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Receptor
PDB id Resolution Class Description Source Keywords
1VGR 2.1 Å EC: 2.8.3.16 FORMYL-COA TRANSFERASE MUTANT ASP169 TO GLU OXALOBACTER FORMIGENES COA TRANSFERASE OXALATE OXALATE DEGRADATION INTERTWINED FOLD CAIB-BAIF FAMILY COA COMPLEX TRANSFERASE
Ref.: KINETIC AND MECHANISTIC CHARACTERIZATION OF THE FOR TRANSFERASE FROM OXALOBACTER FORMIGENES J.BIOL.CHEM. V. 279 36003 2004
Ligand
Ligand Chain:Residue Validity Ligand Warnings Binding Data NGL Viewer Molecular Weight (Da) Formula SMILES
COA A:429;
B:1429;
Valid;
Valid;
none;
none;
submit data
767.534 C21 H36 N7 O16 P3 S CC(C)...
View in 3D viewer
90% Homology Family
Leader
PDB id Resolution Class Description Source Keywords
1VGR 2.1 Å EC: 2.8.3.16 FORMYL-COA TRANSFERASE MUTANT ASP169 TO GLU OXALOBACTER FORMIGENES COA TRANSFERASE OXALATE OXALATE DEGRADATION INTERTWINED FOLD CAIB-BAIF FAMILY COA COMPLEX TRANSFERASE
Ref.: KINETIC AND MECHANISTIC CHARACTERIZATION OF THE FOR TRANSFERASE FROM OXALOBACTER FORMIGENES J.BIOL.CHEM. V. 279 36003 2004
Members (5)
No: PDB id Binding Data Representative ligand Formula Smiles
The Class containing this family consists of a total of 2 families.
1 1P5R - COA C21 H36 N7 O16 P3 S CC(C)(CO[P....
2 1T3Z - CAO C21 H36 N7 O17 P3 S CC(C)(CO[P....
3 1VGR - COA C21 H36 N7 O16 P3 S CC(C)(CO[P....
4 2VJO - OXL C2 O4 C(=O)(C(=O....
5 1VGQ - CAO C21 H36 N7 O17 P3 S CC(C)(CO[P....
70% Homology Family (10)
No: PDB id Binding Data Representative ligand Formula Smiles
The Class containing this family consists of a total of 237 families.
1 1PT8 - OXL C2 O4 C(=O)(C(=O....
2 1PT5 - ACO C23 H38 N7 O17 P3 S CC(=O)SCCN....
3 1Q7E - MET C5 H11 N O2 S CSCC[C@@H]....
4 1Q6Y - COA C21 H36 N7 O16 P3 S CC(C)(CO[P....
5 1P5R - COA C21 H36 N7 O16 P3 S CC(C)(CO[P....
6 1T3Z - CAO C21 H36 N7 O17 P3 S CC(C)(CO[P....
7 1VGR - COA C21 H36 N7 O16 P3 S CC(C)(CO[P....
8 2VJO - OXL C2 O4 C(=O)(C(=O....
9 1VGQ - CAO C21 H36 N7 O17 P3 S CC(C)(CO[P....
10 3UBM - COA C21 H36 N7 O16 P3 S CC(C)(CO[P....
50% Homology Family (10)
No: PDB id Binding Data Representative ligand Formula Smiles
The Class containing this family consists of a total of 187 families.
1 1PT8 - OXL C2 O4 C(=O)(C(=O....
2 1PT5 - ACO C23 H38 N7 O17 P3 S CC(=O)SCCN....
3 1Q7E - MET C5 H11 N O2 S CSCC[C@@H]....
4 1Q6Y - COA C21 H36 N7 O16 P3 S CC(C)(CO[P....
5 1P5R - COA C21 H36 N7 O16 P3 S CC(C)(CO[P....
6 1T3Z - CAO C21 H36 N7 O17 P3 S CC(C)(CO[P....
7 1VGR - COA C21 H36 N7 O16 P3 S CC(C)(CO[P....
8 2VJO - OXL C2 O4 C(=O)(C(=O....
9 1VGQ - CAO C21 H36 N7 O17 P3 S CC(C)(CO[P....
10 3UBM - COA C21 H36 N7 O16 P3 S CC(C)(CO[P....
