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Receptor
PDB id Resolution Class Description Source Keywords
4RD0 1.71 Å NON-ENZYME: TRANSCRIPT_TRANSLATE STRUCTURE OF AIF2-GAMMA D19A VARIANT FROM SULFOLOBUS SOLFATA BOUND TO GDP SULFOLOBUS SOLFATARICUS ROSSMANN FOLD TRANSLATION
Ref.: IDENTIFICATION OF A SECOND GTP-BOUND MAGNESIUM ION ARCHAEAL INITIATION FACTOR 2. NUCLEIC ACIDS RES. V. 43 2946 2015
Ligand
Ligand Chain:Residue Validity Ligand Warnings Binding Data NGL Viewer Molecular Weight (Da) Formula SMILES
CL A:504;
Invalid;
none;
submit data
35.453 Cl [Cl-]
MG A:502;
Part of Protein;
none;
submit data
24.305 Mg [Mg+2...
GDP A:503;
A:501;
Valid;
Valid;
none;
none;
Kd = 0.24 uM
443.201 C10 H15 N5 O11 P2 c1nc2...
View in 3D viewer
90% Homology Family
Leader
PDB id Resolution Class Description Source Keywords
4RD0 1.71 Å NON-ENZYME: TRANSCRIPT_TRANSLATE STRUCTURE OF AIF2-GAMMA D19A VARIANT FROM SULFOLOBUS SOLFATA BOUND TO GDP SULFOLOBUS SOLFATARICUS ROSSMANN FOLD TRANSLATION
Ref.: IDENTIFICATION OF A SECOND GTP-BOUND MAGNESIUM ION ARCHAEAL INITIATION FACTOR 2. NUCLEIC ACIDS RES. V. 43 2946 2015
Members (8)
No: PDB id Binding Data Representative ligand Formula Smiles
The Class containing this family consists of a total of 291 families.
1 4RD6 Kd = 0.52 uM GDP C10 H15 N5 O11 P2 c1nc2c(n1[....
2 4RD2 - GNP C10 H17 N6 O13 P3 c1nc2c(n1[....
3 4RD4 - GNP C10 H17 N6 O13 P3 c1nc2c(n1[....
4 4RD1 - GTP C10 H16 N5 O14 P3 c1nc2c(n1[....
5 4RCY - GDP C10 H15 N5 O11 P2 c1nc2c(n1[....
6 4RD3 - GDP C10 H15 N5 O11 P2 c1nc2c(n1[....
7 4RCZ - GNP C10 H17 N6 O13 P3 c1nc2c(n1[....
8 4RD0 Kd = 0.24 uM GDP C10 H15 N5 O11 P2 c1nc2c(n1[....
70% Homology Family (11)
No: PDB id Binding Data Representative ligand Formula Smiles
The Class containing this family consists of a total of 247 families.
1 4RD6 Kd = 0.52 uM GDP C10 H15 N5 O11 P2 c1nc2c(n1[....
2 4RD2 - GNP C10 H17 N6 O13 P3 c1nc2c(n1[....
3 4RD4 - GNP C10 H17 N6 O13 P3 c1nc2c(n1[....
4 4RD1 - GTP C10 H16 N5 O14 P3 c1nc2c(n1[....
5 4RCY - GDP C10 H15 N5 O11 P2 c1nc2c(n1[....
6 4RD3 - GDP C10 H15 N5 O11 P2 c1nc2c(n1[....
7 4RCZ - GNP C10 H17 N6 O13 P3 c1nc2c(n1[....
8 4RD0 Kd = 0.24 uM GDP C10 H15 N5 O11 P2 c1nc2c(n1[....
9 1KK3 - GDP C10 H15 N5 O11 P2 c1nc2c(n1[....
10 1KK2 - GDP C10 H15 N5 O11 P2 c1nc2c(n1[....
11 1KK1 - GNP C10 H17 N6 O13 P3 c1nc2c(n1[....
50% Homology Family (11)
No: PDB id Binding Data Representative ligand Formula Smiles
The Class containing this family consists of a total of 209 families.
1 4RD6 Kd = 0.52 uM GDP C10 H15 N5 O11 P2 c1nc2c(n1[....
2 4RD2 - GNP C10 H17 N6 O13 P3 c1nc2c(n1[....
3 4RD4 - GNP C10 H17 N6 O13 P3 c1nc2c(n1[....
4 4RD1 - GTP C10 H16 N5 O14 P3 c1nc2c(n1[....
5 4RCY - GDP C10 H15 N5 O11 P2 c1nc2c(n1[....
6 4RD3 - GDP C10 H15 N5 O11 P2 c1nc2c(n1[....
7 4RCZ - GNP C10 H17 N6 O13 P3 c1nc2c(n1[....
8 4RD0 Kd = 0.24 uM GDP C10 H15 N5 O11 P2 c1nc2c(n1[....
9 1KK3 - GDP C10 H15 N5 O11 P2 c1nc2c(n1[....
10 1KK2 - GDP C10 H15 N5 O11 P2 c1nc2c(n1[....
