Receptor
PDB id Resolution Class Description Source Keywords
3VBK 2.2 Å EC: 2.3.1.18 CRYSTAL STRUCTURE OF THE S84A MUTANT OF ANTD, AN N-ACYLTRANS FROM BACILLUS CEREUS IN COMPLEX WITH DTDP-4-AMINO-4,6-DIDEOA ND COENZYME A BACILLUS CEREUS ANTHROSE ACYLATED SUGAR LEFT-HANDED BETA HELIX SUGAR N-ACTRANSFERASE
Ref.: STRUCTURAL STUDIES OF ANTD: AN N-ACYLTRANSFERASE IN THE BIOSYNTHESIS OF D-ANTHROSE. BIOCHEMISTRY V. 51 867 2012
Ligand
Ligand Chain:Residue Validity Ligand Warnings Binding Data NGL Viewer Molecular Weight (Da) Formula SMILES
0FX A:1500;
C:1500;
E:1500;
Valid;
Valid;
Valid;
none;
none;
none;
submit data
547.345 C16 H27 N3 O14 P2 C[C@@...
BCT A:453;
C:453;
E:453;
Invalid;
Invalid;
Invalid;
none;
none;
none;
submit data
61.017 C H O3 C(=O)...
CL A:190;
Invalid;
none;
submit data
35.453 Cl [Cl-]
COA A:189;
C:189;
E:189;
Valid;
Valid;
Valid;
none;
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
3VBK 2.2 Å EC: 2.3.1.18 CRYSTAL STRUCTURE OF THE S84A MUTANT OF ANTD, AN N-ACYLTRANS FROM BACILLUS CEREUS IN COMPLEX WITH DTDP-4-AMINO-4,6-DIDEOA ND COENZYME A BACILLUS CEREUS ANTHROSE ACYLATED SUGAR LEFT-HANDED BETA HELIX SUGAR N-ACTRANSFERASE
Ref.: STRUCTURAL STUDIES OF ANTD: AN N-ACYLTRANSFERASE IN THE BIOSYNTHESIS OF D-ANTHROSE. BIOCHEMISTRY V. 51 867 2012
Members (7)
No: PDB id Binding Data Representative ligand Formula Smiles
The Class containing this family consists of a total of 2 families.
1 3VBK - COA C21 H36 N7 O16 P3 S CC(C)(CO[P....
2 3VBN - COA C21 H36 N7 O16 P3 S CC(C)(CO[P....
3 3VBL - 0FX C16 H27 N3 O14 P2 C[C@@H]1[C....
4 3VBJ - TYD C10 H16 N2 O11 P2 CC1=CN(C(=....
5 3VBP - COA C21 H36 N7 O16 P3 S CC(C)(CO[P....
6 3VBM - COA C21 H36 N7 O16 P3 S CC(C)(CO[P....
7 3VBI - COA C21 H36 N7 O16 P3 S CC(C)(CO[P....
70% Homology Family (7)
No: PDB id Binding Data Representative ligand Formula Smiles
The Class containing this family consists of a total of 2 families.
1 3VBK - COA C21 H36 N7 O16 P3 S CC(C)(CO[P....
2 3VBN - COA C21 H36 N7 O16 P3 S CC(C)(CO[P....
3 3VBL - 0FX C16 H27 N3 O14 P2 C[C@@H]1[C....
4 3VBJ - TYD C10 H16 N2 O11 P2 CC1=CN(C(=....
5 3VBP - COA C21 H36 N7 O16 P3 S CC(C)(CO[P....
6 3VBM - COA C21 H36 N7 O16 P3 S CC(C)(CO[P....
7 3VBI - COA C21 H36 N7 O16 P3 S CC(C)(CO[P....
50% Homology Family (7)
No: PDB id Binding Data Representative ligand Formula Smiles
The Class containing this family consists of a total of 2 families.
1 3VBK - COA C21 H36 N7 O16 P3 S CC(C)(CO[P....
2 3VBN - COA C21 H36 N7 O16 P3 S CC(C)(CO[P....
