lH~~Ca~~P~~i~Hp~Hp~H~L~L~~~~~~~~~~~~C~~C~~~i 97 (302)
|..|... ....|.|.+|.+..+.+=.. .-...|..-.+|+|.+.... ....|-.|...+
T Consensus 1 C~~C~~~-~~~lw~CL~Cg~~~C~~~~~-~Ha~~H~~~~~H~l~v~~~~----~~i~C~~C~~~v 59 (63)
T PF02148_consen 1 CSVCGST-NSNLWLCLTCGYVGCGRYSN-GHALKHYKETGHPLAVSLST----GSIWCYACDDYV 59 (63)
T ss_dssp -SSSHTC-SSSEEEETTTS-EEETTTST-SHHHHHHHHHT--EEEETTT----TCEEETTTTEEE
T ss_pred CCCCCCc-CCceEEeCCCCcccccCCcC-cHHHHhhcccCCeEEEECCC----CeEEEcCCCcEE
Confidence 6677765 56789999999887763111 00124444446888876543 356777776543
No 97
>KOG0695 consensus Serine/threonine protein kinase [Signal transduction mechanisms]
Probab=41.75 E-value=9.9 Score=37.45 Aligned_cols=33 Identities=24% Similarity=0.544 Sum_probs=28.7
Q ss_pred CceecccCCCCCCC---eeEEcCCCCccccccccCC
Q 035521 86 GIFNCDGCGRQGHG---FSYHCTHCDFDLHILCATK 118 (302)
Q Consensus 86 ~~~~C~~C~~~i~G---~~Y~C~~CdfdlH~~Ca~l 118 (302)
.+..|.+|..+|+| ..|+|-.|.+-+|.+|-.+
T Consensus 140 rr~~c~ic~d~iwglgrqgyrcinckl~vhkkch~~ 175 (593)
T KOG0695|consen 140 RRAYCGICSDRIWGLGRQGYRCINCKLLVHKKCHGL 175 (593)
T ss_pred cceeeeechhhhhhcccccceeecceeehhhhhccc
Confidence 36799999999876 4699999999999999775
No 98
>KOG1244 consensus Predicted transcription factor Requiem/NEURO-D4 [Transcription]
Probab=41.21 E-value=18 Score=34.21 Aligned_cols=86 Identities=22% Similarity=0.367 Sum_probs=52.5
Q ss_pred ceecccCCCC--C---CC---eeEEcCCCCccccccccCCCcceecccccccceEeecCCCcccccccccccccccccee
Q 035521 87 IFNCDGCGRQ--G---HG---FSYHCTHCDFDLHILCATKPLTLIHQSHPHQLQLTFDPPYYTEGFSCDICKKVGSAHWL 158 (302)
Q Consensus 87 ~~~C~~C~~~--i---~G---~~Y~C~~CdfdlH~~Ca~lP~~i~h~~H~H~L~L~~~~~~~~~~~~C~vC~k~~~~~~~ 158 (302)
.-+||-|--. + .| ..-.|++|+-.=|+.|......+....-.-.++- ..=..|++|+........
T Consensus 224 n~YCDFclgdsr~nkkt~~peelvscsdcgrsghpsclqft~nm~~avk~yrwqc-------ieck~csicgtsenddql 296 (336)
T KOG1244|consen 224 NPYCDFCLGDSRENKKTGMPEELVSCSDCGRSGHPSCLQFTANMIAAVKTYRWQC-------IECKYCSICGTSENDDQL 296 (336)
T ss_pred CcccceeccccccccccCCchhhcchhhcCCCCCcchhhhhHHHHHHHHhheeee-------eecceeccccCcCCCcee
Confidence 4579998421 1 12 3578999999999999875432211111101111 112468888865433445
Q ss_pred EEcCCCCccccccCccccCCC
Q 035521 159 YRCSLCEFDAHLDCAANLLAQ 179 (302)
Q Consensus 159 YrC~~C~f~lH~~Ca~~~~~~ 179 (302)
.-|.+||=-+|+-|..-+.+.
T Consensus 297 lfcddcdrgyhmyclsppm~e 317 (336)
T KOG1244|consen 297 LFCDDCDRGYHMYCLSPPMVE 317 (336)
T ss_pred EeecccCCceeeEecCCCcCC
Confidence 669999999999998765554
No 99
>TIGR01384 TFS_arch transcription factor S, archaeal. There has been an apparent duplication event in the Halobacteriaceae lineage (Haloarcula, Haloferax, Haloquadratum, Halobacterium and Natromonas). There appears to be a separate duplication in Methanosphaera stadtmanae.
Probab=40.93 E-value=75 Score=24.94 Aligned_cols=25 Identities=20% Similarity=0.578 Sum_probs=18.1
Q ss_pred cCccCCCCC--CCCcEeecCCCCCCcc
Q 035521 32 SCSACKLQP--SGLMYTCKPCNFTLHV 56 (302)
Q Consensus 32 ~Cd~C~~~~--~g~~Y~C~~C~f~lH~ 56 (302)
.|..|+..+ .+..|.|..|++....