11 1KK1 - GNP C10 H17 N6 O13 P3 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 : 4RD0; Ligand: GDP; Similar sites found with APoc: 638
This union binding pocket(no: 1) in the query (biounit: 4rd0.bio1) has 23 residues
No: Leader PDB Ligand Sequence Similarity
1 2NCD ADP 0.963855
2 1QF5 GDP 1.20482
3 1QF5 RPL 1.20482
4 3IO3 ADP 1.43678
5 5WC2 ADP 1.44578
6 5I34 GDP 1.44578
7 1NHX FTB 1.44578
8 1NHX PEP 1.44578
9 2GMV UN8 1.44578
10 3EWA ANP 1.5528
11 6AU6 GDP 1.59151
12 3R7F CP 1.64474
13 5TSH ANP 1.68675
14 5Y6N ADP 1.68675
15 5TSH ADP 1.68675
16 2XAU ADP 1.68675
17 3ZS9 ADP ALF 1.69492
18 2WOJ ADP ALF 1.69492
19 2XT3 ADP 1.74419
20 1QHG ATP 1.79558
21 1FNN ADP 1.79949
22 1AKY AP5 1.81818
23 3ZQ6 ADP ALF 1.85185
24 1SVM ATP 1.85676
25 5NM7 GLY 1.8797
26 4XGU ADP 1.92771
27 4A4Z ANP 1.92771
28 2GKS ADP 1.92771
29 6FAA ADP 1.92771
30 2XTZ GSP 1.9774
31 3DC4 ADP 2.03488
32 3DKP ADP 2.04082
33 3FPZ AHZ 2.14724
34 4LYA ATP 2.16867
35 1LVK MNT BEF 2.16867
36 5XDR ADP 2.16867
37 1MLY ACZ PLP 2.16867
38 4PX9 ADP 2.16867
39 3CTY FAD 2.19436
40 1GXU 2HP 2.1978
41 5G3Y ADP 2.21239
42 3FWY ADP 2.2293
43 1DAK ADP 2.23214
44 1DAK DPU 2.23214
45 4DDY DN6 2.28137
46 2QEN ADP 2.28571
47 1ZIN AP5 2.30415
48 1S3G AP5 2.30415
49 1F9V ADP 2.30548
50 1P72 ADP 2.39521
51 6A20 ADP 2.40964
52 5KSZ GCP 2.40964
53 3TBK ANP 2.40964
54 1OYY AGS 2.40964
55 2JLR ANP 2.40964
56 4PJ3 ANP 2.40964
57 2J0W ASP 2.44989
58 2Y65 ADP 2.46575
59 5ZB0 TYD 2.52525
60 5ZB0 ADP 2.52525
61 1QF9 ADP 2.57732
62 1QF9 C5P 2.57732
63 1QF9 ALF 2.57732
64 2ZR9 DTP 2.5788
65 2WHX ADP 2.6506
66 5BN3 ADP 2.6506
67 2CE7 ADP 2.6506
68 1DNP MHF 2.6506
69 2IXE ATP 2.6506
70 2GK6 ADP 2.6506
71 3RC3 ANP 2.6506
72 5ZBR ANP 2.66667
73 5G41 AP5 2.69058
74 4RZ3 ADP 2.71186
75 4V03 ADP 2.72374
76 1ZCB GDP 2.76243
77 3FB4 AP5 2.77778
78 6B8B ADP 2.81124
79 1M7G AV2 2.8436
80 1M7G ADP 2.8436
81 1M7G ADX 2.8436
82 2OFW ADX 2.88462
83 2AWN ADP 2.88714
84 4ZKD GDP 2.89157
85 1YTM ATP 2.89157
86 2FSH ANP 2.89157
87 1V8K ANP 2.92683
88 1EK0 GNP 2.94118
89 3BFV ADP 2.95203
90 3CX8 GSP 2.95858
91 4ITU 1HS 2.97398
92 3B9Q MLI 2.98013
93 4O48 ASP 3.01205
94 5N69 ADP 3.01508
95 4XVU ATP 3.04348
96 1Z83 AP5 3.06122
97 5MVR ADP 3.08642
98 4IDN GNP 3.13253
99 1X6V ADP 3.13253
100 2D7D ADP 3.13253
101 2OAT PFM 3.13253
102 2O0J ADP 3.13253
103 5J1J ANP 3.15789
104 1XPJ TLA 3.1746
105 1NRJ GTP 3.21101
106 3FKQ ATP 3.21716
107 4DKX GDP 3.24074
108 2WKQ GTP 3.31325
109 4AG5 ADP 3.31633
110 1E2K TMC 3.32326
111 4JLV ADP 3.34572
112 2PEZ DAT 3.35196
113 2PEZ GGZ 3.35196
114 5YV5 ADP 3.37349
115 4R43 GDP 3.37349
116 1F5N GNP 3.37349
117 5MZN ADP 3.37349
118 5IRN ADP 3.37349
119 5VHC BEF ADP 3.37349
120 1K6M AGS 3.37349
121 1YQT ADP 3.37349
122 3G5S GSH 3.37349
123 2RGX AP5 3.39806
124 1JJV ATP 3.39806
125 3DEF GDP 3.43511
126 1B0U ATP 3.43511
127 2CDN ADP 3.48259
128 2PZE ATP 3.49345
129 1R0X ATP 3.4965
130 3EZ2 ADP 3.51759
131 3EC1 GDP 3.52304
132 4M9Q GNP 3.52423
133 2G77 GDP 3.53535
134 2G77 AF3 3.53535
135 2Q2Y ADP 3.54223
136 2Q2Y MKR 3.54223
