Query psy11251
Match_columns 190
No_of_seqs 285 out of 1513
Neff 7.9
Searched_HMMs 46136
Date Fri Aug 16 22:02:09 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy11251.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/11251hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1244|consensus 99.9 2.2E-27 4.7E-32 190.9 1.1 98 5-102 235-332 (336)
2 KOG1512|consensus 99.8 2.6E-20 5.7E-25 151.1 2.1 94 5-100 268-362 (381)
3 KOG1660|consensus 99.8 7.8E-20 1.7E-24 151.9 2.7 73 117-189 261-333 (399)
4 cd07662 BAR_SNX6 The Bin/Amphi 99.5 6.6E-15 1.4E-19 117.0 2.1 69 120-188 85-153 (218)
5 cd07621 BAR_SNX5_6 The Bin/Amp 99.4 1.8E-14 3.9E-19 115.4 0.9 70 120-189 86-155 (219)
6 cd07663 BAR_SNX5 The Bin/Amphi 99.4 4.7E-14 1E-18 112.7 1.0 70 120-189 85-154 (218)
7 KOG4443|consensus 99.4 1.1E-13 2.3E-18 123.4 3.0 93 10-104 29-121 (694)
8 KOG4299|consensus 99.2 3.9E-12 8.5E-17 113.2 3.3 49 53-101 255-305 (613)
9 PF00628 PHD: PHD-finger; Int 99.1 2.2E-11 4.7E-16 76.0 0.6 48 53-100 1-50 (51)
10 KOG4299|consensus 99.0 1.4E-10 3E-15 103.4 2.8 89 9-99 261-442 (613)
11 cd07630 BAR_SNX_like The Bin/A 98.9 2.7E-10 5.8E-15 90.5 1.1 68 120-187 69-136 (198)
12 smart00249 PHD PHD zinc finger 98.9 2.3E-09 5E-14 64.7 3.4 46 53-98 1-47 (47)
13 KOG0825|consensus 98.9 6E-10 1.3E-14 101.4 0.9 49 53-101 217-266 (1134)
14 KOG0383|consensus 98.8 2.2E-09 4.8E-14 98.3 2.8 76 21-102 1-95 (696)
15 PF00628 PHD: PHD-finger; Int 98.7 1.7E-09 3.7E-14 67.3 -0.3 48 3-52 2-49 (51)
16 smart00249 PHD PHD zinc finger 98.5 1E-07 2.2E-12 57.4 3.6 38 12-51 10-47 (47)
17 cd04718 BAH_plant_2 BAH, or Br 98.5 9.8E-08 2.1E-12 71.8 2.9 31 75-105 1-31 (148)
18 KOG1973|consensus 98.3 2.6E-07 5.6E-12 76.9 1.6 39 62-102 228-269 (274)
19 KOG4323|consensus 98.2 3.5E-07 7.7E-12 80.2 1.6 85 13-102 97-225 (464)
20 KOG0383|consensus 98.1 8.5E-07 1.9E-11 81.6 1.1 89 8-102 51-225 (696)
21 PF15446 zf-PHD-like: PHD/FYVE 98.1 4.8E-06 1E-10 63.6 4.3 82 3-84 2-142 (175)
22 KOG0957|consensus 98.0 1.4E-06 2.9E-11 76.6 0.8 48 53-100 546-597 (707)
23 KOG0955|consensus 97.9 4.9E-06 1.1E-10 79.5 2.1 51 53-105 221-273 (1051)
24 KOG1473|consensus 97.9 1.1E-06 2.4E-11 83.1 -2.2 92 9-106 349-484 (1414)
25 KOG0956|consensus 97.9 5.9E-06 1.3E-10 75.0 2.1 88 13-105 19-184 (900)
26 COG5034 TNG2 Chromatin remodel 97.9 6.9E-06 1.5E-10 66.6 2.0 42 56-100 225-269 (271)
27 COG5141 PHD zinc finger-contai 97.8 4.3E-06 9.4E-11 73.3 0.6 74 3-83 196-335 (669)
28 KOG1245|consensus 97.7 5.5E-06 1.2E-10 81.7 -0.6 51 53-103 1110-1160(1404)
29 KOG0955|consensus 97.6 2.6E-05 5.7E-10 74.7 2.2 65 12-82 232-361 (1051)
30 KOG0954|consensus 97.6 1.8E-05 3.8E-10 72.4 0.2 75 2-83 273-412 (893)
31 KOG4443|consensus 97.5 3.1E-05 6.7E-10 70.1 1.5 89 8-101 75-202 (694)
32 KOG0825|consensus 97.5 5.1E-05 1.1E-09 70.0 1.7 40 10-52 224-264 (1134)
33 cd04718 BAH_plant_2 BAH, or Br 97.4 9.1E-05 2E-09 55.9 2.2 25 25-52 1-25 (148)
34 KOG0954|consensus 97.3 5.8E-05 1.3E-09 69.2 0.5 47 53-101 273-321 (893)
35 cd07627 BAR_Vps5p The Bin/Amph 97.3 6.2E-05 1.3E-09 60.6 0.6 63 120-182 67-129 (216)
36 COG5141 PHD zinc finger-contai 97.2 8.8E-05 1.9E-09 65.3 0.6 49 51-101 193-243 (669)
37 PF13831 PHD_2: PHD-finger; PD 97.1 3.3E-05 7.1E-10 44.5 -2.2 34 64-99 2-36 (36)
38 cd07623 BAR_SNX1_2 The Bin/Amp 97.0 0.0002 4.4E-09 57.9 0.8 64 120-183 75-138 (224)
39 KOG1512|consensus 96.9 0.00048 1E-08 57.0 2.1 37 8-49 321-357 (381)
40 KOG0957|consensus 96.9 0.00038 8.3E-09 61.6 1.0 45 8-52 551-596 (707)
41 cd07664 BAR_SNX2 The Bin/Amphi 96.8 0.00065 1.4E-08 55.4 1.6 64 120-183 85-148 (234)
42 KOG0956|consensus 96.7 0.00062 1.4E-08 62.2 0.9 45 54-100 8-56 (900)
43 PF13831 PHD_2: PHD-finger; PD 96.6 9.4E-05 2E-09 42.6 -3.0 33 14-51 2-35 (36)
44 KOG4323|consensus 96.1 0.0016 3.4E-08 57.6 0.4 45 8-52 177-222 (464)
45 KOG1245|consensus 95.8 0.0017 3.7E-08 64.6 -0.9 47 2-52 1110-1156(1404)
46 PF14446 Prok-RING_1: Prokaryo 94.7 0.02 4.2E-07 35.9 1.5 31 2-32 7-37 (54)
47 PF15446 zf-PHD-like: PHD/FYVE 94.6 0.016 3.4E-07 44.6 1.3 50 53-102 1-61 (175)
48 KOG1473|consensus 94.6 0.018 3.8E-07 55.7 1.9 45 53-100 346-390 (1414)
49 PF09325 Vps5: Vps5 C terminal 94.2 0.021 4.6E-07 45.9 1.3 63 121-183 88-150 (236)
50 KOG1246|consensus 94.2 0.15 3.3E-06 49.3 7.1 49 53-102 157-205 (904)
51 PF14446 Prok-RING_1: Prokaryo 93.7 0.027 5.8E-07 35.3 0.7 31 53-83 7-38 (54)
52 PF13832 zf-HC5HC2H_2: PHD-zin 92.0 0.099 2.2E-06 37.2 1.8 62 14-82 11-86 (110)
53 PF13901 DUF4206: Domain of un 90.4 0.15 3.3E-06 40.6 1.6 47 47-102 144-199 (202)
54 PF11793 FANCL_C: FANCL C-term 88.2 0.13 2.8E-06 33.9 -0.3 38 15-52 19-62 (70)
55 PF10497 zf-4CXXC_R1: Zinc-fin 88.1 0.29 6.4E-06 34.9 1.5 57 2-60 9-79 (105)
56 PF07649 C1_3: C1-like domain; 88.1 0.11 2.3E-06 28.4 -0.6 28 53-80 2-29 (30)
57 cd07596 BAR_SNX The Bin/Amphip 84.8 0.38 8.2E-06 37.7 0.7 60 123-182 72-131 (218)
58 PF00641 zf-RanBP: Zn-finger i 84.7 0.53 1.1E-05 25.5 1.1 17 43-59 2-26 (30)
59 KOG1952|consensus 81.2 0.57 1.2E-05 44.5 0.5 40 13-52 204-243 (950)
60 PF07227 DUF1423: Protein of u 80.6 1.2 2.6E-05 39.5 2.3 56 45-101 123-192 (446)
61 KOG1701|consensus 79.7 1.3 2.8E-05 39.0 2.1 62 21-82 351-429 (468)
62 PF11793 FANCL_C: FANCL C-term 78.0 1.1 2.4E-05 29.5 0.9 50 53-102 4-65 (70)
63 PF13832 zf-HC5HC2H_2: PHD-zin 77.3 1.2 2.6E-05 31.5 1.1 21 13-33 65-87 (110)
64 PF12861 zf-Apc11: Anaphase-pr 77.0 0.57 1.2E-05 32.1 -0.7 48 53-102 34-81 (85)
65 smart00547 ZnF_RBZ Zinc finger 75.8 1.7 3.8E-05 22.4 1.2 9 44-52 1-9 (26)
66 PF12773 DZR: Double zinc ribb 71.8 5.1 0.00011 24.0 2.8 7 93-99 30-36 (50)
67 PF00130 C1_1: Phorbol esters/ 71.7 1.9 4.1E-05 26.2 0.8 30 53-82 13-44 (53)
68 KOG1246|consensus 68.6 4.8 0.0001 39.1 3.2 35 15-52 168-202 (904)
69 KOG1244|consensus 68.4 1.2 2.5E-05 37.2 -0.9 46 60-105 240-288 (336)
70 PF13771 zf-HC5HC2H: PHD-like 67.5 2.7 5.9E-05 28.4 1.0 22 13-34 46-69 (90)
71 PF03107 C1_2: C1 domain; Int 67.3 4.9 0.00011 21.7 1.8 29 53-81 2-30 (30)
72 KOG1632|consensus 63.9 4.7 0.0001 34.8 1.9 38 65-102 74-114 (345)
73 PF13639 zf-RING_2: Ring finge 63.1 0.11 2.4E-06 30.7 -5.9 43 53-99 2-44 (44)
74 PF13913 zf-C2HC_2: zinc-finge 61.7 2.8 6.2E-05 21.7 0.1 14 15-28 1-14 (25)
75 PF13771 zf-HC5HC2H: PHD-like 61.0 3.8 8.2E-05 27.7 0.7 29 53-83 38-68 (90)
76 cd00029 C1 Protein kinase C co 60.8 3.8 8.2E-05 24.2 0.6 30 53-82 13-44 (50)
77 KOG3970|consensus 60.7 1.5 3.2E-05 35.6 -1.6 79 18-104 23-106 (299)
78 smart00109 C1 Protein kinase C 60.3 3.2 7E-05 24.3 0.2 30 53-82 13-43 (49)
79 KOG2752|consensus 60.1 5.1 0.00011 34.0 1.4 21 63-83 145-166 (345)
80 KOG4198|consensus 59.0 16 0.00034 30.7 4.1 22 40-61 59-88 (280)
81 KOG1632|consensus 58.3 6.1 0.00013 34.1 1.7 84 15-101 74-176 (345)
82 KOG1829|consensus 56.8 2.3 4.9E-05 39.2 -1.3 50 47-103 503-561 (580)
83 COG0143 MetG Methionyl-tRNA sy 55.6 7.2 0.00016 35.9 1.7 39 44-84 125-173 (558)
84 KOG1973|consensus 54.0 4.8 0.0001 33.6 0.3 43 11-53 214-267 (274)
85 cd02342 ZZ_UBA_plant Zinc fing 53.6 7.1 0.00015 23.2 0.9 29 17-59 1-32 (43)
86 COG1107 Archaea-specific RecJ- 53.0 18 0.00039 33.6 3.8 47 43-103 51-106 (715)
87 PF02891 zf-MIZ: MIZ/SP-RING z 52.6 1.6 3.5E-05 26.7 -2.1 27 26-52 22-48 (50)
88 cd00162 RING RING-finger (Real 50.4 2.2 4.8E-05 24.0 -1.7 42 54-100 2-43 (45)
89 PF05502 Dynactin_p62: Dynacti 49.9 19 0.0004 32.6 3.4 31 14-52 3-33 (483)
90 KOG1081|consensus 47.8 19 0.00042 32.4 3.2 30 3-32 88-117 (463)
91 KOG2272|consensus 47.3 7.7 0.00017 32.1 0.5 38 24-62 160-206 (332)
92 KOG2807|consensus 46.1 14 0.0003 31.7 1.9 10 43-52 274-283 (378)
93 cd00350 rubredoxin_like Rubred 45.6 16 0.00035 20.1 1.5 12 91-102 16-27 (33)
94 KOG4628|consensus 45.5 8.4 0.00018 33.3 0.5 47 53-102 231-277 (348)
95 cd00730 rubredoxin Rubredoxin; 43.7 27 0.00059 21.4 2.4 11 92-102 34-44 (50)
96 PF10367 Vps39_2: Vacuolar sor 43.4 14 0.00031 25.4 1.4 29 53-82 80-108 (109)
97 KOG3612|consensus 43.0 35 0.00076 31.3 4.0 50 43-101 58-108 (588)
98 KOG1844|consensus 42.8 16 0.00034 32.9 1.8 79 14-102 57-136 (508)
99 PF08746 zf-RING-like: RING-li 42.2 2.9 6.3E-05 24.7 -2.0 41 54-98 1-43 (43)
100 cd07625 BAR_Vps17p The Bin/Amp 42.1 11 0.00023 30.8 0.6 51 129-179 90-140 (230)
101 KOG3248|consensus 41.6 26 0.00057 30.2 2.8 31 151-182 217-247 (421)
102 PRK14559 putative protein seri 41.3 30 0.00066 32.5 3.5 8 18-25 17-24 (645)
103 PRK14559 putative protein seri 39.9 38 0.00082 31.9 3.9 13 88-100 37-49 (645)
104 KOG1952|consensus 39.2 4.5 9.7E-05 38.7 -2.2 49 53-101 193-245 (950)
105 PF05191 ADK_lid: Adenylate ki 39.1 16 0.00035 20.7 0.9 27 68-100 3-29 (36)
106 cd07665 BAR_SNX1 The Bin/Amphi 37.8 15 0.00034 29.9 0.9 60 123-182 88-147 (234)
107 PF00301 Rubredoxin: Rubredoxi 37.5 18 0.00039 21.9 0.9 11 91-101 33-43 (47)
108 PF04810 zf-Sec23_Sec24: Sec23 37.3 20 0.00042 20.7 1.1 29 16-51 2-30 (40)
109 PF13922 PHD_3: PHD domain of 37.3 10 0.00022 24.6 -0.2 22 63-84 40-61 (69)
110 TIGR03826 YvyF flagellar opero 36.6 13 0.00029 27.8 0.3 13 15-27 2-14 (137)
111 COG1773 Rubredoxin [Energy pro 36.2 31 0.00067 21.7 1.9 34 18-52 5-43 (55)
112 PF12678 zf-rbx1: RING-H2 zinc 35.5 3.6 7.7E-05 27.1 -2.6 26 20-52 48-73 (73)
113 KOG3576|consensus 35.3 7.6 0.00016 31.2 -1.2 16 11-26 112-127 (267)
114 KOG4628|consensus 32.3 22 0.00048 30.8 1.0 23 12-35 241-263 (348)
115 cd02339 ZZ_Mind_bomb Zinc fing 31.8 26 0.00057 20.9 1.0 10 43-52 13-22 (45)
116 PRK14890 putative Zn-ribbon RN 31.7 50 0.0011 21.0 2.3 12 16-27 7-18 (59)
117 KOG4577|consensus 31.4 10 0.00022 32.0 -1.1 67 15-82 32-122 (383)
118 PF07227 DUF1423: Protein of u 31.0 41 0.00088 30.1 2.4 20 12-31 142-161 (446)
119 TIGR03037 anthran_nbaC 3-hydro 30.9 25 0.00055 27.0 1.1 8 45-52 114-121 (159)
120 PF14569 zf-UDP: Zinc-binding 30.8 7.6 0.00016 26.1 -1.6 45 2-52 14-58 (80)
121 KOG4198|consensus 30.8 34 0.00074 28.7 1.8 13 40-52 135-147 (280)
122 KOG3612|consensus 30.7 39 0.00084 31.0 2.3 43 12-56 68-110 (588)
123 COG4049 Uncharacterized protei 30.0 18 0.00038 22.9 0.0 19 9-27 10-28 (65)
124 KOG1844|consensus 29.7 33 0.00071 30.8 1.7 22 13-34 98-119 (508)
125 smart00132 LIM Zinc-binding do 28.5 44 0.00096 17.9 1.6 10 49-58 25-34 (39)
126 PF01485 IBR: IBR domain; Int 28.1 55 0.0012 20.0 2.1 12 67-78 49-60 (64)
127 PRK13264 3-hydroxyanthranilate 27.1 31 0.00068 26.9 1.0 9 44-52 119-127 (177)
128 KOG2041|consensus 27.1 43 0.00094 32.1 2.0 34 17-54 1132-1165(1189)
129 PF13248 zf-ribbon_3: zinc-rib 26.4 46 0.00099 17.1 1.3 7 66-72 16-22 (26)
130 KOG0804|consensus 26.2 25 0.00053 31.5 0.3 30 17-55 192-221 (493)
131 smart00184 RING Ring finger. E 26.1 7.7 0.00017 20.7 -2.0 14 70-83 14-27 (39)
132 PF13240 zinc_ribbon_2: zinc-r 25.7 56 0.0012 16.4 1.5 19 54-73 2-20 (23)
133 PF00412 LIM: LIM domain; Int 24.8 50 0.0011 19.8 1.5 19 43-62 19-37 (58)
134 COG5243 HRD1 HRD ubiquitin lig 24.4 73 0.0016 28.0 2.8 34 149-182 243-276 (491)
135 cd02344 ZZ_HERC2 Zinc finger, 24.4 44 0.00095 20.0 1.1 16 43-58 13-31 (45)
136 PF10080 DUF2318: Predicted me 24.0 29 0.00063 24.6 0.3 28 53-80 37-66 (102)
137 PF07496 zf-CW: CW-type Zinc F 24.0 24 0.00052 21.4 -0.2 30 67-97 4-34 (50)
138 PF14787 zf-CCHC_5: GAG-polypr 23.7 46 0.001 19.0 1.0 12 68-79 4-15 (36)
139 cd00729 rubredoxin_SM Rubredox 23.6 54 0.0012 18.1 1.3 6 53-58 20-25 (34)
140 PRK03564 formate dehydrogenase 23.1 56 0.0012 27.8 1.9 18 62-79 208-225 (309)
141 cd07624 BAR_SNX7_30 The Bin/Am 22.9 53 0.0012 25.8 1.6 57 126-182 81-137 (200)
142 KOG1311|consensus 22.8 74 0.0016 26.5 2.5 12 43-54 125-136 (299)
143 KOG1169|consensus 22.8 44 0.00095 31.3 1.2 81 2-82 114-210 (634)
144 COG4260 Membrane protease subu 21.8 62 0.0013 27.4 1.8 19 40-58 301-322 (345)
145 PF05502 Dynactin_p62: Dynacti 21.8 50 0.0011 29.9 1.4 9 93-101 53-61 (483)
146 TIGR01562 FdhE formate dehydro 21.4 62 0.0013 27.5 1.8 18 62-79 206-223 (305)
147 PF03380 DUF282: Caenorhabditi 21.3 85 0.0018 18.2 1.8 15 69-83 2-16 (39)
148 PF07754 DUF1610: Domain of un 21.3 79 0.0017 16.3 1.5 7 45-51 16-22 (24)
149 PF09297 zf-NADH-PPase: NADH p 21.3 44 0.00095 18.0 0.6 22 53-74 5-29 (32)
150 KOG2752|consensus 21.1 57 0.0012 27.9 1.4 25 10-34 142-167 (345)
151 COG2888 Predicted Zn-ribbon RN 20.9 57 0.0012 20.8 1.1 12 16-27 9-20 (61)
152 KOG1081|consensus 20.8 76 0.0016 28.6 2.3 28 53-83 91-126 (463)
153 PRK04023 DNA polymerase II lar 20.7 1.2E+02 0.0026 30.2 3.7 30 41-72 622-657 (1121)
154 KOG1734|consensus 20.2 25 0.00055 29.4 -0.8 49 53-103 226-281 (328)
No 1
>KOG1244|consensus
Probab=99.93 E-value=2.2e-27 Score=190.87 Aligned_cols=98 Identities=77% Similarity=1.583 Sum_probs=94.2
Q ss_pred CccCCCCCCCCceecCCCCCCCCCCCCCCCcccccccCCCCcccCCCCCCCcCCCCCCCCCccccCccCCcccCCCCCCC
Q psy11251 5 TQAEKSGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECKCCSVCGTSDNDDQLLFCDDCDRGYHMYCLVPP 84 (190)
Q Consensus 5 ~~~~~~g~~~~ll~C~~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~~C~~C~~~~~~~~ll~C~~C~~~~H~~Cl~p~ 84 (190)
++|+++|-+++|+.|..||++.|++||++.++|+..|+.+.|+|.+|+.|.+||.++++++||+||.||++||++||.||
T Consensus 235 r~nkkt~~peelvscsdcgrsghpsclqft~nm~~avk~yrwqcieck~csicgtsenddqllfcddcdrgyhmyclspp 314 (336)
T KOG1244|consen 235 RENKKTGMPEELVSCSDCGRSGHPSCLQFTANMIAAVKTYRWQCIECKYCSICGTSENDDQLLFCDDCDRGYHMYCLSPP 314 (336)
T ss_pred ccccccCCchhhcchhhcCCCCCcchhhhhHHHHHHHHhheeeeeecceeccccCcCCCceeEeecccCCceeeEecCCC
Confidence 57899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCCCCccCccccccc
Q psy11251 85 IQTPPEGSWSCQLCLKEF 102 (190)
Q Consensus 85 l~~~p~~~W~C~~C~~~~ 102 (190)
+.+.|+|.|.|..|....
T Consensus 315 m~eppegswsc~KOG~~~ 332 (336)
T KOG1244|consen 315 MVEPPEGSWSCHLCLEEL 332 (336)
T ss_pred cCCCCCCchhHHHHHHHH
Confidence 999999999999998654
No 2
>KOG1512|consensus
Probab=99.79 E-value=2.6e-20 Score=151.14 Aligned_cols=94 Identities=30% Similarity=0.781 Sum_probs=88.6
Q ss_pred CccCCCCCCCCceecCCCCCCCCCCCCCCCcccccccCCCCcccCCCCCCCcCCCCCCCCCccccCccCCcccCCCCCCC
Q psy11251 5 TQAEKSGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECKCCSVCGTSDNDDQLLFCDDCDRGYHMYCLVPP 84 (190)
Q Consensus 5 ~~~~~~g~~~~ll~C~~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~~C~~C~~~~~~~~ll~C~~C~~~~H~~Cl~p~ 84 (190)
+++...|..+.||+|..|..++|++|++++++++..++.+.|.|.+|+.|.+|+++...+++++||.||++||.+|++
T Consensus 268 ~~~~~~~r~~S~I~C~~C~~~~HP~Ci~M~~elv~~~KTY~W~C~~C~lC~IC~~P~~E~E~~FCD~CDRG~HT~CVG-- 345 (381)
T KOG1512|consen 268 QTNIIQSRRNSWIVCKPCATRPHPYCVAMIPELVGQYKTYFWKCSSCELCRICLGPVIESEHLFCDVCDRGPHTLCVG-- 345 (381)
T ss_pred hhhhhhhhhccceeecccccCCCCcchhcCHHHHhHHhhcchhhcccHhhhccCCcccchheeccccccCCCCccccc--
Confidence 467778889999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCCCCccCc-cccc
Q psy11251 85 IQTPPEGSWSCQ-LCLK 100 (190)
Q Consensus 85 l~~~p~~~W~C~-~C~~ 100 (190)
|..+|.|.|+|. .|..