T Consensus 2 fC~~Cg~~l~~~~~~~~C~~C~~~~~~ 28 (104)
T TIGR01384 2 FCPKCGSLMTPKNGVYVCPSCGYEKEK 28 (104)
T ss_pred CCcccCcccccCCCeEECcCCCCcccc
Confidence 588888753 3457999999876554
No 100
>KOG0193 consensus Serine/threonine protein kinase RAF [Signal transduction mechanisms]
Probab=40.74 E-value=12 Score=39.11 Aligned_cols=32 Identities=22% Similarity=0.674 Sum_probs=27.3
Q ss_pred ceecccCCCCCCCeeEEcCCCCccccccccCC
Q 035521 87 IFNCDGCGRQGHGFSYHCTHCDFDLHILCATK 118 (302)
Q Consensus 87 ~~~C~~C~~~i~G~~Y~C~~CdfdlH~~Ca~l 118 (302)
-..|+.|.+.+.-..++|..|+|.+|..|+..
T Consensus 189 ~~fC~~~~~~~l~~gfrC~~C~~KfHq~Cs~~ 220 (678)
T KOG0193|consen 189 LAFCDSCCNKFLFTGFRCQTCGYKFHQSCSPR 220 (678)
T ss_pred hhhhhhhcchhhhcccccCCCCCccccccCCC
Confidence 46899887777667799999999999999885
No 101
>KOG1512 consensus PHD Zn-finger protein [General function prediction only]
Probab=40.72 E-value=13 Score=35.38 Aligned_cols=81 Identities=19% Similarity=0.214 Sum_probs=51.6
Q ss_pred CccCccCCCC---C-C---CCcEeecCCCCCCccccCCCCceecCCCCCCCccccccCCCCCCCceecccCCCCC-CCee
Q 035521 30 TTSCSACKLQ---P-S---GLMYTCKPCNFTLHVSCTQMPQLITHPSHPAHSLSLVPTPIYPAGIFNCDGCGRQG-HGFS 101 (302)
Q Consensus 30 ~~~Cd~C~~~---~-~---g~~Y~C~~C~f~lH~~Ca~~P~~i~Hp~Hp~H~L~L~~~~~~~~~~~~C~~C~~~i-~G~~ 101 (302)
.-.|..|+.- + . ...-.|.+|...-|..|.+++.++.--.- .-+++-. .-..|.+|..+. ....
T Consensus 258 ~~~~~~~~~~~~~~~~~r~~S~I~C~~C~~~~HP~Ci~M~~elv~~~K-TY~W~C~-------~C~lC~IC~~P~~E~E~ 329 (381)
T KOG1512|consen 258 RNERKHFWDIQTNIIQSRRNSWIVCKPCATRPHPYCVAMIPELVGQYK-TYFWKCS-------SCELCRICLGPVIESEH 329 (381)
T ss_pred hhhhhhhhcchhhhhhhhhccceeecccccCCCCcchhcCHHHHhHHh-hcchhhc-------ccHhhhccCCcccchhe
Confidence 5568888762 1 1 24578999999999999998765421110 0111110 123566676654 4556
Q ss_pred EEcCCCCccccccccCC
Q 035521 102 YHCTHCDFDLHILCATK 118 (302)
Q Consensus 102 Y~C~~CdfdlH~~Ca~l 118 (302)
..|..||--.|.-|..|
T Consensus 330 ~FCD~CDRG~HT~CVGL 346 (381)
T KOG1512|consen 330 LFCDVCDRGPHTLCVGL 346 (381)
T ss_pred eccccccCCCCcccccc
Confidence 88999998888888765
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=40.03 E-value=9.3 Score=25.78 Aligned_cols=31 Identities=32% Similarity=0.679 Sum_probs=18.6
Q ss_pred ccccccccccceeEEcC--CCCccccccCccccCC
Q 035521 146 CDICKKVGSAHWLYRCS--LCEFDAHLDCAANLLA 178 (302)
Q Consensus 146 C~vC~k~~~~~~~YrC~--~C~f~lH~~Ca~~~~~ 178 (302)
|.+|++.. .+..+|. +|+.-+|..|+....+
T Consensus 1 C~~C~~iv--~~G~~C~~~~C~~r~H~~C~~~y~r 33 (43)
T PF08746_consen 1 CEACKEIV--TQGQRCSNRDCNVRLHDDCFKKYFR 33 (43)
T ss_dssp -TTT-SB---SSSEE-SS--S--EE-HHHHHHHTT
T ss_pred CcccchhH--eeeccCCCCccCchHHHHHHHHHHh
Confidence 77898864 3678998 6999999999987555
No 103
>PF04438 zf-HIT: HIT zinc finger; InterPro: IPR007529 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 HIT-type zinc finger, which contains 7 conserved cysteines and one histidine that can potentially coordinate two zinc atoms. It has been named after the first protein that originally defined the domain: the yeast HIT1 protein (P46973 from SWISSPROT) []. The HIT-type zinc finger displays some sequence similarities to the MYND-type zinc finger. The function of this domain is unknown but it is mainly found in nuclear proteins involved in gene regulation and chromatin remodeling. This domain is also found in the thyroid receptor interacting protein 3 (TRIP-3) Q15649 from SWISSPROT, that specifically interacts with the ligand binding domain of the thyroid receptor. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 2YQP_A 2YQQ_A 1X4S_A.
Probab=37.55 E-value=22 Score=22.17 Aligned_cols=24 Identities=25% Similarity=0.571 Sum_probs=15.5
Q ss_pred ceecccCCCCCCCeeEEcCCCCccccc
Q 035521 87 IFNCDGCGRQGHGFSYHCTHCDFDLHI 113 (302)
Q Consensus 87 ~~~C~~C~~~i~G~~Y~C~~CdfdlH~ 113 (302)
...|.+|+. ...|+|..|+..++.