137 1XP8 AGS 3.55191
138 1SVI GDP 3.58974
139 5LB3 ADP 3.61446
140 4YJ1 ADP 3.61446
141 5FTB ANP 3.61446
142 5FHD ADP ALF 3.61446
143 2IS6 ADP 3.61446
144 1G6O ADP 3.63636
145 1O8B ABF 3.65297
146 1Z06 GNP 3.7037
147 3PCR GTP 3.7037
148 2X77 GDP 3.7037
149 1HTW ADP 3.79747
150 1QXA GLY GLY GLY 3.82979
151 5HCN GCP 3.83142
152 4LJ9 ACP 3.83481
153 1JJ7 ADP 3.84615
154 5I0H ADP BEF 3.85542
155 4IHQ ADP 3.85542
156 4UOX PUT 3.85542
157 4UOX PLP 3.85542
158 2OG2 MLI 3.89972
159 2Y8E GNP 3.91061
160 2OWZ CIT 3.91566
161 4TL6 ANP 3.95257
162 1W7J ADP BEF 3.97351
163 6H5E ANP 3.98406
164 1CS4 GSP 4
165 1ZC3 GNP 4
166 3VX3 ADP 4.03226
167 1UAD GNP 4.0404
168 1Z6T ADP 4.06091
169 4OHY ANP 4.09639
170 1XKV ATP 4.09639
171 1IHU AF3 4.09639
172 1IHU ADP 4.09639
173 4ZDJ UTP 4.09639
174 4MOP 2H5 4.09639
175 1YZQ GNP 4.11765
176 2EFE GNH 4.11985
177 4MKG AP5 4.14747
178 1U8Z GDP 4.16667
179 3T34 GDP 4.16667
180 4FCW ADP 4.18006
181 3CNL GNP 4.19847
182 3RLF ANP 4.21053
183 2B8W ALF 5GP 4.26829
184 4PPF FLC 4.28571
185 3N5C GDP 4.32099
186 2OBM ADP 4.32277
187 3RWO GDP 4.32432
188 4ZG4 VO4 ADP 4.33735
189 2FAH GDP 4.33735
190 4OI4 ATP 4.34783
191 4UXH T5A 4.34783
192 1UJ2 ADP 4.36508
193 1UJ2 C5P 4.36508
194 2ZFI ADP 4.37158
195 4KBF AMP 4.38356
196 5H68 AGS 4.41176
197 6G14 G4P 4.42177
198 3ITJ CIT 4.43787
199 3FVQ ATP 4.45682
200 3AB3 GDP 4.47154
201 5XC5 GTP 4.54545
202 4BQS K2Q 4.54545
203 4BQS ADP 4.54545
204 1KO8 6PG 4.57143
205 2DPY ADP 4.57831
206 3HU3 AGS 4.57831
207 5ZXD ATP 4.57875
208 4X8O AP5 4.6729
209 1TU3 GNP 4.67836
210 1R2Q GNP 4.70588
211 1ZUI SKM 4.7619
212 2YOH WMJ 4.7619
213 1XMV ADP 4.77528
214 5K5Z ANP 4.77707
215 1H65 GDP 4.81482
216 1IWE IMP 4.81928
217 2BIF SIN 4.81928
218 2BIF ANP 4.81928
219 5LTJ BEF 4.81928
220 6B4K ANP 4.81928
221 5LTJ ADP 4.81928
222 2BME GNP 4.83871
223 5IRR GSP 4.87013
224 5OEC GDP 4.91803
225 4FRZ ADP 4.92228
226 5H4S RAM 4.92958
227 3KTA AP5 4.94506
228 1XEX ATP 4.94506
229 1FZQ GDP 4.97238
230 2KIN ADP 5
231 4NON GDP 5
232 1JI0 ATP 5
233 4BFW ZVW 5.03145
234 3A1S GDP 5.03876
235 1X1R GDP 5.05618
236 1G6H ADP 5.05837
237 1MKY GDP 5.06024
238 2ZPA ADP 5.06024
239 1OXV ANP 5.09915
240 2O66 FLC 5.18518
241 1FP6 ADP 5.19031
242 5L3W GDP 5.22876
243 1TAD ALF 5.24691
244 1TAD GDP 5.24691
245 5KSP GDP 5.26316
246 3IUY AMP 5.26316
247 4P4T GDP 5.27778
248 2IYL GDP 5.28169
249 4HSE ADP 5.28967
250 5OCG GNP 5.29101
251 5UQW GDP 5.29101
252 5KUT GDP 5.29101
253 5M04 GDP 5.3012
254 3RAB GNP 5.32544
255 4WOP CTP 5.33333
256 1RYH GNP 5.41872
257 3Q72 GNP 5.42169
258 1M7B GTP 5.43478
259 4WZA ADP 5.43478
260 4WZA ACP 5.43478
261 2CBZ ATP 5.48523
262 3E70 GDP 5.4878
263 2QG6 NMN 5.52764
264 4NU0 AP5 5.52995
265 3ZZH NLG 5.53746
266 4E3Q PMP 5.54217
267 3P4X ADP 5.54217
268 3T12 GDP ALF 5.55556
269 3T1O GDP 5.55556
270 3TMK T5A 5.55556
271 4KVA GTP 5.58252
272 4KAX GTP 5.59006
273 6BSX GDP 5.61798
274 6BSX E7S 5.61798
275 4H1V GNP 5.69106
276 4YDS ATP 5.70175
277 3NKV GNP 5.71429
278 1I4D GDP 5.72917
279 2HF9 GSP 5.75221
280 3QF7 ANP 5.75342