T Consensus 346 L~~lP~G~WICD~~C~~ 362 (381)
T KOG1512|consen 346 LQDLPRGEWICDMRCRE 362 (381)
T ss_pred cccccCccchhhhHHHH
Confidence 999999999998 5654
No 3
>KOG1660|consensus
Probab=99.77 E-value=7.8e-20 Score=151.87 Aligned_cols=73 Identities=70% Similarity=0.967 Sum_probs=69.3
Q ss_pred cccchHHHHHHHHhhcccccCCCCCcCccccccccccHHHHHhhhhhhhhhhhhhhHHHHHHHhhcCCCCcCC
Q psy11251 117 GFLPAETLEKLRKVEGRIACDEDLKLSDTLRYYMRDSDAAKRLLYRRLRCLADYENANRNLERARTKNKDVHA 189 (190)
Q Consensus 117 ~~~~se~~ek~rkle~r~a~dedlkl~d~l~~y~~~~~a~~~ll~rr~~~l~~~~~~~~~l~~~~~~~~~~~~ 189 (190)
....++.+++.++++.|+++|+|++|.++++||+++++|+++|||||+|||++|||+||+|||||+|||||++
T Consensus 261 ~l~~~e~f~~~~k~e~Rvs~dedlkL~d~l~yy~r~~~aakdllyRr~Rcl~~ye~ank~l~kar~knkdv~~ 333 (399)
T KOG1660|consen 261 QLKEAEYFEEESKVERRVSSDEDLKLGDTLRYYDRDSCAAKDLLYRRERCLADYEAANKNLEKARAKNKDVHA 333 (399)
T ss_pred eecchhHHHHHHhHhhhhchHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHHHhhhHHHHHhccccchh
Confidence 3456778899999999999999999999999999999999999999999999999999999999999999986
No 4
>cd07662 BAR_SNX6 The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexin 6. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. SNX6 forms a stable complex with SNX1 and may be a component of the retromer complex, a membrane coat multimeric complex required for endosomal retrieval of lysosomal hydrolase receptors to the Golgi, acting as a mammalian equivalent of yeast Vsp17p. It interacts with the receptor serine/threonine kinases from the transforming growth factor-beta family. It also plays
Probab=99.50 E-value=6.6e-15 Score=117.05 Aligned_cols=69 Identities=64% Similarity=0.971 Sum_probs=66.9
Q ss_pred chHHHHHHHHhhcccccCCCCCcCccccccccccHHHHHhhhhhhhhhhhhhhHHHHHHHhhcCCCCcC
Q psy11251 120 PAETLEKLRKVEGRIACDEDLKLSDTLRYYMRDSDAAKRLLYRRLRCLADYENANRNLERARTKNKDVH 188 (190)
Q Consensus 120 ~se~~ek~rkle~r~a~dedlkl~d~l~~y~~~~~a~~~ll~rr~~~l~~~~~~~~~l~~~~~~~~~~~ 188 (190)
.++.++++++++++++.+++++|+++++||+++.+|+++++|||++++++|+|||++|+|||++||||+
T Consensus 85 laev~eki~~l~~~~A~~e~l~L~e~L~~Y~r~~~A~Kdll~rR~r~l~~~enA~k~L~KaR~~~kev~ 153 (218)
T cd07662 85 VSELFDKTRKIEARVAADEDLKLSDLLKYYLRESQAAKDLLYRRSRSLVDYENANKALDKARAKNKDVL 153 (218)
T ss_pred HHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCChHH
Confidence 577889999999999999999999999999999999999999999999999999999999999999986
No 5
>cd07621 BAR_SNX5_6 The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexins 5 and 6. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. Members of this subfamily include SNX5, SNX6, the mammalian SNX32, and similar proteins. SNX5 and SNX6 may be components of the retromer complex, a membrane coat multimeric complex required for endosomal retrieval of lysosomal hydrolase receptors to the Golgi, acting as a mammalian equivalent of yeast Vsp17p. The function of SNX32 is still unknown. BAR domain
Probab=99.44 E-value=1.8e-14 Score=115.43 Aligned_cols=70 Identities=83% Similarity=1.227 Sum_probs=67.3
Q ss_pred chHHHHHHHHhhcccccCCCCCcCccccccccccHHHHHhhhhhhhhhhhhhhHHHHHHHhhcCCCCcCC
Q psy11251 120 PAETLEKLRKVEGRIACDEDLKLSDTLRYYMRDSDAAKRLLYRRLRCLADYENANRNLERARTKNKDVHA 189 (190)
Q Consensus 120 ~se~~ek~rkle~r~a~dedlkl~d~l~~y~~~~~a~~~ll~rr~~~l~~~~~~~~~l~~~~~~~~~~~~ 189 (190)
.++.++++++++++++.+++++|+++++||+++.+|+++++|||++++++|+|+|++|+|||+||+||++
T Consensus 86 lae~~ek~~~l~~r~A~~d~l~L~e~L~~Y~r~~~A~K~~l~rR~ral~~~q~A~k~L~KaR~k~~~v~~ 155 (219)
T cd07621 86 VAETFEKLRKLEGRVASDEDLKLSDTLRYYMRDTQAAKDLLYRRLRCLANYENANKNLEKARAKNKDVHA 155 (219)
T ss_pred HHHHHHHHHHHHHHHHHhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhchhhHHH
Confidence 5678899999999999999999999999999999999999999999999999999999999999999974
No 6
>cd07663 BAR_SNX5 The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexin 5. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. SNX5, abundantly expressed in macrophages, regulates macropinocytosis, a process that enables cells to internalize large amounts of external solutes. It may also be a component of the retromer complex, a membrane coat multimeric complex required for endosomal retrieval of lysosomal hydrolase receptors to the Golgi, acting as a mammalian equivalent of yeast Vsp17p. It
Probab=99.41 E-value=4.7e-14 Score=112.73 Aligned_cols=70 Identities=63% Similarity=0.938 Sum_probs=67.2
Q ss_pred chHHHHHHHHhhcccccCCCCCcCccccccccccHHHHHhhhhhhhhhhhhhhHHHHHHHhhcCCCCcCC
Q psy11251 120 PAETLEKLRKVEGRIACDEDLKLSDTLRYYMRDSDAAKRLLYRRLRCLADYENANRNLERARTKNKDVHA 189 (190)
Q Consensus 120 ~se~~ek~rkle~r~a~dedlkl~d~l~~y~~~~~a~~~ll~rr~~~l~~~~~~~~~l~~~~~~~~~~~~ 189 (190)
.++.++++++++++++.+++++|+++++||.++.+|+++++|||+|++++|+|+|++|+|||+++|||++
T Consensus 85 lae~~Ek~~~l~~r~A~~d~~~L~e~L~~Y~r~~~A~K~ll~rR~ral~~~e~A~~~L~KaR~k~kev~~ 154 (218)
T cd07663 85 VAELFEKLRKVEDRVASDQDLKLTELLRYYMLNIEAAKDLLYRRARALADYENSNKALDKARLKSKDVKQ 154 (218)
T ss_pred HHHHHHHHHHHHHHHHHhHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHH
Confidence 5678899999999999999999999999999999999999999999999999999999999999999873
No 7
>KOG4443|consensus
Probab=99.40 E-value=1.1e-13 Score=123.40 Aligned_cols=93 Identities=35% Similarity=0.924 Sum_probs=80.3
Q ss_pred CCCCCCceecCCCCCCCCCCCCCCCcccccccCCCCcccCCCCCCCcCCCCCCCCCccccCccCCcccCCCCCCCCCCCC
Q psy11251 10 SGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECKCCSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQTPP 89 (190)
Q Consensus 10 ~g~~~~ll~C~~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~~C~~C~~~~~~~~ll~C~~C~~~~H~~Cl~p~l~~~p 89 (190)
.+-.|.|+.|..|+..||+.|+..... ..+-.+.|.|+.|++|..|+..+++..+++|+.||-.||.+|..|++..++
T Consensus 29 ~~~ag~m~ac~~c~~~yH~~cvt~~~~--~~~l~~gWrC~~crvCe~c~~~gD~~kf~~Ck~cDvsyh~yc~~P~~~~v~ 106 (694)
T KOG4443|consen 29 KGRAGRLLACSDCGQKYHPYCVTSWAQ--HAVLSGGWRCPSCRVCEACGTTGDPKKFLLCKRCDVSYHCYCQKPPNDKVP 106 (694)
T ss_pred ccccCcchhhhhhcccCCcchhhHHHh--HHHhcCCcccCCceeeeeccccCCcccccccccccccccccccCCcccccc
Confidence 344688999999999999999975432 233356699999999999999989999999999999999999999999999
Q ss_pred CCCccCcccccccch
Q psy11251 90 EGSWSCQLCLKEFHR 104 (190)
Q Consensus 90 ~~~W~C~~C~~~~~~ 104 (190)
.|.|+|+.|......
T Consensus 107 sg~~~ckk~~~c~qc 121 (694)
T KOG4443|consen 107 SGPWLCKKCTRCRQC 121 (694)
T ss_pred CcccccHHHHhhhhc
Confidence 999999988765543
No 8
>KOG4299|consensus
Probab=99.24 E-value=3.9e-12 Score=113.19 Aligned_cols=49 Identities=39% Similarity=0.968 Sum_probs=43.8
Q ss_pred CCCcCCCCCCCCCccccCccCCcccCCCCCCCC--CCCCCCCccCcccccc
Q psy11251 53 CCSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPI--QTPPEGSWSCQLCLKE 101 (190)
Q Consensus 53 ~C~~C~~~~~~~~ll~C~~C~~~~H~~Cl~p~l--~~~p~~~W~C~~C~~~ 101 (190)
+|..|++.+.-..+++||+|+++||++||.||+ ..+|.|.|+|+.|...
T Consensus 255 fCsaCn~~~~F~~~i~CD~Cp~sFH~~CLePPl~~eniP~g~W~C~ec~~k 305 (613)
T KOG4299|consen 255 FCSACNGSGLFNDIICCDGCPRSFHQTCLEPPLEPENIPPGSWFCPECKIK 305 (613)
T ss_pred HHHHhCCccccccceeecCCchHHHHhhcCCCCCcccCCCCccccCCCeee
Confidence 899999876667779999999999999999994 6699999999999765
No 9
>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=99.09 E-value=2.2e-11 Score=75.97 Aligned_cols=48 Identities=44% Similarity=1.092 Sum_probs=41.5
Q ss_pred CCCcCCCCCCCCCccccCccCCcccCCCCCCCCC--CCCCCCccCccccc
Q psy11251 53 CCSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQ--TPPEGSWSCQLCLK 100 (190)
Q Consensus 53 ~C~~C~~~~~~~~ll~C~~C~~~~H~~Cl~p~l~--~~p~~~W~C~~C~~ 100 (190)
+|.+|++..+++.+|.|+.|+++||..|++|++. .++.+.|+|+.|..
T Consensus 1 ~C~vC~~~~~~~~~i~C~~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~~ 50 (51)
T PF00628_consen 1 YCPVCGQSDDDGDMIQCDSCNRWYHQECVGPPEKAEEIPSGDWYCPNCRP 50 (51)
T ss_dssp EBTTTTSSCTTSSEEEBSTTSCEEETTTSTSSHSHHSHHSSSBSSHHHHH
T ss_pred eCcCCCCcCCCCCeEEcCCCChhhCcccCCCChhhccCCCCcEECcCCcC
Confidence 4788998888899999999999999999999876 44456999999974
No 10
>KOG4299|consensus
Probab=99.01 E-value=1.4e-10 Score=103.44 Aligned_cols=89 Identities=28% Similarity=0.569 Sum_probs=68.5
Q ss_pred CCCCCCCceecCCCCCCCCCCCCCCCcccccccCCCCcccCCCC------------------------------------
Q psy11251 9 KSGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECK------------------------------------ 52 (190)
Q Consensus 9 ~~g~~~~ll~C~~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~------------------------------------ 52 (190)
++|.--++|+||+|+++||++||+||.+. +.+|.+.|+|++|+
T Consensus 261 ~~~~F~~~i~CD~Cp~sFH~~CLePPl~~-eniP~g~W~C~ec~~k~~in~~~~t~~~~~~~~~i~t~~~~~IDs~np~q 339 (613)
T KOG4299|consen 261 GSGLFNDIICCDGCPRSFHQTCLEPPLEP-ENIPPGSWFCPECKIKSVINPKMETLSNRGTVVDIFTQFVSKIDSHNPIQ 339 (613)
T ss_pred CccccccceeecCCchHHHHhhcCCCCCc-ccCCCCccccCCCeeeeecccchhhhhhccchHHHHHHHHHhhhccchhh
Confidence 33344677999999999999999987543 57889999999998
Q ss_pred ------------------------------------------------------CCCcCCCCCCCC-CccccCccCCccc
Q psy11251 53 ------------------------------------------------------CCSVCGTSDNDD-QLLFCDDCDRGYH 77 (190)
Q Consensus 53 ------------------------------------------------------~C~~C~~~~~~~-~ll~C~~C~~~~H 77 (190)
+|.-|.....+. .++-|+.|...+|
T Consensus 340 ~~lPe~i~~~~~~v~~g~~~~~sd~~~~~pl~~~~~~~d~e~~e~g~~ssg~~~~~~~c~~~~~~s~~vl~c~ye~s~~h 419 (613)
T KOG4299|consen 340 KILPENISESFGGVSRGDDGQYSDTQDEKPLDPPALILDGENDENGIDSSGTELLCGRCSKTQTESVVVLDCQYEQSPEH 419 (613)
T ss_pred hhCCHHHHhhccccccCCCCccccccCCcCCChhhhcccccCCccCCCccCcchhhcccCcchhhhhhhhccccccCCCC
Confidence 677777543333 3477999999999
Q ss_pred CCCCCCCCCCCCCC--CccCcccc
Q psy11251 78 MYCLVPPIQTPPEG--SWSCQLCL 99 (190)
Q Consensus 78 ~~Cl~p~l~~~p~~--~W~C~~C~ 99 (190)
..|. ++....|.. .|.||.=.
T Consensus 420 ~dc~-~~~~~~ps~ss~~k~p~~s 442 (613)
T KOG4299|consen 420 PDCK-DDSKALPSLSSKWKCPRVS 442 (613)
T ss_pred cccc-chhhhCCCCcccccCCCCC
Confidence 9999 555666664 67998643
No 11
>cd07630 BAR_SNX_like The Bin/Amphiphysin/Rvs (BAR) domain of uncharacterized Sorting Nexins. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. This subfamily is composed of uncharacterized proteins with similarity to sorting nexins (SNXs), which are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions.
Probab=98.92 E-value=2.7e-10 Score=90.45 Aligned_cols=68 Identities=32% Similarity=0.483 Sum_probs=64.6
Q ss_pred chHHHHHHHHhhcccccCCCCCcCccccccccccHHHHHhhhhhhhhhhhhhhHHHHHHHhhcCCCCc
Q psy11251 120 PAETLEKLRKVEGRIACDEDLKLSDTLRYYMRDSDAAKRLLYRRLRCLADYENANRNLERARTKNKDV 187 (190)
Q Consensus 120 ~se~~ek~rkle~r~a~dedlkl~d~l~~y~~~~~a~~~ll~rr~~~l~~~~~~~~~l~~~~~~~~~~ 187 (190)
.++.+++++++..+++.+++++|.+++++|.+..+|.++++++|++++..|+|++++|+||+++++|+
T Consensus 69 lse~~e~i~~~~~~~a~~d~~~Lg~~L~~Y~r~i~a~K~~l~~R~~~~~~~~~a~k~l~Kar~~k~~~ 136 (198)
T cd07630 69 LSEALEEAKENIEVVAGNNENTLGLTLDLYSRYSESEKDMLFRRTCKLIEFENASKALEKAKPQKKEQ 136 (198)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHhhHHH
Confidence 56778899999999999999999999999999999999999999999999999999999999998764
No 12
>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 KOG0825|consensus
Probab=98.85 E-value=6e-10 Score=101.36 Aligned_cols=49 Identities=39% Similarity=1.017 Sum_probs=46.1
Q ss_pred CCCcCCCCCCCCCccccCccCCc-ccCCCCCCCCCCCCCCCccCcccccc
Q psy11251 53 CCSVCGTSDNDDQLLFCDDCDRG-YHMYCLVPPIQTPPEGSWSCQLCLKE 101 (190)
Q Consensus 53 ~C~~C~~~~~~~~ll~C~~C~~~-~H~~Cl~p~l~~~p~~~W~C~~C~~~ 101 (190)
.|.+|...+..+.||+||.|+.+ ||++||+|++.++|.+.|||++|.-.
T Consensus 217 ~C~IC~~~DpEdVLLLCDsCN~~~YH~YCLDPdl~eiP~~eWYC~NC~dL 266 (1134)
T KOG0825|consen 217 KCDICTVHDPEDVLLLCDSCNKVYYHVYCLDPDLSESPVNEWYCTNCSLL 266 (1134)
T ss_pred cceeeccCChHHhheeecccccceeeccccCcccccccccceecCcchhh
Confidence 79999999888999999999999 99999999999999999999999753
No 14
>KOG0383|consensus
Probab=98.80 E-value=2.2e-09 Score=98.30 Aligned_cols=76 Identities=32% Similarity=0.839 Sum_probs=65.3
Q ss_pred CCCCCCCCCCCCCCcccccccCCCCcccCCCC-------------------CCCcCCCCCCCCCccccCccCCcccCCCC
Q psy11251 21 DCGRSGHPTCLQFTNNMKVSVKQYRWQCIECK-------------------CCSVCGTSDNDDQLLFCDDCDRGYHMYCL 81 (190)
Q Consensus 21 ~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~-------------------~C~~C~~~~~~~~ll~C~~C~~~~H~~Cl 81 (190)
.|++.||..|+++ .+.. .++++|.|+.|. .|.+|+ +++.+|+|+.|+.+||.+|+
T Consensus 1 ~~~r~~~~~~~~p--~~~~-~~~~~~k~~~~e~~~~~~~~~~~~~~~~~~e~c~ic~---~~g~~l~c~tC~~s~h~~cl 74 (696)
T KOG0383|consen 1 TCPRAYHRVCLDP--KLKE-EPEMDPKCPGCESSSAQVEAKDDDWDDAEQEACRICA---DGGELLWCDTCPASFHASCL 74 (696)
T ss_pred CCCcccCcCCCCc--cccc-CCcCCccCcchhhcccccccccCCcchhhhhhhhhhc---CCCcEEEeccccHHHHHHcc
Confidence 4899999999964 4433 338999999886 799999 58899999999999999999
Q ss_pred CCCCCCCCCCCccCccccccc
Q psy11251 82 VPPIQTPPEGSWSCQLCLKEF 102 (190)
Q Consensus 82 ~p~l~~~p~~~W~C~~C~~~~ 102 (190)
+||+...|.+.|.|+.|....
T Consensus 75 ~~pl~~~p~~~~~c~Rc~~p~ 95 (696)
T KOG0383|consen 75 GPPLTPQPNGEFICPRCFCPK 95 (696)
T ss_pred CCCCCcCCccceeeeeeccCC
Confidence 999999999889999995443
No 15
>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=98.73 E-value=1.7e-09 Score=67.30 Aligned_cols=48 Identities=25% Similarity=0.713 Sum_probs=37.1
Q ss_pred CCCccCCCCCCCCceecCCCCCCCCCCCCCCCcccccccCCCCcccCCCC
Q psy11251 3 CPTQAEKSGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECK 52 (190)
Q Consensus 3 C~~~~~~~g~~~~ll~C~~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~ 52 (190)
|..... .++.++||.|+.|+++||..|++++..... ++...|+|+.|.
T Consensus 2 C~vC~~-~~~~~~~i~C~~C~~~~H~~C~~~~~~~~~-~~~~~w~C~~C~ 49 (51)
T PF00628_consen 2 CPVCGQ-SDDDGDMIQCDSCNRWYHQECVGPPEKAEE-IPSGDWYCPNCR 49 (51)
T ss_dssp BTTTTS-SCTTSSEEEBSTTSCEEETTTSTSSHSHHS-HHSSSBSSHHHH
T ss_pred CcCCCC-cCCCCCeEEcCCCChhhCcccCCCChhhcc-CCCCcEECcCCc
Confidence 333444 778999999999999999999998765433 334599999885
No 16
>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 cd04718 BAH_plant_2 BAH, or Bromo Adjacent Homology domain, plant-specific sub-family with unknown function. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=98.47 E-value=9.8e-08 Score=71.83 Aligned_cols=31 Identities=42% Similarity=1.103 Sum_probs=27.6
Q ss_pred cccCCCCCCCCCCCCCCCccCcccccccchh
Q psy11251 75 GYHMYCLVPPIQTPPEGSWSCQLCLKEFHRK 105 (190)
Q Consensus 75 ~~H~~Cl~p~l~~~p~~~W~C~~C~~~~~~~ 105 (190)
+||++||.|||..+|+|+|+||.|.......
T Consensus 1 g~H~~CL~Ppl~~~P~g~W~Cp~C~~~~~~~ 31 (148)
T cd04718 1 GFHLCCLRPPLKEVPEGDWICPFCEVEKSGQ 31 (148)
T ss_pred CcccccCCCCCCCCCCCCcCCCCCcCCCCCC
Confidence 6999999999999999999999999765443
No 18
>KOG1973|consensus
Probab=98.29 E-value=2.6e-07 Score=76.95 Aligned_cols=39 Identities=31% Similarity=0.847 Sum_probs=35.6
Q ss_pred CCCCccccCc--cC-CcccCCCCCCCCCCCCCCCccCccccccc
Q psy11251 62 NDDQLLFCDD--CD-RGYHMYCLVPPIQTPPEGSWSCQLCLKEF 102 (190)
Q Consensus 62 ~~~~ll~C~~--C~-~~~H~~Cl~p~l~~~p~~~W~C~~C~~~~ 102 (190)
..+.|+-||. |+ .|||+.|++ |...|.|.|||+.|....
T Consensus 228 syg~Mi~CDn~~C~~eWFH~~CVG--L~~~PkgkWyC~~C~~~~ 269 (274)
T KOG1973|consen 228 SYGKMIGCDNPGCPIEWFHFTCVG--LKTKPKGKWYCPRCKAEN 269 (274)
T ss_pred ccccccccCCCCCCcceEEEeccc--cccCCCCcccchhhhhhh
Confidence 5789999997 99 999999999 999999999999998653
No 19
>KOG4323|consensus
Probab=98.25 E-value=3.5e-07 Score=80.15 Aligned_cols=85 Identities=28% Similarity=0.560 Sum_probs=63.3
Q ss_pred CCCceecCCCCCCCCCCCCCCCcccccccCCCCcccCCCC--------------------------------------CC
Q psy11251 13 PEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECK--------------------------------------CC 54 (190)
Q Consensus 13 ~~~ll~C~~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~--------------------------------------~C 54 (190)
+.++..|+.|+.+||..|--+.. ...+.|.+.+|. .|
T Consensus 97 ~~e~~~~~r~~~~~~q~~~i~~~-----~~~~~~~~~~c~~~~~~~~g~a~K~g~~a~~~l~y~~~~l~wD~~~~~n~qc 171 (464)
T KOG4323|consen 97 ENEKVICGRCKSGYHQGCNIPRF-----PSLDIGESTECVFPIFSQEGGALKKGRLARPSLPYPEASLDWDSGHKVNLQC 171 (464)
T ss_pred chhhhhhhhhccCcccccCccCc-----CcCCccccccccccccccccccccccccccccccCcccccccCcccccccee
Confidence 55788899999999999975321 113344444454 56
Q ss_pred CcCC--CCCCCCCccccCccCCcccCCCCCCCCCC----CCCCCccCccccccc
Q psy11251 55 SVCG--TSDNDDQLLFCDDCDRGYHMYCLVPPIQT----PPEGSWSCQLCLKEF 102 (190)
Q Consensus 55 ~~C~--~~~~~~~ll~C~~C~~~~H~~Cl~p~l~~----~p~~~W~C~~C~~~~ 102 (190)
.+|. .......||+|+.|..+||..|+.|++.. .+...|+|..|....
T Consensus 172 ~vC~~g~~~~~NrmlqC~~C~~~fHq~Chqp~i~~~l~~D~~~~w~C~~C~~~~ 225 (464)
T KOG4323|consen 172 SVCYCGGPGAGNRMLQCDKCRQWYHQACHQPLIKDELAGDPFYEWFCDVCNRGP 225 (464)
T ss_pred eeeecCCcCccceeeeecccccHHHHHhccCCCCHhhccCccceEeehhhccch
Confidence 6664 55566799999999999999999997754 355699999998754
No 20
>KOG0383|consensus
Probab=98.11 E-value=8.5e-07 Score=81.57 Aligned_cols=89 Identities=16% Similarity=0.202 Sum_probs=73.2
Q ss_pred CCCCCCCCceecCCCCCCCCCCCCCCCcccccccCCCCcccCCCC-----------------------------------
Q psy11251 8 EKSGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECK----------------------------------- 52 (190)
Q Consensus 8 ~~~g~~~~ll~C~~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~----------------------------------- 52 (190)
.-.+++|++|+|++|+.+||.+|++++. ...+.++|.|++|.
T Consensus 51 ~ic~~~g~~l~c~tC~~s~h~~cl~~pl---~~~p~~~~~c~Rc~~p~~~~k~~~il~~~~~~~~~~~~~~~~~~~~~~~ 127 (696)
T KOG0383|consen 51 RICADGGELLWCDTCPASFHASCLGPPL---TPQPNGEFICPRCFCPKNAGKIEKILGWRWKPTPKPREGNQGVISPRRS 127 (696)
T ss_pred hhhcCCCcEEEeccccHHHHHHccCCCC---CcCCccceeeeeeccCCCcccccccceeEecCCCCccccCcCccCCccc
Confidence 3458899999999999999999998765 34455669999997
Q ss_pred ---------------------------------------------------CCCcCCCCCCCCCccccCccCCcccCCCC
Q psy11251 53 ---------------------------------------------------CCSVCGTSDNDDQLLFCDDCDRGYHMYCL 81 (190)
Q Consensus 53 ---------------------------------------------------~C~~C~~~~~~~~ll~C~~C~~~~H~~Cl 81 (190)
.+.+|. +.+.++.++.|++.||.+++
T Consensus 128 ~~~~~re~~vk~qg~s~~~c~~~~e~~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~k~~~~a~~~~r~~~~~i 204 (696)
T KOG0383|consen 128 NGIVEREFFVKWQGLSYWHCSWKSELLLQNPLNTLPVELQRKHDTDQKPEAEIGVTR---DKGKLVPYADLEERFLLYGI 204 (696)
T ss_pred ccchhhhcccccccCCccchhHHHHHHhhhhcccchHhhhhhhhcccCccccccccc---cCccccccccchhhhhheec
Confidence 233333 46778889999999999999
Q ss_pred CCCCCCCCCCCccCccccccc
Q psy11251 82 VPPIQTPPEGSWSCQLCLKEF 102 (190)
Q Consensus 82 ~p~l~~~p~~~W~C~~C~~~~ 102 (190)
.|+...++..-|.+..+....