T Consensus 2 ~~~C~vC~~---~~kY~Cp~C~~~~CS 25 (30)
T PF04438_consen 2 RKLCSVCGN---PAKYRCPRCGARYCS 25 (30)
T ss_dssp -EEETSSSS---EESEE-TTT--EESS
T ss_pred cCCCccCcC---CCEEECCCcCCceeC
Confidence 357999997 457999999876653
No 104
>PHA00626 hypothetical protein
Probab=36.88 E-value=20 Score=25.89 Aligned_cols=23 Identities=13% Similarity=0.212 Sum_probs=16.2
Q ss_pred cccccccccccceeEEcCCCCccccc
Q 035521 145 SCDICKKVGSAHWLYRCSLCEFDAHL 170 (302)
Q Consensus 145 ~C~vC~k~~~~~~~YrC~~C~f~lH~ 170 (302)
+|.+|++. ...|+|.+|+|.+-.
T Consensus 13 rcg~cr~~---snrYkCkdCGY~ft~ 35 (59)
T PHA00626 13 KEKTMRGW---SDDYVCCDCGYNDSK 35 (59)
T ss_pred eeceeccc---CcceEcCCCCCeech
Confidence 56666653 358999999976544
No 105
>PF12773 DZR: Double zinc ribbon
Probab=36.86 E-value=34 Score=23.11 Aligned_cols=21 Identities=24% Similarity=0.635 Sum_probs=10.0
Q ss_pred ceecccCCCCCCCeeEEcCCC
Q 035521 87 IFNCDGCGRQGHGFSYHCTHC 107 (302)
Q Consensus 87 ~~~C~~C~~~i~G~~Y~C~~C 107 (302)
...|..|+..+....-.|..|
T Consensus 29 ~~~C~~Cg~~~~~~~~fC~~C 49 (50)
T PF12773_consen 29 KKICPNCGAENPPNAKFCPNC 49 (50)
T ss_pred CCCCcCCcCCCcCCcCccCcc
Confidence 345666655544333344433
No 106
>PF13831 PHD_2: PHD-finger; PDB: 2L43_A 2KU3_A.
Probab=36.40 E-value=14 Score=24.02 Aligned_cols=22 Identities=23% Similarity=0.377 Sum_probs=14.3
Q ss_pred eeEEcCCCCccccccCccccCC
Q 035521 157 WLYRCSLCEFDAHLDCAANLLA 178 (302)
Q Consensus 157 ~~YrC~~C~f~lH~~Ca~~~~~ 178 (302)
...+|..|++.+|.+|......
T Consensus 3 ~ll~C~~C~v~VH~~CYGv~~~ 24 (36)
T PF13831_consen 3 PLLFCDNCNVAVHQSCYGVSEV 24 (36)
T ss_dssp EEEE-SSS--EEEHHHHT-SS-
T ss_pred ceEEeCCCCCcCChhhCCcccC
Confidence 3678999999999999977554
No 107
>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=35.67 E-value=28 Score=26.90 Aligned_cols=31 Identities=19% Similarity=0.443 Sum_probs=21.7
Q ss_pred ceecccCCCCCCCeeEEcCCCCccccccccC
Q 035521 87 IFNCDGCGRQGHGFSYHCTHCDFDLHILCAT 117 (302)
Q Consensus 87 ~~~C~~C~~~i~G~~Y~C~~CdfdlH~~Ca~ 117 (302)
...|.+|++++....+.=-.|+..+|..|+.
T Consensus 78 ~~~C~vC~k~l~~~~f~~~p~~~v~H~~C~~ 108 (109)
T PF10367_consen 78 STKCSVCGKPLGNSVFVVFPCGHVVHYSCIK 108 (109)
T ss_pred CCCccCcCCcCCCceEEEeCCCeEEeccccc
Confidence 5679999998854333333456888999975
No 108
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=35.57 E-value=23 Score=38.22 Aligned_cols=33 Identities=24% Similarity=0.699 Sum_probs=27.9
Q ss_pred CCccCccCCCCC-CCCcEeecCCCCC-CccccCCC
Q 035521 29 TTTSCSACKLQP-SGLMYTCKPCNFT-LHVSCTQM 61 (302)
Q Consensus 29 ~~~~Cd~C~~~~-~g~~Y~C~~C~f~-lH~~Ca~~ 61 (302)
+...|+.|...- ......|.-||+. +|..|.+.
T Consensus 214 E~~~C~IC~~~DpEdVLLLCDsCN~~~YH~YCLDP 248 (1134)
T KOG0825|consen 214 EEVKCDICTVHDPEDVLLLCDSCNKVYYHVYCLDP 248 (1134)
T ss_pred ccccceeeccCChHHhheeecccccceeeccccCc
Confidence 467899999864 5667999999998 99999984
No 109
>COG4371 Predicted membrane protein [Function unknown]
Probab=34.88 E-value=52 Score=31.03 Aligned_cols=50 Identities=24% Similarity=0.292 Sum_probs=31.6
Q ss_pred hhhhHHhhhHHHHHHHHHHhhhh------CCCC--------CCCCCCCCCCCCcccceeecCCCC
Q 035521 250 ALVQGLVQGAAEQFGQTIVQSLI------NDGG--------NNCDPANDSGGDLSVNGIFGDSGT 300 (302)
Q Consensus 250 ~~~~g~~~~~~~~~~~~~~~~~~------~~~~--------~~~~~~~~~~~~~~~~~~~~~~~~ 300 (302)
.++.|||=.+|--+-+..|+.-. ++|+ .+-++..++|||.+ +|.|+++|-
T Consensus 25 ~~~~gfvLa~al~~~p~~~a~aarSGGriGGgSfraps~~sr~YS~~gpsGGgY~-gg~Y~GGGf 88 (334)
T COG4371 25 LALGGFVLAAALFVPPLSVAAAARSGGRIGGGSFRAPSGYSRGYSGGGPSGGGYS-GGGYSGGGF 88 (334)
T ss_pred HHHHHHHHHHHHcCCchHHHHHHhhCCCccCCCCCCCCCCCCCcCCCCCCCCCCC-CCCCCCCCc
Confidence 56788888887766666665433 1111 22345578888888 777777763
No 110
>PF10571 UPF0547: Uncharacterised protein family UPF0547; InterPro: IPR018886 This domain may well be a type of zinc-finger as it carries two pairs of highly conserved cysteine residues though with no accompanying histidines. Several members are annotated as putative helicases.