281 1GRN GDP 5.75916
282 1GRN AF3 5.75916
283 4ITR GDP 5.75916
284 2NGR GDP 5.75916
285 2NGR AF3 5.75916
286 1BG2 ADP 5.78313
287 1R6B ADP 5.78313
288 5M7P ADP 5.78313
289 2ZJ5 ADP 5.78313
290 2X7I CIT 5.84416
291 2FFQ GSP 5.84795
292 4QM7 GTP 5.84795
293 3W5J GDP 5.88235
294 3SBD GNP 5.88235
295 1T8U UAP SGN IDS SGN 5.88235
296 4R98 GNH 5.90406
297 1MH1 GNP 5.91398
298 5UPK GNP 5.94595
299 1SVK ALF GDP 5.94901
300 1BO4 COA 5.95238
301 1G4U GDP 5.97826
302 1G4U AF3 5.97826
303 6BVJ GNP 5.98802
304 6D5E GNP 5.98802
305 6BVL GNP 5.98802
306 6BVI GNP 5.98802
307 6D59 GNP 5.98802
308 6D5H GNP 5.98802
309 6D5J GNP 5.98802
310 6BVK GNP 5.98802
311 6D55 GNP 5.98802
312 6D56 GNP 5.98802
313 6D5G GNP 5.98802
314 6D5V GNP 5.98802
315 6BVM GNP 5.98802
316 6D5L GNP 5.98802
317 6D5M GNP 5.98802
318 4NE2 ADP 5.98802
319 4NE2 SH2 5.98802
320 2WIC GNP 5.99251
321 2D2F ADP 6
322 5CK5 GDP 6.01266
323 2UZI GTP 6.0241
324 1CLU DBG 6.0241
325 1NVV GNP 6.0241
326 1WQ1 GDP 6.0241
327 1WQ1 AF3 6.0241
328 1NN5 ANP 6.04651
329 1NN5 2DT 6.04651
330 1TQ4 GDP 6.05327
331 2GDJ ANP 6.06061
332 4YC7 GNP 6.07735
333 1FQK ALF 6.12245
334 1FQK GDP 6.12245
335 4WEI GLC GAL 6.13718
336 5JCZ GDP 6.14525
337 2OM2 GDP 6.15385
338 5UIV ADP 6.1674
339 4LPS GDP 6.19835
340 3NHB ADP 6.20915
341 4LX0 BEF GDP 6.21469
342 3COB ADP 6.23306
343 1HE1 GDP 6.25
344 1HE1 AF3 6.25
345 1A4R GNH 6.28272
346 1A4R GDP 6.28272
347 5IFS ADP 6.32911
348 1G3Q ADP 6.32911
349 1BH2 GSP 6.34921
350 5U32 GDP 6.35593
351 4C4P GNP 6.35838
352 2ODE ALF GDP 6.38298
353 1Y3A GDP 6.38298
354 1APZ ASP 6.38298
355 2HV8 GTP 6.39535
356 2GJ8 ALF GDP 6.39535
357 2XTN GTP 6.41026
358 1VHT BA3 6.42202
359 3WUR O4B 6.43275
360 2R4V GSH 6.47773
361 2QZ4 ADP 6.48855
362 1SQ5 ADP 6.49351
363 4GBM A3P 6.50155
364 5L3R GCP 6.50602
365 4TTQ ATP 6.51163
366 2D7C GTP 6.58683
367 6CS8 F9Y 6.60066
368 1D2N ANP 6.61765
369 3PQC GDP 6.66667
370 1RJ9 GCP 6.66667
371 4QRH 0O2 6.66667
372 3KJI ADP 6.69291
373 3REF GDP 6.70103
374 4GOX A3P 6.70927
375 2A5F GTP 6.73575
376 3E5H GNP 6.74157
377 5JCP GDP ALF 6.74699
378 2FJU GSP 6.74699
379 5GOE GDP 6.74699
380 4PVR ASP 6.77419
381 3BC1 GNP 6.77966
382 1D5C GDP 6.79012
383 4E03 ADP 6.79612
384 3ZFD ANP 6.83761
385 5BQ5 ADP BEF 6.87831
386 1ZD9 GDP 6.91489
387 2A5J GDP 6.98795
388 2C9O ADP 6.98795
389 5XKT GNP 7
390 2ZEJ GDP 7.06522
391 4D81 ADP 7.06714
392 1AQU A3P 7.07071
393 1PUJ GNP 7.0922
394 4GDX GLU 7.21925
395 4DCT GDP 7.22892
396 1O3Y GTP 7.22892
397 2J59 GTP 7.22892
398 4YS0 ADP 7.22892
399 1KSH GDP 7.23684
400 3T5G GDP 7.23684
401 1Z0K GTP 7.24638
402 2FNA ADP 7.28291
403 1RE0 GDP 7.31707
404 1S9D GDP 7.31707
405 5TB5 GDP 7.33333
406 2J5V PCA 7.35695
407 4K81 GTP 7.36434
408 1VKJ A3P 7.36842
409 1E96 GTP 7.38916
410 3KUD GDP 7.40741
411 5TAR GDP 7.43243
412 2WJG GDP 7.44681
413 2GCO GNP 7.46269
414 2GCN GDP 7.46269
415 1P9B GDP 7.46606
416 1G41 ADP 7.46988
417 4YMU ATP 7.5
418 5X40 ACP 7.53425
419 4BAS GNP 7.53769
420 4HI0 GDP 7.53769
421 5H67 ATP 7.53769
422 2J0V GDP 7.54717
423 4KFU ACP 7.54717
424 3QKT ANP 7.66962
