-->
Receptor
PDB id Resolution Class Description Source Keywords
3ZF8 1.98 Å EC: 7.-.-.- CRYSTAL STRUCTURE OF SACCHAROMYCES CEREVISIAE MNN9 IN COMPLEX WITH GDP AND MN. SACCHAROMYCES CEREVISIAE TRANSFERASE
Ref.: YEAST MNN9 IS BOTH A PRIMING GLYCOSYLTRANSFERASE AN ALLOSTERIC ACTIVATOR OF MANNAN BIOSYNTHESIS. OPEN BIOL. V. 3 30022 2013
Ligand
Ligand Chain:Residue Validity Ligand Warnings Binding Data NGL Viewer Molecular Weight (Da) Formula SMILES
MN A:1396;
Part of Protein;
none;
submit data
54.938 Mn [Mn+2...
GDP A:1395;
Valid;
none;
submit data
443.201 C10 H15 N5 O11 P2 c1nc2...
View in 3D viewer
90% Homology Family
Leader
PDB id Resolution Class Description Source Keywords
3ZF8 1.98 Å EC: 7.-.-.- CRYSTAL STRUCTURE OF SACCHAROMYCES CEREVISIAE MNN9 IN COMPLEX WITH GDP AND MN. SACCHAROMYCES CEREVISIAE TRANSFERASE
Ref.: YEAST MNN9 IS BOTH A PRIMING GLYCOSYLTRANSFERASE AN ALLOSTERIC ACTIVATOR OF MANNAN BIOSYNTHESIS. OPEN BIOL. V. 3 30022 2013
Members (1)
No: PDB id Binding Data Representative ligand Formula Smiles
The Class containing this family consists of a total of 293 families.
1 3ZF8 - GDP C10 H15 N5 O11 P2 c1nc2c(n1[....
70% Homology Family (1)
No: PDB id Binding Data Representative ligand Formula Smiles
The Class containing this family consists of a total of 250 families.
1 3ZF8 - GDP C10 H15 N5 O11 P2 c1nc2c(n1[....
50% Homology Family (1)
No: PDB id Binding Data Representative ligand Formula Smiles
The Class containing this family consists of a total of 204 families.
1 3ZF8 - GDP C10 H15 N5 O11 P2 c1nc2c(n1[....
Polypharmacology
Similar Ligands
Ligand no: 1; Ligand: GDP; Similar ligands found: 161
No: Ligand ECFP6 Tc MDL keys Tc
1 GDP 1 1
2 GTP 0.909091 1
3 GP3 0.881579 0.973684
4 GNH 0.858974 0.986667
5 9GM 0.839506 0.973684
6 GNP 0.839506 0.973684
7 G 0.828947 0.986486
8 5GP 0.828947 0.986486
9 G1R 0.82716 0.986667
10 GCP 0.82716 0.973684
11 GSP 0.817073 0.948718
12 GAV 0.797619 0.961039
13 GMV 0.792683 0.973684
14 G2P 0.77381 0.961039
15 G2R 0.770115 0.961039
16 GP2 0.756098 0.961039
17 GDC 0.747253 0.961039
18 GKE 0.747253 0.961039
19 GDD 0.747253 0.961039
20 GPG 0.741573 0.961039
21 G3D 0.732558 0.986486
22 ALF 5GP 0.729412 0.888889
23 Y9Z 0.728261 0.902439
24 G5P 0.723404 0.973684
25 GFB 0.72043 0.961039
26 GTG 0.72043 0.936709
27 GDR 0.72043 0.961039
28 G4P 0.715909 0.986486
29 G3A 0.712766 0.973684