Probab=30.77 E-value=29 Score=20.95 Aligned_cols=23 Identities=30% Similarity=0.892 Sum_probs=16.7
Q ss_pred ecccCCCCCCCeeEEcCCCCccc
Q 035521 89 NCDGCGRQGHGFSYHCTHCDFDL 111 (302)
Q Consensus 89 ~C~~C~~~i~G~~Y~C~~Cdfdl 111 (302)
.|-.|+..+....=.|..|++++
T Consensus 2 ~CP~C~~~V~~~~~~Cp~CG~~F 24 (26)
T PF10571_consen 2 TCPECGAEVPESAKFCPHCGYDF 24 (26)
T ss_pred cCCCCcCCchhhcCcCCCCCCCC
Confidence 57778877766667788887764
No 111
>KOG2996 consensus Rho guanine nucleotide exchange factor VAV3 [Signal transduction mechanisms]
Probab=29.97 E-value=15 Score=38.29 Aligned_cols=32 Identities=34% Similarity=0.755 Sum_probs=27.2
Q ss_pred CccCccCCCCCCC---CcEeecCCCCCCccccCCC
Q 035521 30 TTSCSACKLQPSG---LMYTCKPCNFTLHVSCTQM 61 (302)
Q Consensus 30 ~~~Cd~C~~~~~g---~~Y~C~~C~f~lH~~Ca~~ 61 (302)
...|++|..-..| ..|+|..|.-+.|+.|...
T Consensus 534 ~tsCkvC~mllrGtfYQGY~C~~c~~~ahkecl~~ 568 (865)
T KOG2996|consen 534 TTSCKVCQMLLRGTFYQGYKCEKCGADAHKECLGR 568 (865)
T ss_pred CcchHHHHHHhhhhhhcceeeeeccccHHHHhccC
Confidence 6789999985544 5699999999999999985
No 112
>PTZ00303 phosphatidylinositol kinase; Provisional
Probab=28.21 E-value=47 Score=36.09 Aligned_cols=31 Identities=26% Similarity=0.567 Sum_probs=26.0
Q ss_pred ccCccCCCCCCC-------CcEeecCCCCCCccccCCC
Q 035521 31 TSCSACKLQPSG-------LMYTCKPCNFTLHVSCTQM 61 (302)
Q Consensus 31 ~~Cd~C~~~~~g-------~~Y~C~~C~f~lH~~Ca~~ 61 (302)
..|..|+++... -..+|..|+..+|..|...
T Consensus 461 dtC~~C~kkFfSlsK~L~~RKHHCRkCGrVFC~~CSSn 498 (1374)
T PTZ00303 461 DSCPSCGRAFISLSRPLGTRAHHCRSCGIRLCVFCITK 498 (1374)
T ss_pred CcccCcCCcccccccccccccccccCCccccCccccCC
Confidence 579999997642 3699999999999999974
No 113
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=28.06 E-value=31 Score=19.59 Aligned_cols=10 Identities=30% Similarity=1.178 Sum_probs=6.1
Q ss_pred EeecCCCCCC
Q 035521 45 YTCKPCNFTL 54 (302)
Q Consensus 45 Y~C~~C~f~l 54 (302)
|+|..|+|.-
T Consensus 1 y~C~~C~y~t 10 (24)
T PF13909_consen 1 YKCPHCSYST 10 (24)
T ss_dssp EE-SSSS-EE
T ss_pred CCCCCCCCcC
Confidence 7888888754
No 114
>KOG2186 consensus Cell growth-regulating nucleolar protein [Cell cycle control, cell division, chromosome partitioning]
Probab=27.19 E-value=24 Score=33.06 Aligned_cols=32 Identities=19% Similarity=0.613 Sum_probs=23.3
Q ss_pred CccCccCCCCC------------CCCcEeecCCC-------CCCccccCCC
Q 035521 30 TTSCSACKLQP------------SGLMYTCKPCN-------FTLHVSCTQM 61 (302)
Q Consensus 30 ~~~Cd~C~~~~------------~g~~Y~C~~C~-------f~lH~~Ca~~ 61 (302)
.|.|++|++.+ -+.+|+|..|+ |.-|..|+.-
T Consensus 3 ~FtCnvCgEsvKKp~vekH~srCrn~~fSCIDC~k~F~~~sYknH~kCITE 53 (276)
T KOG2186|consen 3 FFTCNVCGESVKKPQVEKHMSRCRNAYFSCIDCGKTFERVSYKNHTKCITE 53 (276)
T ss_pred EEehhhhhhhccccchHHHHHhccCCeeEEeecccccccchhhhhhhhcch
Confidence 47899999854 24678888884 5678888864
No 115
>KOG1512 consensus PHD Zn-finger protein [General function prediction only]
Probab=26.65 E-value=34 Score=32.72 Aligned_cols=81 Identities=17% Similarity=0.187 Sum_probs=49.6
Q ss_pred ceecccCCCC----CCC---eeEEcCCCCccccccccCCCcceecccccccceEeecCCCc-ccccccccccccccccee
Q 035521 87 IFNCDGCGRQ----GHG---FSYHCTHCDFDLHILCATKPLTLIHQSHPHQLQLTFDPPYY-TEGFSCDICKKVGSAHWL 158 (302)
Q Consensus 87 ~~~C~~C~~~----i~G---~~Y~C~~CdfdlH~~Ca~lP~~i~h~~H~H~L~L~~~~~~~-~~~~~C~vC~k~~~~~~~ 158 (302)
+..|..|.+. +.+ ..-.|..|....|+.|...+..+..-. .++. +. ..=..|.+|.++....-.