T Consensus 205 Kpe~~~i~rii~~~~s~~~~~ 225 (696)
T KOG0383|consen 205 KPEWMPIARIINRRSSQKGAT 225 (696)
T ss_pred cccccccchhhhhhcccccce
Confidence 999999999999999997653
No 21
>PF15446 zf-PHD-like: PHD/FYVE-zinc-finger like domain
Probab=98.06 E-value=4.8e-06 Score=63.64 Aligned_cols=82 Identities=30% Similarity=0.640 Sum_probs=59.2
Q ss_pred CCCcc--CCCCCCCCceecCCCCCCCCCCCCCCCc---ccccccCCC--CcccCCCC--------------CCCcCCCCC
Q psy11251 3 CPTQA--EKSGQPEDLVSCSDCGRSGHPTCLQFTN---NMKVSVKQY--RWQCIECK--------------CCSVCGTSD 61 (190)
Q Consensus 3 C~~~~--~~~g~~~~ll~C~~C~~~~H~~Cl~~~~---~~~~~~~~~--~W~C~~C~--------------~C~~C~~~~ 61 (190)
|..+. +...+.|.||.|-+|..+||..||++-. .++..|-.. -.+|..|. .|..|++.+
T Consensus 2 C~~C~~~g~~~~kG~Lv~CQGCs~sYHk~CLG~Rs~ReHlVTKVg~d~FVLQCr~Cig~~~kKD~~aP~~~~C~~C~~~G 81 (175)
T PF15446_consen 2 CDTCGYEGDDRNKGPLVYCQGCSSSYHKACLGPRSQREHLVTKVGDDDFVLQCRRCIGIAHKKDPRAPHHGMCQQCKKPG 81 (175)
T ss_pred cccccCCCCCccCCCeEEcCccChHHHhhhcCCccccceeeEEEcCCceEEechhhcChhhcccCCCCCCCcccccCCCC
Confidence 44443 4555679999999999999999999643 233334333 46788886 899998653
Q ss_pred C--------------------------------------CCCccccCccCCcccCCCCCCC
Q psy11251 62 N--------------------------------------DDQLLFCDDCDRGYHMYCLVPP 84 (190)
Q Consensus 62 ~--------------------------------------~~~ll~C~~C~~~~H~~Cl~p~ 84 (190)
. +..|..|..|.++||+.-|.|+
T Consensus 82 ~~c~pfr~r~T~kQEe~~ReeNgG~DPit~Vd~~lvnN~~nVLFRC~~C~RawH~~HLP~~ 142 (175)
T PF15446_consen 82 PSCKPFRPRKTPKQEEKLREENGGVDPITPVDPELVNNPDNVLFRCTSCHRAWHFEHLPPP 142 (175)
T ss_pred CCCcccCCCCCcHHHHHHHHHcCCCCCCccCCHHHccChhheEEecCCccceeehhhCCCC
Confidence 1 1235679999999999988775
No 22
>KOG0957|consensus
Probab=98.03 E-value=1.4e-06 Score=76.58 Aligned_cols=48 Identities=38% Similarity=0.964 Sum_probs=43.9
Q ss_pred CCCcCCCCCCCCCccccCccCCcccCCCCCCCCCCCCCC----CccCccccc
Q psy11251 53 CCSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQTPPEG----SWSCQLCLK 100 (190)
Q Consensus 53 ~C~~C~~~~~~~~ll~C~~C~~~~H~~Cl~p~l~~~p~~----~W~C~~C~~ 100 (190)
.|.+|+++.+...++.||.|...||+.||.|||+.+|.. .|.|..|..
T Consensus 546 sCgiCkks~dQHll~~CDtC~lhYHlGCL~PPLTR~Pkk~kn~gWqCsECdk 597 (707)
T KOG0957|consen 546 SCGICKKSTDQHLLTQCDTCHLHYHLGCLSPPLTRLPKKNKNFGWQCSECDK 597 (707)
T ss_pred eeeeeccchhhHHHhhcchhhceeeccccCCccccCcccccCcceeeccccc
Confidence 899999988888899999999999999999999999974 799999943
No 23
>KOG0955|consensus
Probab=97.90 E-value=4.9e-06 Score=79.52 Aligned_cols=51 Identities=33% Similarity=0.866 Sum_probs=44.1
Q ss_pred CCCcCCCCCCC--CCccccCccCCcccCCCCCCCCCCCCCCCccCcccccccchh
Q psy11251 53 CCSVCGTSDND--DQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLKEFHRK 105 (190)
Q Consensus 53 ~C~~C~~~~~~--~~ll~C~~C~~~~H~~Cl~p~l~~~p~~~W~C~~C~~~~~~~ 105 (190)
+|.+|..+.-. ..+|+||.|+.++|++|++ +..+|+|.|.|..|.....+.
T Consensus 221 ~C~iC~~~~~~n~n~ivfCD~Cnl~VHq~Cyg--i~~ipeg~WlCr~Cl~s~~~~ 273 (1051)
T KOG0955|consen 221 VCCICLDGECQNSNVIVFCDGCNLAVHQECYG--IPFIPEGQWLCRRCLQSPQRP 273 (1051)
T ss_pred cceeecccccCCCceEEEcCCCcchhhhhccC--CCCCCCCcEeehhhccCcCcc
Confidence 88999877644 7899999999999999999 778999999999998765444
No 24
>KOG1473|consensus
Probab=97.90 E-value=1.1e-06 Score=83.07 Aligned_cols=92 Identities=24% Similarity=0.448 Sum_probs=72.5
Q ss_pred CCCCCCCceecCCCCCCCCCCCCCCCcccccccCCCCcccCCCC------------------------------------
Q psy11251 9 KSGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECK------------------------------------ 52 (190)
Q Consensus 9 ~~g~~~~ll~C~~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~------------------------------------ 52 (190)
-.-+.+.+++|.+||+.||..|+.++. ..+++..|.|.-|.
T Consensus 349 f~~d~~~~lc~Et~prvvhlEcv~hP~---~~~~s~~~e~evc~~hkvngvvd~vl~~~K~~~~iR~~~iG~dr~gr~yw 425 (1414)
T KOG1473|consen 349 FCHDLGDLLCCETCPRVVHLECVFHPR---FAVPSAFWECEVCNIHKVNGVVDCVLPPSKNVDSIRHTPIGRDRYGRKYW 425 (1414)
T ss_pred ccCcccceeecccCCceEEeeecCCcc---ccCCCccchhhhhhhhccCcccccccChhhcccceeccCCCcCccccchh
Confidence 345789999999999999999997654 46778899999997
Q ss_pred ----CCCcCCCCCCCCCccccCc-cCCcccC-CCCCCC--CCCCCCCCccCcccccccchhc
Q psy11251 53 ----CCSVCGTSDNDDQLLFCDD-CDRGYHM-YCLVPP--IQTPPEGSWSCQLCLKEFHRKI 106 (190)
Q Consensus 53 ----~C~~C~~~~~~~~ll~C~~-C~~~~H~-~Cl~p~--l~~~p~~~W~C~~C~~~~~~~~ 106 (190)
.|.+|+ .++.+++|+. |+.+||+ .|++-. -..++++.|+|+.|........
T Consensus 426 fi~rrl~Ie~---~det~l~yysT~pqly~ll~cLd~~~~e~~L~d~i~~~~ee~~rqM~lT 484 (1414)
T KOG1473|consen 426 FISRRLRIEG---MDETLLWYYSTCPQLYHLLRCLDRTYVEMYLCDGIWERREEIIRQMGLT 484 (1414)
T ss_pred ceeeeeEEec---CCCcEEEEecCcHHHHHHHHHhchHHHHHhhccchhhhHHHHHHhccch
Confidence 344444 2567888886 9999999 999943 2457889999999987665443
No 25
>KOG0956|consensus
Probab=97.88 E-value=5.9e-06 Score=74.97 Aligned_cols=88 Identities=23% Similarity=0.658 Sum_probs=65.9
Q ss_pred CCCceecC--CCCCCCCCCCCCCCcccccccCCCCcccCCCC--------------------------------------
Q psy11251 13 PEDLVSCS--DCGRSGHPTCLQFTNNMKVSVKQYRWQCIECK-------------------------------------- 52 (190)
Q Consensus 13 ~~~ll~C~--~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~-------------------------------------- 52 (190)
...|+.|| +|..+.|..|.++ ..||.+.|||..|.
T Consensus 19 eNPLVYCDG~nCsVAVHQaCYGI-----vqVPtGpWfCrKCesqeraarvrCeLCP~kdGALKkTDn~GWAHVVCALYIP 93 (900)
T KOG0956|consen 19 ENPLVYCDGHNCSVAVHQACYGI-----VQVPTGPWFCRKCESQERAARVRCELCPHKDGALKKTDNGGWAHVVCALYIP 93 (900)
T ss_pred cCceeeecCCCceeeeehhccee-----EecCCCchhhhhhhhhhhhccceeecccCcccceecccCCCceEEEEEeecc
Confidence 35799999 5999999999987 68999999999997
Q ss_pred -------------------------CCCcCCCCCCCC-----CccccC--ccCCcccCCCCCCC-CCC-----CCCCCcc
Q psy11251 53 -------------------------CCSVCGTSDNDD-----QLLFCD--DCDRGYHMYCLVPP-IQT-----PPEGSWS 94 (190)
Q Consensus 53 -------------------------~C~~C~~~~~~~-----~ll~C~--~C~~~~H~~Cl~p~-l~~-----~p~~~W~ 94 (190)
.|++|.+.+.+. --+.|. .|.++||..|..-. |-- +-+.--|
T Consensus 94 EVrFgNV~TMEPIiLq~VP~dRfnKtCYIC~E~GrpnkA~~GACMtCNKs~CkqaFHVTCAQ~~GLLCEE~gn~~dNVKY 173 (900)
T KOG0956|consen 94 EVRFGNVHTMEPIILQDVPHDRFNKTCYICNEEGRPNKAAKGACMTCNKSGCKQAFHVTCAQRAGLLCEEEGNISDNVKY 173 (900)
T ss_pred ceeecccccccceeeccCchhhhcceeeeecccCCccccccccceecccccchhhhhhhHhhhhccceecccccccccee
Confidence 899998765443 346674 78999999997631 111 1122468
Q ss_pred Ccccccccchh
Q psy11251 95 CQLCLKEFHRK 105 (190)
Q Consensus 95 C~~C~~~~~~~ 105 (190)
|-.|..-+...
T Consensus 174 CGYCk~HfsKl 184 (900)
T KOG0956|consen 174 CGYCKYHFSKL 184 (900)
T ss_pred chhHHHHHHHh
Confidence 99998655443
No 26
>COG5034 TNG2 Chromatin remodeling protein, contains PhD zinc finger [Chromatin structure and dynamics]
Probab=97.86 E-value=6.9e-06 Score=66.56 Aligned_cols=42 Identities=33% Similarity=0.963 Sum_probs=35.4
Q ss_pred cCCCCCCCCCccccC--ccC-CcccCCCCCCCCCCCCCCCccCccccc
Q psy11251 56 VCGTSDNDDQLLFCD--DCD-RGYHMYCLVPPIQTPPEGSWSCQLCLK 100 (190)
Q Consensus 56 ~C~~~~~~~~ll~C~--~C~-~~~H~~Cl~p~l~~~p~~~W~C~~C~~ 100 (190)
.|++. .-|+||-|| .|. .|||+.|++ |.+.|+|.|||+.|..
T Consensus 225 fCqqv-SyGqMVaCDn~nCkrEWFH~~CVG--Lk~pPKG~WYC~eCk~ 269 (271)
T COG5034 225 FCQQV-SYGQMVACDNANCKREWFHLECVG--LKEPPKGKWYCPECKK 269 (271)
T ss_pred Eeccc-ccccceecCCCCCchhheeccccc--cCCCCCCcEeCHHhHh
Confidence 45543 368999999 576 599999999 9999999999999975
No 27
>COG5141 PHD zinc finger-containing protein [General function prediction only]
Probab=97.84 E-value=4.3e-06 Score=73.31 Aligned_cols=74 Identities=23% Similarity=0.648 Sum_probs=60.4
Q ss_pred CCCccCC-CCCCCCceecCCCCCCCCCCCCCCCcccccccCCCCcccCCCC-----------------------------
Q psy11251 3 CPTQAEK-SGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECK----------------------------- 52 (190)
Q Consensus 3 C~~~~~~-~g~~~~ll~C~~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~----------------------------- 52 (190)
|.++++. ..+..-++.||+|.-+.|.+|-++ .-+|+|.|+|..|.
T Consensus 196 C~~c~~t~~eN~naiVfCdgC~i~VHq~CYGI-----~f~peG~WlCrkCi~~~~~i~~C~fCps~dGaFkqT~dgrW~H 270 (669)
T COG5141 196 CTKCTSTHNENSNAIVFCDGCEICVHQSCYGI-----QFLPEGFWLCRKCIYGEYQIRCCSFCPSSDGAFKQTSDGRWGH 270 (669)
T ss_pred hHhccccccCCcceEEEecCcchhhhhhcccc-----eecCcchhhhhhhcccccceeEEEeccCCCCceeeccCCchHh
Confidence 4444433 334578999999999999999987 46889999999997
Q ss_pred ----------------------------------CCCcCCCCCCCCCccccC--ccCCcccCCCCCC
Q psy11251 53 ----------------------------------CCSVCGTSDNDDQLLFCD--DCDRGYHMYCLVP 83 (190)
Q Consensus 53 ----------------------------------~C~~C~~~~~~~~ll~C~--~C~~~~H~~Cl~p 83 (190)
.|.+|+.. +|.-+.|. .|-++||..|...
T Consensus 271 ~iCA~~~pelsF~~l~~~dpI~~i~sVs~srwkl~C~iCk~~--~GtcIqCs~~nC~~aYHVtCArr 335 (669)
T COG5141 271 VICAMFNPELSFGHLLSKDPIDNIASVSSSRWKLGCLICKEF--GGTCIQCSYFNCTRAYHVTCARR 335 (669)
T ss_pred HhHHHhcchhccccccccchhhhhcccchhhHhheeeEEccc--Ccceeeecccchhhhhhhhhhhh
Confidence 78888874 77888896 6999999999764
No 28
>KOG1245|consensus
Probab=97.73 E-value=5.5e-06 Score=81.75 Aligned_cols=51 Identities=39% Similarity=1.120 Sum_probs=47.5
Q ss_pred CCCcCCCCCCCCCccccCccCCcccCCCCCCCCCCCCCCCccCcccccccc
Q psy11251 53 CCSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLKEFH 103 (190)
Q Consensus 53 ~C~~C~~~~~~~~ll~C~~C~~~~H~~Cl~p~l~~~p~~~W~C~~C~~~~~ 103 (190)
.|.+|....+...|+.|+.|..+||++|+.|.+..+|.++|+|+.|+....
T Consensus 1110 ~c~~cr~k~~~~~m~lc~~c~~~~h~~C~rp~~~~~~~~dW~C~~c~~e~~ 1160 (1404)
T KOG1245|consen 1110 LCKVCRRKKQDEKMLLCDECLSGFHLFCLRPALSSVPPGDWMCPSCRKEHR 1160 (1404)
T ss_pred hhhhhhhcccchhhhhhHhhhhhHHHHhhhhhhccCCcCCccCCccchhhh
Confidence 789999888888999999999999999999999999999999999997663
No 29
>KOG0955|consensus
Probab=97.62 E-value=2.6e-05 Score=74.66 Aligned_cols=65 Identities=22% Similarity=0.655 Sum_probs=55.7
Q ss_pred CCCCceecCCCCCCCCCCCCCCCcccccccCCCCcccCCCC---------------------------------------
Q psy11251 12 QPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECK--------------------------------------- 52 (190)
Q Consensus 12 ~~~~ll~C~~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~--------------------------------------- 52 (190)
+...++.||+|+.++|.+|.+. .-+|++.|.|..|.
T Consensus 232 n~n~ivfCD~Cnl~VHq~Cygi-----~~ipeg~WlCr~Cl~s~~~~v~c~~cp~~~gAFkqt~dgrw~Hv~caiwipev 306 (1051)
T KOG0955|consen 232 NSNVIVFCDGCNLAVHQECYGI-----PFIPEGQWLCRRCLQSPQRPVRCLLCPSKGGAFKQTDDGRWAHVVCAIWIPEV 306 (1051)
T ss_pred CCceEEEcCCCcchhhhhccCC-----CCCCCCcEeehhhccCcCcccceEeccCCCCcceeccCCceeeeehhhccccc
Confidence 3578999999999999999985 35889999999997
Q ss_pred ------------------------CCCcCCCCCCCCCccccC--ccCCcccCCCCC
Q psy11251 53 ------------------------CCSVCGTSDNDDQLLFCD--DCDRGYHMYCLV 82 (190)
Q Consensus 53 ------------------------~C~~C~~~~~~~~ll~C~--~C~~~~H~~Cl~ 82 (190)
+|.+|+..+ .|.-+.|. .|..+||.+|-.
T Consensus 307 ~F~nt~~~E~I~~i~~i~~aRwkL~cy~cK~~~-~gaciqcs~~~c~~a~hvtca~ 361 (1051)
T KOG0955|consen 307 SFANTVFLEPIDSIENIPPARWKLTCYICKQKG-LGACIQCSKANCYTAFHVTCAR 361 (1051)
T ss_pred ccccchhhccccchhcCcHhhhhceeeeeccCC-CCcceecchhhhhhhhhhhhHh
Confidence 899999764 47778886 799999999965
No 30
>KOG0954|consensus
Probab=97.57 E-value=1.8e-05 Score=72.45 Aligned_cols=75 Identities=23% Similarity=0.711 Sum_probs=60.6
Q ss_pred CCCCcc-CCCCCCCCceecCCCCCCCCCCCCCCCcccccccCCCCcccCCCC----------------------------
Q psy11251 2 LCPTQA-EKSGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECK---------------------------- 52 (190)
Q Consensus 2 ~C~~~~-~~~g~~~~ll~C~~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~---------------------------- 52 (190)
+|..+. +.+.++.+|++||.|....|..|.++ ..+|++.|.|..|.
T Consensus 273 iCDvCrspD~e~~neMVfCd~Cn~cVHqaCyGI-----le~p~gpWlCr~Calg~~ppCvLCPkkGGamK~~~sgT~wAH 347 (893)
T KOG0954|consen 273 ICDVCRSPDSEEANEMVFCDKCNICVHQACYGI-----LEVPEGPWLCRTCALGIEPPCVLCPKKGGAMKPTKSGTKWAH 347 (893)
T ss_pred eeceecCCCccccceeEEeccchhHHHHhhhce-----eecCCCCeeehhccccCCCCeeeccccCCcccccCCCCeeeE
Confidence 455555 34566899999999999999999987 57889999999997
Q ss_pred ----------------------------------CCCcCCCCCCCCCccccC--ccCCcccCCCCCC
Q psy11251 53 ----------------------------------CCSVCGTSDNDDQLLFCD--DCDRGYHMYCLVP 83 (190)
Q Consensus 53 ----------------------------------~C~~C~~~~~~~~ll~C~--~C~~~~H~~Cl~p 83 (190)
+|.+|... .|.-|.|. .|-.+||..|...
T Consensus 348 vsCALwIPEVsie~~ekmePItkfs~IpesRwslvC~LCk~k--~GACIqCs~k~C~t~fHv~CA~~ 412 (893)
T KOG0954|consen 348 VSCALWIPEVSIECPEKMEPITKFSHIPESRWSLVCNLCKVK--SGACIQCSNKTCRTAFHVTCAFE 412 (893)
T ss_pred eeeeeccceeeccCHhhcCcccccCCCcHHHHHHHHHHhccc--CcceEEecccchhhhccchhhhh
Confidence 78888764 45556664 8999999999764
No 31
>KOG4443|consensus
Probab=97.54 E-value=3.1e-05 Score=70.11 Aligned_cols=89 Identities=25% Similarity=0.536 Sum_probs=67.3
Q ss_pred CCCCCCCCceecCCCCCCCCCCCCCCCcccccccCCCCcccCCCCCCCcCCCCCC-------------------------
Q psy11251 8 EKSGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECKCCSVCGTSDN------------------------- 62 (190)
Q Consensus 8 ~~~g~~~~ll~C~~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~~C~~C~~~~~------------------------- 62 (190)
+..||...++.|+.|..+||-+|..|+. ..++.+.|.|+.|..|..|+..-.
T Consensus 75 ~~~gD~~kf~~Ck~cDvsyh~yc~~P~~---~~v~sg~~~ckk~~~c~qc~~~lpg~s~~~~~~~~~~~~c~s~~~cPvc 151 (694)
T KOG4443|consen 75 GTTGDPKKFLLCKRCDVSYHCYCQKPPN---DKVPSGPWLCKKCTRCRQCDSTLPGLSLDLQEGYLQCAPCASLSYCPVC 151 (694)
T ss_pred cccCCcccccccccccccccccccCCcc---ccccCcccccHHHHhhhhccccccccchhhhccCcccccccccccCchH
Confidence 4789999999999999999999998754 578899999999985555543211
Q ss_pred ------CC--CccccCccCCcccCCCCCCCCCCCCC------CCccCcccccc
Q psy11251 63 ------DD--QLLFCDDCDRGYHMYCLVPPIQTPPE------GSWSCQLCLKE 101 (190)
Q Consensus 63 ------~~--~ll~C~~C~~~~H~~Cl~p~l~~~p~------~~W~C~~C~~~ 101 (190)
.+ .++.|+.|.+|-|..|-+- ..... -.+.|..|+..
T Consensus 152 ~~~Y~~~e~~~~~~c~~c~rwsh~~c~~~--sdd~~~q~~vD~~~~CS~CR~e 202 (694)
T KOG4443|consen 152 LIVYQDSESLPMVCCSICQRWSHGGCDGI--SDDKYMQAQVDLQYKCSTCRGE 202 (694)
T ss_pred HHhhhhccchhhHHHHHhcccccCCCCcc--chHHHHHHhhhhhcccceeehh
Confidence 12 3488999999999999873 22211 26889999843
No 32
>KOG0825|consensus
Probab=97.46 E-value=5.1e-05 Score=70.03 Aligned_cols=40 Identities=23% Similarity=0.565 Sum_probs=33.3
Q ss_pred CCCCCCceecCCCCCC-CCCCCCCCCcccccccCCCCcccCCCC
Q psy11251 10 SGQPEDLVSCSDCGRS-GHPTCLQFTNNMKVSVKQYRWQCIECK 52 (190)
Q Consensus 10 ~g~~~~ll~C~~C~~~-~H~~Cl~~~~~~~~~~~~~~W~C~~C~ 52 (190)
..-.+-||.||.|... ||.+||+++. ..+|-+.|||++|.
T Consensus 224 ~DpEdVLLLCDsCN~~~YH~YCLDPdl---~eiP~~eWYC~NC~ 264 (1134)
T KOG0825|consen 224 HDPEDVLLLCDSCNKVYYHVYCLDPDL---SESPVNEWYCTNCS 264 (1134)
T ss_pred CChHHhheeecccccceeeccccCccc---ccccccceecCcch
Confidence 3345679999999999 9999999865 45788999999995
No 33
>cd04718 BAH_plant_2 BAH, or Bromo Adjacent Homology domain, plant-specific sub-family with unknown function. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=97.40 E-value=9.1e-05 Score=55.90 Aligned_cols=25 Identities=28% Similarity=0.499 Sum_probs=21.7
Q ss_pred CCCCCCCCCCcccccccCCCCcccCCCC
Q psy11251 25 SGHPTCLQFTNNMKVSVKQYRWQCIECK 52 (190)
Q Consensus 25 ~~H~~Cl~~~~~~~~~~~~~~W~C~~C~ 52 (190)
.||+.||+||. ..+|+++|+||.|.
T Consensus 1 g~H~~CL~Ppl---~~~P~g~W~Cp~C~ 25 (148)
T cd04718 1 GFHLCCLRPPL---KEVPEGDWICPFCE 25 (148)
T ss_pred CcccccCCCCC---CCCCCCCcCCCCCc
Confidence 49999999876 57899999999994
No 34
>KOG0954|consensus
Probab=97.33 E-value=5.8e-05 Score=69.17 Aligned_cols=47 Identities=36% Similarity=0.945 Sum_probs=41.6
Q ss_pred CCCcCCCCC--CCCCccccCccCCcccCCCCCCCCCCCCCCCccCcccccc
Q psy11251 53 CCSVCGTSD--NDDQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLKE 101 (190)
Q Consensus 53 ~C~~C~~~~--~~~~ll~C~~C~~~~H~~Cl~p~l~~~p~~~W~C~~C~~~ 101 (190)
.|.||..++ ...+||+||.|....|+.|.+ +.++|+|.|.|..|.-.
T Consensus 273 iCDvCrspD~e~~neMVfCd~Cn~cVHqaCyG--Ile~p~gpWlCr~Calg 321 (893)
T KOG0954|consen 273 ICDVCRSPDSEEANEMVFCDKCNICVHQACYG--ILEVPEGPWLCRTCALG 321 (893)
T ss_pred eeceecCCCccccceeEEeccchhHHHHhhhc--eeecCCCCeeehhcccc
Confidence 788888764 457999999999999999999 89999999999999754
No 35
>cd07627 BAR_Vps5p The Bin/Amphiphysin/Rvs (BAR) domain of yeast Sorting Nexin Vps5p. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. Vsp5p is the yeast counterpart of human SNX1 and is part of the retromer complex, which functions in the endosome-to-Golgi retrieval of vacuolar protein sorting receptor Vps10p, the Golgi-resident membrane protein A-ALP, and endopeptidase Kex2. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in
Probab=97.33 E-value=6.2e-05 Score=60.57 Aligned_cols=63 Identities=21% Similarity=0.318 Sum_probs=57.9
Q ss_pred chHHHHHHHHhhcccccCCCCCcCccccccccccHHHHHhhhhhhhhhhhhhhHHHHHHHhhc
Q psy11251 120 PAETLEKLRKVEGRIACDEDLKLSDTLRYYMRDSDAAKRLLYRRLRCLADYENANRNLERART 182 (190)
Q Consensus 120 ~se~~ek~rkle~r~a~dedlkl~d~l~~y~~~~~a~~~ll~rr~~~l~~~~~~~~~l~~~~~ 182 (190)
.++..++...+..+.+..+.++|.+++.+|.+...|.+.++++|.+++.+|+++++.|++++.