Polypharmacology
Similar Ligands
Ligand no: 1; Ligand: COA; Similar ligands found: 211
No: Ligand ECFP6 Tc MDL keys Tc
1 COA 1 1
2 0T1 0.894737 0.976744
3 DCA 0.893805 0.954023
4 COS 0.887931 0.977012
5 ETB 0.877193 0.920455
6 AMX 0.871795 0.988235
7 30N 0.871795 0.913979
8 CAO 0.871795 0.965909
9 CMX 0.864407 0.976744
10 SCO 0.864407 0.976744
11 ACO 0.857143 0.965909
12 FCX 0.857143 0.94382
13 FAM 0.857143 0.954545
14 HAX 0.85 0.954545
15 3KK 0.842975 0.977012
16 FYN 0.842975 1
17 SOP 0.836066 0.977012
18 MCD 0.836066 0.954545
19 OXK 0.836066 0.977012
20 CA6 0.836066 0.885417
21 COK 0.836066 0.977012
22 CO6 0.829268 0.977012
23 NMX 0.829268 0.903226
24 1VU 0.829268 0.965909
25 CMC 0.829268 0.977012
26 CAJ 0.822581 0.954545
27 SCD 0.822581 0.976744
28 2MC 0.822581 0.934066
29 2CP 0.81746 0.965909
30 A1S 0.816 0.977012
31 3HC 0.816 0.988372
32 IVC 0.816 0.988372
33 1HE 0.816 0.955056
34 MLC 0.816 0.977012
35 BCO 0.816 0.977012
36 COD 0.810345 0.988235
37 COO 0.809524 0.977012
38 MCA 0.809524 0.965909
39 CAA 0.809524 0.988372
40 YE1 0.809524 0.965517
41 MC4 0.80315 0.923913
42 SCA 0.80315 0.977012
43 CA8 0.796875 0.885417
44 COF 0.796875 0.955056
45 BYC 0.796875 0.977012
46 COW 0.796875 0.965909
47 3CP 0.796875 0.977012
48 IRC 0.796875 0.988372
49 1GZ 0.796875 0.965909
50 HGG 0.796875 0.977012
51 2KQ 0.796875 0.955056
52 BCA 0.790698 0.965909
53 4CA 0.790698 0.965909
54 FAQ 0.790698 0.977012
55 HXC 0.784615 0.955056
56 GRA 0.784615 0.977012
57 1CV 0.781955 0.977012
58 TGC 0.778626 0.965909
59 2NE 0.772727 0.955056
60 1CZ 0.772727 0.965909
61 CO8 0.772727 0.955056
62 S0N 0.772727 0.954545
63 CIC 0.772727 0.977012
64 DCC 0.766917 0.955056
65 UCC 0.766917 0.955056
66 0FQ 0.766917 0.977012
67 MYA 0.766917 0.955056
68 ST9 0.766917 0.955056
69 4CO 0.766917 0.965909
70 5F9 0.766917 0.955056
71 MFK 0.766917 0.955056
72 01A 0.761194 0.934066
73 0ET 0.761194 0.955056
74 WCA 0.755556 0.955056
75 CS8 0.755556 0.944444
76 UOQ 0.75 0.955056
77 NHW 0.75 0.955056
78 NHM 0.75 0.955056
79 4KX 0.75 0.944444
80 HDC 0.75 0.955056
81 MRR 0.744526 0.955056
82 MRS 0.744526 0.955056
83 HFQ 0.744526 0.955056
84 YNC 0.73913 0.965909
85 DAK 0.73913 0.944444
86 8Z2 0.733813 0.944444
87 NHQ 0.723404 0.988372
88 F8G 0.715278 0.913979
89 1HA 0.713287 0.955056
90 01K 0.708333 0.977012
91 COT 0.703448 0.977012
92 CCQ 0.695652 0.934066
93 CA3 0.693878 0.977012
94 7L1 0.692308 0.965909
95 CA5 0.671053 0.934066
96 UCA 0.666667 0.955056
97 93P 0.666667 0.965909
98 CO7 0.664234 0.977012
99 93M 0.64557 0.965909
100 OXT 0.634146 0.913979
101 5TW 0.607143 0.913979