T Consensus 258 ~~~~~~~~~~~~~~~~~r~~S~I~C~~C~~~~HP~Ci~M~~elv~~~------KTY~--W~C~~C~lC~IC~~P~~E~E~ 329 (381)
T KOG1512|consen 258 RNERKHFWDIQTNIIQSRRNSWIVCKPCATRPHPYCVAMIPELVGQY------KTYF--WKCSSCELCRICLGPVIESEH 329 (381)
T ss_pred hhhhhhhhcchhhhhhhhhccceeecccccCCCCcchhcCHHHHhHH------hhcc--hhhcccHhhhccCCcccchhe
Confidence 5678888652 222 246899999999999998876543211 1110 00 112346666664321223
Q ss_pred EEcCCCCccccccCccc
Q 035521 159 YRCSLCEFDAHLDCAAN 175 (302)
Q Consensus 159 YrC~~C~f~lH~~Ca~~ 175 (302)
.-|..||=-.|.-|+.+
T Consensus 330 ~FCD~CDRG~HT~CVGL 346 (381)
T KOG1512|consen 330 LFCDVCDRGPHTLCVGL 346 (381)
T ss_pred eccccccCCCCcccccc
Confidence 44999999999999977
No 116
>PF01363 FYVE: FYVE zinc finger; InterPro: IPR000306 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The FYVE zinc finger is named after four proteins that it has been found in: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two zinc ions []. The FYVE finger has eight potential zinc coordinating cysteine positions. Many members of this family also include two histidines in a motif R+HHC+XCG, where + represents a charged residue and X any residue. FYVE-type domains are divided into two known classes: FYVE domains that specifically bind to phosphatidylinositol 3-phosphate in lipid bilayers and FYVE-related domains of undetermined function []. Those that bind to phosphatidylinositol 3-phosphate are often found in proteins targeted to lipid membranes that are involved in regulating membrane traffic [, , ]. Most FYVE domains target proteins to endosomes by binding specifically to phosphatidylinositol-3-phosphate at the membrane surface. By contrast, the CARP2 FYVE-like domain is not optimized to bind to phosphoinositides or insert into lipid bilayers. FYVE domains are distinguished from other zinc fingers by three signature sequences: an N-terminal WxxD motif, a basic R(R/K)HHCR patch, and a C-terminal RVC motif. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0046872 metal ion binding; PDB: 1HYI_A 1JOC_B 1HYJ_A 1DVP_A 3ZYQ_A 4AVX_A 1VFY_A 3T7L_A 1X4U_A 1WFK_A ....
Probab=26.27 E-value=53 Score=23.66 Aligned_cols=37 Identities=24% Similarity=0.379 Sum_probs=21.0
Q ss_pred ccccccccccccc-cceeEEcCCCCccccccCccccCC
Q 035521 142 EGFSCDICKKVGS-AHWLYRCSLCEFDAHLDCAANLLA 178 (302)
Q Consensus 142 ~~~~C~vC~k~~~-~~~~YrC~~C~f~lH~~Ca~~~~~ 178 (302)
....|.+|++.-. ....++|..|+-.++.+|......
T Consensus 8 ~~~~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~~~~~ 45 (69)
T PF01363_consen 8 EASNCMICGKKFSLFRRRHHCRNCGRVVCSSCSSQRIP 45 (69)
T ss_dssp G-SB-TTT--B-BSSS-EEE-TTT--EEECCCS-EEEE
T ss_pred CCCcCcCcCCcCCCceeeEccCCCCCEECCchhCCEEc
Confidence 4568999998642 246899999999999999976544
No 117
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=26.01 E-value=44 Score=29.90 Aligned_cols=35 Identities=29% Similarity=0.626 Sum_probs=27.2
Q ss_pred cccccccccccccc-----cceeEEcCCCCccccccCccc
Q 035521 141 TEGFSCDICKKVGS-----AHWLYRCSLCEFDAHLDCAAN 175 (302)
Q Consensus 141 ~~~~~C~vC~k~~~-----~~~~YrC~~C~f~lH~~Ca~~ 175 (302)
..++.|.+|..... ....++|..|.-..|..|...