3 3VBL - 0FX C16 H27 N3 O14 P2 C[C@@H]1[C....
4 3VBJ - TYD C10 H16 N2 O11 P2 CC1=CN(C(=....
5 3VBP - COA C21 H36 N7 O16 P3 S CC(C)(CO[P....
6 3VBM - COA C21 H36 N7 O16 P3 S CC(C)(CO[P....
7 3VBI - COA C21 H36 N7 O16 P3 S CC(C)(CO[P....
Polypharmacology
Similar Ligands
Ligand no: 1; Ligand: 0FX; Similar ligands found: 65
No: Ligand ECFP6 Tc MDL keys Tc
1 0FX 1 1
2 T3F 0.804348 1
3 T3Q 0.804348 1
4 TRH 0.802198 0.973333
5 18T 0.802198 0.973333
6 1JB 0.802198 0.973333
7 4TG 0.737374 0.986667
8 MMF 0.731959 0.973684
9 DAU 0.71875 0.947368
10 QDM 0.717172 0.935897
11 1YF 0.71 0.986667
12 FNF 0.71 0.986667
13 TDX 0.708333 0.96
14 T46 0.704082 0.973333
15 0N2 0.686869 0.986842
16 DWN 0.66 0.973684
17 TTP 0.659341 0.907895
18 FUH 0.657407 0.973684
19 QUH 0.657407 0.973684
20 3R2 0.656566 0.935065
21 TYD 0.651685 0.907895
22 3YN 0.627451 0.947368
23 JHZ 0.613208 0.948718
24 AKM 0.613208 0.949367
25 TLO 0.6 0.909091
26 TMP 0.595506 0.894737
27 T5K 0.584 0.891566
28 T4K 0.584 0.891566
29 7SG 0.563492 0.879518
30 TQP 0.563492 0.879518
31 TBD 0.520408 0.873418
32 T5A 0.512397 0.879518
33 DT DT PST 0.486726 0.873418
34 DT DT DT DT DT 0.486486 0.909091
35 0DN 0.477778 0.779221
36 AZD 0.47619 0.851852
37 THM 0.47191 0.815789
38 LLT 0.47191 0.815789
39 JB2 0.470588 0.747126
40 UFP 0.46875 0.825
41 NYM 0.459184 0.921053
42 ATY 0.457143 0.909091
43 5HU 0.44898 0.883117
44 ATM 0.446602 0.839506
45 DUT 0.446602 0.868421
46 4TA 0.44186 0.845238
47 DT ME6 DT 0.44 0.8625
48 THP 0.44 0.881579
49 TXS 0.438776 0.7625
50 T3P 0.4375 0.857143
51 DUD 0.435644 0.868421
52 TPE 0.434783 0.910256
53 BRU 0.434343 0.825
54 D3T 0.432692 0.883117
55 FDM 0.43 0.8375
56 5IU 0.43 0.825
57 T3S 0.43 0.78481
58 UD4 0.42623 0.92
59 DT DT DT 0.412844 0.87013
60 ABT 0.412281 0.831325
61 DCP 0.411215 0.835443
62 BVP 0.40566 0.858974
63 YYY 0.4 0.835443
64 UDX 0.4 0.893333
65 UAD 0.4 0.893333
Ligand no: 2; Ligand: COA; Similar ligands found: 197
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 CAO 0.871795 0.965909
7 AMX 0.871795 0.988235
8 30N 0.871795 0.913979
9 CMX 0.864407 0.976744
10 SCO 0.864407 0.976744
11 FAM 0.857143 0.954545
12 ACO 0.857143 0.965909
13 FCX 0.857143 0.94382
14 HAX 0.85 0.954545
15 3KK 0.842975 0.977012
16 FYN 0.842975 1
17 CA6 0.836066 0.885417
18 SOP 0.836066 0.977012
19 MCD 0.836066 0.954545
20 COK 0.836066 0.977012
21 OXK 0.836066 0.977012
22 NMX 0.829268 0.903226
23 CO6 0.829268 0.977012
24 CMC 0.829268 0.977012
25 1VU 0.829268 0.965909
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 BCO 0.816 0.977012
31 3HC 0.816 0.988372
32 1HE 0.816 0.955056
33 MLC 0.816 0.977012