30 6CK 0.712766 0.936709
31 GDP AF3 0.7 0.888889
32 ALF GDP 0.7 0.888889
33 GDP ALF 0.7 0.888889
34 YGP 0.698925 0.901235
35 GKD 0.697917 0.961039
36 JB2 0.697917 0.961039
37 GDX 0.690722 0.973684
38 GPD 0.690722 0.925
39 GMP 0.684211 0.88
40 0O2 0.666667 0.986486
41 JB3 0.656863 0.948718
42 NGD 0.650485 0.961039
43 DGI 0.636364 0.923077
44 GDP 7MG 0.636364 0.911392
45 U2G 0.634615 0.936709
46 GPX 0.634409 0.946667
47 G G 0.632653 0.948052
48 IDP 0.632184 0.972973
49 2MD 0.632075 0.891566
50 CAG 0.62963 0.880952
51 CG2 0.622642 0.936709
52 FEG 0.619048 0.879518
53 MGD 0.614679 0.891566
54 ZGP 0.613208 0.869048
55 GH3 0.612903 0.973333
56 3GP 0.611765 0.946667
57 MD1 0.607143 0.891566
58 PGD 0.59292 0.925
59 DGT 0.591398 0.923077
60 BGO 0.588785 0.924051
61 TPG 0.582609 0.840909
62 DBG 0.582609 0.948718
63 2GP 0.574713 0.96
64 FE9 0.570175 0.776596
65 GCP G 0.56 0.921053
66 A G 0.553571 0.935065
67 G A A A 0.553571 0.923077
68 MGP 0.553191 0.961039
69 U A G G 0.548673 0.935065
70 G4M 0.548387 0.880952
71 6G0 0.547368 0.961039
72 G1R G1R 0.542373 0.924051
73 P2G 0.527473 0.883117
74 PGD O 0.525 0.850575
75 ADP 0.522222 0.92
76 R5I 0.520833 0.946667
77 R7I 0.520833 0.946667
78 GGM 0.517544 0.901235
79 DGP 0.516484 0.910256
80 DG 0.516484 0.910256
81 P1G 0.516129 0.871795
82 G U 0.513274 0.9
83 G1G 0.508475 0.925
84 IMP 0.505495 0.959459
85 AKW 0.504425 0.890244
86 G C 0.504348 0.9
87 GPC 0.491525 0.879518
88 G7M 0.483871 0.948052
89 6AD 0.479592 0.841463
90 ATP 0.473684 0.92
91 HEJ 0.473684 0.92
92 G2Q 0.471154 0.961039
93 5FA 0.46875 0.92
94 AQP 0.46875 0.92
95 GTA 0.468468 0.936709
96 7DD 0.468085 0.906667
97 G G G RPC 0.466102 0.875
98 SGP 0.463158 0.82716
99 01G 0.462963 0.902439
100 HFD 0.459184 0.873418
101 B4P 0.457447 0.894737
102 AP5 0.457447 0.894737
103 A2D 0.456522 0.894737
104 6YZ 0.455446 0.896104
105 G G G C 0.455285 0.9125
106 5GP 5GP 0.454545 0.883117
107 ANP 0.454545 0.896104
108 ACQ 0.454545 0.896104
109 AT4 0.452632 0.884615
110 A G C C 0.451613 0.911392
111 APC G U 0.45082 0.886076
112 PRT 0.449541 0.959459
113 G U34 0.449153 0.888889
114 DG DG 0.448598 0.865854
115 ITT 0.447917 0.868421
116 BA3 0.446809 0.894737
117 C2E 0.444444 0.921053
118 PCG 0.444444 0.933333
119 35G 0.444444 0.933333
120 MGO 0.441176 0.864198
121 AN2 0.4375 0.907895
122 G C C C 0.4375 0.924051
123 M33 0.43299 0.883117
124 UCG 0.429688 0.911392