T Consensus 150 ~kGfiCe~C~~~~~IfPF~~~~~~~C~~C~~v~H~~C~~~ 189 (202)
T PF13901_consen 150 QKGFICEICNSDDIIFPFQIDTTVRCPKCKSVFHKSCFRK 189 (202)
T ss_pred hCCCCCccCCCCCCCCCCCCCCeeeCCcCccccchhhcCC
Confidence 45789999986421 225789999999999999985
No 118
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=25.76 E-value=24 Score=27.15 Aligned_cols=37 Identities=22% Similarity=0.437 Sum_probs=17.3
Q ss_pred cccccccccccc----ccceeEEcCCCCccccccCccccCC
Q 035521 142 EGFSCDICKKVG----SAHWLYRCSLCEFDAHLDCAANLLA 178 (302)
Q Consensus 142 ~~~~C~vC~k~~----~~~~~YrC~~C~f~lH~~Ca~~~~~ 178 (302)
...+|.+|+... ....|--|.+|.|-++..|...-.+
T Consensus 8 ~~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErk 48 (80)
T PF14569_consen 8 NGQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERK 48 (80)
T ss_dssp SS-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHH
T ss_pred CCcccccccCccccCCCCCEEEEEcccCCccchhHHHHHhh
Confidence 456899998642 2346889999999999999876444
No 119
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=25.61 E-value=48 Score=32.10 Aligned_cols=88 Identities=18% Similarity=0.320 Sum_probs=48.3
Q ss_pred CccCccCCCCCCCCcEeecCCCCCC------ccccCCCC---ceecCCCCCCCccccccCCCCCC--CceecccCCCC--
Q 035521 30 TTSCSACKLQPSGLMYTCKPCNFTL------HVSCTQMP---QLITHPSHPAHSLSLVPTPIYPA--GIFNCDGCGRQ-- 96 (302)
Q Consensus 30 ~~~Cd~C~~~~~g~~Y~C~~C~f~l------H~~Ca~~P---~~i~Hp~Hp~H~L~L~~~~~~~~--~~~~C~~C~~~-- 96 (302)
...| +|-....+..|.|..|.-.+ |..|...- .-+.-.+|.--||+-....+... ....|-+|..+
T Consensus 295 Ps~C-aCHs~~~~gGy~CP~CktkVCsLPi~CP~Csl~LilsthLarSyhhL~PLk~f~E~p~~~~~ks~~Cf~CQ~~fp 373 (421)
T COG5151 295 PSVC-ACHSEVKGGGYECPVCKTKVCSLPISCPICSLQLILSTHLARSYHHLYPLKPFVEKPEGTNPKSTHCFVCQGPFP 373 (421)
T ss_pred ccce-eeeeeeccCceeCCcccceeecCCccCcchhHHHHHHHHHHHHHHhhccCcccccccCCCCCCCccceeccCCCC
Confidence 4556 47666677789998886543 33343210 00111223112344332222111 24569999652
Q ss_pred ----------CCCeeEEcCCCCccccccccCC
Q 035521 97 ----------GHGFSYHCTHCDFDLHILCATK 118 (302)
Q Consensus 97 ----------i~G~~Y~C~~CdfdlH~~Ca~l 118 (302)
....+|+|+.|.-.+|..|-..
T Consensus 374 ~~~~~~~~~~~ss~rY~Ce~CK~~FC~dCdvf 405 (421)
T COG5151 374 KPPVSPFDESTSSGRYQCELCKSTFCSDCDVF 405 (421)
T ss_pred CCCCCcccccccccceechhhhhhhhhhhHHH
Confidence 2346899999988888888653
No 120
>smart00064 FYVE Protein present in Fab1, YOTB, Vac1, and EEA1. The FYVE zinc finger is named after four proteins where it was first found: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two Zn2+ ions. The FYVE finger has eight potential zinc coordinating cysteine positions. The FYVE finger is structurally related to the PF02207 zf-UBR: Putative zinc finger in N-recognin (UBR box); InterPro: IPR003126 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 N-end rule-based degradation signal, which targets a protein for ubiquitin-dependent proteolysis, comprises a destabilising amino-terminal residue and a specific internal lysine residue. This entry describes a putative zinc finger in N-recognin, a recognition component of the N-end rule pathway []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0004842 ubiquitin-protein ligase activity, 0008270 zinc ion binding; PDB: 3NY1_B 3NIS_F 3NIM_A 3NIK_A 3NII_A 3NIH_A 3NIL_D 3NIN_B 3NIJ_A 3NIT_A ....
Probab=23.30 E-value=38 Score=25.01 Aligned_cols=46 Identities=20% Similarity=0.405 Sum_probs=25.0
Q ss_pred CCCCC--CCCcEeecCCC----CCCccccCCCCceecCCCCCCCccccccCCCCCCCceecc
Q 035521 36 CKLQP--SGLMYTCKPCN----FTLHVSCTQMPQLITHPSHPAHSLSLVPTPIYPAGIFNCD 91 (302)
Q Consensus 36 C~~~~--~g~~Y~C~~C~----f~lH~~Ca~~P~~i~Hp~Hp~H~L~L~~~~~~~~~~~~C~ 91 (302)
|...+ ....|+|.+|. ..++.+|+. ... |.+|.+.+.... ....||
T Consensus 3 C~~~~~~~q~~y~C~tC~~~~~~~iC~~CF~---~~~---H~gH~~~~~~~~----~~~~CD 54 (71)
T PF02207_consen 3 CTYVWTSGQIFYRCLTCSLDESSGICEECFA---NSC---HEGHRVVYYRSS----SGGCCD 54 (71)
T ss_dssp S--B--TT-EEEEETTTBSSTT-BBEHHHHC---TSG---GGGSSEEEEE------SCEBB-
T ss_pred CCCCCcCCCEEEECccCCCCCCEEEchhhCC---CCC---cCCCcEEEEEeC----CCeEEe
Confidence 55533 24679999994 578999953 233 446778776543 245555
No 122
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=22.14 E-value=30 Score=34.96 Aligned_cols=86 Identities=19% Similarity=0.423 Sum_probs=52.6
Q ss_pred CCccCccCCCCCCCCcEeecCCCCCCccccCCCCceecCCCC-C--CCccccccCCC--CCCCceecccCCC-CCCCeeE
Q 035521 29 TTTSCSACKLQPSGLMYTCKPCNFTLHVSCTQMPQLITHPSH-P--AHSLSLVPTPI--YPAGIFNCDGCGR-QGHGFSY 102 (302)
Q Consensus 29 ~~~~Cd~C~~~~~g~~Y~C~~C~f~lH~~Ca~~P~~i~Hp~H-p--~H~L~L~~~~~--~~~~~~~C~~C~~-~i~G~~Y 102 (302)
...+|..|.+.-......|++||.+.|.-|-.. -||-. | .|.|.-..... ..-..++=..|.. ++.+...