425 3M1I GTP 7.76256
426 3WYF GTP 7.76256
427 3BFX A3P 7.77027
428 1OW3 GDP 7.77202
429 1NF3 GNP 7.8125
430 4IOK XPO 7.8712
431 4IOK ADP 7.8712
432 1UKZ ADP 7.88177
433 1M2O GNP 7.89474
434 2W58 ADP 7.92079
435 5VGR GDP 7.95181
436 1Y4Z PCI 7.95181
437 2ZTS ADP 7.96813
438 2VB6 ADP BEF 8.05369
439 2OZE AGS 8.05369
440 1F6B GDP 8.08081
441 6BCB GSP 8.10811
442 6BCA GSP 8.10811
443 4D0N GDP 8.10811
444 6BC0 GSP 8.10811
445 1CR1 TTP 8.10811
446 1KMQ GNP 8.15217
447 3AQ4 GDP 8.15217
448 1Y63 ADP 8.15217
449 4PFO ADP 8.19277
450 4XOI GTP 8.33333
451 3LXR GDP 8.33333
452 4XSH GSP 8.37989
453 2WJH GDP 8.43373
454 2WJH FLC 8.43373
455 5AK0 8V1 8.43373
456 1OS1 PYR 8.43373
457 1OS1 ATP 8.43373
458 1Z0J GTP 8.47458
459 1TX4 ALF GDP 8.47458
460 1LVG ADP 8.58586
461 3Q85 GNP 8.87574
462 4V0K GDP 8.87574
463 4CVN ADP 8.90052
464 1XX6 ADP 8.90052
465 2WMO GTP 8.91566
466 1L2T ATP 8.93617
467 2EW1 GNP 8.95522
468 4WZ6 ATP 8.96552
469 2A9K GDP 8.96861
470 2QTV GNP 8.98204
471 5HR5 ADP 9.15663
472 5DI3 GNP 9.18919
473 1GWN GTP 9.26829
474 3MD0 GDP 9.29577
475 3WYG GTP 9.34066
476 5KDO GDP 9.45946
477 3B5J 12D 9.46502
478 5O2T GSP 9.46746
479 3GJ0 GDP 9.50226
480 3Q9L ATP 9.61539
481 3H4S ADP 9.62963
482 5IRC GDP 9.67742
483 4MKF AP5 9.67742
484 3TK1 GDP 9.69697
485 5BXQ GDP 9.72222
486 3GJX GTP 9.72222
487 1IBR GNP 9.72222
488 2ORV 4TA 9.82906
489 4U00 ADP 9.83607
490 5EE5 GTP 9.94152
491 6DEF GCP 9.97442
492 1NJF ADP 10
493 1NJF AGS 10
494 1OFH ADP 10
495 5L3V GDP 10.0334
496 3LN9 FLC 10.0719
497 4LC1 GDP 10.089
498 3QVV A3P 10.1695
499 1KAO GDP 10.1796
500 1B7T ADP 10.2564
501 1ION ADP 10.2881
502 5XG5 A2G 10.3448
503 2W83 GTP 10.3896
504 1KK8 BEF ADP 10.3896
505 4GOJ GNP 10.4167
506 3LRE ADP 10.4225
507 1ZJ6 G3D 10.6024
508 1YZG GDP 10.6145
509 1RRC ADP 10.6312
510 1WA5 GTP 10.7955
511 3DOE GTP 10.9091
512 1GOT GDP 10.9589
513 4YLG GDP 10.9827
514 1MR3 G3D 11.0497
515 3QXC ATP 11.157
516 4U5X GNP 11.236
517 1S8F GDP 11.2994
518 1WDT GTP 11.3253
519 5HPY GDP 11.3514
520 1GOJ ADP 11.5493
521 1CXZ GSP 11.6279
522 5E5U MLI 11.7424
523 1R4A GNP 11.7647
524 5WLB GNP 11.7647
525 2RCN GDP 12.0112
526 4ZI2 GNP 12.0301
527 4ZNL BEF ADP 12.0438
528 5LEF GTP 12.1212
529 1W0J ADP 12.5
530 2CK3 ANP 12.5
531 2V7Q ATP 12.5
532 1W0J ADP BEF 12.5
533 2CK3 ADP 12.5
534 2V7Q ADP 12.5
535 5AHO TLA 12.5
536 1OIX GDP 12.5654
537 1OIV GDP 12.5654
538 3B7G ANP 12.6087
539 5GVR LMR 12.8205
540 1G16 GDP 12.9412
541 5L3S GNP 13.1757
542 5L3S G 13.1757
543 3QBT GNP 13.2184
544 3TNF GNP 13.2184
545 4LHW GNP 13.2184
546 1J2J GTP 13.3333
547 1YRB GDP 13.3588
548 6C90 ADP 13.4615
549 4XTR ATP 13.5135
550 4XTR ADP 13.5135
551 1WF3 GNP 13.6213
552 4D0G GTP 13.7143
553 4R2I ANP 13.8095
554 1VG8 GNP 14.0097
555 1VG0 GDP 14.0097
556 2GOO NDG 14.0351
557 2BCG GDP 14.0777
558 3A4M ADP 14.6154
559 2PL3 ADP 14.8305
560 2VVG ADP 14.8571
561 3UIE ANP 15
562 5E95 GDP 15.4639
563 6CRK GDP 15.493
564 1GP2 GDP 15.493
565 1DS6 GDP 15.625
566 4TMZ GSP 15.6522
567 1VG1 GDP 15.6757
568 1YZN GNP 15.6757
569 1VG9 GDP 15.6757