T Consensus 67 ~a~~~~~~~~~~~~~a~~e~~~l~~~L~ey~r~~~Svk~~~~~R~~~~~~~~~~~~~L~k~~~ 129 (216)
T cd07627 67 LAEVQKRIKESLERQALQDVLTLGVTLDEYIRSIGSVRAAFAQRQKLWQYWQSAESELSKKKA 129 (216)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345667888888999999999999999999999999999999999999999999999999983
No 36
>COG5141 PHD zinc finger-containing protein [General function prediction only]
Probab=97.24 E-value=8.8e-05 Score=65.31 Aligned_cols=49 Identities=35% Similarity=0.864 Sum_probs=40.2
Q ss_pred CCCCCcCCCCC--CCCCccccCccCCcccCCCCCCCCCCCCCCCccCcccccc
Q psy11251 51 CKCCSVCGTSD--NDDQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLKE 101 (190)
Q Consensus 51 C~~C~~C~~~~--~~~~ll~C~~C~~~~H~~Cl~p~l~~~p~~~W~C~~C~~~ 101 (190)
|..|.+|..+. +.+.+++||+|+-+.|..|.+ +..+|+|.|+|..|.-.
T Consensus 193 d~~C~~c~~t~~eN~naiVfCdgC~i~VHq~CYG--I~f~peG~WlCrkCi~~ 243 (669)
T COG5141 193 DDICTKCTSTHNENSNAIVFCDGCEICVHQSCYG--IQFLPEGFWLCRKCIYG 243 (669)
T ss_pred hhhhHhccccccCCcceEEEecCcchhhhhhccc--ceecCcchhhhhhhccc
Confidence 44566776654 346789999999999999999 78999999999999643
No 37
>PF13831 PHD_2: PHD-finger; PDB: 2L43_A 2KU3_A.
Probab=97.13 E-value=3.3e-05 Score=44.55 Aligned_cols=34 Identities=38% Similarity=1.054 Sum_probs=19.9
Q ss_pred CCccccCccCCcccCCCCCCCCCCCCCC-CccCcccc
Q psy11251 64 DQLLFCDDCDRGYHMYCLVPPIQTPPEG-SWSCQLCL 99 (190)
Q Consensus 64 ~~ll~C~~C~~~~H~~Cl~p~l~~~p~~-~W~C~~C~ 99 (190)
+.||.|+.|.-..|..|.+ +..+|.+ +|+|..|.
T Consensus 2 n~ll~C~~C~v~VH~~CYG--v~~~~~~~~W~C~~C~ 36 (36)
T PF13831_consen 2 NPLLFCDNCNVAVHQSCYG--VSEVPDGDDWLCDRCE 36 (36)
T ss_dssp CEEEE-SSS--EEEHHHHT---SS--SS-----HHH-
T ss_pred CceEEeCCCCCcCChhhCC--cccCCCCCcEECCcCC
Confidence 5689999999999999999 6666666 89998773
No 38
>cd07623 BAR_SNX1_2 The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexins 1 and 2. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. This subfamily consists of SNX1, SNX2, and similar proteins. SNX1 and SNX2 are components of the retromer complex, a membrane coat multimeric complex required for endosomal retrieval of lysosomal hydrolase receptors to the Golgi. The retromer consists of a cargo-recognition subcomplex and a subcomplex formed by a dimer of sorting nexins (SNX1 and/or SNX2), wh
Probab=97.04 E-value=0.0002 Score=57.94 Aligned_cols=64 Identities=25% Similarity=0.372 Sum_probs=59.0
Q ss_pred chHHHHHHHHhhcccccCCCCCcCccccccccccHHHHHhhhhhhhhhhhhhhHHHHHHHhhcC
Q psy11251 120 PAETLEKLRKVEGRIACDEDLKLSDTLRYYMRDSDAAKRLLYRRLRCLADYENANRNLERARTK 183 (190)
Q Consensus 120 ~se~~ek~rkle~r~a~dedlkl~d~l~~y~~~~~a~~~ll~rr~~~l~~~~~~~~~l~~~~~~ 183 (190)
.++..++++.+..+.+..+.+++.+++.+|.+..+|.++.+++|.+++..|.+++++|.+.|.+
T Consensus 75 la~~~~ki~~~~~~qa~~d~~~l~e~L~eY~r~i~svk~~f~~R~~a~~~~q~a~~~l~kkr~~ 138 (224)
T cd07623 75 LAEVEEKIEQLHGEQADTDFYILAELLKDYIGLIGAIKDVFHERVKVWQNWQNAQQTLTKKREA 138 (224)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3456678888899999999999999999999999999999999999999999999999999885
No 39
>KOG1512|consensus
Probab=96.93 E-value=0.00048 Score=56.99 Aligned_cols=37 Identities=19% Similarity=0.471 Sum_probs=31.1
Q ss_pred CCCCCCCCceecCCCCCCCCCCCCCCCcccccccCCCCcccC
Q psy11251 8 EKSGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCI 49 (190)
Q Consensus 8 ~~~g~~~~ll~C~~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~ 49 (190)
++.--.+++++||.|.+.||..|++. ..+|.|.|.|.
T Consensus 321 ~~P~~E~E~~FCD~CDRG~HT~CVGL-----~~lP~G~WICD 357 (381)
T KOG1512|consen 321 LGPVIESEHLFCDVCDRGPHTLCVGL-----QDLPRGEWICD 357 (381)
T ss_pred CCcccchheeccccccCCCCcccccc-----ccccCccchhh
Confidence 33445689999999999999999987 57889999875
No 40
>KOG0957|consensus
Probab=96.86 E-value=0.00038 Score=61.55 Aligned_cols=45 Identities=31% Similarity=0.617 Sum_probs=34.7
Q ss_pred CCCCCCCCceecCCCCCCCCCCCCCCCcc-cccccCCCCcccCCCC
Q psy11251 8 EKSGQPEDLVSCSDCGRSGHPTCLQFTNN-MKVSVKQYRWQCIECK 52 (190)
Q Consensus 8 ~~~g~~~~ll~C~~C~~~~H~~Cl~~~~~-~~~~~~~~~W~C~~C~ 52 (190)
.++.|.--|+.||+|...||+-||+||.. +....+.+.|+|.+|+
T Consensus 551 kks~dQHll~~CDtC~lhYHlGCL~PPLTR~Pkk~kn~gWqCsECd 596 (707)
T KOG0957|consen 551 KKSTDQHLLTQCDTCHLHYHLGCLSPPLTRLPKKNKNFGWQCSECD 596 (707)
T ss_pred ccchhhHHHhhcchhhceeeccccCCccccCcccccCcceeecccc
Confidence 34457888999999999999999997752 2334446689999984
No 41
>cd07664 BAR_SNX2 The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexin 2. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. SNX2 is a component of the retromer complex, a membrane coat multimeric complex required for endosomal retrieval of lysosomal hydrolase receptors to the Golgi. The retromer consists of a cargo-recognition subcomplex and a subcomplex formed by a dimer of sorting nexins (SNX1 and/or SNX2), which ensures effcient cargo sorting by facilitating proper membrane localization
Probab=96.75 E-value=0.00065 Score=55.37 Aligned_cols=64 Identities=25% Similarity=0.382 Sum_probs=58.8
Q ss_pred chHHHHHHHHhhcccccCCCCCcCccccccccccHHHHHhhhhhhhhhhhhhhHHHHHHHhhcC
Q psy11251 120 PAETLEKLRKVEGRIACDEDLKLSDTLRYYMRDSDAAKRLLYRRLRCLADYENANRNLERARTK 183 (190)
Q Consensus 120 ~se~~ek~rkle~r~a~dedlkl~d~l~~y~~~~~a~~~ll~rr~~~l~~~~~~~~~l~~~~~~ 183 (190)
.++..++++.+..+.+..+.+++..++.+|.+..+|.+..+++|++++..|.++++.|.+.+.+
T Consensus 85 laev~~ki~~~~~~qa~~d~~~l~e~L~eYiR~i~svK~~f~~R~k~~~~~~~a~~~L~kkr~~ 148 (234)
T cd07664 85 LAEVEEKIDQLHQDQAFADFYLFSELLGDYIRLIAAVKGVFDQRMKCWQKWQDAQVTLQKKREA 148 (234)
T ss_pred HHHHHHHHHHHHHHHHHHhHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3556678888889999999999999999999999999999999999999999999999998865
No 42
>KOG0956|consensus
Probab=96.65 E-value=0.00062 Score=62.24 Aligned_cols=45 Identities=33% Similarity=0.942 Sum_probs=36.8
Q ss_pred CCcCCCCC--CCCCccccC--ccCCcccCCCCCCCCCCCCCCCccCccccc
Q psy11251 54 CSVCGTSD--NDDQLLFCD--DCDRGYHMYCLVPPIQTPPEGSWSCQLCLK 100 (190)
Q Consensus 54 C~~C~~~~--~~~~ll~C~--~C~~~~H~~Cl~p~l~~~p~~~W~C~~C~~ 100 (190)
|-||-.-. .+..||.|| .|..+.|+.|++ +..+|.|+|||..|..
T Consensus 8 CCVCSDErGWaeNPLVYCDG~nCsVAVHQaCYG--IvqVPtGpWfCrKCes 56 (900)
T KOG0956|consen 8 CCVCSDERGWAENPLVYCDGHNCSVAVHQACYG--IVQVPTGPWFCRKCES 56 (900)
T ss_pred eeeecCcCCCccCceeeecCCCceeeeehhcce--eEecCCCchhhhhhhh
Confidence 45664221 356899998 699999999999 8999999999999964
No 43
>PF13831 PHD_2: PHD-finger; PDB: 2L43_A 2KU3_A.
Probab=96.62 E-value=9.4e-05 Score=42.64 Aligned_cols=33 Identities=27% Similarity=0.778 Sum_probs=18.3
Q ss_pred CCceecCCCCCCCCCCCCCCCcccccccCCC-CcccCCC
Q psy11251 14 EDLVSCSDCGRSGHPTCLQFTNNMKVSVKQY-RWQCIEC 51 (190)
Q Consensus 14 ~~ll~C~~C~~~~H~~Cl~~~~~~~~~~~~~-~W~C~~C 51 (190)
..||.|++|....|..|-+... ++.+ .|+|..|
T Consensus 2 n~ll~C~~C~v~VH~~CYGv~~-----~~~~~~W~C~~C 35 (36)
T PF13831_consen 2 NPLLFCDNCNVAVHQSCYGVSE-----VPDGDDWLCDRC 35 (36)
T ss_dssp CEEEE-SSS--EEEHHHHT-SS-------SS-----HHH
T ss_pred CceEEeCCCCCcCChhhCCccc-----CCCCCcEECCcC
Confidence 4799999999999999998743 3333 6998776
No 44
>KOG4323|consensus
Probab=96.15 E-value=0.0016 Score=57.57 Aligned_cols=45 Identities=22% Similarity=0.488 Sum_probs=34.1
Q ss_pred CCCCCCCCceecCCCCCCCCCCCCCCCcc-cccccCCCCcccCCCC
Q psy11251 8 EKSGQPEDLVSCSDCGRSGHPTCLQFTNN-MKVSVKQYRWQCIECK 52 (190)
Q Consensus 8 ~~~g~~~~ll~C~~C~~~~H~~Cl~~~~~-~~~~~~~~~W~C~~C~ 52 (190)
+..|.+..||.|+.|..+||..|..+... +...-+.+.|+|..|.
T Consensus 177 g~~~~~NrmlqC~~C~~~fHq~Chqp~i~~~l~~D~~~~w~C~~C~ 222 (464)
T KOG4323|consen 177 GGPGAGNRMLQCDKCRQWYHQACHQPLIKDELAGDPFYEWFCDVCN 222 (464)
T ss_pred CCcCccceeeeecccccHHHHHhccCCCCHhhccCccceEeehhhc
Confidence 56677779999999999999999986532 2233468899776663
No 45
>KOG1245|consensus
Probab=95.83 E-value=0.0017 Score=64.64 Aligned_cols=47 Identities=32% Similarity=0.634 Sum_probs=37.7
Q ss_pred CCCCccCCCCCCCCceecCCCCCCCCCCCCCCCcccccccCCCCcccCCCC
Q psy11251 2 LCPTQAEKSGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECK 52 (190)
Q Consensus 2 ~C~~~~~~~g~~~~ll~C~~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~ 52 (190)
+|..+..+. +.+.|+.|+.|...||..|+.+.. ..++.++|+|+.|+
T Consensus 1110 ~c~~cr~k~-~~~~m~lc~~c~~~~h~~C~rp~~---~~~~~~dW~C~~c~ 1156 (1404)
T KOG1245|consen 1110 LCKVCRRKK-QDEKMLLCDECLSGFHLFCLRPAL---SSVPPGDWMCPSCR 1156 (1404)
T ss_pred hhhhhhhcc-cchhhhhhHhhhhhHHHHhhhhhh---ccCCcCCccCCccc
Confidence 355544444 558999999999999999997644 56789999999997
No 46
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=94.67 E-value=0.02 Score=35.88 Aligned_cols=31 Identities=32% Similarity=0.791 Sum_probs=27.6
Q ss_pred CCCCccCCCCCCCCceecCCCCCCCCCCCCC
Q psy11251 2 LCPTQAEKSGQPEDLVSCSDCGRSGHPTCLQ 32 (190)
Q Consensus 2 ~C~~~~~~~g~~~~ll~C~~C~~~~H~~Cl~ 32 (190)
.|..+.....++++++.|..|+..||..|-.
T Consensus 7 ~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~ 37 (54)
T PF14446_consen 7 KCPVCGKKFKDGDDIVVCPECGAPYHRDCWE 37 (54)
T ss_pred cChhhCCcccCCCCEEECCCCCCcccHHHHh
Confidence 4777788888899999999999999999974
No 47
>PF15446 zf-PHD-like: PHD/FYVE-zinc-finger like domain
Probab=94.65 E-value=0.016 Score=44.60 Aligned_cols=50 Identities=28% Similarity=0.769 Sum_probs=34.0
Q ss_pred CCCcC---CCCCCCCCccccCccCCcccCCCCCCCC------CCCCCCC--ccCccccccc
Q psy11251 53 CCSVC---GTSDNDDQLLFCDDCDRGYHMYCLVPPI------QTPPEGS--WSCQLCLKEF 102 (190)
Q Consensus 53 ~C~~C---~~~~~~~~ll~C~~C~~~~H~~Cl~p~l------~~~p~~~--W~C~~C~~~~ 102 (190)
+|.+| +...+-|.||.|.+|..+||..||++-. +.+-.+. -.|..|....
T Consensus 1 ~C~~C~~~g~~~~kG~Lv~CQGCs~sYHk~CLG~Rs~ReHlVTKVg~d~FVLQCr~Cig~~ 61 (175)
T PF15446_consen 1 TCDTCGYEGDDRNKGPLVYCQGCSSSYHKACLGPRSQREHLVTKVGDDDFVLQCRRCIGIA 61 (175)
T ss_pred CcccccCCCCCccCCCeEEcCccChHHHhhhcCCccccceeeEEEcCCceEEechhhcChh
Confidence 35666 4444568999999999999999999843 2233332 3577776543
No 48
>KOG1473|consensus
Probab=94.64 E-value=0.018 Score=55.68 Aligned_cols=45 Identities=31% Similarity=0.837 Sum_probs=41.3
Q ss_pred CCCcCCCCCCCCCccccCccCCcccCCCCCCCCCCCCCCCccCccccc
Q psy11251 53 CCSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLK 100 (190)
Q Consensus 53 ~C~~C~~~~~~~~ll~C~~C~~~~H~~Cl~p~l~~~p~~~W~C~~C~~ 100 (190)
.|.+|. +.+.+++|..|++.||+.|+.||+.+.|+..|.|--|..
T Consensus 346 hcrf~~---d~~~~lc~Et~prvvhlEcv~hP~~~~~s~~~e~evc~~ 390 (1414)
T KOG1473|consen 346 HCRFCH---DLGDLLCCETCPRVVHLECVFHPRFAVPSAFWECEVCNI 390 (1414)
T ss_pred cccccC---cccceeecccCCceEEeeecCCccccCCCccchhhhhhh
Confidence 677888 588999999999999999999999999999999999874
No 49
>PF09325 Vps5: Vps5 C terminal like; InterPro: IPR015404 Vps5 is a sorting nexin that functions in membrane trafficking. This is the C-terminal dimerisation domain [].
Probab=94.23 E-value=0.021 Score=45.89 Aligned_cols=63 Identities=32% Similarity=0.519 Sum_probs=54.9
Q ss_pred hHHHHHHHHhhcccccCCCCCcCccccccccccHHHHHhhhhhhhhhhhhhhHHHHHHHhhcC
Q psy11251 121 AETLEKLRKVEGRIACDEDLKLSDTLRYYMRDSDAAKRLLYRRLRCLADYENANRNLERARTK 183 (190)
Q Consensus 121 se~~ek~rkle~r~a~dedlkl~d~l~~y~~~~~a~~~ll~rr~~~l~~~~~~~~~l~~~~~~ 183 (190)
++.+++...+....+..+..++.+.+.+|.+..+|.+..|.+|.+.+..|+++++.|++.+..
T Consensus 88 ~~~~~~~~~~~~~~a~~~~~~l~~~L~ey~~~~~svk~~l~~R~~~~~~~~~a~~~l~kkk~~ 150 (236)
T PF09325_consen 88 AEAFEKISELLEEQANQEEETLGEPLREYLRYIESVKEALNRRDKKLIEYQNAEKELQKKKAQ 150 (236)
T ss_pred HHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344556666777778888899999999999999999999999999999999999999998764
No 50
>KOG1246|consensus
Probab=94.17 E-value=0.15 Score=49.29 Aligned_cols=49 Identities=41% Similarity=1.168 Sum_probs=42.1
Q ss_pred CCCcCCCCCCCCCccccCccCCcccCCCCCCCCCCCCCCCccCccccccc
Q psy11251 53 CCSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLKEF 102 (190)
Q Consensus 53 ~C~~C~~~~~~~~ll~C~~C~~~~H~~Cl~p~l~~~p~~~W~C~~C~~~~ 102 (190)
.|..|.+.... .++.|+.|...||.+|..|+++.++++.|.|+.|....
T Consensus 157 ~~~~~~k~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 205 (904)
T KOG1246|consen 157 QCNTCSKGKEE-KLLLCDSCDDSYHTYCLRPPLTRVPDGDWRCPKCIPTP 205 (904)
T ss_pred hhhccccCCCc-cceecccccCcccccccCCCCCcCCcCcccCCcccccc
Confidence 67778776555 44499999999999999999999999999999998763
No 51
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=93.67 E-value=0.027 Score=35.28 Aligned_cols=31 Identities=32% Similarity=0.838 Sum_probs=26.7
Q ss_pred CCCcCCCCCC-CCCccccCccCCcccCCCCCC
Q psy11251 53 CCSVCGTSDN-DDQLLFCDDCDRGYHMYCLVP 83 (190)
Q Consensus 53 ~C~~C~~~~~-~~~ll~C~~C~~~~H~~Cl~p 83 (190)
.|.+|++.-. ++++|.|..|...||-.|+..
T Consensus 7 ~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~ 38 (54)
T PF14446_consen 7 KCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK 38 (54)
T ss_pred cChhhCCcccCCCCEEECCCCCCcccHHHHhh
Confidence 5888987763 789999999999999999864
No 52
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=91.99 E-value=0.099 Score=37.21 Aligned_cols=62 Identities=23% Similarity=0.504 Sum_probs=41.4
Q ss_pred CCceecCCCCCCCCCCCCCCCcccc------------cccCCCCcccCCCCCCCcCCCCCCCCCccccCc--cCCcccCC
Q psy11251 14 EDLVSCSDCGRSGHPTCLQFTNNMK------------VSVKQYRWQCIECKCCSVCGTSDNDDQLLFCDD--CDRGYHMY 79 (190)
Q Consensus 14 ~~ll~C~~C~~~~H~~Cl~~~~~~~------------~~~~~~~W~C~~C~~C~~C~~~~~~~~ll~C~~--C~~~~H~~ 79 (190)
|-|. -..-+.+.|..|.-..+++. ..++...|. ..|.+|++. .|..+.|.. |...||..
T Consensus 11 Galk-~t~~~~WvHv~Cal~~~~~~~~~~~~~~~v~~~~i~~~~~~----~~C~iC~~~--~G~~i~C~~~~C~~~fH~~ 83 (110)
T PF13832_consen 11 GALK-RTSDGQWVHVLCALWIPEVIFNNGESMEPVDISNIPPSRFK----LKCSICGKS--GGACIKCSHPGCSTAFHPT 83 (110)
T ss_pred Cccc-CccCCcEEEeEccceeCccEEeechhcCcccceeecchhcC----CcCcCCCCC--CceeEEcCCCCCCcCCCHH
Confidence 3344 34458999999986443321 122222222 378888875 678999987 99999999
Q ss_pred CCC
Q psy11251 80 CLV 82 (190)
Q Consensus 80 Cl~ 82 (190)
|..
T Consensus 84 CA~ 86 (110)
T PF13832_consen 84 CAR 86 (110)
T ss_pred HHH
Confidence 975
No 53
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=90.41 E-value=0.15 Score=40.57 Aligned_cols=47 Identities=28% Similarity=0.763 Sum_probs=35.4
Q ss_pred ccCCCC----CCCcCCCCC-----CCCCccccCccCCcccCCCCCCCCCCCCCCCccCccccccc
Q psy11251 47 QCIECK----CCSVCGTSD-----NDDQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLKEF 102 (190)
Q Consensus 47 ~C~~C~----~C~~C~~~~-----~~~~ll~C~~C~~~~H~~Cl~p~l~~~p~~~W~C~~C~~~~ 102 (190)
.|+-|. +|++|+..+ +.+....|..|...||..|... =.||.|....
T Consensus 144 ~C~lC~~kGfiCe~C~~~~~IfPF~~~~~~~C~~C~~v~H~~C~~~---------~~CpkC~R~~ 199 (202)
T PF13901_consen 144 SCELCQQKGFICEICNSDDIIFPFQIDTTVRCPKCKSVFHKSCFRK---------KSCPKCARRQ 199 (202)
T ss_pred HhHHHHhCCCCCccCCCCCCCCCCCCCCeeeCCcCccccchhhcCC---------CCCCCcHhHh
Confidence 466665 899998653 2346789999999999999982 1399997653
No 54
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=88.20 E-value=0.13 Score=33.93 Aligned_cols=38 Identities=24% Similarity=0.295 Sum_probs=14.8
Q ss_pred CceecC--CCCCCCCCCCCCCCccccccc----CCCCcccCCCC
Q psy11251 15 DLVSCS--DCGRSGHPTCLQFTNNMKVSV----KQYRWQCIECK 52 (190)
Q Consensus 15 ~ll~C~--~C~~~~H~~Cl~~~~~~~~~~----~~~~W~C~~C~ 52 (190)
..+.|+ .|+..||..||.-+....... -.-.+.||.|+
T Consensus 19 p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~ 62 (70)
T PF11793_consen 19 PDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCS 62 (70)
T ss_dssp --B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-
T ss_pred CceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCC
Confidence 458898 899999999997443221111 12245687774
No 55
>PF10497 zf-4CXXC_R1: Zinc-finger domain of monoamine-oxidase A repressor R1; InterPro: IPR018866 R1 is a transcription factor repressor that inhibits monoamine oxidase A gene expression. This domain is a four-CXXC zinc finger putative DNA-binding domain found at the C-terminal end of R1. The domain carries 12 cysteines of which four pairs are of the CXXC type [].
Probab=88.14 E-value=0.29 Score=34.92 Aligned_cols=57 Identities=25% Similarity=0.578 Sum_probs=36.1
Q ss_pred CCCCccCCCCCCCCceec------CCC---CCCCCCCCCCCC--cccccccCCCCcccCCCC---CCCcCCCC
Q psy11251 2 LCPTQAEKSGQPEDLVSC------SDC---GRSGHPTCLQFT--NNMKVSVKQYRWQCIECK---CCSVCGTS 60 (190)
Q Consensus 2 ~C~~~~~~~g~~~~ll~C------~~C---~~~~H~~Cl~~~--~~~~~~~~~~~W~C~~C~---~C~~C~~~ 60 (190)
+||-+..++- +..+.| ..| ...|=..||... .++.+......|.||.|+ .|..|.+.
T Consensus 9 ~CHqCrqKt~--~~~~~C~~~~~~~~C~~~~~~fC~~CL~~ryge~~~ev~~~~~W~CP~CrgiCnCs~Crrk 79 (105)
T PF10497_consen 9 TCHQCRQKTL--DFKTICTGHWKNSSCRGCRGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRGICNCSFCRRK 79 (105)
T ss_pred CchhhcCCCC--CCceEcCCCCCCCCCccCcceehHhHHHHHHhhhHHHHhcCCceECCCCCCeeCCHhhhcc
Confidence 4555555552 344556 566 888888887632 223344457799999998 67777654
No 56
>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=88.11 E-value=0.11 Score=28.37 Aligned_cols=28 Identities=29% Similarity=0.759 Sum_probs=11.9
Q ss_pred CCCcCCCCCCCCCccccCccCCcccCCC
Q psy11251 53 CCSVCGTSDNDDQLLFCDDCDRGYHMYC 80 (190)
Q Consensus 53 ~C~~C~~~~~~~~ll~C~~C~~~~H~~C 80 (190)
.|.+|++...++..-.|..|+-..|..|
T Consensus 2 ~C~~C~~~~~~~~~Y~C~~Cdf~lH~~C 29 (30)
T PF07649_consen 2 RCDACGKPIDGGWFYRCSECDFDLHEEC 29 (30)
T ss_dssp --TTTS----S--EEE-TTT-----HHH
T ss_pred cCCcCCCcCCCCceEECccCCCccChhc
Confidence 5788998766667888999999999876
No 57
>cd07596 BAR_SNX The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexins. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions.