T Consensus 161 aa~kcqlce~a~k~a~v~ceqcdv~yc~pc~~~----~hp~rgplakh~l~~~~~grvs~~~s~r~~~~ct~h~~e~~sm 236 (699)
T KOG4367|consen 161 AALKCQLCEKAPKEATVMCEQCDVFYCDPCRLR----CHPPRGPLAKHRLVPPAQGRVSRRLSPRKVSTCTDHELENHSM 236 (699)
T ss_pred HhhhhhhhcCChhhhhhhHhhCceEEechHHhc----cCCCCCchhhcccCCcccCceeeccchhhhhhccCCCCCCceE
Confidence 356788888755555678999999999999763 22211 1 24332111000 0011334455653 4677888
Q ss_pred EcCCCCccccccccCC
Q 035521 103 HCTHCDFDLHILCATK 118 (302)
Q Consensus 103 ~C~~CdfdlH~~Ca~l 118 (302)
.|..|..-+|..|...
T Consensus 237 yc~~ck~pvc~~clee 252 (699)
T KOG4367|consen 237 YCVQCKMPVCYQCLEE 252 (699)
T ss_pred EEEecCChHHHHHHHh
Confidence 8999999999999764
No 123
>KOG1044 consensus Actin-binding LIM Zn-finger protein Limatin involved in axon guidance [Signal transduction mechanisms; Cytoskeleton]
Probab=22.06 E-value=1.1e+02 Score=32.06 Aligned_cols=14 Identities=29% Similarity=0.631 Sum_probs=9.2
Q ss_pred CccCccCCCCCCCC
Q 035521 30 TTSCSACKLQPSGL 43 (302)
Q Consensus 30 ~~~Cd~C~~~~~g~ 43 (302)
...|+.|.++.+|.
T Consensus 16 ~i~c~~c~~kc~ge 29 (670)
T KOG1044|consen 16 GIKCDKCRKKCSGE 29 (670)
T ss_pred ceehhhhCCccccc
Confidence 45688887766553
No 124
>KOG1356 consensus Putative transcription factor 5qNCA, contains JmjC domain [Transcription]
Probab=21.11 E-value=43 Score=36.37 Aligned_cols=34 Identities=18% Similarity=0.607 Sum_probs=30.1
Q ss_pred CCCccCccCCCCCCCCcEeecCCCCCCccccCCC
Q 035521 28 NTTTSCSACKLQPSGLMYTCKPCNFTLHVSCTQM 61 (302)
Q Consensus 28 ~~~~~Cd~C~~~~~g~~Y~C~~C~f~lH~~Ca~~ 61 (302)
...-.|+.|...+..+.++|..|+|-+|..|...
T Consensus 227 g~~~mC~~C~~tlfn~hw~C~~C~~~~Cl~C~r~ 260 (889)
T KOG1356|consen 227 GIREMCDRCETTLFNIHWRCPRCGFGVCLDCYRK 260 (889)
T ss_pred CcchhhhhhcccccceeEEccccCCeeeecchhh
Confidence 3467899999998889999999999999999963
No 125
>KOG0955 consensus PHD finger protein BR140/LIN-49 [General function prediction only]
Probab=21.03 E-value=64 Score=36.11 Aligned_cols=38 Identities=21% Similarity=0.441 Sum_probs=29.0
Q ss_pred ccccccccccccccc--ceeEEcCCCCccccccCccccCC
Q 035521 141 TEGFSCDICKKVGSA--HWLYRCSLCEFDAHLDCAANLLA 178 (302)
Q Consensus 141 ~~~~~C~vC~k~~~~--~~~YrC~~C~f~lH~~Ca~~~~~ 178 (302)
..+..|.+|.+-... ....-|..|+..+|..|...+++
T Consensus 217 ~~D~~C~iC~~~~~~n~n~ivfCD~Cnl~VHq~Cygi~~i 256 (1051)
T KOG0955|consen 217 EEDAVCCICLDGECQNSNVIVFCDGCNLAVHQECYGIPFI 256 (1051)
T ss_pred CCCccceeecccccCCCceEEEcCCCcchhhhhccCCCCC
Confidence 456789999875322 34666999999999999986555
No 126
>PF07282 OrfB_Zn_ribbon: Putative transposase DNA-binding domain; InterPro: IPR010095 This entry represents a region of a sequence similarity between a family of putative transposases of Thermoanaerobacter tengcongensis, smaller related proteins from Bacillus anthracis, putative transposes described by IPR001959 from INTERPRO, and other proteins. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=20.97 E-value=93 Score=22.38 Aligned_cols=29 Identities=31% Similarity=0.830 Sum_probs=22.4
Q ss_pred CCccCccCCCCC----CCCcEeecCCCCCCccc
Q 035521 29 TTTSCSACKLQP----SGLMYTCKPCNFTLHVS 57 (302)
Q Consensus 29 ~~~~Cd~C~~~~----~g~~Y~C~~C~f~lH~~ 57 (302)
..-.|..|+... .+..|.|..|++..|.+
T Consensus 27 TSq~C~~CG~~~~~~~~~r~~~C~~Cg~~~~rD 59 (69)
T PF07282_consen 27 TSQTCPRCGHRNKKRRSGRVFTCPNCGFEMDRD 59 (69)
T ss_pred CccCccCcccccccccccceEEcCCCCCEECcH
Confidence 467899999743 45679999999887764
No 127
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=20.97 E-value=83 Score=20.67 Aligned_cols=24 Identities=17% Similarity=0.490 Sum_probs=15.9
Q ss_pred CccCCCCCCCCcEeecCCCCCCcc
Q 035521 33 CSACKLQPSGLMYTCKPCNFTLHV 56 (302)
Q Consensus 33 Cd~C~~~~~g~~Y~C~~C~f~lH~ 56 (302)
|..|++...-..+.|..|+-.++.