125 A G U 0.42963 0.888889
126 ACP 0.428571 0.896104
127 MGQ 0.424528 0.935897
128 AR6 0.424242 0.894737
129 7DT 0.424242 0.906667
130 APR 0.424242 0.894737
131 93A 0.42268 0.833333
132 A4P 0.420168 0.869048
133 G8D 0.42 0.875
134 AD9 0.42 0.896104
135 SAP 0.42 0.873418
136 AGS 0.42 0.873418
137 CA0 0.418367 0.896104
138 ATF 0.417476 0.884615
139 AGO 0.414634 0.888889
140 A G U U 0.414286 0.888889
141 NIA 0.413043 0.82716
142 MGV 0.412844 0.890244
143 TAT 0.411765 0.884615
144 T99 0.411765 0.884615
145 ADQ 0.411215 0.871795
146 A1R 0.411215 0.839506
147 RGT 0.410714 0.909091
148 CGP 0.409836 0.86747
149 C1Z 0.409091 0.986486
150 A 0.408602 0.893333
151 AMP 0.408602 0.893333
152 UP5 0.40678 0.873418
153 AMZ 0.406593 0.918919
154 C2R 0.406593 0.906667
155 JBT 0.405882 0.778947
156 A22 0.40566 0.907895
157 25L 0.405405 0.907895
158 ADX 0.40404 0.809524
159 8OD 0.401961 0.946667
160 50T 0.4 0.883117
161 4TC 0.4 0.851852
Similar Binding Sites (Proteins are less than 50% similar to leader)
Pocket No.: 1; Query (leader) PDB : 3ZF8; Ligand: GDP; Similar sites found with APoc: 270
This union binding pocket(no: 1) in the query (biounit: 3zf8.bio1) has 16 residues
No: Leader PDB Ligand Sequence Similarity
1 3QXV MTX None
2 4EA7 COA None
3 4EA7 JB2 None
4 1C4Q GLA GAL BGC None
5 1KGI T4A None
6 5TVI O8N None
7 4NTD FAD 1.31148
8 5NUE NAD 1.31148
9 5OCG 9R5 1.5873
10 5MW4 5JU 1.63934
11 1JV1 UD1 1.63934
12 1RHC F42 ACN 1.63934
13 3O9Z NAD 1.63934
14 2WA2 SAM 1.63934
15 3O9Z AKG 1.63934
16 6CC0 EWM 1.68776
17 6FA4 D1W 1.7341
18 2G30 ALA ALA PHE 1.93798
19 2BO4 FLC 1.96721
20 3PP0 03Q 1.96721
21 3FPZ AHZ 1.96721
22 5F7R GLC GLC 1.96721
23 2XXP DSL 1.96721
24 4JNA FAD 1.96721
25 3OJO NAD 1.96721
26 5H4S RAM 2.11268
27 5U5N NAD 2.15054
28 1MXH NAP 2.17391
29 1H5Q NAP 2.26415
30 1JGT CMA 2.29508
31 1JGT APC 2.29508
32 6H21 UD1 2.29508
33 5F7J ADE 2.29508
34 2Q1W NAD 2.29508
35 3BJE URA 2.29508
36 4RPL 3UC 2.29508
37 4RPL FAD 2.29508
38 1COY FAD 2.29508
39 1EBF NAD 2.29508
40 3B4Y F42 2.29508
41 2VHW NAI 2.29508
42 1QGQ UDP 2.35294
43 4IRP UDP 2.39044
44 4R81 FMN 2.42718
45 3CU0 GAL GAL SO4 2.4911
46 3CU0 UDP 2.4911
47 5F6U 5VK 2.54777
48 1KQP ADJ 2.58303
49 2C5S AMP 2.62295
50 1Y42 TYR 2.62295
51 2CYB TYR 2.62295
52 1YP4 ADP 2.62295
53 5A07 GDP 2.62295
54 2PID YSA 2.62295
55 1S4P MMA 2.62295
56 1S4P GDP 2.62295
57 4CE5 PDG 2.62295