102 4BN 0.607143 0.913979
103 PAP 0.603604 0.811765
104 JBT 0.598837 0.894737
105 BSJ 0.592814 0.944444
106 HMG 0.581081 0.943182
107 COA PLM 0.573333 0.922222
108 PLM COA 0.573333 0.922222
109 A3P 0.54955 0.8
110 PPS 0.547009 0.752688
111 ASP ASP ASP ILE CMC NH2 0.536585 0.932584
112 0WD 0.521739 0.788889
113 SFC 0.490683 0.955056
114 RFC 0.490683 0.955056
115 191 0.490196 0.865979
116 ACE SER ASP ALY THR NH2 COA 0.483333 0.932584
117 3AM 0.482143 0.788235
118 PTJ 0.48062 0.872093
119 4PS 0.477477 0.682353
120 A22 0.468254 0.813953
121 A2D 0.465517 0.802326
122 PUA 0.462585 0.820225
123 PAJ 0.460938 0.883721
124 ATR 0.459016 0.8
125 SAP 0.459016 0.806818
126 AGS 0.459016 0.806818
127 3OD 0.458015 0.825581
128 ADP 0.453782 0.823529
129 A2R 0.448819 0.813953
130 BA3 0.445378 0.802326
131 OAD 0.442748 0.825581
132 NA7 0.442748 0.858824
133 ATP 0.442623 0.823529
134 HEJ 0.442623 0.823529
135 AP5 0.441667 0.802326
136 B4P 0.441667 0.802326
137 AR6 0.439024 0.802326
138 APR 0.439024 0.802326
139 2A5 0.439024 0.847059
140 5FA 0.439024 0.823529
141 AQP 0.439024 0.823529
142 AN2 0.438017 0.813953
143 AT4 0.438017 0.816092
144 48N 0.435714 0.808989
145 M33 0.434426 0.813953
146 9X8 0.431818 0.806818
147 SRP 0.429688 0.837209
148 ANP 0.428571 0.804598
149 ADQ 0.427481 0.804598
150 YLB 0.426573 0.908046
151 YLP 0.425532 0.886364
152 5AL 0.425197 0.813953
153 7D3 0.425 0.793103
154 AD9 0.424 0.804598
155 APU 0.423611 0.786517
156 7D4 0.422764 0.793103
157 CA0 0.422764 0.804598
158 25L 0.422222 0.813953
159 ATF 0.421875 0.795455
160 F2R 0.421769 0.865169
161 NJP 0.421769 0.806818
162 A2P 0.421488 0.788235
163 A A A 0.421053 0.813953
164 8QN 0.419847 0.813953
165 PNS 0.419643 0.682353
166 ACP 0.419355 0.825581
167 NDP 0.417808 0.788889
168 ACQ 0.417323 0.825581
169 A1R 0.416667 0.882353
170 ATP A A A 0.416058 0.770115
171 A 0.415254 0.8
172 AMP 0.415254 0.8
173 1ZZ 0.414815 0.842697
174 NB8 0.414815 0.808989
175 TXA 0.414815 0.816092
176 FYA 0.414815 0.813953
177 DLL 0.413534 0.793103
178 00A 0.413534 0.758242
179 AHX 0.413534 0.829545
180 PAX 0.412903 0.793478
181 DQV 0.411348 0.813953
182 OMR 0.409722 0.853933
183 9ZD 0.409091 0.818182
184 25A 0.409091 0.802326
185 OOB 0.409091 0.793103
186 9ZA 0.409091 0.818182
187 NPW 0.408163 0.822222
188 6YZ 0.407692 0.825581
189 A A 0.407407 0.781609
190 WAQ 0.407407 0.860465
191 TAT 0.40625 0.816092
192 T99 0.40625 0.816092
193 AMO 0.406015 0.837209
194 4AD 0.406015 0.827586
195 A3R 0.406015 0.882353
196 FA5 0.405797 0.816092
197 YAP 0.405797 0.806818
198 B5Y 0.405797 0.786517
199 TXP 0.405405 0.829545