Probab=84.82 E-value=0.38 Score=37.73 Aligned_cols=60 Identities=25% Similarity=0.341 Sum_probs=49.8
Q ss_pred HHHHHHHhhcccccCCCCCcCccccccccccHHHHHhhhhhhhhhhhhhhHHHHHHHhhc
Q psy11251 123 TLEKLRKVEGRIACDEDLKLSDTLRYYMRDSDAAKRLLYRRLRCLADYENANRNLERART 182 (190)
Q Consensus 123 ~~ek~rkle~r~a~dedlkl~d~l~~y~~~~~a~~~ll~rr~~~l~~~~~~~~~l~~~~~ 182 (190)
.+.....+....+..++.++.+.+.+|.+...+.+.++.+|.+.+.+|+++.+.|.+.+.
T Consensus 72 ~~~~~~~~~~~~~~~~~~~~~e~L~~y~~~~~s~k~~l~~R~~~~~~~~~~~~~l~~k~~ 131 (218)
T cd07596 72 AAEELSSLSEAQANQELVKLLEPLKEYLRYCQAVKETLDDRADALLTLQSLKKDLASKKA 131 (218)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334445555566666778899999999999999999999999999999999999988764
No 58
>PF00641 zf-RanBP: Zn-finger in Ran binding protein and others; InterPro: IPR001876 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 zinc finger domain found in RanBP2 proteins. Ran is an evolutionary conserved member of the Ras superfamily that regulates all receptor-mediated transport between the nucleus and the cytoplasm. Ran binding protein 2 (RanBP2) is a 358kDa nucleoporin located on the cytoplasmic side of the nuclear pore complex which plays a role in nuclear protein import []. RanBP2 contains multiple zinc fingers which mediate binding to RanGDP []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9G_A 2EBR_A 2WX0_C 2WX1_C 2WWZ_C 3GJ6_B 2LK0_A 2LK1_A 3GJ5_B 3GJ8_B ....
Probab=84.70 E-value=0.53 Score=25.49 Aligned_cols=17 Identities=35% Similarity=1.181 Sum_probs=10.9
Q ss_pred CCCcccCCCC--------CCCcCCC
Q psy11251 43 QYRWQCIECK--------CCSVCGT 59 (190)
Q Consensus 43 ~~~W~C~~C~--------~C~~C~~ 59 (190)
.+.|.|+.|. .|..|+.
T Consensus 2 ~g~W~C~~C~~~N~~~~~~C~~C~~ 26 (30)
T PF00641_consen 2 EGDWKCPSCTFMNPASRSKCVACGA 26 (30)
T ss_dssp SSSEEETTTTEEEESSSSB-TTT--
T ss_pred CcCccCCCCcCCchHHhhhhhCcCC
Confidence 5789998886 5666653
No 59
>KOG1952|consensus
Probab=81.22 E-value=0.57 Score=44.50 Aligned_cols=40 Identities=23% Similarity=0.503 Sum_probs=32.1
Q ss_pred CCCceecCCCCCCCCCCCCCCCcccccccCCCCcccCCCC
Q psy11251 13 PEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECK 52 (190)
Q Consensus 13 ~~~ll~C~~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~ 52 (190)
...+-.|.+|-..||+.|+.-+....+......|.||.|.
T Consensus 204 t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cq 243 (950)
T KOG1952|consen 204 TAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQ 243 (950)
T ss_pred cCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCccc
Confidence 3567789999999999999877655454445789999997
No 60
>PF07227 DUF1423: Protein of unknown function (DUF1423); InterPro: IPR004082 A total of 715 potential protein-coding genes have been identified in the nucleotide sequence of Arabidopsis thaliana chromosome 5, with an average gene density of 1 gene per 4001 bp []. Amongst the gene products is a well-conserved family of 130.7kDa proteins that share no sequence similarity with any other known proteins, other than in plants. The sequences are characterised by an N-terminal domain of variable length, a central cysteine-rich region and a relatively acidic C-terminal domain. The sequences may possess a PHD finger.
Probab=80.57 E-value=1.2 Score=39.47 Aligned_cols=56 Identities=23% Similarity=0.612 Sum_probs=40.3
Q ss_pred CcccCCCCCCCcCCCCCCC---CCccccCccCCcccCCCCCCC--------CCC---CCCCCccCcccccc
Q psy11251 45 RWQCIECKCCSVCGTSDND---DQLLFCDDCDRGYHMYCLVPP--------IQT---PPEGSWSCQLCLKE 101 (190)
Q Consensus 45 ~W~C~~C~~C~~C~~~~~~---~~ll~C~~C~~~~H~~Cl~p~--------l~~---~p~~~W~C~~C~~~ 101 (190)
+=||..| .|.+|.+.+.. -.-|.||.|+-+-|+.|-.-. ... ..++.++|..|-..
T Consensus 123 ~gFC~~C-~C~iC~kfD~~~n~~~Wi~Cd~CgH~cH~dCALr~~~i~~G~s~~g~~g~~d~~f~C~~C~~~ 192 (446)
T PF07227_consen 123 PGFCRRC-MCCICSKFDDNKNTCSWIGCDVCGHWCHLDCALRHELIGTGPSVKGSIGTLDMQFHCRACGKT 192 (446)
T ss_pred CCccccC-CccccCCcccCCCCeeEEeccCCCceehhhhhcccccccCCccCCCCCccCceEEEccCCCCh
Confidence 4589999 89999987532 344889999999999996431 111 12358999999754
No 61
>KOG1701|consensus
Probab=79.66 E-value=1.3 Score=39.04 Aligned_cols=62 Identities=26% Similarity=0.475 Sum_probs=37.7
Q ss_pred CCCCCCCCCCCC-------CCcccccccCCCCcccCCCC------CCCcCCCCC---CC-CCccccCccCCcccCCCCC
Q psy11251 21 DCGRSGHPTCLQ-------FTNNMKVSVKQYRWQCIECK------CCSVCGTSD---ND-DQLLFCDDCDRGYHMYCLV 82 (190)
Q Consensus 21 ~C~~~~H~~Cl~-------~~~~~~~~~~~~~W~C~~C~------~C~~C~~~~---~~-~~ll~C~~C~~~~H~~Cl~ 82 (190)
.++++||+.|.. ++......-..+.-+|..+- .|.+|++.+ ++ ++.+.-..=|+-||..|..
T Consensus 351 A~GkayHp~CF~Cv~C~r~ldgipFtvd~~n~v~Cv~dfh~kfAPrCs~C~~PI~P~~G~~etvRvvamdr~fHv~CY~ 429 (468)
T KOG1701|consen 351 ALGKAYHPGCFTCVVCARCLDGIPFTVDSQNNVYCVPDFHKKFAPRCSVCGNPILPRDGKDETVRVVAMDRDFHVNCYK 429 (468)
T ss_pred hcccccCCCceEEEEeccccCCccccccCCCceeeehhhhhhcCcchhhccCCccCCCCCcceEEEEEcccccccccee
Confidence 356899998743 00000111225567887774 799998764 22 2345555668999999864
No 62
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=77.96 E-value=1.1 Score=29.47 Aligned_cols=50 Identities=20% Similarity=0.467 Sum_probs=19.6
Q ss_pred CCCcCCCCCC-CC--CccccC--ccCCcccCCCCCCCCCC-------CCCCCccCccccccc
Q psy11251 53 CCSVCGTSDN-DD--QLLFCD--DCDRGYHMYCLVPPIQT-------PPEGSWSCQLCLKEF 102 (190)
Q Consensus 53 ~C~~C~~~~~-~~--~ll~C~--~C~~~~H~~Cl~p~l~~-------~p~~~W~C~~C~~~~ 102 (190)
.|.+|..... .+ ..+.|+ .|...||..||.--+.. ...-.+.||.|..+.
T Consensus 4 ~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i 65 (70)
T PF11793_consen 4 ECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPI 65 (70)
T ss_dssp S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEE
T ss_pred CCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCee
Confidence 4677765432 22 458898 99999999999631111 111246799998654
No 63
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=77.30 E-value=1.2 Score=31.52 Aligned_cols=21 Identities=33% Similarity=0.719 Sum_probs=18.6
Q ss_pred CCCceecCC--CCCCCCCCCCCC
Q psy11251 13 PEDLVSCSD--CGRSGHPTCLQF 33 (190)
Q Consensus 13 ~~~ll~C~~--C~~~~H~~Cl~~ 33 (190)
.|-.+.|.. |..+||+.|...
T Consensus 65 ~G~~i~C~~~~C~~~fH~~CA~~ 87 (110)
T PF13832_consen 65 GGACIKCSHPGCSTAFHPTCARK 87 (110)
T ss_pred CceeEEcCCCCCCcCCCHHHHHH
Confidence 678999997 999999999864
No 64
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=76.95 E-value=0.57 Score=32.15 Aligned_cols=48 Identities=25% Similarity=0.746 Sum_probs=31.4
Q ss_pred CCCcCCCCCCCCCccccCccCCcccCCCCCCCCCCCCCCCccCccccccc
Q psy11251 53 CCSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLKEF 102 (190)
Q Consensus 53 ~C~~C~~~~~~~~ll~C~~C~~~~H~~Cl~p~l~~~p~~~W~C~~C~~~~ 102 (190)
.|..|..++++-.++.. .|.-.||+.|+..-+.+. ...=.||-|+...
T Consensus 34 ~Cp~Ck~Pgd~Cplv~g-~C~H~FH~hCI~kWl~~~-~~~~~CPmCR~~w 81 (85)
T PF12861_consen 34 CCPDCKFPGDDCPLVWG-KCSHNFHMHCILKWLSTQ-SSKGQCPMCRQPW 81 (85)
T ss_pred CCCCccCCCCCCceeec-cCccHHHHHHHHHHHccc-cCCCCCCCcCCee
Confidence 34455555444455544 599999999988655443 2344899998764
No 65
>smart00547 ZnF_RBZ Zinc finger domain. Zinc finger domain in Ran-binding proteins (RanBPs), and other proteins. In RanBPs, this domain binds RanGDP.
Probab=75.77 E-value=1.7 Score=22.41 Aligned_cols=9 Identities=33% Similarity=1.187 Sum_probs=6.7
Q ss_pred CCcccCCCC
Q psy11251 44 YRWQCIECK 52 (190)
Q Consensus 44 ~~W~C~~C~ 52 (190)
++|.|+.|.
T Consensus 1 g~W~C~~C~ 9 (26)
T smart00547 1 GDWECPACT 9 (26)
T ss_pred CcccCCCCC
Confidence 479888874
No 66
>PF12773 DZR: Double zinc ribbon
Probab=71.80 E-value=5.1 Score=24.01 Aligned_cols=7 Identities=29% Similarity=0.482 Sum_probs=3.0
Q ss_pred ccCcccc
Q psy11251 93 WSCQLCL 99 (190)
Q Consensus 93 W~C~~C~ 99 (190)
++|+.|-
T Consensus 30 ~~C~~Cg 36 (50)
T PF12773_consen 30 KICPNCG 36 (50)
T ss_pred CCCcCCc
Confidence 4444443
No 67
>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=71.70 E-value=1.9 Score=26.24 Aligned_cols=30 Identities=33% Similarity=0.541 Sum_probs=22.4
Q ss_pred CCCcCCCCC--CCCCccccCccCCcccCCCCC
Q psy11251 53 CCSVCGTSD--NDDQLLFCDDCDRGYHMYCLV 82 (190)
Q Consensus 53 ~C~~C~~~~--~~~~ll~C~~C~~~~H~~Cl~ 82 (190)
.|.+|++.. ....-+.|..|....|..|+.
T Consensus 13 ~C~~C~~~i~g~~~~g~~C~~C~~~~H~~C~~ 44 (53)
T PF00130_consen 13 YCDVCGKFIWGLGKQGYRCSWCGLVCHKKCLS 44 (53)
T ss_dssp B-TTSSSBECSSSSCEEEETTTT-EEETTGGC
T ss_pred CCcccCcccCCCCCCeEEECCCCChHhhhhhh
Confidence 567777654 456679999999999999987
No 68
>KOG1246|consensus
Probab=68.63 E-value=4.8 Score=39.13 Aligned_cols=35 Identities=31% Similarity=0.715 Sum_probs=29.4
Q ss_pred CceecCCCCCCCCCCCCCCCcccccccCCCCcccCCCC
Q psy11251 15 DLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECK 52 (190)
Q Consensus 15 ~ll~C~~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~ 52 (190)
.++.|++|...||..|..++. ..++.+.|.|+.|.
T Consensus 168 ~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~ 202 (904)
T KOG1246|consen 168 KLLLCDSCDDSYHTYCLRPPL---TRVPDGDWRCPKCI 202 (904)
T ss_pred cceecccccCcccccccCCCC---CcCCcCcccCCccc
Confidence 555999999999999998765 56778999988884
No 69
>KOG1244|consensus
Probab=68.35 E-value=1.2 Score=37.15 Aligned_cols=46 Identities=24% Similarity=0.425 Sum_probs=34.7
Q ss_pred CCCCCCccccCccCCcccCCCCCCCCC---CCCCCCccCcccccccchh
Q psy11251 60 SDNDDQLLFCDDCDRGYHMYCLVPPIQ---TPPEGSWSCQLCLKEFHRK 105 (190)
Q Consensus 60 ~~~~~~ll~C~~C~~~~H~~Cl~p~l~---~~p~~~W~C~~C~~~~~~~ 105 (190)
.+-+++||.|..|++.=|.+||.-... .+....|.|-.|.......
T Consensus 240 t~~peelvscsdcgrsghpsclqft~nm~~avk~yrwqcieck~csicg 288 (336)
T KOG1244|consen 240 TGMPEELVSCSDCGRSGHPSCLQFTANMIAAVKTYRWQCIECKYCSICG 288 (336)
T ss_pred cCCchhhcchhhcCCCCCcchhhhhHHHHHHHHhheeeeeecceecccc
Confidence 345678999999999999999984322 2445799999998765443
No 70
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=67.51 E-value=2.7 Score=28.42 Aligned_cols=22 Identities=32% Similarity=0.608 Sum_probs=18.2
Q ss_pred CCCceecC--CCCCCCCCCCCCCC
Q psy11251 13 PEDLVSCS--DCGRSGHPTCLQFT 34 (190)
Q Consensus 13 ~~~ll~C~--~C~~~~H~~Cl~~~ 34 (190)
.|-.|.|. +|.++||+.|....
T Consensus 46 ~Ga~i~C~~~~C~~~fH~~CA~~~ 69 (90)
T PF13771_consen 46 GGACIGCSHPGCSRSFHVPCARKA 69 (90)
T ss_pred CCeEEEEeCCCCCcEEChHHHccC
Confidence 47888898 59999999998643
No 71
>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=67.33 E-value=4.9 Score=21.70 Aligned_cols=29 Identities=24% Similarity=0.619 Sum_probs=21.0
Q ss_pred CCCcCCCCCCCCCccccCccCCcccCCCC
Q psy11251 53 CCSVCGTSDNDDQLLFCDDCDRGYHMYCL 81 (190)
Q Consensus 53 ~C~~C~~~~~~~~ll~C~~C~~~~H~~Cl 81 (190)
.|.+|++..++...-.|+.|.-..|..|.
T Consensus 2 ~C~~C~~~~~~~~~Y~C~~c~f~lh~~Ca 30 (30)
T PF03107_consen 2 WCDVCRRKIDGFYFYHCSECCFTLHVRCA 30 (30)
T ss_pred CCCCCCCCcCCCEeEEeCCCCCeEcCccC
Confidence 47788776544337779999988888773
No 72
>KOG1632|consensus
Probab=63.93 E-value=4.7 Score=34.84 Aligned_cols=38 Identities=24% Similarity=0.504 Sum_probs=32.6
Q ss_pred CccccCccCCcccCCC--CCCCCCCCCC-CCccCccccccc
Q psy11251 65 QLLFCDDCDRGYHMYC--LVPPIQTPPE-GSWSCQLCLKEF 102 (190)
Q Consensus 65 ~ll~C~~C~~~~H~~C--l~p~l~~~p~-~~W~C~~C~~~~ 102 (190)
.++.|+.|..+||..| ++.+....|. ..|+|..|....
T Consensus 74 ~~~~cd~C~~~~~~ec~~v~~~~~e~p~~~~~~c~~c~~~~ 114 (345)
T KOG1632|consen 74 LMEQCDLCEDWYHGECWEVGTAEKEAPKEDPKVCDECKEAQ 114 (345)
T ss_pred hhhccccccccccccccccCchhhcCCccccccccccchhh
Confidence 7899999999999999 8887777665 599999997654
No 73
>PF13639 zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C 1IYM_A 2EP4_A 2ECT_A 2JRJ_A 2ECN_A 2ECM_A 3NG2_A 2EA6_A ....
Probab=63.07 E-value=0.11 Score=30.68 Aligned_cols=43 Identities=21% Similarity=0.496 Sum_probs=25.4
Q ss_pred CCCcCCCCCCCCCccccCccCCcccCCCCCCCCCCCCCCCccCcccc
Q psy11251 53 CCSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCL 99 (190)
Q Consensus 53 ~C~~C~~~~~~~~ll~C~~C~~~~H~~Cl~p~l~~~p~~~W~C~~C~ 99 (190)
.|.+|...-..+..+.--.|+-.||..|+..-+.. ...||.|+
T Consensus 2 ~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~~~~~----~~~CP~CR 44 (44)
T PF13639_consen 2 ECPICLEEFEDGEKVVKLPCGHVFHRSCIKEWLKR----NNSCPVCR 44 (44)
T ss_dssp CETTTTCBHHTTSCEEEETTSEEEEHHHHHHHHHH----SSB-TTTH
T ss_pred CCcCCChhhcCCCeEEEccCCCeeCHHHHHHHHHh----CCcCCccC
Confidence 46777765433333333349999999998754322 12777763
No 74
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=61.73 E-value=2.8 Score=21.72 Aligned_cols=14 Identities=50% Similarity=1.073 Sum_probs=11.3
Q ss_pred CceecCCCCCCCCC
Q psy11251 15 DLVSCSDCGRSGHP 28 (190)
Q Consensus 15 ~ll~C~~C~~~~H~ 28 (190)
+|+.|..|++.|..
T Consensus 1 ~l~~C~~CgR~F~~ 14 (25)
T PF13913_consen 1 ELVPCPICGRKFNP 14 (25)
T ss_pred CCCcCCCCCCEECH
Confidence 47889999999863
No 75
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=61.05 E-value=3.8 Score=27.72 Aligned_cols=29 Identities=28% Similarity=0.772 Sum_probs=23.6
Q ss_pred CCCcCCCCCCCCCccccC--ccCCcccCCCCCC
Q psy11251 53 CCSVCGTSDNDDQLLFCD--DCDRGYHMYCLVP 83 (190)
Q Consensus 53 ~C~~C~~~~~~~~ll~C~--~C~~~~H~~Cl~p 83 (190)
.|.+|++. .|-.+.|. .|.+.||..|..-
T Consensus 38 ~C~~C~~~--~Ga~i~C~~~~C~~~fH~~CA~~ 68 (90)
T PF13771_consen 38 KCSICKKK--GGACIGCSHPGCSRSFHVPCARK 68 (90)
T ss_pred CCcCCCCC--CCeEEEEeCCCCCcEEChHHHcc
Confidence 78888864 47888896 5999999999763
No 76
>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=60.84 E-value=3.8 Score=24.21 Aligned_cols=30 Identities=33% Similarity=0.499 Sum_probs=22.6
Q ss_pred CCCcCCCCCCC--CCccccCccCCcccCCCCC
Q psy11251 53 CCSVCGTSDND--DQLLFCDDCDRGYHMYCLV 82 (190)
Q Consensus 53 ~C~~C~~~~~~--~~ll~C~~C~~~~H~~Cl~ 82 (190)
+|.+|++..-+ ..-+.|..|....|..|..
T Consensus 13 ~C~~C~~~i~~~~~~~~~C~~C~~~~H~~C~~ 44 (50)
T cd00029 13 FCDVCRKSIWGLFKQGLRCSWCKVKCHKKCAD 44 (50)
T ss_pred ChhhcchhhhccccceeEcCCCCCchhhhhhc
Confidence 46777665433 4668899999999999976
No 77
>KOG3970|consensus
Probab=60.73 E-value=1.5 Score=35.61 Aligned_cols=79 Identities=24% Similarity=0.512 Sum_probs=47.2
Q ss_pred ecCCCCCCCCCCCCCCCcccccccCCCCcccCCCCCCCcCCCCCCCCCccccCccCCcccCCCCCCCC-----CCCCCCC
Q psy11251 18 SCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECKCCSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPI-----QTPPEGS 92 (190)
Q Consensus 18 ~C~~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~~C~~C~~~~~~~~ll~C~~C~~~~H~~Cl~p~l-----~~~p~~~ 92 (190)
.|..|-..-|+.|+--. ..... ...=|=++|..|..=-..++.-.++ |.-.||..|++.-- ...|. .
T Consensus 23 VCEhClV~nHpkCiVQS--YLqWL-~DsDY~pNC~LC~t~La~gdt~RLv----CyhlfHW~ClneraA~lPanTAPa-G 94 (299)
T KOG3970|consen 23 VCEHCLVANHPKCIVQS--YLQWL-QDSDYNPNCRLCNTPLASGDTTRLV----CYHLFHWKCLNERAANLPANTAPA-G 94 (299)
T ss_pred HHHHHHhccCchhhHHH--HHHHH-hhcCCCCCCceeCCccccCcceeeh----hhhhHHHHHhhHHHhhCCCcCCCC-c
Confidence 58889999999997321 12222 2223456665554433333333444 78899999998522 33344 4
Q ss_pred ccCcccccccch
Q psy11251 93 WSCQLCLKEFHR 104 (190)
Q Consensus 93 W~C~~C~~~~~~ 104 (190)
..||.|..+...
T Consensus 95 yqCP~Cs~eiFP 106 (299)
T KOG3970|consen 95 YQCPCCSQEIFP 106 (299)
T ss_pred ccCCCCCCccCC
Confidence 699999876443
No 78
>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=60.34 E-value=3.2 Score=24.26 Aligned_cols=30 Identities=33% Similarity=0.483 Sum_probs=22.4
Q ss_pred CCCcCCCCCCCC-CccccCccCCcccCCCCC
Q psy11251 53 CCSVCGTSDNDD-QLLFCDDCDRGYHMYCLV 82 (190)
Q Consensus 53 ~C~~C~~~~~~~-~ll~C~~C~~~~H~~Cl~ 82 (190)
+|.+|++...+. .-+.|..|....|..|..
T Consensus 13 ~C~~C~~~i~~~~~~~~C~~C~~~~H~~C~~ 43 (49)
T smart00109 13 KCCVCRKSIWGSFQGLRCSWCKVKCHKKCAE 43 (49)
T ss_pred CccccccccCcCCCCcCCCCCCchHHHHHHh
Confidence 577777654332 368899999999999976
No 79
>KOG2752|consensus
Probab=60.09 E-value=5.1 Score=34.03 Aligned_cols=21 Identities=24% Similarity=0.661 Sum_probs=17.8
Q ss_pred CCCccccCccCCccc-CCCCCC
Q psy11251 63 DDQLLFCDDCDRGYH-MYCLVP 83 (190)
Q Consensus 63 ~~~ll~C~~C~~~~H-~~Cl~p 83 (190)
++.|+.|..|.-||| ..|+.-
T Consensus 145 e~~m~QC~iCEDWFHce~c~~~ 166 (345)
T KOG2752|consen 145 EGEMLQCVICEDWFHCEGCMQA 166 (345)
T ss_pred cceeeeEEeccchhcccccCcc
Confidence 368899999999999 788763
No 80
>KOG4198|consensus
Probab=59.03 E-value=16 Score=30.67 Aligned_cols=22 Identities=32% Similarity=0.788 Sum_probs=16.9
Q ss_pred ccCCCCcccCCCC--------CCCcCCCCC
Q psy11251 40 SVKQYRWQCIECK--------CCSVCGTSD 61 (190)
Q Consensus 40 ~~~~~~W~C~~C~--------~C~~C~~~~ 61 (190)
.+..++|+|+.|. .|..|+...
T Consensus 59 ~~~pgdw~c~~c~~~n~arr~~c~~c~~s~ 88 (280)
T KOG4198|consen 59 PPRPGDWNCPLCGFHNSARRLLCFRCGFSK 88 (280)
T ss_pred CCCCcccccCccchhhHHHhhhcceecccC
Confidence 4557899999986 688887553
No 81
>KOG1632|consensus
Probab=58.29 E-value=6.1 Score=34.13 Aligned_cols=84 Identities=18% Similarity=0.230 Sum_probs=50.6
Q ss_pred CceecCCCCCCCCCCC--CCCCcccccccCCCCcccCCCC------------CCCcCCCCC----CCCCccccCccCCcc
Q psy11251 15 DLVSCSDCGRSGHPTC--LQFTNNMKVSVKQYRWQCIECK------------CCSVCGTSD----NDDQLLFCDDCDRGY 76 (190)
Q Consensus 15 ~ll~C~~C~~~~H~~C--l~~~~~~~~~~~~~~W~C~~C~------------~C~~C~~~~----~~~~ll~C~~C~~~~ 76 (190)
.++.|+.|..+||..| ++++.. ...+...|+|..|+ .| +|.... ....-+-...|..++
T Consensus 74 ~~~~cd~C~~~~~~ec~~v~~~~~--e~p~~~~~~c~~c~~~~~~~~~~~~l~~-~~~~~~~~~~s~s~~~~~~~~~~~~ 150 (345)
T KOG1632|consen 74 LMEQCDLCEDWYHGECWEVGTAEK--EAPKEDPKVCDECKEAQDGMSESDGLSC-VCRQDDSELLSPSFYFGKRGCQFWV 150 (345)
T ss_pred hhhccccccccccccccccCchhh--cCCccccccccccchhhhhhhhhcccee-ecccccccccccccccCCccccccc
Confidence 7899999999999999 877542 44557789999996 11 222111 111224566777778
Q ss_pred cCCCCCCCCCCC-CCCCccCcccccc
Q psy11251 77 HMYCLVPPIQTP-PEGSWSCQLCLKE 101 (190)
Q Consensus 77 H~~Cl~p~l~~~-p~~~W~C~~C~~~ 101 (190)
|..++.-..... -...-.++.+...