570 1Z08 GNP 15.8824
571 3ZIA ADP 15.942
572 3ZIA ATP 15.942
573 1T5C ADP 16.0458
574 2F9L GDP 16.0804
575 5Z2M GTP 16.4773
576 1KY3 GDP 16.4835
577 4NTX AMR 16.6667
578 2W2X GSP 16.7568
579 1W4R TTP 16.9231
580 5J1S ATP 17.0732
581 1YVD GNP 17.1598
582 3H86 AP5 17.1875
583 3IIJ ADP 17.2222
584 1Z0A GDP 17.2414
585 2FH5 GTP 17.2897
586 1G8S MET 17.3913
587 5H7J GCP 17.8313
588 1UPT GTP 18.3333
589 5H7K GDP 18.6398
590 2CJW GDP 18.75
591 2C5L GTP 18.8034
592 1Z0F GDP 18.9944
593 1FQJ ALF 19.0476
594 1FQJ GDP 19.0476
595 3CH5 GDP 19.2308
596 3CPJ GDP 19.2825
597 5O74 GDP 20
598 2HT6 GDP 20.6897
599 1LFD GNP 22.9885
600 4DID GDP 23.0263
601 3TKL GTP 23.4694
602 3VMF GTP 23.8554
603 3WXM GTP 23.8554
604 4Q1A 2XZ 24.2857
605 4Q1A UDP 24.2857
606 2QQ0 ANP 25
607 2QQ0 TMP 25
608 2QQ0 ADP 25
609 2QQ0 THM 25
610 5SZH GNP 25.1232
611 3SFV GDP 25.4144
612 6FA4 GNP 25.4335
613 3MJH GTP 26.4706
614 5WDR GNP 28.0702
615 4J0Q GDP 28.6747
616 3DDC GNP 30.1205
617 2VOH CIT 30.7692
618 2C78 GNP 32.0988
619 2C77 GNP 32.0988
620 3WY9 GDP 34.6988
621 3WYA GDP 34.6988
622 5W75 GDP 35.2041
623 5W7Q GDP 35.3887
624 3U6B GDP 35.7868
625 4PC3 GDP 35.7868
626 5JBQ GDP 35.7868
627 4G5G GDP 35.7868
628 4P3Y GDP 35.7868
629 3U6K GDP 35.7868
630 2BVN GNP 35.8779
631 1D8T GDP 35.8779
632 5W76 GDP 36.3636
633 4HDO GNP 41.3174
634 4HDQ GNP 41.3174
635 1GUA GNP 41.9162
636 3X1Z GNP 41.9162
637 4KVG GTP 42.2619
638 1Z2A GDP 43.4524
Pocket No.: 2; Query (leader) PDB : 4RD0; Ligand: GDP; Similar sites found with APoc: 391
This union binding pocket(no: 2) in the query (biounit: 4rd0.bio1) has 16 residues
No: Leader PDB Ligand Sequence Similarity
1 3HXU A5A 1.20482
2 6GWR FEW 1.26984
3 6GW4 CHO 1.30293
4 3D72 FAD 1.34228
5 5F7R GLC GLC 1.48515
6 1YKD CMP 1.50754
7 6C1S EFV 1.68675
8 3IGO ANP 1.68675
9 5FWA J7C 1.68675
10 6ARJ BW4 1.7192
11 6ARJ SAH 1.7192
12 5DWQ SFG 1.7192
13 5DX0 SFG 1.7192
14 4YZC STU 1.7284
15 5MW4 5JU 1.79641
16 3B6R ADP 1.83727
17 4IEN GDP 1.84049
18 1U6R ADP 1.84211
19 5JGA 6KC 1.90476
20 3JQ3 ADP 1.91257
21 2RKV ZBA 1.92771
22 3IES M24 1.92771
23 5LRT ADP 1.92771
24 3LVW GSH 1.92771
25 1GPM AMP 1.92771
26 4WOE ADP 1.92771
27 4NFN 2KC 1.94175
28 3IS2 FAD 1.94805
29 2C49 ADN 1.98676
30 5DEY 59T 2.0202
31 3MF2 AMP 2.02312
32 5DRB 5FJ 2.06186
33 3GE7 AFQ 2.07254
34 1ZM1 BGC BGC BGC 2.07469
35 5GLT BGC GAL NAG GAL 2.11268
36 2OFV 242 2.16606
37 2Z3U CRR 2.16867
38 1VA6 P2S 2.16867
39 1VA6 ADP 2.16867
40 6E1Q CFA 2.16867
41 4AG8 AXI 2.21519
42 3T4L ZEA 2.22222
43 4XTX 590 2.22222
44 5UR1 YY9 2.2508
45 3H5N ATP 2.26629
46 1ZB6 DIN 2.28013
47 2WSI FAD 2.28758
48 4GJ3 0XP 2.31788
49 2I6A 5I5 2.31884
50 6GIN IR2 2.32558
51 3OQJ 3CX 2.33463
52 4ITH RCM 2.38095
53 4E1Z 0MX 2.4055
54 4RF7 ARG 2.40964
55 4B2Z P5S 2.40964
56 4OYA 1VE 2.40964
57 5L2R MLA 2.40964
58 3E9I XAH 2.40964
59 1OPK P16 2.40964
60 4DXD 9PC 2.40964
61 1T7Q COA 2.40964
62 1T7Q 152 2.40964
63 5VC5 96M 2.42215
64 6G9I CXX 2.42424
65 3ILR SGN IXD 2.43243
66 3ILR SGN 2.43243
67 3ILR IXD 2.43243
68 2WEI VGG 2.43902
69 2YAK OSV 2.45614