58 1YP4 ADQ 2.62295
59 1WOR RED 2.62295
60 1H82 FAD 2.62295
61 2APC UDM 2.62295
62 5AJP UDP 2.62295
63 1GUZ NAD 2.62295
64 1X8X TYR 2.62295
65 3G6K FAD 2.62295
66 2D7I UDP 2.62295
67 5NDF UDP 2.62295
68 2A8X FAD 2.62295
69 1HV9 UD1 2.62295
70 3G6K POP 2.62295
71 3LF0 ATP 2.63158
72 1ZPT FAD 2.63158
73 1VCE SAH 2.64151
74 3U2U UDP 2.6616
75 1U7T TDT 2.68199
76 4GLJ RHB 2.6936
77 3GRU AMP 2.71186
78 1OMZ UD2 2.73038
79 4QAC KK3 2.76498
80 4DXD GDP 2.77778
81 3FIU AMP 2.81124
82 3GFS FMN 2.87356
83 4IF4 BEF 2.88462
84 2OYS FMN 2.89256
85 4DEC 3PG 2.95082
86 4DEC UDP 2.95082
87 5TZJ UD1 2.95082
88 1CT9 AMP 2.95082
89 2Z3U CRR 2.95082
90 1H2B NAJ 2.95082
91 3QVP FAD 2.95082
92 1JIL 485 2.95082
93 4GKV NAD 2.95082
94 6H0B UDP 2.95082
95 5EZ7 FAD 2.95082
96 1LDN NAD 2.95082
97 3VPH NAD 2.95082
98 3VPH OXM 2.95082
99 1WNG SAH 3.01887
100 4Y7U 2KH 3.0303
101 4ITH RCM 3.06122
102 5LYH 7B8 3.10881
103 3OQJ 3CX 3.11284
104 2XWL CTP 3.13901
105 5Z2L NDP 3.26531
106 1ELI PYC 3.27869
107 1ZK7 FAD 3.27869
108 3FGC FMN 3.27869
109 2RKV ZBA 3.27869
110 1LSH PLD 3.27869
111 1HYH NAD 3.27869
112 2RAB FAD 3.27869
113 4N65 FMN 3.30189
114 2A8Y MTA 3.33333
115 1I52 CTP 3.38983
116 5AHW CMP 3.40136
117 3K8D CTP 3.40909
118 2B3D FAD 3.43137
119 2OQ2 A3P 3.44828
120 1V84 UDP 3.55731
121 1GPM AMP 3.60656
122 4KQL 1SG 3.60656
123 5U97 PIT 3.60656
124 3L9W AMP 3.60656
125 3VMF GTP 3.60656
126 4RF7 ARG 3.60656
127 5X8G S0N 3.60656
128 2NPX FAD 3.60656
129 1X87 NAD 3.62976
130 3DJF BC3 3.83275
131 3KVY URA 3.93443
132 5MDH NAD 3.93443
133 5HW4 SAM 4.03226
134 6EMU SAM 4.06091
135 1IIM TTP 4.10959
136 3ZJX BOG 4.15225
137 2PZ8 APC 4.22535
138 4RL4 PPV 4.24528
139 1H3F TYE 4.2623
140 1PJS SAH 4.2623
141 3GFB NAD 4.2623
142 3OH3 UAD 4.2623
143 1RYD GLC 4.39277
144 6B2M COA 4.54545
145 1UWK URO 4.59016
146 1UWK NAD 4.59016
147 1I8T FAD 4.59016
148 5I7A 68Q 4.59016
149 1W55 C 4.59016
150 5FWA J7C 4.59016
151 3CM2 X23 4.61538
152 2VAP GDP 4.67033
153 2PV7 NAD 4.69799
154 1WXI AMP 4.72727
155 1V59 FAD 4.81172
156 1XNG ATP 4.85075
157 1KZN CBN 4.87805
158 5IFK HPA 4.91803
159 5KJW 53C 4.91803
160 3FXU TSU 4.91803
161 1MJH ATP 4.93827
162 4L2I NAD 4.94297
163 4L2I FAD 4.94297
164 4NAT 2W5 5
165 4NAT ADP 5
166 1EFV AMP 5.09804
167 4F7E 0SH 5.10204
168 1RJW ETF 5.2459
169 4UUG PXG 5.2459
170 4Z24 FAD 5.2459
171 2ICY UPG 5.2459
172 4EUE NAI 5.2459
173 3IAL PR8 5.2459