T Consensus 151 ~~~~~~~~r~~~~~~~~~t~~~~~~~ 176 (345)
T KOG1632|consen 151 KLQKLGRVRLEAEKNDDPTVFEVVSG 176 (345)
T ss_pred cchhhhhhhhhhhhcccchhhhcccc
Confidence 888776322111 1124455555543
No 82
>KOG1829|consensus
Probab=56.82 E-value=2.3 Score=39.19 Aligned_cols=50 Identities=26% Similarity=0.688 Sum_probs=34.0
Q ss_pred ccCCCC----CCCcCCCCC-----CCCCccccCccCCcccCCCCCCCCCCCCCCCccCcccccccc
Q psy11251 47 QCIECK----CCSVCGTSD-----NDDQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLKEFH 103 (190)
Q Consensus 47 ~C~~C~----~C~~C~~~~-----~~~~ll~C~~C~~~~H~~Cl~p~l~~~p~~~W~C~~C~~~~~ 103 (190)
.|..|. +|..|...+ ......-|+.|..+||..|+.-. .+ -||.|.....
T Consensus 503 ~C~lC~~~gfiCe~Cq~~~iiyPF~~~~~~rC~~C~avfH~~C~~r~---s~----~CPrC~R~q~ 561 (580)
T KOG1829|consen 503 ECDLCTGKGFICELCQHNDIIYPFETRNTRRCSTCLAVFHKKCLRRK---SP----CCPRCERRQK 561 (580)
T ss_pred hchhhccCeeeeeeccCCCcccccccccceeHHHHHHHHHHHHHhcc---CC----CCCchHHHHH
Confidence 366665 788885432 13445779999999999998732 11 1999987653
No 83
>COG0143 MetG Methionyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=55.64 E-value=7.2 Score=35.92 Aligned_cols=39 Identities=28% Similarity=0.721 Sum_probs=29.2
Q ss_pred CCcccCCCC----------CCCcCCCCCCCCCccccCccCCcccCCCCCCC
Q psy11251 44 YRWQCIECK----------CCSVCGTSDNDDQLLFCDDCDRGYHMYCLVPP 84 (190)
Q Consensus 44 ~~W~C~~C~----------~C~~C~~~~~~~~ll~C~~C~~~~H~~Cl~p~ 84 (190)
..|||+.|. .|.-|+.....| -.|+.|++.|....+.-|
T Consensus 125 ~~~Yc~~~e~fl~dr~v~g~cp~cg~~~arG--D~Ce~Cg~~~~P~~l~~p 173 (558)
T COG0143 125 EGLYCVSCERFLPDRYVEGTCPKCGGEDARG--DQCENCGRTLDPTELINP 173 (558)
T ss_pred eeeEcccccccccchheeccCCCcCccccCc--chhhhccCcCCchhcCCC
Confidence 469999997 788888543333 359999999998886544
No 84
>KOG1973|consensus
Probab=53.96 E-value=4.8 Score=33.56 Aligned_cols=43 Identities=19% Similarity=0.306 Sum_probs=25.0
Q ss_pred CCCCCceecCCCCCCCCCC--CCCCC-----ccc----ccccCCCCcccCCCCC
Q psy11251 11 GQPEDLVSCSDCGRSGHPT--CLQFT-----NNM----KVSVKQYRWQCIECKC 53 (190)
Q Consensus 11 g~~~~ll~C~~C~~~~H~~--Cl~~~-----~~~----~~~~~~~~W~C~~C~~ 53 (190)
.+.++-..|--.-.+|=.. |-++. ..+ +...|.+.|||+.|+.
T Consensus 214 ~d~~e~~yC~Cnqvsyg~Mi~CDn~~C~~eWFH~~CVGL~~~PkgkWyC~~C~~ 267 (274)
T KOG1973|consen 214 VDPDEPTYCICNQVSYGKMIGCDNPGCPIEWFHFTCVGLKTKPKGKWYCPRCKA 267 (274)
T ss_pred cCCCCCEEEEecccccccccccCCCCCCcceEEEeccccccCCCCcccchhhhh
Confidence 4556666666444444332 55532 222 3456789999999953
No 85
>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=53.60 E-value=7.1 Score=23.22 Aligned_cols=29 Identities=21% Similarity=0.645 Sum_probs=18.6
Q ss_pred eecCCCCCCCCCCCCCCCcccccccCCCCcccCCCC---CCCcCCC
Q psy11251 17 VSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECK---CCSVCGT 59 (190)
Q Consensus 17 l~C~~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~---~C~~C~~ 59 (190)
|.||+|+.. .+....|.|..|. .|..|..
T Consensus 1 I~CDgCg~~--------------PI~G~RykC~~C~dyDLC~~C~~ 32 (43)
T cd02342 1 IQCDGCGVL--------------PITGPRYKSKVKEDYDLCTICFS 32 (43)
T ss_pred CCCCCCCCC--------------cccccceEeCCCCCCccHHHHhh
Confidence 568888754 1336688888774 5666643
No 86
>COG1107 Archaea-specific RecJ-like exonuclease, contains DnaJ-type Zn finger domain [DNA replication, recombination, and repair]
Probab=52.99 E-value=18 Score=33.55 Aligned_cols=47 Identities=23% Similarity=0.636 Sum_probs=34.0
Q ss_pred CCCcccCCCC---------CCCcCCCCCCCCCccccCccCCcccCCCCCCCCCCCCCCCccCcccccccc
Q psy11251 43 QYRWQCIECK---------CCSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLKEFH 103 (190)
Q Consensus 43 ~~~W~C~~C~---------~C~~C~~~~~~~~ll~C~~C~~~~H~~Cl~p~l~~~p~~~W~C~~C~~~~~ 103 (190)
+..--|+.|+ .|..|+. .+..+.|+.|+..++.. .+..|+.|.....
T Consensus 51 ~~~~pc~~c~gkG~V~v~~~c~~c~G---~gkv~~c~~cG~~~~~~-----------~~~lc~~c~~~~~ 106 (715)
T COG1107 51 SFEIPCPKCRGKGTVTVYDTCPECGG---TGKVLTCDICGDIIVPW-----------EEGLCPECRRKPK 106 (715)
T ss_pred cCCCCCCeeccceeEEEEeecccCCC---ceeEEeeccccceecCc-----------ccccChhHhhCCc
Confidence 3355799998 8999984 67889999998877621 1127888887654
No 87
>PF02891 zf-MIZ: MIZ/SP-RING zinc finger; InterPro: IPR004181 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents MIZ-type zinc finger domains. Miz1 (Msx-interacting-zinc finger) is a zinc finger-containing protein with homology to the yeast protein, Nfi-1. Miz1 is a sequence specific DNA binding protein that can function as a positive-acting transcription factor. Miz1 binds to the homeobox protein Msx2, enhancing the specific DNA-binding ability of Msx2 []. Other proteins containing this domain include the human pias family (protein inhibitor of activated STAT protein). More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3I2D_A.
Probab=52.61 E-value=1.6 Score=26.71 Aligned_cols=27 Identities=19% Similarity=0.687 Sum_probs=10.3
Q ss_pred CCCCCCCCCcccccccCCCCcccCCCC
Q psy11251 26 GHPTCLQFTNNMKVSVKQYRWQCIECK 52 (190)
Q Consensus 26 ~H~~Cl~~~~~~~~~~~~~~W~C~~C~ 52 (190)
-|..|.+...-+........|.||-|.
T Consensus 22 ~H~~CFDl~~fl~~~~~~~~W~CPiC~ 48 (50)
T PF02891_consen 22 KHLQCFDLESFLESNQRTPKWKCPICN 48 (50)
T ss_dssp -SS--EEHHHHHHHHHHS---B-TTT-
T ss_pred cccceECHHHHHHHhhccCCeECcCCc
Confidence 478887643323223335569998874
No 88
>cd00162 RING RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)
Probab=50.40 E-value=2.2 Score=24.04 Aligned_cols=42 Identities=19% Similarity=0.497 Sum_probs=25.1
Q ss_pred CCcCCCCCCCCCccccCccCCcccCCCCCCCCCCCCCCCccCccccc
Q psy11251 54 CSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLK 100 (190)
Q Consensus 54 C~~C~~~~~~~~ll~C~~C~~~~H~~Cl~p~l~~~p~~~W~C~~C~~ 100 (190)
|.+|.... ...+.-..|+-.||..|+..-+.. +...||.|..
T Consensus 2 C~iC~~~~--~~~~~~~~C~H~~c~~C~~~~~~~---~~~~Cp~C~~ 43 (45)
T cd00162 2 CPICLEEF--REPVVLLPCGHVFCRSCIDKWLKS---GKNTCPLCRT 43 (45)
T ss_pred CCcCchhh--hCceEecCCCChhcHHHHHHHHHh---CcCCCCCCCC
Confidence 56666432 233334458888888888643322 4567888764
No 89
>PF05502 Dynactin_p62: Dynactin p62 family; InterPro: IPR008603 Dynactin is a multi-subunit complex and a required cofactor for most, or all, o f the cellular processes powered by the microtubule-based motor cytoplasmic dyn ein. p62 binds directly to the Arp1 subunit of dynactin [, ].
Probab=49.89 E-value=19 Score=32.65 Aligned_cols=31 Identities=26% Similarity=0.657 Sum_probs=23.9
Q ss_pred CCceecCCCCCCCCCCCCCCCcccccccCCCCcccCCCC
Q psy11251 14 EDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECK 52 (190)
Q Consensus 14 ~~ll~C~~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~ 52 (190)
++|.+|..|..--...|+.. . -..||||+|-
T Consensus 3 ~~L~fC~~C~~irc~~c~~~------E--i~~~yCp~CL 33 (483)
T PF05502_consen 3 EELYFCEHCHKIRCPRCVSE------E--IDSYYCPNCL 33 (483)
T ss_pred ccceecccccccCChhhccc------c--cceeECcccc
Confidence 57899999998888888843 1 2368888885
No 90
>KOG1081|consensus
Probab=47.81 E-value=19 Score=32.36 Aligned_cols=30 Identities=20% Similarity=0.300 Sum_probs=21.5
Q ss_pred CCCccCCCCCCCCceecCCCCCCCCCCCCC
Q psy11251 3 CPTQAEKSGQPEDLVSCSDCGRSGHPTCLQ 32 (190)
Q Consensus 3 C~~~~~~~g~~~~ll~C~~C~~~~H~~Cl~ 32 (190)
.-..+....+++.++.|+.+..++|..|..
T Consensus 88 ~~~~c~vc~~ggs~v~~~s~~~~~~r~c~~ 117 (463)
T KOG1081|consen 88 EPSECFVCFKGGSLVTCKSRIQAPHRKCKP 117 (463)
T ss_pred CcchhccccCCCccceeccccccccccCcC
Confidence 345567888999999999666555555553
No 91
>KOG2272|consensus
Probab=47.33 E-value=7.7 Score=32.07 Aligned_cols=38 Identities=18% Similarity=0.482 Sum_probs=23.5
Q ss_pred CCCCCCCCCCCcccc---cccCCCCcccCCCC------CCCcCCCCCC
Q psy11251 24 RSGHPTCLQFTNNMK---VSVKQYRWQCIECK------CCSVCGTSDN 62 (190)
Q Consensus 24 ~~~H~~Cl~~~~~~~---~~~~~~~W~C~~C~------~C~~C~~~~~ 62 (190)
..||+.|..-..++. ..+ .++.||++|- +|..|.+..+
T Consensus 160 H~yHFkCt~C~keL~sdaRev-k~eLyClrChD~mgipiCgaC~rpIe 206 (332)
T KOG2272|consen 160 HPYHFKCTTCGKELTSDAREV-KGELYCLRCHDKMGIPICGACRRPIE 206 (332)
T ss_pred Cccceecccccccccchhhhh-ccceeccccccccCCcccccccCchH
Confidence 567777866433332 223 5789999995 5666666543
No 92
>KOG2807|consensus
Probab=46.13 E-value=14 Score=31.70 Aligned_cols=10 Identities=30% Similarity=0.694 Sum_probs=6.7
Q ss_pred CCCcccCCCC
Q psy11251 43 QYRWQCIECK 52 (190)
Q Consensus 43 ~~~W~C~~C~ 52 (190)
.+..+||.|+
T Consensus 274 ~~Gy~CP~Ck 283 (378)
T KOG2807|consen 274 GGGYFCPQCK 283 (378)
T ss_pred cCceeCCccc
Confidence 5566777776
No 93
>cd00350 rubredoxin_like Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=45.60 E-value=16 Score=20.07 Aligned_cols=12 Identities=25% Similarity=0.836 Sum_probs=9.4
Q ss_pred CCccCccccccc
Q psy11251 91 GSWSCQLCLKEF 102 (190)
Q Consensus 91 ~~W~C~~C~~~~ 102 (190)
.+|.||.|....
T Consensus 16 ~~~~CP~Cg~~~ 27 (33)
T cd00350 16 APWVCPVCGAPK 27 (33)
T ss_pred CCCcCcCCCCcH
Confidence 679999997643
No 94
>KOG4628|consensus
Probab=45.45 E-value=8.4 Score=33.31 Aligned_cols=47 Identities=19% Similarity=0.549 Sum_probs=35.9
Q ss_pred CCCcCCCCCCCCCccccCccCCcccCCCCCCCCCCCCCCCccCccccccc
Q psy11251 53 CCSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLKEF 102 (190)
Q Consensus 53 ~C~~C~~~~~~~~ll~C~~C~~~~H~~Cl~p~l~~~p~~~W~C~~C~~~~ 102 (190)
.|.+|-+.-..|+.|.=--|.-.||..|++|=|..- .=+||-|+...
T Consensus 231 ~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~---r~~CPvCK~di 277 (348)
T KOG4628|consen 231 TCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQT---RTFCPVCKRDI 277 (348)
T ss_pred eEEEeecccccCCeeeEecCCCchhhccchhhHhhc---CccCCCCCCcC
Confidence 788998766666666668899999999999865542 23799998754
No 95
>cd00730 rubredoxin Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are believed to be involved in electron transfer.
Probab=43.65 E-value=27 Score=21.36 Aligned_cols=11 Identities=27% Similarity=0.890 Sum_probs=9.1
Q ss_pred CccCccccccc
Q psy11251 92 SWSCQLCLKEF 102 (190)
Q Consensus 92 ~W~C~~C~~~~ 102 (190)
+|.||.|....
T Consensus 34 ~w~CP~C~a~K 44 (50)
T cd00730 34 DWVCPVCGAGK 44 (50)
T ss_pred CCCCCCCCCcH
Confidence 89999997643
No 96
>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=43.39 E-value=14 Score=25.37 Aligned_cols=29 Identities=28% Similarity=0.614 Sum_probs=19.7
Q ss_pred CCCcCCCCCCCCCccccCccCCcccCCCCC
Q psy11251 53 CCSVCGTSDNDDQLLFCDDCDRGYHMYCLV 82 (190)
Q Consensus 53 ~C~~C~~~~~~~~ll~C~~C~~~~H~~Cl~ 82 (190)
.|.+|++.-..+..+ -.-|+..||..|..
T Consensus 80 ~C~vC~k~l~~~~f~-~~p~~~v~H~~C~~ 108 (109)
T PF10367_consen 80 KCSVCGKPLGNSVFV-VFPCGHVVHYSCIK 108 (109)
T ss_pred CccCcCCcCCCceEE-EeCCCeEEeccccc
Confidence 788999876443332 23455899999974
No 97
>KOG3612|consensus
Probab=42.97 E-value=35 Score=31.26 Aligned_cols=50 Identities=22% Similarity=0.274 Sum_probs=36.6
Q ss_pred CCCcccCCCCCCCcCCCCCCCCCccccCccCCcccCCCCCCCCCCCCC-CCccCcccccc
Q psy11251 43 QYRWQCIECKCCSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQTPPE-GSWSCQLCLKE 101 (190)
Q Consensus 43 ~~~W~C~~C~~C~~C~~~~~~~~ll~C~~C~~~~H~~Cl~p~l~~~p~-~~W~C~~C~~~ 101 (190)
..+|+|..| . -++..+.|+.|-+.||..|..|....... ..|.|+.|...
T Consensus 58 N~d~~cfec------h---lpg~vl~c~vc~Rs~h~~c~sp~~q~r~~s~p~~~p~p~s~ 108 (588)
T KOG3612|consen 58 NIDPFCFEC------H---LPGAVLKCIVCHRSFHENCQSPDPQKRNYSVPSDKPQPYSF 108 (588)
T ss_pred CCCcccccc------c---CCcceeeeehhhccccccccCcchhhccccccccCCccccc
Confidence 447866665 4 36788999999999999999986333322 48999988643
No 98
>KOG1844|consensus
Probab=42.81 E-value=16 Score=32.89 Aligned_cols=79 Identities=20% Similarity=0.340 Sum_probs=51.6
Q ss_pred CCceecCCCCCCCCCCCCCCCcccccccCCCCcccCCCCCCCcCCCCCC-CCCccccCccCCcccCCCCCCCCCCCCCCC
Q psy11251 14 EDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECKCCSVCGTSDN-DDQLLFCDDCDRGYHMYCLVPPIQTPPEGS 92 (190)
Q Consensus 14 ~~ll~C~~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~~C~~C~~~~~-~~~ll~C~~C~~~~H~~Cl~p~l~~~p~~~ 92 (190)
....-.-.++..-|..+++.... .....+ =..| .|+..++ .+.++.|+.|.+|-|..|.+..-... ...
T Consensus 57 ~~~~~~~~~p~~~~~~~~~~~~~----~~~~~~-~~~c----~c~~~~~~~g~~i~c~~c~~Wqh~~C~g~~~~~~-p~~ 126 (508)
T KOG1844|consen 57 ASPHGTAHEPGKGVLLSLNGSEA----GSEARE-ISRC----DCGLEDDMEGLMIQCDWCGRWQHKICCGSFKSTK-PDK 126 (508)
T ss_pred cccccccccCCCCcccccccccc----ccCcCc-cccc----ccccccCCCceeeCCcccCcccCceeeeecCCCC-chh
Confidence 34444556677777777653221 101112 1223 6787777 88999999999999999999654444 457
Q ss_pred ccCccccccc
Q psy11251 93 WSCQLCLKEF 102 (190)
Q Consensus 93 W~C~~C~~~~ 102 (190)
+.|..|....
T Consensus 127 y~c~~c~~~~ 136 (508)
T KOG1844|consen 127 YVCEICTPRN 136 (508)
T ss_pred ceeeeecccc
Confidence 8899997653
No 99
>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=42.18 E-value=2.9 Score=24.72 Aligned_cols=41 Identities=24% Similarity=0.549 Sum_probs=17.8
Q ss_pred CCcCCCCCCCCCccccC--ccCCcccCCCCCCCCCCCCCCCccCccc
Q psy11251 54 CSVCGTSDNDDQLLFCD--DCDRGYHMYCLVPPIQTPPEGSWSCQLC 98 (190)
Q Consensus 54 C~~C~~~~~~~~ll~C~--~C~~~~H~~Cl~p~l~~~p~~~W~C~~C 98 (190)
|.+|++- .-.-+.|. .|...+|..|+.--+...... .||.|
T Consensus 1 C~~C~~i--v~~G~~C~~~~C~~r~H~~C~~~y~r~~~~~--~CP~C 43 (43)
T PF08746_consen 1 CEACKEI--VTQGQRCSNRDCNVRLHDDCFKKYFRHRSNP--KCPNC 43 (43)
T ss_dssp -TTT-SB---SSSEE-SS--S--EE-HHHHHHHTTT-SS---B-TTT
T ss_pred Ccccchh--HeeeccCCCCccCchHHHHHHHHHHhcCCCC--CCcCC
Confidence 4566632 12335677 699999999987543333222 67766
No 100
>cd07625 BAR_Vps17p The Bin/Amphiphysin/Rvs (BAR) domain of yeast Sorting Nexin Vps17p. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. Vsp17p forms a dimer with Vps5p, the yeast counterpart of human SNX1, and is part of the retromer complex that mediates the transport of the carboxypeptidase Y receptor Vps10p from endosomes to Golgi. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions.
Probab=42.14 E-value=11 Score=30.79 Aligned_cols=51 Identities=22% Similarity=0.230 Sum_probs=41.1
Q ss_pred HhhcccccCCCCCcCccccccccccHHHHHhhhhhhhhhhhhhhHHHHHHH
Q psy11251 129 KVEGRIACDEDLKLSDTLRYYMRDSDAAKRLLYRRLRCLADYENANRNLER 179 (190)
Q Consensus 129 kle~r~a~dedlkl~d~l~~y~~~~~a~~~ll~rr~~~l~~~~~~~~~l~~ 179 (190)
.+....+..+-..+.+.+.+|.++..+.+..+-.|...+-.|.++.+.+.+
T Consensus 90 dl~~~QA~~d~~tl~d~L~~~~~~~~~vKealtnR~~~~re~~qAq~~~~~ 140 (230)
T cd07625 90 DIDSIQATVDMATLYDGLEWISRDAYVVKEALTNRHLLMRELIQAQQNTKS 140 (230)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333444545556689999999999999999999999999999888877654
No 101
>KOG3248|consensus
Probab=41.59 E-value=26 Score=30.21 Aligned_cols=31 Identities=32% Similarity=0.458 Sum_probs=25.5
Q ss_pred cccHHHHHhhhhhhhhhhhhhhHHHHHHHhhc
Q psy11251 151 RDSDAAKRLLYRRLRCLADYENANRNLERART 182 (190)
Q Consensus 151 ~~~~a~~~ll~rr~~~l~~~~~~~~~l~~~~~ 182 (190)
+.+.+-...|-|||.+|++ |.+.|=.|.||-
T Consensus 217 KeSAaiNqiLGrRWH~LSr-EEQAKYyElArK 247 (421)
T KOG3248|consen 217 KESAAINQILGRRWHALSR-EEQAKYYELARK 247 (421)
T ss_pred hhHHHHHHHHhHHHhhhhH-HHHHHHHHHHHH
Confidence 4566777889999999999 888888888873
No 102
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=41.28 E-value=30 Score=32.50 Aligned_cols=8 Identities=50% Similarity=1.227 Sum_probs=3.5
Q ss_pred ecCCCCCC
Q psy11251 18 SCSDCGRS 25 (190)
Q Consensus 18 ~C~~C~~~ 25 (190)
+|..||.+
T Consensus 17 FC~~CG~~ 24 (645)
T PRK14559 17 FCQKCGTS 24 (645)
T ss_pred cccccCCC
Confidence 44444443
No 103
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=39.88 E-value=38 Score=31.89 Aligned_cols=13 Identities=23% Similarity=0.396 Sum_probs=7.6
Q ss_pred CCCCCccCccccc
Q psy11251 88 PPEGSWSCQLCLK 100 (190)
Q Consensus 88 ~p~~~W~C~~C~~ 100 (190)
+|.+.=||+.|-.
T Consensus 37 ~~~~~~fC~~CG~ 49 (645)
T PRK14559 37 VPVDEAHCPNCGA 49 (645)
T ss_pred CCcccccccccCC
Confidence 4555556666644
No 104
>KOG1952|consensus
Probab=39.24 E-value=4.5 Score=38.74 Aligned_cols=49 Identities=18% Similarity=0.622 Sum_probs=33.9
Q ss_pred CCCcCCCCCC-CCCccccCccCCcccCCCCCC---CCCCCCCCCccCcccccc
Q psy11251 53 CCSVCGTSDN-DDQLLFCDDCDRGYHMYCLVP---PIQTPPEGSWSCQLCLKE 101 (190)
Q Consensus 53 ~C~~C~~~~~-~~~ll~C~~C~~~~H~~Cl~p---~l~~~p~~~W~C~~C~~~ 101 (190)
.|.||-.... ...+--|..|...||+.|+.- .....-...|.||.|...
T Consensus 193 eCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv 245 (950)
T KOG1952|consen 193 ECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSV 245 (950)
T ss_pred EEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccch
Confidence 6777765543 345666999999999999864 111122258999999854
No 105
>PF05191 ADK_lid: Adenylate kinase, active site lid; InterPro: IPR007862 Adenylate kinases (ADK; 2.7.4.3 from EC) are phosphotransferases that catalyse the Mg-dependent reversible conversion of ATP and AMP to two molecules of ADP, an essential reaction for many processes in living cells. In large variants of adenylate kinase, the AMP and ATP substrates are buried in a domain that undergoes conformational changes from an open to a closed state when bound to substrate; the ligand is then contained within a highly specific environment required for catalysis. Adenylate kinase is a 3-domain protein consisting of a large central CORE domain flanked by a LID domain on one side and the AMP-binding NMPbind domain on the other []. The LID domain binds ATP and covers the phosphates at the active site. The substrates first bind the CORE domain, followed by closure of the active site by the LID and NMPbind domains. Comparisons of adenylate kinases have revealed a particular divergence in the active site lid. In some organisms, particularly the Gram-positive bacteria, residues in the lid domain have been mutated to cysteines and these cysteine residues (two CX(n)C motifs) are responsible for the binding of a zinc ion. The bound zinc ion in the lid domain is clearly structurally homologous to Zinc-finger domains. However, it is unclear whether the adenylate kinase lid is a novel zinc-finger DNA/RNA binding domain, or that the lid bound zinc serves a purely structural function [].; GO: 0004017 adenylate kinase activity; PDB: 3BE4_A 2OSB_B 2ORI_A 2EU8_A 3DL0_A 1P3J_A 2QAJ_A 2OO7_A 2P3S_A 3DKV_A ....