70 1OUK 084 2.45902
71 4LOO SB4 2.49307
72 5BVE 4VG 2.49307
73 1ELI PYC 2.57069
74 5JKG 6LF 2.57235
75 4Z87 GDP 2.6506
76 5H9Y BGC BGC BGC BGC 2.6506
77 1REQ DCA 2.6506
78 3H22 B53 2.6936
79 3GLC R5P 2.71186
80 5HCY 60D 2.71903
81 6CB2 OLC 2.73038
82 5KEW 6SB 2.77778
83 5D9G GLU ASN LEU TYR PHE GLN 2.84553
84 4MIB 28M 2.89157
85 3ZXR IQ1 2.89157
86 3ZXR P3S 2.89157
87 5TCI MLI 2.92683
88 5TUF FAD 2.93399
89 5TUF TDC 2.93399
90 5MJA 7O3 2.95082
91 3PP0 03Q 2.95858
92 5IXG OTP 2.95858
93 2GU8 796 2.96736
94 2XVD AS6 2.98013
95 2P7Q GG6 3.00752
96 3OV6 MK0 3.02267
97 3KYF 5GP 5GP 3.0303
98 5XVG 8FX 3.07167
99 5C5H 4YB 3.09051
100 3A6T 8OG 3.10078
101 3M3E GAL A2G NPO 3.10559
102 6ALW BMJ 3.125
103 6ALW BNV 3.125
104 3H4V DVP 3.125
105 4ONA UW1 3.13253
106 3VRY B43 3.13253
107 2H8H H8H 3.13253
108 5EOB 5QQ 3.1348
109 1GT4 UNA 3.14465
110 2YBP 2HG 3.14961
111 2E5A LAQ 3.17003
112 3QRC SCR 3.18471
113 4NV7 COA 3.20513
114 2IU8 PLM 3.20856
115 3JU6 ANP 3.24324
116 2WKQ FMN 3.31325
117 2X34 UQ8 3.31492
118 2X32 OTP 3.35196
119 4DQ2 BTX 3.35366
120 1WUB OTP 3.37079
121 5KD6 6C7 3.37349
122 4X3R 686 3.37349
123 5KD6 LBU 3.37349
124 1OFL NGK GCD 3.37349
125 2XIQ MLC 3.37349
126 2OJW ADP 3.38542
127 2Q8E OGA 3.40909
128 5LUN ARG 3.40909
129 5LUN OGA 3.40909
130 1VRP ADP 3.41207
131 2V0U FMN 3.42466
132 2WQP WQP 3.4384
133 3NZ1 3NY 3.44828
134 6FE1 V14 3.50195
135 5JFS 6K0 3.57143
136 3NW7 LGV 3.58306
137 5YJS SAL 3.58974
138 5X8G S0N 3.61446
139 5O2N FLC 3.61446
140 6CDO ALA VAL GLY ILE GLY ALA VAL PHE 3.65297
141 1TT8 PHB 3.65854
142 4XJ6 GH3 3.6855
143 4TWP AXI 3.69004
144 1HXD BTN 3.73832
145 5G48 1FL 3.74332
146 2QX0 PH2 3.77358
147 2Y6O 1N1 3.78007
148 5H9P TD2 3.79747
149 1TMM HHR 3.79747
150 1TMM APC 3.79747
151 3QSB 743 3.82514
152 2Z6D FMN 3.84615
153 4FFG 0U8 3.85542
154 5AE9 OKO 3.85542
155 3HKW IX6 3.85542
156 1GS5 NLG 3.87597
157 1GS5 ANP 3.87597
158 4F7E 0SH 3.88693
159 4HWS 1B3 3.89294
160 1TKU 5RP 3.92157
161 1VPV PLM 4
162 4NW6 2NS 4.02477
163 3Q60 ATP 4.04313
164 5KJW 53C 4.09639
165 4P8K FAD 4.09639
166 4P8K 38C 4.09639
167 3SXS PP2 4.10448
168 1WOR RED 4.12088
169 2CJU PHX 4.13223
170 4WVW SLT 4.16667
171 5C8W PCG 4.1958
172 1M15 ADP 4.20168
173 1M15 ARG 4.20168
174 4MOB ADP 4.21687
175 5W4W 9WG 4.22961
176 4KBA 1QM 4.22961
177 3TAY MN0 4.29448
178 4B0T ADP 4.33735
179 1I1E DM2 4.33735
180 5BU3 4W9 4.34783
181 5ODY 9SK 4.34783
182 5SVV FMN 4.37956
183 4GCZ FMN 4.41558
184 5EW9 5VC 4.42804
185 5FBN 5WF 4.42804
186 4P5Z Q7M 4.43213
187 3ITJ FAD 4.43787
188 3E7O 35F 4.44444
189 2Y6Q I7T 4.52261
190 3QH2 3NM 4.52489
191 5FUI APY 4.54545
192 4LH0 GLV 4.57831
193 1VJY 460 4.62046
194 4B7X NAP 4.7619
195 4WUJ FMN 4.7619
196 1GP6 SIN 4.77528
197 1GP6 QUE 4.77528
198 1GP6 DH2 4.77528
199 2VEG PMM 4.77707
200 1S4M LUM 4.77816
201 6GBV FMN 4.79452
202 1TOI HCI 4.79798
203 3T1A 5MA 4.81928
204 5DKK FMN 4.82759
205 4QMN DB8 4.83871
206 5FLJ QUE 4.83871
207 5EJL C2E 4.83871
208 5HW4 SAM 4.83871
209 3SAO DBH 5
210 3SAO NKN 5
211 1Y2F WAI 5.03597
212 5A89 ADP 5.12821