34 A1S 0.816 0.977012
35 IVC 0.816 0.988372
36 COD 0.810345 0.988235
37 CAA 0.809524 0.988372
38 COO 0.809524 0.977012
39 MCA 0.809524 0.965909
40 YE1 0.809524 0.965517
41 SCA 0.80315 0.977012
42 MC4 0.80315 0.923913
43 IRC 0.796875 0.988372
44 3CP 0.796875 0.977012
45 CA8 0.796875 0.885417
46 BYC 0.796875 0.977012
47 COW 0.796875 0.965909
48 2KQ 0.796875 0.955056
49 COF 0.796875 0.955056
50 HGG 0.796875 0.977012
51 1GZ 0.796875 0.965909
52 4CA 0.790698 0.965909
53 FAQ 0.790698 0.977012
54 BCA 0.790698 0.965909
55 GRA 0.784615 0.977012
56 HXC 0.784615 0.955056
57 1CV 0.781955 0.977012
58 TGC 0.778626 0.965909
59 1CZ 0.772727 0.965909
60 CO8 0.772727 0.955056
61 S0N 0.772727 0.954545
62 2NE 0.772727 0.955056
63 CIC 0.772727 0.977012
64 0FQ 0.766917 0.977012
65 ST9 0.766917 0.955056
66 4CO 0.766917 0.965909
67 UCC 0.766917 0.955056
68 MFK 0.766917 0.955056
69 DCC 0.766917 0.955056
70 MYA 0.766917 0.955056
71 5F9 0.766917 0.955056
72 01A 0.761194 0.934066
73 0ET 0.761194 0.955056
74 CS8 0.755556 0.944444
75 WCA 0.755556 0.955056
76 4KX 0.75 0.944444
77 UOQ 0.75 0.955056
78 NHW 0.75 0.955056
79 HDC 0.75 0.955056
80 NHM 0.75 0.955056
81 HFQ 0.744526 0.955056
82 MRS 0.744526 0.955056
83 MRR 0.744526 0.955056
84 DAK 0.73913 0.944444
85 YNC 0.73913 0.965909
86 8Z2 0.733813 0.944444
87 NHQ 0.723404 0.988372
88 1HA 0.713287 0.955056
89 01K 0.708333 0.977012
90 COT 0.703448 0.977012
91 CCQ 0.695652 0.934066
92 CA3 0.693878 0.977012
93 CA5 0.671053 0.934066
94 UCA 0.666667 0.955056
95 93P 0.666667 0.965909
96 CO7 0.664234 0.977012
97 93M 0.64557 0.965909
98 OXT 0.634146 0.913979
99 5TW 0.607143 0.913979
100 4BN 0.607143 0.913979
101 PAP 0.603604 0.811765
102 JBT 0.598837 0.894737
103 BSJ 0.592814 0.944444
104 HMG 0.581081 0.943182
105 COA MYR 0.573333 0.922222
106 PLM COA 0.573333 0.922222
107 COA PLM 0.573333 0.922222
108 A3P 0.54955 0.8
109 PPS 0.547009 0.752688
110 0WD 0.521739 0.788889
111 RFC 0.490683 0.955056
112 SFC 0.490683 0.955056
113 191 0.490196 0.865979
114 3AM 0.482143 0.788235
115 PTJ 0.48062 0.872093
116 ACE SER ASP ALY THR NH2 COA 0.478261 0.932584
117 4PS 0.477477 0.682353
118 A22 0.468254 0.813953
119 A2D 0.465517 0.802326
120 PUA 0.462585 0.820225
121 PAJ 0.460938 0.883721
122 AGS 0.459016 0.806818
123 SAP 0.459016 0.806818
124 ATR 0.459016 0.8
125 3OD 0.458015 0.825581
126 ADP 0.453782 0.823529
127 A2R 0.448819 0.813953
128 BA3 0.445378 0.802326
129 NA7 0.442748 0.858824
130 OAD 0.442748 0.825581
131 ATP 0.442623 0.823529
132 AP5 0.441667 0.802326
133 B4P 0.441667 0.802326
134 APR 0.439024 0.802326
135 5FA 0.439024 0.823529
136 2A5 0.439024 0.847059