200 ABM 0.404959 0.781609
201 PRX 0.404762 0.825581
202 ME8 0.404412 0.842697
203 BIS 0.404412 0.818182
204 AFH 0.404255 0.78022
205 J7V 0.403846 0.778947
206 NAI 0.402778 0.777778
207 ODP 0.402685 0.78022
208 DAL AMP 0.401515 0.793103
209 AU1 0.4 0.804598
210 ADX 0.4 0.752688
211 SRA 0.4 0.784091
Similar Binding Sites (Proteins are less than 50% similar to leader)
Pocket No.: 1; Query (leader) PDB : 1VGR; Ligand: COA; Similar sites found with APoc: 46
This union binding pocket(no: 1) in the query (biounit: 1vgr.bio1) has 29 residues
No: Leader PDB Ligand Sequence Similarity
1 3AKI AH8 1.17096
2 5OCQ CIT 1.75439
3 2AWN ADP 1.83727
4 1WD4 AHR 1.87354
5 4A59 AMP 2.10773
6 5F7J ADE 2.5
7 3TAO PGH 2.99625
8 4Q3S X7A 3.11688
9 3QH2 3NM 3.16742
10 1U3G ADP 3.1746
11 4CS9 AMP 3.1746
12 2F6U CIT 3.4188
13 3PUA OGA 3.57143
14 1TZD ADP 3.63636
15 1YXM ADE 3.9604
16 6EK3 OUL 4.0724
17 1C1X HFA 4.78873
18 5TCI MLI 4.87805
19 4NAE 1GP 4.88889
20 2NU8 COA 4.91803
21 1J71 THR ILE THR SER 5.08982
22 5L2R MLA 5.15223
23 3BRE C2E 5.30726
24 1SW0 PGA 5.64516
25 3ESS 18N 5.65217
26 3RKR NAP 5.72519
27 4IU0 ABH 5.75758
28 6F9G PUT 6.23053
29 2JBM SRT 6.35452
30 3KP6 SAL 6.62252
31 2Z49 AMG 6.79157
32 5OES ADP 6.79157
33 1L5Y BEF 7.09677
34 5YSI NCA 7.23684
35 6FTB M0E 7.61905
36 1QKQ MAN 7.74648
37 6ACS CIT 7.75194
38 1ZX5 LFR 8.19672
39 3PA8 621 11.0236
40 3KIF GDL 11.3208
41 2YPI PGA 18.6235
42 1XA4 COA 22.0141
43 1MFI FHC 22.807
44 1XVV CCQ 24.7549
45 2GCE SFC 28.3333
46 2GCE RFC 28.3333
Pocket No.: 2; Query (leader) PDB : 1VGR; Ligand: COA; Similar sites found with APoc: 39
This union binding pocket(no: 2) in the query (biounit: 1vgr.bio1) has 33 residues
No: Leader PDB Ligand Sequence Similarity
1 2FN1 PYR 1.17096
2 5EYY MDM 2.10773
3 2CXG GLC GLC 2.34192
4 5M4Q PRO 2.34192
5 3R75 PYR 2.34192
6 1CT9 GLN 2.34192
7 2PHR MAN MAN BMA MAN 2.77778
8 3EF0 ALF 2.95699
9 2FLI DX5 3.18182
10 4O4Z N2O 3.24675
11 5A1S FLC 3.27869
12 5YJS SAL 3.33333
13 1I7Q PYR 3.62694
14 1T3D CYS 3.80623
15 4OKD GLC GLC GLC 3.98126
16 4HY1 19X 4.10256
17 2UYQ SAM 4.19355
18 1T0S BML 4.54545
19 1W8S FBP 4.56274
20 5TQZ GLC 4.66667
21 5CK5 GDP 4.74684
22 4LHD GLY 4.91803
23 3UVD MB3 5.64516
24 1XNK XS2 6.63265
25 2GJP MAL 7.02576
26 2D3N GLC GLC GLC 7.25995
27 3GLC R5P 7.79661
28 1SQS TLA 8.67769
29 4YCA NDP 9.18367
30 1ZEI CRS 9.43396
31 3AB4 LYS 9.55056
32 2HYR BGC GLC 9.83607
33 2GUC MAN 9.83607
34 2NU5 NAG 9.83607
35 2GUD MAN 9.83607
36 5LXB 7A9 10.7438
37 3TTZ 07N 13.1313
38 5DQY BEZ 21.9048
39 1NME 159 25
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