174 2YC5 6BC 5.26316
175 1VMK GUN 5.41516
176 3HGM ATP 5.44218
177 1G51 AMP 5.51724
178 5WS9 AMP 5.57377
179 4WOE ADP 5.57377
180 1GET FAD 5.57377
181 6C4N NAP 5.57377
182 1T36 ADP 5.57377
183 3CKJ CIT 5.57377
184 4LTN NAI 5.58376
185 4YQE PLQ 5.58376
186 4YQE FMN 5.58376
187 2QBU SAH 5.60345
188 1EXF GLY 5.78512
189 2PA4 UPG 5.90164
190 1O97 AMP 5.90164
191 1O97 FAD 5.90164
192 1O94 AMP 5.90164
193 3TTC ADP 5.90164
194 3FPF TNA 6.04027
195 3FPF MTA 6.04027
196 3JUK UPG 6.04982
197 1WVC CTP 6.17761
198 4YSX FAD 6.38298
199 1YRO GDU 6.50407
200 1H7F C5P 6.53061
201 5VCM UDP 6.55738
202 1KOR ANP 6.55738
203 1KOR SIN 6.55738
204 1KOR ARG 6.55738
205 3HAZ FAD 6.55738
206 1T57 FMN 6.79612
207 5XDT MB3 6.81818
208 5XDT GDP 6.81818
209 4D7E FAD 6.88525
210 4DP3 NDP 6.88525
211 4DP3 MMV 6.88525
212 4Y30 SAH 6.88525
213 5JAQ NAI 6.88525
214 4Y30 49L 6.88525
215 2TPI ILE VAL 6.89655
216 5J5Z FAD 7.21311
217 2J5B TYE 7.21311
218 2DFV NAD 7.21311
219 2AGD UDH 7.31707
220 2AGD NAG MAN BMA 7.31707
221 2BOS GLA GAL GLC NBU 7.35294
222 2BOS GLA GAL GLC 7.35294
223 3VZ3 NAP 7.86885
224 6E2B PT7 7.89474
225 1REO FAD 8.19672
226 6GMR F4K 8.24742
227 1K97 ASP 8.52459
228 1K97 CIR 8.52459
229 4EI7 GDP 8.52459
230 1NAA ABL 8.52459
231 1NAA 6FA 8.52459
232 3SAO DBH 8.75
233 3JSX FAD 8.85246
234 3JSX CC2 8.85246
235 5TS5 FAD 8.85246
236 5VN0 FAD 8.85246
237 5LXT GTP 9.09091
238 2YQS UD1 9.18033
239 4TS1 TYR 9.18033
240 1K27 MTM 9.18728
241 6MPT C30 9.44056
242 5A89 FMN 9.61539
243 5A89 ADP 9.61539
244 1FRW GTP 9.79381
245 1F9V ADP 9.83607
246 1T0S BML 10.4651
247 2IU8 PLM 10.4918
248 2YBQ UP2 10.9589
249 2YBQ SAH 10.9589
250 3WYJ H78 11.0672
251 5HZ9 5M8 11.1111
252 2HQM FAD 12.1311
253 3EM0 CHD 12.3188
254 5ETJ IM5 12.459
255 4JDR FAD 12.7869
256 6C5F 7L9 12.8205
257 2A0W DIH 13.1488
258 2FKA BEF 13.1783
259 4R2M ANP 13.2911
260 2WD7 VGD 13.806
261 2CET PGI 15.082
262 4M1U MBG A2G 15.7143
263 5DYO FLU 16.5138
264 1RZ1 NAD 17.3913
265 4PTZ FMN 17.801
266 2F5Z FAD 18.75
267 4WO4 JLS 21
268 3HUJ AGH 21.2121
269 6GNO XDI 25.1852
270 3RNM FAD 29.3103
Pocket No.: 2; Query (leader) PDB : 3ZF8; Ligand: GDP; Similar sites found with APoc: No similar binding sites found, or similarity not calculated due to duplicate pocket.
This union binding pocket(no: 2) in the query (biounit: 3zf8.bio1) has 16 residues
No: Leader PDB Ligand Sequence Similarity
APoc FAQ
Feedback