Probab=39.08 E-value=16 Score=20.70 Aligned_cols=27 Identities=33% Similarity=0.754 Sum_probs=18.0
Q ss_pred ccCccCCcccCCCCCCCCCCCCCCCccCccccc
Q psy11251 68 FCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLK 100 (190)
Q Consensus 68 ~C~~C~~~~H~~Cl~p~l~~~p~~~W~C~~C~~ 100 (190)
.|..|++.||..= ..|..+..|..|-.
T Consensus 3 ~C~~Cg~~Yh~~~------~pP~~~~~Cd~cg~ 29 (36)
T PF05191_consen 3 ICPKCGRIYHIEF------NPPKVEGVCDNCGG 29 (36)
T ss_dssp EETTTTEEEETTT------B--SSTTBCTTTTE
T ss_pred CcCCCCCcccccc------CCCCCCCccCCCCC
Confidence 5888999999543 33455678887765
No 106
>cd07665 BAR_SNX1 The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexin 1. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. SNX1 is a component of the retromer complex, a membrane coat multimeric complex required for endosomal retrieval of lysosomal hydrolase receptors to the Golgi. The retromer consists of a cargo-recognition subcomplex and a subcomplex formed by a dimer of sorting nexins (SNX1 and/or SNX2), which ensures effcient cargo sorting by facilitating proper membrane localization
Probab=37.77 E-value=15 Score=29.91 Aligned_cols=60 Identities=20% Similarity=0.329 Sum_probs=48.8
Q ss_pred HHHHHHHhhcccccCCCCCcCccccccccccHHHHHhhhhhhhhhhhhhhHHHHHHHhhc
Q psy11251 123 TLEKLRKVEGRIACDEDLKLSDTLRYYMRDSDAAKRLLYRRLRCLADYENANRNLERART 182 (190)
Q Consensus 123 ~~ek~rkle~r~a~dedlkl~d~l~~y~~~~~a~~~ll~rr~~~l~~~~~~~~~l~~~~~ 182 (190)
..+++..+..+.+-.+-+.+...+.-|.+-.+|-+.....|.++...|.++...|.+-+.
T Consensus 88 v~~~i~~~~~~qa~qd~~~f~e~l~eYiRli~SVK~~f~~R~k~~~~~~~~~~~l~kKr~ 147 (234)
T cd07665 88 VEEKIEQLHQEQANNDFFLLAELLADYIRLLSAVRGAFDQRMKTWQRWQDAQAMLQKKRE 147 (234)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334555666666666677888899999999999999999999999999999988877443
No 107
>PF00301 Rubredoxin: Rubredoxin; InterPro: IPR004039 Rubredoxin is a low molecular weight iron-containing bacterial protein involved in electron transfer [, ], sometimes replacing ferredoxin as an electron carrier []. The 3-D structures of a number of rubredoxins have been solved [, ]. The fold belongs to the alpha+beta class, with 2 alpha-helices and 2-3 beta-strands. Its active site contains an iron ion which is co-ordinated by the sulphurs of four conserved cysteine residues forming an almost regular tetrahedron. The conserved cysteines reside on two loops, which are the most conserved regions of the protein. In addition, a ring of acidic residues in the proximity of the [Fe(Cys)4] centre is also well-conserved []. ; GO: 0009055 electron carrier activity, 0046872 metal ion binding; PDB: 2RDV_C 1RDV_A 1S24_A 1T9O_B 1B2J_A 1SMW_A 2PVE_B 1BFY_A 1T9P_C 1C09_C ....
Probab=37.52 E-value=18 Score=21.87 Aligned_cols=11 Identities=27% Similarity=1.002 Sum_probs=7.1
Q ss_pred CCccCcccccc
Q psy11251 91 GSWSCQLCLKE 101 (190)
Q Consensus 91 ~~W~C~~C~~~ 101 (190)
.+|.||.|...
T Consensus 33 ~~w~CP~C~a~ 43 (47)
T PF00301_consen 33 DDWVCPVCGAP 43 (47)
T ss_dssp TT-B-TTTSSB
T ss_pred CCCcCcCCCCc
Confidence 47999999865
No 108
>PF04810 zf-Sec23_Sec24: Sec23/Sec24 zinc finger; InterPro: IPR006895 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. COPII (coat protein complex II)-coated vesicles carry proteins from the endoplasmic reticulum (ER) to the Golgi complex []. COPII-coated vesicles form on the ER by the stepwise recruitment of three cytosolic components: Sar1-GTP to initiate coat formation, Sec23/24 heterodimer to select SNARE and cargo molecules, and Sec13/31 to induce coat polymerisation and membrane deformation []. Sec23 p and Sec24p are structurally related, folding into five distinct domains: a beta-barrel, a zinc-finger, an alpha/beta trunk domain (IPR006896 from INTERPRO), an all-helical region (IPR006900 from INTERPRO), and a C-terminal gelsolin-like domain (IPR007123 from INTERPRO). This entry describes an approximately 55-residue Sec23/24 zinc-binding domain, which lies against the beta-barrel at the periphery of the complex. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006886 intracellular protein transport, 0006888 ER to Golgi vesicle-mediated transport, 0030127 COPII vesicle coat; PDB: 3EFO_B 3EG9_B 3EGD_A 2YRC_A 2NUP_A 2YRD_A 3EGX_A 2NUT_A 3EH1_A 1PD0_A ....
Probab=37.34 E-value=20 Score=20.69 Aligned_cols=29 Identities=28% Similarity=0.620 Sum_probs=15.0
Q ss_pred ceecCCCCCCCCCCCCCCCcccccccCCCCcccCCC
Q psy11251 16 LVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIEC 51 (190)
Q Consensus 16 ll~C~~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C 51 (190)
.+.|..|..-.-++|- -......|.|+-|
T Consensus 2 p~rC~~C~aylNp~~~-------~~~~~~~w~C~~C 30 (40)
T PF04810_consen 2 PVRCRRCRAYLNPFCQ-------FDDGGKTWICNFC 30 (40)
T ss_dssp S-B-TTT--BS-TTSE-------EETTTTEEEETTT
T ss_pred ccccCCCCCEECCcce-------EcCCCCEEECcCC
Confidence 5778888877765553 1223458977766
No 109
>PF13922 PHD_3: PHD domain of transcriptional enhancer, Asx
Probab=37.29 E-value=10 Score=24.65 Aligned_cols=22 Identities=23% Similarity=0.614 Sum_probs=19.3
Q ss_pred CCCccccCccCCcccCCCCCCC
Q psy11251 63 DDQLLFCDDCDRGYHMYCLVPP 84 (190)
Q Consensus 63 ~~~ll~C~~C~~~~H~~Cl~p~ 84 (190)
-..|+.|.+|+..-|-.|++|.
T Consensus 40 LkAMi~Cq~CGAFCHDDCIgps 61 (69)
T PF13922_consen 40 LKAMIMCQGCGAFCHDDCIGPS 61 (69)
T ss_pred hHHHHHHhhccchhccccccHH
Confidence 3568999999999999999975
No 110
>TIGR03826 YvyF flagellar operon protein TIGR03826. This gene is found in flagellar operons of Bacillus-related organisms. Its function has not been determined and an official gene symbol has not been assigned, although the gene is designated yvyF in B. subtilus. A tentative assignment as a regulator is suggested in the NCBI record GI:16080597.
Probab=36.60 E-value=13 Score=27.77 Aligned_cols=13 Identities=38% Similarity=0.861 Sum_probs=10.2
Q ss_pred CceecCCCCCCCC
Q psy11251 15 DLVSCSDCGRSGH 27 (190)
Q Consensus 15 ~ll~C~~C~~~~H 27 (190)
+|..|..|++.|.
T Consensus 2 ~l~nC~~CgklF~ 14 (137)
T TIGR03826 2 ELANCPKCGRLFV 14 (137)
T ss_pred CCccccccchhhh
Confidence 5677888888885
No 111
>COG1773 Rubredoxin [Energy production and conversion]
Probab=36.24 E-value=31 Score=21.66 Aligned_cols=34 Identities=26% Similarity=0.477 Sum_probs=18.5
Q ss_pred ecCCCCCCCCCCCCCC----Cccc-ccccCCCCcccCCCC
Q psy11251 18 SCSDCGRSGHPTCLQF----TNNM-KVSVKQYRWQCIECK 52 (190)
Q Consensus 18 ~C~~C~~~~H~~Cl~~----~~~~-~~~~~~~~W~C~~C~ 52 (190)
.|..|+-.|-..=-++ ++.. .+.+ ..+|.||.|.
T Consensus 5 ~C~~CG~vYd~e~Gdp~~gi~pgT~fedl-Pd~w~CP~Cg 43 (55)
T COG1773 5 RCSVCGYVYDPEKGDPRCGIAPGTPFEDL-PDDWVCPECG 43 (55)
T ss_pred EecCCceEeccccCCccCCCCCCCchhhC-CCccCCCCCC
Confidence 5777877775442221 1111 1334 4579888884
No 112
>PF12678 zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This domain constitutes a conserved region found in proteins that participate in diverse functions relevant to chromosome metabolism and cell cycle control [].The domain contains 8 cysteine/ histidine residues which are proposed to be the conserved residues involved in zinc binding.; PDB: 4A0C_D 4A0L_I 4A0K_B 2ECL_A 1LDK_C 3RTR_F 3DQV_Y 1U6G_B 1LDJ_B 2HYE_D ....
Probab=35.48 E-value=3.6 Score=27.14 Aligned_cols=26 Identities=23% Similarity=0.517 Sum_probs=16.0
Q ss_pred CCCCCCCCCCCCCCCcccccccCCCCcccCCCC
Q psy11251 20 SDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECK 52 (190)
Q Consensus 20 ~~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~ 52 (190)
..|+..||..|+..+ + .....||-|+
T Consensus 48 ~~C~H~FH~~Ci~~W------l-~~~~~CP~CR 73 (73)
T PF12678_consen 48 GPCGHIFHFHCISQW------L-KQNNTCPLCR 73 (73)
T ss_dssp ETTSEEEEHHHHHHH------H-TTSSB-TTSS
T ss_pred cccCCCEEHHHHHHH------H-hcCCcCCCCC
Confidence 369999999998532 2 2223677764
No 113
>KOG3576|consensus
Probab=35.25 E-value=7.6 Score=31.20 Aligned_cols=16 Identities=25% Similarity=0.623 Sum_probs=11.9
Q ss_pred CCCCCceecCCCCCCC
Q psy11251 11 GQPEDLVSCSDCGRSG 26 (190)
Q Consensus 11 g~~~~ll~C~~C~~~~ 26 (190)
..+++...|+.|++.|
T Consensus 112 ssd~d~ftCrvCgK~F 127 (267)
T KOG3576|consen 112 SSDQDSFTCRVCGKKF 127 (267)
T ss_pred CCCCCeeeeehhhhhh
Confidence 3447778888888887
No 114
>KOG4628|consensus
Probab=32.28 E-value=22 Score=30.76 Aligned_cols=23 Identities=17% Similarity=0.255 Sum_probs=16.8
Q ss_pred CCCCceecCCCCCCCCCCCCCCCc
Q psy11251 12 QPEDLVSCSDCGRSGHPTCLQFTN 35 (190)
Q Consensus 12 ~~~~ll~C~~C~~~~H~~Cl~~~~ 35 (190)
.|+.|-. =-|...||..|++++.
T Consensus 241 ~GdklRi-LPC~H~FH~~CIDpWL 263 (348)
T KOG4628|consen 241 KGDKLRI-LPCSHKFHVNCIDPWL 263 (348)
T ss_pred cCCeeeE-ecCCCchhhccchhhH
Confidence 3444433 6789999999998865
No 115
>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=31.78 E-value=26 Score=20.85 Aligned_cols=10 Identities=50% Similarity=1.461 Sum_probs=6.7
Q ss_pred CCCcccCCCC
Q psy11251 43 QYRWQCIECK 52 (190)
Q Consensus 43 ~~~W~C~~C~ 52 (190)
...|.|..|.
T Consensus 13 G~RykC~~C~ 22 (45)
T cd02339 13 GIRWKCAECP 22 (45)
T ss_pred cCeEECCCCC
Confidence 5578777773
No 116
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=31.68 E-value=50 Score=21.00 Aligned_cols=12 Identities=25% Similarity=0.559 Sum_probs=7.9
Q ss_pred ceecCCCCCCCC
Q psy11251 16 LVSCSDCGRSGH 27 (190)
Q Consensus 16 ll~C~~C~~~~H 27 (190)
...|.+|+...+
T Consensus 7 ~~~CtSCg~~i~ 18 (59)
T PRK14890 7 PPKCTSCGIEIA 18 (59)
T ss_pred CccccCCCCccc
Confidence 446788877654
No 117
>KOG4577|consensus
Probab=31.38 E-value=10 Score=31.96 Aligned_cols=67 Identities=24% Similarity=0.500 Sum_probs=39.4
Q ss_pred CceecCCCC-------------CCCCCCCCCCCc-----ccccccCCCCcccCCC------CCCCcCCCCCCCCCccccC
Q psy11251 15 DLVSCSDCG-------------RSGHPTCLQFTN-----NMKVSVKQYRWQCIEC------KCCSVCGTSDNDDQLLFCD 70 (190)
Q Consensus 15 ~ll~C~~C~-------------~~~H~~Cl~~~~-----~~~~~~~~~~W~C~~C------~~C~~C~~~~~~~~ll~C~ 70 (190)
++-.|.+|. +.||.+||.-.. .-..-...+.-||-+= ..|..|+....+.+++ =-
T Consensus 32 eip~CagC~q~IlDrFilKvl~R~wHs~CLkCs~C~~qL~drCFsR~~s~yCkedFfKrfGTKCsaC~~GIpPtqVV-Rk 110 (383)
T KOG4577|consen 32 EIPICAGCDQHILDRFILKVLDRHWHSSCLKCSDCHDQLADRCFSREGSVYCKEDFFKRFGTKCSACQEGIPPTQVV-RK 110 (383)
T ss_pred ccccccchHHHHHHHHHHHHHhhhhhhhhcchhhhhhHHHHHHhhcCCceeehHHHHHHhCCcchhhcCCCChHHHH-HH
Confidence 445688886 789999986321 1111233455555433 1688888765544443 23
Q ss_pred ccCCcccCCCCC
Q psy11251 71 DCDRGYHMYCLV 82 (190)
Q Consensus 71 ~C~~~~H~~Cl~ 82 (190)
.=+-.||+.|..
T Consensus 111 Aqd~VYHl~CF~ 122 (383)
T KOG4577|consen 111 AQDFVYHLHCFA 122 (383)
T ss_pred hhcceeehhhhh
Confidence 446678888754
No 118
>PF07227 DUF1423: Protein of unknown function (DUF1423); InterPro: IPR004082 A total of 715 potential protein-coding genes have been identified in the nucleotide sequence of Arabidopsis thaliana chromosome 5, with an average gene density of 1 gene per 4001 bp []. Amongst the gene products is a well-conserved family of 130.7kDa proteins that share no sequence similarity with any other known proteins, other than in plants. The sequences are characterised by an N-terminal domain of variable length, a central cysteine-rich region and a relatively acidic C-terminal domain. The sequences may possess a PHD finger.
Probab=30.96 E-value=41 Score=30.11 Aligned_cols=20 Identities=25% Similarity=0.627 Sum_probs=18.1
Q ss_pred CCCCceecCCCCCCCCCCCC
Q psy11251 12 QPEDLVSCSDCGRSGHPTCL 31 (190)
Q Consensus 12 ~~~~ll~C~~C~~~~H~~Cl 31 (190)
++-..|-||.|+.+-|..|.
T Consensus 142 n~~~Wi~Cd~CgH~cH~dCA 161 (446)
T PF07227_consen 142 NTCSWIGCDVCGHWCHLDCA 161 (446)
T ss_pred CCeeEEeccCCCceehhhhh
Confidence 67788999999999999996
No 119
>TIGR03037 anthran_nbaC 3-hydroxyanthranilate 3,4-dioxygenase. Members of this protein family, from both bacteria and eukaryotes, are the enzyme 3-hydroxyanthranilate 3,4-dioxygenase. This enzyme acts on the tryptophan metabolite 3-hydroxyanthranilate and produces 2-amino-3-carboxymuconate semialdehyde, which can rearrange spontaneously to quinolinic acid and feed into nicotinamide biosynthesis, or undergo further enzymatic degradation.
Probab=30.92 E-value=25 Score=26.95 Aligned_cols=8 Identities=38% Similarity=1.419 Sum_probs=6.8
Q ss_pred CcccCCCC
Q psy11251 45 RWQCIECK 52 (190)
Q Consensus 45 ~W~C~~C~ 52 (190)
.|||++|.
T Consensus 114 ~wyc~~c~ 121 (159)
T TIGR03037 114 QWFCPQCG 121 (159)
T ss_pred EEECCCCC
Confidence 69999886
No 120
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=30.82 E-value=7.6 Score=26.14 Aligned_cols=45 Identities=22% Similarity=0.552 Sum_probs=20.1
Q ss_pred CCCCccCCCCCCCCceecCCCCCCCCCCCCCCCcccccccCCCCcccCCCC
Q psy11251 2 LCPTQAEKSGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECK 52 (190)
Q Consensus 2 ~C~~~~~~~g~~~~ll~C~~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~ 52 (190)
+|+..=+...+|+-++.|..|+-..--.|..+ ..+++.-.||.|+
T Consensus 14 iCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEY------Erkeg~q~CpqCk 58 (80)
T PF14569_consen 14 ICGDDVGLTENGEVFVACHECAFPVCRPCYEY------ERKEGNQVCPQCK 58 (80)
T ss_dssp SS--B--B-SSSSB--S-SSS-----HHHHHH------HHHTS-SB-TTT-
T ss_pred cccCccccCCCCCEEEEEcccCCccchhHHHH------HhhcCcccccccC
Confidence 45555577788899999999987776666643 3346666777775
No 121
>KOG4198|consensus
Probab=30.78 E-value=34 Score=28.73 Aligned_cols=13 Identities=23% Similarity=0.838 Sum_probs=10.2
Q ss_pred ccCCCCcccCCCC
Q psy11251 40 SVKQYRWQCIECK 52 (190)
Q Consensus 40 ~~~~~~W~C~~C~ 52 (190)
....++|.|+.|.
T Consensus 135 ~~~~GDW~Cp~C~ 147 (280)
T KOG4198|consen 135 PWRSGDWECPGCN 147 (280)
T ss_pred CccccCcccCCCC
Confidence 3568899999886
No 122
>KOG3612|consensus
Probab=30.74 E-value=39 Score=31.01 Aligned_cols=43 Identities=19% Similarity=0.203 Sum_probs=31.5
Q ss_pred CCCCceecCCCCCCCCCCCCCCCcccccccCCCCcccCCCCCCCc
Q psy11251 12 QPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECKCCSV 56 (190)
Q Consensus 12 ~~~~ll~C~~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~~C~~ 56 (190)
-.|.-+.|+.|-++||..|+.+.+... .....|.|+-|..|.+
T Consensus 68 lpg~vl~c~vc~Rs~h~~c~sp~~q~r--~~s~p~~~p~p~s~k~ 110 (588)
T KOG3612|consen 68 LPGAVLKCIVCHRSFHENCQSPDPQKR--NYSVPSDKPQPYSFKV 110 (588)
T ss_pred CCcceeeeehhhccccccccCcchhhc--cccccccCCcccccCC
Confidence 357788999999999999997755432 2355798888764443
No 123
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=29.95 E-value=18 Score=22.86 Aligned_cols=19 Identities=21% Similarity=0.594 Sum_probs=15.4
Q ss_pred CCCCCCCceecCCCCCCCC
Q psy11251 9 KSGQPEDLVSCSDCGRSGH 27 (190)
Q Consensus 9 ~~g~~~~ll~C~~C~~~~H 27 (190)
.+-||+.++.|-.|+.-|-
T Consensus 10 ~~RDGE~~lrCPRC~~~FR 28 (65)
T COG4049 10 RDRDGEEFLRCPRCGMVFR 28 (65)
T ss_pred eccCCceeeeCCchhHHHH
Confidence 3558999999999997764
No 124
>KOG1844|consensus
Probab=29.68 E-value=33 Score=30.85 Aligned_cols=22 Identities=27% Similarity=0.529 Sum_probs=20.3
Q ss_pred CCCceecCCCCCCCCCCCCCCC
Q psy11251 13 PEDLVSCSDCGRSGHPTCLQFT 34 (190)
Q Consensus 13 ~~~ll~C~~C~~~~H~~Cl~~~ 34 (190)
.|.++.|+.|++|-|..|.+..
T Consensus 98 ~g~~i~c~~c~~Wqh~~C~g~~ 119 (508)
T KOG1844|consen 98 EGLMIQCDWCGRWQHKICCGSF 119 (508)
T ss_pred CceeeCCcccCcccCceeeeec
Confidence 8999999999999999999864
No 125
>smart00132 LIM Zinc-binding domain present in Lin-11, Isl-1, Mec-3. Zinc-binding domain family. Some LIM domains bind protein partners via tyrosine-containing motifs. LIM domains are found in many key regulators of developmental pathways.
Probab=28.54 E-value=44 Score=17.91 Aligned_cols=10 Identities=60% Similarity=1.215 Sum_probs=4.9
Q ss_pred CCCCCCCcCC
Q psy11251 49 IECKCCSVCG 58 (190)
Q Consensus 49 ~~C~~C~~C~ 58 (190)
+.|-.|..|+
T Consensus 25 ~~Cf~C~~C~ 34 (39)
T smart00132 25 PECFKCSKCG 34 (39)
T ss_pred ccCCCCcccC
Confidence 4444555554
No 126
>PF01485 IBR: IBR domain; InterPro: IPR002867 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a cysteine-rich (C6HC) zinc finger domain that is present in Triad1, and which is conserved in other proteins encoded by various eukaryotes. The C6HC consensus pattern is: C-x(4)-C-x(14-30)-C-x(1-4)-C-x(4)-C-x(2)-C-x(4)-H-x(4)-C The C6HC zinc finger motif is the fourth family member of the zinc-binding RING, LIM, and LAP/PHD fingers. Strikingly, in most of the proteins the C6HC domain is flanked by two RING finger structures IPR001841 from INTERPRO. The novel C6HC motif has been called DRIL (double RING finger linked). The strong conservation of the larger tripartite TRIAD (twoRING fingers and DRIL) structure indicates that the three subdomains are functionally linked and identifies a novel class of proteins []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2CT7_A 1WD2_A 2JMO_A 1WIM_A.
Probab=28.07 E-value=55 Score=19.97 Aligned_cols=12 Identities=33% Similarity=0.838 Sum_probs=5.8
Q ss_pred cccCccCCcccC
Q psy11251 67 LFCDDCDRGYHM 78 (190)
Q Consensus 67 l~C~~C~~~~H~ 78 (190)
.+|..|...+|.
T Consensus 49 ~fC~~C~~~~H~ 60 (64)
T PF01485_consen 49 EFCFKCGEPWHE 60 (64)
T ss_dssp EECSSSTSESCT
T ss_pred cCccccCcccCC
Confidence 345555555553
No 127
>PRK13264 3-hydroxyanthranilate 3,4-dioxygenase; Provisional
Probab=27.12 E-value=31 Score=26.94 Aligned_cols=9 Identities=44% Similarity=1.579 Sum_probs=7.3
Q ss_pred CCcccCCCC
Q psy11251 44 YRWQCIECK 52 (190)
Q Consensus 44 ~~W~C~~C~ 52 (190)
-.|||++|.
T Consensus 119 ~~wyc~~c~ 127 (177)
T PRK13264 119 FQWYCDECN 127 (177)
T ss_pred eEEECCCCC
Confidence 369999987
No 128
>KOG2041|consensus
Probab=27.09 E-value=43 Score=32.07 Aligned_cols=34 Identities=26% Similarity=0.690 Sum_probs=16.7
Q ss_pred eecCCCCCCCCCCCCCCCcccccccCCCCcccCCCCCC
Q psy11251 17 VSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECKCC 54 (190)
Q Consensus 17 l~C~~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~~C 54 (190)
+.|..|...| +.|+.....+.. .--|.|+.|+.|
T Consensus 1132 ~~c~ec~~kf-P~CiasG~pIt~---~~fWlC~~CkH~ 1165 (1189)
T KOG2041|consen 1132 LQCSECQTKF-PVCIASGRPITD---NIFWLCPRCKHR 1165 (1189)
T ss_pred CCChhhcCcC-ceeeccCCcccc---ceEEEccccccc
Confidence 4455555555 556542111111 226888888633
No 129
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=26.40 E-value=46 Score=17.14 Aligned_cols=7 Identities=43% Similarity=1.341 Sum_probs=2.9
Q ss_pred ccccCcc
Q psy11251 66 LLFCDDC 72 (190)
Q Consensus 66 ll~C~~C 72 (190)
..+|..|
T Consensus 16 ~~fC~~C 22 (26)
T PF13248_consen 16 AKFCPNC 22 (26)
T ss_pred cccChhh
Confidence 3334444
No 130
>KOG0804|consensus
Probab=26.21 E-value=25 Score=31.50 Aligned_cols=30 Identities=27% Similarity=0.464 Sum_probs=18.8
Q ss_pred eecCCCCCCCCCCCCCCCcccccccCCCCcccCCCCCCC
Q psy11251 17 VSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECKCCS 55 (190)
Q Consensus 17 l~C~~C~~~~H~~Cl~~~~~~~~~~~~~~W~C~~C~~C~ 55 (190)
|.=.-|..+||-.|+..+. .-.||-|++|.