T Consensus 1 C~~C~~~~~l~~f~C~~C~~~FC~ 24 (39)
T smart00154 1 CHFCRKKVGLTGFKCRHCGNLFCG 24 (39)
T ss_pred CcccCCcccccCeECCccCCcccc
Confidence 566777644336888888766554
No 128
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=20.90 E-value=55 Score=19.08 Aligned_cols=20 Identities=25% Similarity=0.717 Sum_probs=10.2
Q ss_pred cccCCCCCCCeeEEcCCCCc
Q 035521 90 CDGCGRQGHGFSYHCTHCDF 109 (302)
Q Consensus 90 C~~C~~~i~G~~Y~C~~Cdf 109 (302)
|..|+..+....=.|..|+.
T Consensus 2 Cp~CG~~~~~~~~fC~~CG~ 21 (23)
T PF13240_consen 2 CPNCGAEIEDDAKFCPNCGT 21 (23)
T ss_pred CcccCCCCCCcCcchhhhCC
Confidence 55666655433333555543
No 129
>KOG1356 consensus Putative transcription factor 5qNCA, contains JmjC domain [Transcription]
Probab=20.55 E-value=50 Score=35.87 Aligned_cols=33 Identities=24% Similarity=0.567 Sum_probs=28.9
Q ss_pred ceecccCCCCCCCeeEEcCCCCccccccccCCC
Q 035521 87 IFNCDGCGRQGHGFSYHCTHCDFDLHILCATKP 119 (302)
Q Consensus 87 ~~~C~~C~~~i~G~~Y~C~~CdfdlH~~Ca~lP 119 (302)
.-.|+.|.+......++|..|+|.+|..|....
T Consensus 229 ~~mC~~C~~tlfn~hw~C~~C~~~~Cl~C~r~~ 261 (889)
T KOG1356|consen 229 REMCDRCETTLFNIHWRCPRCGFGVCLDCYRKW 261 (889)
T ss_pred chhhhhhcccccceeEEccccCCeeeecchhhc
Confidence 568999999877788999999999999998753
No 130
>KOG4317 consensus Predicted Zn-finger protein [Function unknown]
Probab=20.42 E-value=47 Score=32.16 Aligned_cols=30 Identities=27% Similarity=0.560 Sum_probs=21.9
Q ss_pred cccccccccccccceeEEcCCCCccccc-cCccc
Q 035521 143 GFSCDICKKVGSAHWLYRCSLCEFDAHL-DCAAN 175 (302)
Q Consensus 143 ~~~C~vC~k~~~~~~~YrC~~C~f~lH~-~Ca~~ 175 (302)
...|.+|+... -.|.|..|++-+|. +|...
T Consensus 7 ~~~C~ic~vq~---~~YtCPRCn~~YCsl~CYr~ 37 (383)
T KOG4317|consen 7 FLACGICGVQK---REYTCPRCNLLYCSLKCYRN 37 (383)
T ss_pred eeecccccccc---ccccCCCCCccceeeeeecC
Confidence 35788888753 24999999987775 66654
No 131
>KOG3507 consensus DNA-directed RNA polymerase, subunit RPB7.0 [Transcription]
Probab=20.15 E-value=48 Score=24.21 Aligned_cols=27 Identities=19% Similarity=0.398 Sum_probs=19.5
Q ss_pred ccccccccccc--cccceeEEcCCCCccc
Q 035521 142 EGFSCDICKKV--GSAHWLYRCSLCEFDA 168 (302)
Q Consensus 142 ~~~~C~vC~k~--~~~~~~YrC~~C~f~l 168 (302)
.-++|.-|+.. ...+-..+|.+|+|-+
T Consensus 19 miYiCgdC~~en~lk~~D~irCReCG~RI 47 (62)
T KOG3507|consen 19 MIYICGDCGQENTLKRGDVIRCRECGYRI 47 (62)
T ss_pred EEEEeccccccccccCCCcEehhhcchHH
Confidence 34689999854 2345689999998754
Done!