213 5A89 FMN 5.12821
214 2YC5 6BC 5.26316
215 5OCG 9R5 5.29101
216 1UYY BGC BGC 5.34351
217 4G31 0WH 5.35117
218 3VKX T3 5.36398
219 4M1U A2G MBG 5.38721
220 3P7N FMN 5.42636
221 4ZTD ALA GLY ALA GLY ALA 5.5336
222 3DLG GWE 5.54217
223 4O12 2QG 5.54217
224 2GVJ DGB 5.54217
225 4BG4 ADP 5.61798
226 5J75 6GQ 5.68182
227 3DUV KDO 5.72519
228 6G47 SIA 5.74163
229 3KV8 FAH 5.7554
230 3MTX PGT 5.96026
231 4FHD 0TT 5.97826
232 4FHD EEM 5.97826
233 5ALC TIQ 5.98291
234 4QAC KK3 5.99078
235 2DM6 NAP 6.00601
236 2DM6 IMN 6.00601
237 4X9X OLA 6.02007
238 3FYS PLM 6.03175
239 4EES FMN 6.08696
240 5HWV MBN 6.15385
241 3G6K FAD 6.16883
242 3G6K POP 6.16883
243 2GJ5 VD3 6.17284
244 4JNA FAD 6.17647
245 2Z6C FMN 6.20155
246 3ZJX BOG 6.22837
247 3T50 FMN 6.25
248 2VL1 GLY GLY 6.26506
249 2JLD AG1 6.26506
250 3GD9 GLC BGC BGC BGC 6.26703
251 1KGI T4A 6.29921
252 4R3U 3KK 6.32911
253 4R3U 3HC 6.32911
254 5OX6 A1Z 6.34921
255 3QXV MTX 6.34921
256 5F6U 5VK 6.36943
257 5FPE 3TR 6.45995
258 3WGT QSC 6.62824
259 5DG2 GAL GLC 6.66667
260 2CM4 RCL 6.66667
261 6G0X RAM GLC GLA NAG NDG NAG 6.74699
262 2QHS OCA 6.75105
263 5XLY C2E 6.76692
264 5TKJ ALA VAL GLY ILE GLY ALA VAL PHE 6.78733
265 3KFF XBT 6.79012
266 3KFF ZBT 6.79012
267 2YKL NLD 6.94444
268 5LXT GTP 6.99301
269 3CBC DBS 7.07071
270 3G08 FEE 7.07071
271 3RUG DB6 7.07071
272 4BVA T3 7.16418
273 3TTI KBI 7.22892
274 4YRI 4JH 7.22892
275 4MO4 ACP 7.27763
276 6GNO XDI 7.40741
277 4MVK ACE VAL PHE PHE ALA GLU ASP NH2 7.44681
278 2WSB NAD 7.48031
279 5HES 032 7.49186
280 4X6F 3XU 7.61905
281 2QHV OC9 7.61905
282 4EWH T77 7.63636
283 4C2V YJA 7.7193
284 1QKQ MAN 7.74648
285 4H2W 5GP 7.76699
286 4H2W AMP 7.76699
287 4H2X G5A 7.76699
288 4WHZ 3NL 7.79221
289 5XDT ZI7 7.79221
290 5XDT GDP 7.79221
291 3FW4 CAQ 7.86517
292 4WO4 JLS 8
293 1GQG DCD 8
294 3GD8 GOL 8.07175
295 1Y7P RIP 8.07175
296 5WL1 D3D 8.08081
297 5WL1 CUY 8.08081
298 5U98 1KX 8.08081
299 3HUJ AGH 8.08081
300 5C9J STE 8.08081
301 5ACM MBT 8.10811
302 4L4J NAG NAG BMA MAN NAG 8.1448
303 1W6P NDG GAL 8.20895
304 1A78 TDG 8.20895
305 3OYW TDG 8.20895
306 1DZK PRZ 8.28025
307 4O9S 2RY 8.37209
308 3G5D 1N1 8.39161
309 4YBN FAD 8.48214
310 6DW2 HD4 8.62745
311 1JGU HBC 8.63636
312 3EM0 CHD 8.69565
313 5DYO FLU 8.7156
314 2P1O NLA 8.75
315 2P1O IHP 8.75
316 1UJP CIT 8.85609
317 4K55 H6P 8.87097
318 5VNF VAL THR SER VAL VAL 8.91566
319 3WG3 A2G GAL NAG FUC 8.98876
320 5N2D 8J8 9.02778
321 4XV1 904 9.24658
322 6GG9 FMN 9.25926
323 1ULE GLA GAL NAG 9.33333
324 3BZ3 YAM 9.42029
325 3GC8 B45 9.45946
326 1I0B PEL 9.63855
327 4P6C RES 9.66387
328 4CQE CQE 9.71223
329 3A7R LAQ 9.79228
330 1ERB ETR 9.83607
331 4H2V AMP 10
332 3E85 BSU 10.1266
333 5NIU 8YZ 10.1562
334 1SDW IYT 10.1911
335 5W10 CMP 10.2564
336 5N2F 8HW 10.4839
337 3LF0 ATP 10.5263
338 5A5W GUO 10.6719
339 2XG5 EC2 10.9827
340 2XG5 EC5 10.9827
341 1N9L FMN 11.0092
342 5JNN 6LM 11.0526
343 2CDO GAL AAL GAL AAL GAL AAL 11.25
344 1HFE CYS 11.3821
345 2GJ3 FAD 11.6667
346 5JIC ADP 11.7216
347 5JIC N7E 11.7216
348 3TCT 3MI 11.811
349 1WPY BTN