137 AQP 0.439024 0.823529
138 AR6 0.439024 0.802326
139 AN2 0.438017 0.813953
140 48N 0.435714 0.808989
141 M33 0.434426 0.813953
142 SRP 0.429688 0.837209
143 ANP 0.428571 0.804598
144 ADQ 0.427481 0.804598
145 YLB 0.426573 0.908046
146 YLP 0.425532 0.886364
147 5AL 0.425197 0.813953
148 7D3 0.425 0.793103
149 AD9 0.424 0.804598
150 APU 0.423611 0.786517
151 7D4 0.422764 0.793103
152 CA0 0.422764 0.804598
153 25L 0.422222 0.813953
154 ATF 0.421875 0.795455
155 NJP 0.421769 0.806818
156 A2P 0.421488 0.788235
157 A A A 0.421053 0.813953
158 8QN 0.419847 0.813953
159 PNS 0.419643 0.682353
160 ACP 0.419355 0.825581
161 NDP 0.417808 0.788889
162 ACQ 0.417323 0.825581
163 A1R 0.416667 0.882353
164 ATP A A A 0.416058 0.770115
165 A 0.415254 0.8
166 AMP 0.415254 0.8
167 FYA 0.414815 0.813953
168 1ZZ 0.414815 0.842697
169 TXA 0.414815 0.816092
170 NB8 0.414815 0.808989
171 AHX 0.413534 0.829545
172 DLL 0.413534 0.793103
173 00A 0.413534 0.758242
174 PAX 0.412903 0.793478
175 OMR 0.409722 0.853933
176 25A 0.409091 0.802326
177 OOB 0.409091 0.793103
178 NPW 0.408163 0.822222
179 WAQ 0.407407 0.860465
180 A A 0.407407 0.781609
181 TAT 0.40625 0.816092
182 4AD 0.406015 0.827586
183 AMO 0.406015 0.837209
184 YAP 0.405797 0.806818
185 FA5 0.405797 0.816092
186 TXP 0.405405 0.829545
187 ABM 0.404959 0.781609
188 PRX 0.404762 0.825581
189 ME8 0.404412 0.842697
190 BIS 0.404412 0.818182
191 AFH 0.404255 0.78022
192 J7V 0.403846 0.778947
193 NAI 0.402778 0.777778
194 ODP 0.402685 0.78022
195 ADX 0.4 0.752688
196 SRA 0.4 0.784091
197 AU1 0.4 0.804598
Similar Binding Sites (Proteins are less than 50% similar to leader)
Pocket No.: 1; Query (leader) PDB : 3VBK; Ligand: 0FX; Similar sites found: 23
This union binding pocket(no: 1) in the query (biounit: 3vbk.bio1) has 45 residues
No: Leader PDB Ligand P-value (APoc) PS_Score (APoc) Sequence Similarity
1 2QQC AG2 0.04525 0.41419 2.67857
2 1VDN ACE ALA ALA PRO ALA MCM 0.003995 0.47478 3.7037
3 1BGV GLU 0.04174 0.41783 4.39024
4 5F2T PLM 0.02675 0.4002 4.39024
5 5E89 TD2 0.03106 0.40566 5.7554
6 4WCX MET 0.0434 0.42004 5.85366
7 3PNA CMP 0.03642 0.41559 7.14286
8 5N2D 8J8 0.002563 0.45139 8.78049
9 5N2F 8HW 0.003546 0.43452 8.78049
10 1J2Z SOG 0.002111 0.48255 11.8519
11 3FSY SCA 0.001831 0.43772 13.1707
12 2WLG SOP 0.0002077 0.40717 13.1707
13 2IU8 PLM 0.003008 0.44103 16.0976
14 1KGQ SCO 0.001236 0.4043 19.0244
15 1VBO MAN MAN MAN 0.04919 0.40794 19.4631
16 4MZU TDR 0.00004882 0.57139 32.1951
17 4MZU COA 0.0003479 0.48798 32.1951
18 3MQG UDP 0.0001204 0.50471 33.3333
19 3MQG ACO 0.000001417 0.50365 33.3333
20 3MQG U5P 0.0005871 0.47744 33.3333