T Consensus 192 i~t~~c~Hsfh~~cl~~w~---------~~scpvcR~~q 221 (493)
T KOG0804|consen 192 ILTILCNHSFHCSCLMKWW---------DSSCPVCRYCQ 221 (493)
T ss_pred eeeeecccccchHHHhhcc---------cCcChhhhhhc
Confidence 3334578999999986533 23466666433
No 131
>smart00184 RING Ring finger. E3 ubiquitin-protein ligase activity is intrinsic to the RING domain of c-Cbl and is likely to be a general function of this domain; Various RING fingers exhibit binding activity towards E2 ubiquitin-conjugating enzymes (Ubc' s)
Probab=26.05 E-value=7.7 Score=20.73 Aligned_cols=14 Identities=14% Similarity=0.437 Sum_probs=8.7
Q ss_pred CccCCcccCCCCCC
Q psy11251 70 DDCDRGYHMYCLVP 83 (190)
Q Consensus 70 ~~C~~~~H~~Cl~p 83 (190)
..|+-.||..|+..
T Consensus 14 ~~C~H~~c~~C~~~ 27 (39)
T smart00184 14 LPCGHTFCRSCIRK 27 (39)
T ss_pred ecCCChHHHHHHHH
Confidence 34666677777653
No 132
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=25.69 E-value=56 Score=16.43 Aligned_cols=19 Identities=37% Similarity=1.076 Sum_probs=7.9
Q ss_pred CCcCCCCCCCCCccccCccC
Q psy11251 54 CSVCGTSDNDDQLLFCDDCD 73 (190)
Q Consensus 54 C~~C~~~~~~~~ll~C~~C~ 73 (190)
|..|+... .+...+|..|+
T Consensus 2 Cp~CG~~~-~~~~~fC~~CG 20 (23)
T PF13240_consen 2 CPNCGAEI-EDDAKFCPNCG 20 (23)
T ss_pred CcccCCCC-CCcCcchhhhC
Confidence 34444432 23344455554
No 133
>PF00412 LIM: LIM domain; InterPro: IPR001781 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents LIM-type zinc finger (Znf) domains. LIM domains coordinate one or more zinc atoms, and are named after the three proteins (LIN-11, Isl1 and MEC-3) in which they were first found. They consist of two zinc-binding motifs that resemble GATA-like Znf's, however the residues holding the zinc atom(s) are variable, involving Cys, His, Asp or Glu residues. LIM domains are involved in proteins with differing functions, including gene expression, and cytoskeleton organisation and development [, ]. Protein containing LIM Znf domains include: Caenorhabditis elegans mec-3; a protein required for the differentiation of the set of six touch receptor neurons in this nematode. C. elegans. lin-11; a protein required for the asymmetric division of vulval blast cells. Vertebrate insulin gene enhancer binding protein isl-1. Isl-1 binds to one of the two cis-acting protein-binding domains of the insulin gene. Vertebrate homeobox proteins lim-1, lim-2 (lim-5) and lim3. Vertebrate lmx-1, which acts as a transcriptional activator by binding to the FLAT element; a beta-cell-specific transcriptional enhancer found in the insulin gene. Mammalian LH-2, a transcriptional regulatory protein involved in the control of cell differentiation in developing lymphoid and neural cell types. Drosophila melanogaster (Fruit fly) protein apterous, required for the normal development of the wing and halter imaginal discs. Vertebrate protein kinases LIMK-1 and LIMK-2. Mammalian rhombotins. Rhombotin 1 (RBTN1 or TTG-1) and rhombotin-2 (RBTN2 or TTG-2) are proteins of about 160 amino acids whose genes are disrupted by chromosomal translocations in T-cell leukemia. Mammalian and avian cysteine-rich protein (CRP), a 192 amino-acid protein of unknown function. Seems to interact with zyxin. Mammalian cysteine-rich intestinal protein (CRIP), a small protein which seems to have a role in zinc absorption and may function as an intracellular zinc transport protein. Vertebrate paxillin, a cytoskeletal focal adhesion protein. Mus musculus (Mouse) testin which should not be confused with rat testin which is a thiol protease homologue (see IPR000169 from INTERPRO). Helianthus annuus (Common sunflower) pollen specific protein SF3. Chicken zyxin. Zyxin is a low-abundance adhesion plaque protein which has been shown to interact with CRP. Yeast protein LRG1 which is involved in sporulation []. Saccharomyces cerevisiae (Baker's yeast) rho-type GTPase activating protein RGA1/DBM1. C. elegans homeobox protein ceh-14. C. elegans homeobox protein unc-97. S. cerevisiae hypothetical protein YKR090w. C. elegans hypothetical proteins C28H8.6. These proteins generally contain two tandem copies of the LIM domain in their N-terminal section. Zyxin and paxillin are exceptions in that they contain respectively three and four LIM domains at their C-terminal extremity. In apterous, isl-1, LH-2, lin-11, lim-1 to lim-3, lmx-1 and ceh-14 and mec-3 there is a homeobox domain some 50 to 95 amino acids after the LIM domains. LIM domains contain seven conserved cysteine residues and a histidine. The arrangement followed by these conserved residues is: C-x(2)-C-x(16,23)-H-x(2)-[CH]-x(2)-C-x(2)-C-x(16,21)-C-x(2,3)-[CHD] LIM domains bind two zinc ions []. LIM does not bind DNA, rather it seems to act as an interface for protein-protein interaction. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2CO8_A 2EGQ_A 2CUR_A 3IXE_B 1CTL_A 1B8T_A 1X62_A 2DFY_C 1IML_A 2CUQ_A ....
Probab=24.84 E-value=50 Score=19.80 Aligned_cols=19 Identities=42% Similarity=0.761 Sum_probs=12.6
Q ss_pred CCCcccCCCCCCCcCCCCCC
Q psy11251 43 QYRWQCIECKCCSVCGTSDN 62 (190)
Q Consensus 43 ~~~W~C~~C~~C~~C~~~~~ 62 (190)
...| -++|-.|..|++.-.
T Consensus 19 ~~~~-H~~Cf~C~~C~~~l~ 37 (58)
T PF00412_consen 19 GKFW-HPECFKCSKCGKPLN 37 (58)
T ss_dssp TEEE-ETTTSBETTTTCBTT
T ss_pred CcEE-EccccccCCCCCccC
Confidence 3345 478888888886543
No 134
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=24.40 E-value=73 Score=28.03 Aligned_cols=34 Identities=24% Similarity=0.368 Sum_probs=27.5
Q ss_pred cccccHHHHHhhhhhhhhhhhhhhHHHHHHHhhc
Q psy11251 149 YMRDSDAAKRLLYRRLRCLADYENANRNLERART 182 (190)
Q Consensus 149 y~~~~~a~~~ll~rr~~~l~~~~~~~~~l~~~~~ 182 (190)
..++.-..-.-||||-+.+++|-.++|.|++..+
T Consensus 243 l~r~~~t~~~AL~~~i~~~~~~~r~~kdl~~~~~ 276 (491)
T COG5243 243 LIRQMYTCFYALFRRIREHARFRRATKDLNAMYP 276 (491)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhHHHhhcc
Confidence 3444455555589999999999999999999877
No 135
>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=24.35 E-value=44 Score=19.96 Aligned_cols=16 Identities=31% Similarity=0.889 Sum_probs=10.3
Q ss_pred CCCcccCCCC---CCCcCC
Q psy11251 43 QYRWQCIECK---CCSVCG 58 (190)
Q Consensus 43 ~~~W~C~~C~---~C~~C~ 58 (190)
...|.|..|. .|..|-
T Consensus 13 G~RykC~~C~dyDLC~~Cf 31 (45)
T cd02344 13 GPRFKCRNCDDFDFCENCF 31 (45)
T ss_pred cCeEECCCCCCccchHHhh
Confidence 5678888875 455554
No 136
>PF10080 DUF2318: Predicted membrane protein (DUF2318); InterPro: IPR018758 This domain of unknown function is found in hypothetical bacterial membrane proteins with no known function.
Probab=24.02 E-value=29 Score=24.56 Aligned_cols=28 Identities=21% Similarity=0.820 Sum_probs=20.7
Q ss_pred CCCcCCCCC--CCCCccccCccCCcccCCC
Q psy11251 53 CCSVCGTSD--NDDQLLFCDDCDRGYHMYC 80 (190)
Q Consensus 53 ~C~~C~~~~--~~~~ll~C~~C~~~~H~~C 80 (190)
.|.+|+..+ ..+..|.|-.|+..|++.=
T Consensus 37 aCeiC~~~GY~q~g~~lvC~~C~~~~~~~~ 66 (102)
T PF10080_consen 37 ACEICGPKGYYQEGDQLVCKNCGVRFNLPT 66 (102)
T ss_pred eccccCCCceEEECCEEEEecCCCEEehhh
Confidence 788887543 3467788999999998543
No 137
>PF07496 zf-CW: CW-type Zinc Finger; InterPro: IPR011124 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a CW-type zinc finger motif, named for its conserved cysteine and tryptophan residues. It is predicted to be a highly specialised mononuclear four-cysteine (C4) zinc finger that plays a role in DNA binding and/or promoting protein-protein interactions in complicated eukaryotic processes including chromatin methylation status and early embryonic development. Weak homology to members of IPR001965 from INTERPRO further evidences these predictions. The domain is found exclusively in vertebrates, vertebrate-infecting parasites and higher plants []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2RR4_A 2E61_A 2L7P_A.
Probab=23.98 E-value=24 Score=21.38 Aligned_cols=30 Identities=27% Similarity=0.661 Sum_probs=13.0
Q ss_pred cccCccCCcccCCCCCCC-CCCCCCCCccCcc
Q psy11251 67 LFCDDCDRGYHMYCLVPP-IQTPPEGSWSCQL 97 (190)
Q Consensus 67 l~C~~C~~~~H~~Cl~p~-l~~~p~~~W~C~~ 97 (190)
|.|+.|.++=.+.=-... ....|. .|+|..
T Consensus 4 VQCd~C~KWR~lp~~~~~~~~~~~d-~W~C~~ 34 (50)
T PF07496_consen 4 VQCDSCLKWRRLPEEVDPIREELPD-PWYCSM 34 (50)
T ss_dssp EE-TTT--EEEE-CCHHCTSCCSST-T--GGG
T ss_pred EECCCCCceeeCChhhCcccccCCC-eEEcCC
Confidence 678888877765511111 133455 899985
No 138
>PF14787 zf-CCHC_5: GAG-polyprotein viral zinc-finger; PDB: 1CL4_A 1DSV_A.
Probab=23.67 E-value=46 Score=18.95 Aligned_cols=12 Identities=33% Similarity=1.146 Sum_probs=8.4
Q ss_pred ccCccCCcccCC
Q psy11251 68 FCDDCDRGYHMY 79 (190)
Q Consensus 68 ~C~~C~~~~H~~ 79 (190)
.|-.|.++||..
T Consensus 4 ~CprC~kg~Hwa 15 (36)
T PF14787_consen 4 LCPRCGKGFHWA 15 (36)
T ss_dssp C-TTTSSSCS-T
T ss_pred cCcccCCCcchh
Confidence 588899999975
No 139
>cd00729 rubredoxin_SM Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=23.58 E-value=54 Score=18.15 Aligned_cols=6 Identities=50% Similarity=1.680 Sum_probs=2.5
Q ss_pred CCCcCC
Q psy11251 53 CCSVCG 58 (190)
Q Consensus 53 ~C~~C~ 58 (190)
.|.+|+
T Consensus 20 ~CP~Cg 25 (34)
T cd00729 20 KCPICG 25 (34)
T ss_pred cCcCCC
Confidence 344444
No 140
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=23.08 E-value=56 Score=27.85 Aligned_cols=18 Identities=22% Similarity=0.661 Sum_probs=13.4
Q ss_pred CCCCccccCccCCcccCC
Q psy11251 62 NDDQLLFCDDCDRGYHMY 79 (190)
Q Consensus 62 ~~~~ll~C~~C~~~~H~~ 79 (190)
++...+.|..|...||+.
T Consensus 208 ~G~RyL~CslC~teW~~~ 225 (309)
T PRK03564 208 QGLRYLHCNLCESEWHVV 225 (309)
T ss_pred CCceEEEcCCCCCccccc
Confidence 345678899998888853
No 141
>cd07624 BAR_SNX7_30 The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexins 7 and 30. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. This subfamily consists of SNX7, SNX30, and similar proteins. The specific functions of SNX7 and SNX30 have not been elucidated. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions.
Probab=22.87 E-value=53 Score=25.83 Aligned_cols=57 Identities=26% Similarity=0.337 Sum_probs=44.9
Q ss_pred HHHHhhcccccCCCCCcCccccccccccHHHHHhhhhhhhhhhhhhhHHHHHHHhhc
Q psy11251 126 KLRKVEGRIACDEDLKLSDTLRYYMRDSDAAKRLLYRRLRCLADYENANRNLERART 182 (190)
Q Consensus 126 k~rkle~r~a~dedlkl~d~l~~y~~~~~a~~~ll~rr~~~l~~~~~~~~~l~~~~~ 182 (190)
........++...+..+...++.|..-.++-+.++-.|.+.-.+|+.+...|.+-+.
T Consensus 81 ~~~~~~~~l~~~~~~~f~e~Lkey~~y~~svk~~l~~R~~~q~~~e~~~e~L~~k~~ 137 (200)
T cd07624 81 RCTAALEVLLSDHEFVFLPPLREYLLYSDAVKDVLKRRDQFQIEYELSVEELNKKRL 137 (200)
T ss_pred HHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333344444545566788889999999999999999999999999999999988664
No 142
>KOG1311|consensus
Probab=22.80 E-value=74 Score=26.52 Aligned_cols=12 Identities=25% Similarity=0.708 Sum_probs=5.5
Q ss_pred CCCcccCCCCCC
Q psy11251 43 QYRWQCIECKCC 54 (190)
Q Consensus 43 ~~~W~C~~C~~C 54 (190)
+..|+|+.|+.|
T Consensus 125 pRs~HCsvC~~C 136 (299)
T KOG1311|consen 125 PRSSHCSVCNNC 136 (299)
T ss_pred CCcccchhhccc
Confidence 334555544433
No 143
>KOG1169|consensus
Probab=22.79 E-value=44 Score=31.29 Aligned_cols=81 Identities=23% Similarity=0.461 Sum_probs=51.7
Q ss_pred CCCCccCCCCCC-CCceecCCCCCCCCCCCCCCCc-c---------cccccCCCCcccCCCC--CCCcCCCC---CCCCC
Q psy11251 2 LCPTQAEKSGQP-EDLVSCSDCGRSGHPTCLQFTN-N---------MKVSVKQYRWQCIECK--CCSVCGTS---DNDDQ 65 (190)
Q Consensus 2 ~C~~~~~~~g~~-~~ll~C~~C~~~~H~~Cl~~~~-~---------~~~~~~~~~W~C~~C~--~C~~C~~~---~~~~~ 65 (190)
.|.+.++..|.+ ...++|+.|++..|..|..... + ....+....|....+. .|..|... ..+..
T Consensus 114 ~c~~~c~~~~~~~~~g~~C~~C~~~vh~~C~~~~~~~~~~~~~~~~~r~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 193 (634)
T KOG1169|consen 114 VCPKSCGSCGVGIKQGLCCDWCGRTVHERCVRRADPECQCKCDLGRLRKIVLDHPWVKGNAGEAKCDQCLKSVKADQGLT 193 (634)
T ss_pred eccccccchhhcccCceeeccccchHHHHHHhhcCcccccccccccccceeecCcccccccCCccchhhhcccccccccc
Confidence 477777777777 7789999999999999986322 1 1112223345554442 33333322 23345
Q ss_pred ccccCccCCcccCCCCC
Q psy11251 66 LLFCDDCDRGYHMYCLV 82 (190)
Q Consensus 66 ll~C~~C~~~~H~~Cl~ 82 (190)
+..|.-|...+|..|..
T Consensus 194 ~~~c~~~~~~~h~~~~~ 210 (634)
T KOG1169|consen 194 GPRCGWCQIRVHDKCKS 210 (634)
T ss_pred ccccceeeeeeecchHH
Confidence 67888999999988854
No 144
>COG4260 Membrane protease subunit, stomatin/prohibitin family [Amino acid transport and metabolism]
Probab=21.85 E-value=62 Score=27.45 Aligned_cols=19 Identities=32% Similarity=1.029 Sum_probs=13.2
Q ss_pred ccCCCCcccCCCC---CCCcCC
Q psy11251 40 SVKQYRWQCIECK---CCSVCG 58 (190)
Q Consensus 40 ~~~~~~W~C~~C~---~C~~C~ 58 (190)
..|...|-|++|. +|..|+
T Consensus 301 a~pa~t~~~~r~~k~nfc~ncG 322 (345)
T COG4260 301 AAPAATWPCARCAKLNFCLNCG 322 (345)
T ss_pred cCCcccCcchhccccccccccC
Confidence 4567799998884 555555
No 145
>PF05502 Dynactin_p62: Dynactin p62 family; InterPro: IPR008603 Dynactin is a multi-subunit complex and a required cofactor for most, or all, o f the cellular processes powered by the microtubule-based motor cytoplasmic dyn ein. p62 binds directly to the Arp1 subunit of dynactin [, ].
Probab=21.76 E-value=50 Score=29.90 Aligned_cols=9 Identities=22% Similarity=1.158 Sum_probs=6.1
Q ss_pred ccCcccccc
Q psy11251 93 WSCQLCLKE 101 (190)
Q Consensus 93 W~C~~C~~~ 101 (190)
|.||.|...
T Consensus 53 f~CP~C~~~ 61 (483)
T PF05502_consen 53 FDCPICFSP 61 (483)
T ss_pred ccCCCCCCc
Confidence 777777654
No 146
>TIGR01562 FdhE formate dehydrogenase accessory protein FdhE. The only sequence scoring between trusted and noise is that from Aquifex aeolicus, which shows certain structural differences from the proteobacterial forms in the alignment. However it is notable that A. aeolicus also has a sequence scoring above trusted to the alpha subunit of formate dehydrogenase (TIGR01553).
Probab=21.42 E-value=62 Score=27.52 Aligned_cols=18 Identities=22% Similarity=0.488 Sum_probs=13.8
Q ss_pred CCCCccccCccCCcccCC
Q psy11251 62 NDDQLLFCDDCDRGYHMY 79 (190)
Q Consensus 62 ~~~~ll~C~~C~~~~H~~ 79 (190)
++...+.|..|...||+.
T Consensus 206 ~G~RyL~CslC~teW~~~ 223 (305)
T TIGR01562 206 TGLRYLSCSLCATEWHYV 223 (305)
T ss_pred CCceEEEcCCCCCccccc
Confidence 345679999999998853
No 147
>PF03380 DUF282: Caenorhabditis protein of unknown function, DUF282; InterPro: IPR005044 This family consists of proteins of unknown function found in Caenorhabditis species.
Probab=21.34 E-value=85 Score=18.23 Aligned_cols=15 Identities=27% Similarity=0.618 Sum_probs=13.0
Q ss_pred cCccCCcccCCCCCC
Q psy11251 69 CDDCDRGYHMYCLVP 83 (190)
Q Consensus 69 C~~C~~~~H~~Cl~p 83 (190)
|..|.+.|...|.+.
T Consensus 2 Cs~C~~iYdt~CqG~ 16 (39)
T PF03380_consen 2 CSVCSKIYDTTCQGF 16 (39)
T ss_pred CcccccccCCCCccC
Confidence 778999999999983
No 148
>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=21.28 E-value=79 Score=16.29 Aligned_cols=7 Identities=29% Similarity=1.132 Sum_probs=4.7
Q ss_pred CcccCCC
Q psy11251 45 RWQCIEC 51 (190)
Q Consensus 45 ~W~C~~C 51 (190)
.+.||+|
T Consensus 16 ~f~CPnC 22 (24)
T PF07754_consen 16 PFPCPNC 22 (24)
T ss_pred eEeCCCC
Confidence 5667776
No 149
>PF09297 zf-NADH-PPase: NADH pyrophosphatase zinc ribbon domain; InterPro: IPR015376 This domain has a zinc ribbon structure and is often found between two NUDIX domains.; GO: 0016787 hydrolase activity, 0046872 metal ion binding; PDB: 1VK6_A 2GB5_A.
Probab=21.28 E-value=44 Score=18.03 Aligned_cols=22 Identities=23% Similarity=0.628 Sum_probs=8.4
Q ss_pred CCCcCCCC---CCCCCccccCccCC
Q psy11251 53 CCSVCGTS---DNDDQLLFCDDCDR 74 (190)
Q Consensus 53 ~C~~C~~~---~~~~~ll~C~~C~~ 74 (190)
+|..|+.. ..++....|..|+.
T Consensus 5 fC~~CG~~t~~~~~g~~r~C~~Cg~ 29 (32)
T PF09297_consen 5 FCGRCGAPTKPAPGGWARRCPSCGH 29 (32)
T ss_dssp B-TTT--BEEE-SSSS-EEESSSS-
T ss_pred ccCcCCccccCCCCcCEeECCCCcC
Confidence 45555532 23345556666543
No 150
>KOG2752|consensus
Probab=21.06 E-value=57 Score=27.92 Aligned_cols=25 Identities=20% Similarity=0.460 Sum_probs=21.3
Q ss_pred CCCCCCceecCCCCCCCC-CCCCCCC
Q psy11251 10 SGQPEDLVSCSDCGRSGH-PTCLQFT 34 (190)
Q Consensus 10 ~g~~~~ll~C~~C~~~~H-~~Cl~~~ 34 (190)
...+|.|+.|.-|.-||| ..|++..
T Consensus 142 ~~~e~~m~QC~iCEDWFHce~c~~~~ 167 (345)
T KOG2752|consen 142 RTEEGEMLQCVICEDWFHCEGCMQAK 167 (345)
T ss_pred ccccceeeeEEeccchhcccccCccc
Confidence 567899999999999999 8887643
No 151
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=20.87 E-value=57 Score=20.81 Aligned_cols=12 Identities=33% Similarity=0.725 Sum_probs=8.0
Q ss_pred ceecCCCCCCCC
Q psy11251 16 LVSCSDCGRSGH 27 (190)
Q Consensus 16 ll~C~~C~~~~H 27 (190)
.-.|.+|+...|
T Consensus 9 ~~~CtSCg~~i~ 20 (61)
T COG2888 9 PPVCTSCGREIA 20 (61)
T ss_pred CceeccCCCEec
Confidence 446777777654
No 152
>KOG1081|consensus
Probab=20.80 E-value=76 Score=28.61 Aligned_cols=28 Identities=25% Similarity=0.517 Sum_probs=19.6
Q ss_pred CCCcCCCCCCCCCccccC--------ccCCcccCCCCCC
Q psy11251 53 CCSVCGTSDNDDQLLFCD--------DCDRGYHMYCLVP 83 (190)
Q Consensus 53 ~C~~C~~~~~~~~ll~C~--------~C~~~~H~~Cl~p 83 (190)
.|.+|. +++.++.|+ .|..+||..|...
T Consensus 91 ~c~vc~---~ggs~v~~~s~~~~~~r~c~~~~~~~c~~~ 126 (463)
T KOG1081|consen 91 ECFVCF---KGGSLVTCKSRIQAPHRKCKPAQLEKCSKR 126 (463)
T ss_pred hhcccc---CCCccceeccccccccccCcCccCcccccC
Confidence 788888 478888888 4556666665554
No 153
>PRK04023 DNA polymerase II large subunit; Validated
Probab=20.71 E-value=1.2e+02 Score=30.18 Aligned_cols=30 Identities=33% Similarity=0.845 Sum_probs=19.2
Q ss_pred cCCCCcccCCCC------CCCcCCCCCCCCCccccCcc
Q psy11251 41 VKQYRWQCIECK------CCSVCGTSDNDDQLLFCDDC 72 (190)
Q Consensus 41 ~~~~~W~C~~C~------~C~~C~~~~~~~~ll~C~~C 72 (190)
++.+.-+|+.|. .|..||.. .....+|..|
T Consensus 622 VEVg~RfCpsCG~~t~~frCP~CG~~--Te~i~fCP~C 657 (1121)
T PRK04023 622 VEIGRRKCPSCGKETFYRRCPFCGTH--TEPVYRCPRC 657 (1121)
T ss_pred ecccCccCCCCCCcCCcccCCCCCCC--CCcceeCccc
Confidence 344556777775 67777753 4556677777
No 154
>KOG1734|consensus
Probab=20.15 E-value=25 Score=29.40 Aligned_cols=49 Identities=18% Similarity=0.476 Sum_probs=30.3
Q ss_pred CCCcCCCCCCCCC-------ccccCccCCcccCCCCCCCCCCCCCCCccCcccccccc
Q psy11251 53 CCSVCGTSDNDDQ-------LLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLKEFH 103 (190)
Q Consensus 53 ~C~~C~~~~~~~~-------ll~C~~C~~~~H~~Cl~p~l~~~p~~~W~C~~C~~~~~ 103 (190)
+|.+|++..+.+. .+.=-.|.-.||.+|..-= -+-...-.||-|+.+..
T Consensus 226 vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGW--civGKkqtCPYCKekVd 281 (328)
T KOG1734|consen 226 VCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGW--CIVGKKQTCPYCKEKVD 281 (328)
T ss_pred hhHhhcchheeecchhhhhhhheeeecccchHHHhhhhh--eeecCCCCCchHHHHhh
Confidence 8999987643322 2333468899999997631 11112348999987543
Done!