21 3MQG UDP UDP 0.001996 0.45276 33.3333
22 3FS8 ACO 0.0001576 0.43376 40.4878
23 3FS8 TDR 0.0004564 0.41655 40.4878
Pocket No.: 2; Query (leader) PDB : 3VBK; Ligand: COA; Similar sites found: 24
This union binding pocket(no: 2) in the query (biounit: 3vbk.bio1) has 42 residues
No: Leader PDB Ligand P-value (APoc) PS_Score (APoc) Sequence Similarity
1 4DZ1 DAL 0.04446 0.40904 2.92683
2 3P7G MAN 0.0159 0.42816 3.42466
3 1VDN ACE ALA ALA PRO ALA MCM 0.006567 0.4598 3.7037
4 5F2T PLM 0.02029 0.4123 4.39024
5 5E89 TD2 0.01939 0.41327 5.7554
6 3PNA CMP 0.03264 0.4157 7.14286
7 5N2D 8J8 0.001586 0.45824 8.78049
8 5N2F 8HW 0.002525 0.43818 8.78049
9 2G30 ALA ALA PHE 0.01786 0.40341 10.2439
10 1J2Z SOG 0.001504 0.48745 11.8519
11 3FSY SCA 0.002332 0.4303 13.1707
12 2WLG SOP 0.00008546 0.41101 13.1707
13 2IU8 PLM 0.002546 0.44139 16.0976
14 1KGQ SCO 0.0007038 0.41856 19.0244
15 1KGQ NPI 0.001852 0.40324 19.0244
16 1VBO MAN MAN MAN 0.03865 0.40808 19.4631
17 4MZU TDR 0.00005496 0.56029 32.1951
18 4MZU COA 0.0002569 0.49076 32.1951
19 3MQG UDP 0.0001064 0.50367 33.3333
20 3MQG ACO 0.000001071 0.5019 33.3333
21 3MQG UDP UDP 0.002213 0.44771 33.3333
22 3MQG U5P 0.002336 0.44663 33.3333
23 3FS8 ACO 0.00009863 0.44781 40.4878
24 3FS8 TDR 0.0002928 0.42957 40.4878
Pocket No.: 3; Query (leader) PDB : 3VBK; Ligand: 0FX; Similar sites found: No similar binding sites found, or similarity not calculated due to duplicate pocket.
This union binding pocket(no: 3) in the query (biounit: 3vbk.bio1) has 44 residues
No: Leader PDB Ligand P-value (APoc) PS_Score (APoc) Sequence Similarity
Pocket No.: 4; Query (leader) PDB : 3VBK; Ligand: COA; Similar sites found: No similar binding sites found, or similarity not calculated due to duplicate pocket.
This union binding pocket(no: 4) in the query (biounit: 3vbk.bio1) has 42 residues
No: Leader PDB Ligand P-value (APoc) PS_Score (APoc) Sequence Similarity
Pocket No.: 5; Query (leader) PDB : 3VBK; Ligand: 0FX; Similar sites found: No similar binding sites found, or similarity not calculated due to duplicate pocket.
This union binding pocket(no: 5) in the query (biounit: 3vbk.bio1) has 45 residues
No: Leader PDB Ligand P-value (APoc) PS_Score (APoc) Sequence Similarity
Pocket No.: 6; Query (leader) PDB : 3VBK; Ligand: COA; Similar sites found: No similar binding sites found, or similarity not calculated due to duplicate pocket.
This union binding pocket(no: 6) in the query (biounit: 3vbk.bio1) has 42 residues
No: Leader PDB Ligand P-value (APoc) PS_Score (APoc) Sequence Similarity
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