FMODB

FMODB: The database of quantum mechanical data based on the FMO method

Last updated: 2025-07-23

All entries: 44592

Number of unique PDB entries: 7794

tag_button

FMODB ID: 6ZL5Z

Calculation Name: 4U3Q-A-Xray540

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 4U3Q

Chain ID: A

ChEMBL ID:

UniProt ID: P29722

Base Structure: X-ray

Registration Date: 2025-07-11

Reference: C. Watanabe, N. Tani, K. Kamisaka, T. Honma et al., Interaction energy analysis of Apo structure dataset on FMODB, To be published.

DOI:

Apendix: None


IFIE MAP

IFIE Diagram


Modeling method
Optimization MOE:Amber10:EHT
Restraint OptAll
Protonation MOE:Protonate 3D
Complement MOE:Structure Preparation
Water No
Procedure Auto-FMO protocol ver. 2.20220422
FMO calculation
FMO method FMO2-MP2/6-31G(d)
Fragmentation Auto
Number of fragment 192
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -747075.061403
FMO2-HF: Nuclear repulsion 706940.70761
FMO2-HF: Total energy -40134.353793
FMO2-MP2: Total energy -40249.007411


3D Structure
Snapshot
 
Ligand structure

ligand structure
Ligand Interaction
ligand interaction
Ligand binding energy
IFIE [kcal/mol] PIEDA [kcal/mol] Charge transfer value [e]
IFIE SUMIFIE SUM at MP2 level. ESElectro static interaction energy. EXExchange-repulsion energy. CT+mixCharge transfer and mixing terms energy. DI(MP2)Dispersion energy. q(I=>J)Charge transfer value from I to J fragments.
N/AN/AN/AN/AN/AN/A


Interactive mode: IFIE and PIEDA for fragment #1(A:10:LYS)


Summations of interaction energy for fragment #1(A:10:LYS)
IFIE [kcal/mol] PIEDA [kcal/mol] Charge transfer value [e]
IFIE SUMIFIE SUM at MP2 level. ESElectro static interaction energy. EXExchange-repulsion energy. CT+mixCharge transfer and mixing terms energy. DI(MP2)Dispersion energy. q(I=>J)Charge transfer value from I to J fragments.
-16.081-15.74314.743-8.196-6.886-0.057
Interaction energy analysis for fragmet #1(A:10:LYS)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.199 / q_NPA : 0.038
Distance from base fragment(s) [Å]
Dist
Interaction energy by IFIE and PIEDA
[kcal/mol]
| Total | > | ES | > | EX | >
| CT+mix | > | DI(MP2) | >
Fragment charge [e]
FCHARGE q_Mulliken
q_NPA q(I=>J)
Residue
Res #    RES   
Sort
Graph Options
X Axis Label
Y Axis Max Y Axis Min
Display   
frag_NumFragment number. ChainChain species. Res #Residue number. RES3-letter code of amino acid residue, ligand and solvent molecule. FCHARGEFormal charge [e]. q_MullikenFragment charge evaluated by Mulliken charge [e]. q_NPAFragment charge evaluated by natural population analysis(NPA) charge [e]. DISTDistance from Ligand [Å]. TotalIFIE at MP2 level [kcal/mol]. ESElectro static interaction energy by PIEDA [kcal/mol]. EXExchange-repulsion energy by PIEDA [kcal/mol]. CT+mixCharge transfer and mixing terms energy by PIEDA [kcal/mol]. DI(MP2)Dispersion energy by PIEDA [kcal/mol]. q(I=>J)Charge transfer value from I to J fragmens [e].
4A11ALA0-0.0830.0944.751-0.0020.192-0.001-0.095-0.0970.000
5A12LYS00.040-0.1112.918-2.340-0.3250.024-1.112-0.9280.004
6A12LYS10.8611.0873.729-0.686-0.5810.000-0.024-0.0820.000
7A13ALA00.173-0.0993.124-0.613-0.4300.0290.107-0.3190.000
8A13ALA0-0.0730.1232.648-0.1860.0880.508-0.481-0.3010.002
9A14GLU00.121-0.0813.7830.1460.4140.000-0.146-0.1220.001
10A14GLU-1-0.877-0.7884.393-3.495-3.428-0.001-0.061-0.0060.000
11A15LYS00.051-0.0985.7300.0770.0770.0000.0000.0000.000
12A15LYS10.8191.0367.177-0.665-0.6650.0000.0000.0000.000
13A16VAL00.075-0.0837.6670.0340.0340.0000.0000.0000.000
14A16VAL0-0.1110.0898.2430.0170.0170.0000.0000.0000.000
15A17GLU00.156-0.1038.0750.0760.0760.0000.0000.0000.000
16A17GLU-1-0.969-0.8057.835-0.768-0.7680.0000.0000.0000.000
17A18CYS00.084-0.1359.6700.0420.0420.0000.0000.0000.000
18A18CYS0-0.1430.0779.436-0.009-0.0090.0000.0000.0000.000
19A19ALA00.086-0.08311.6560.0090.0090.0000.0000.0000.000
20A19ALA0-0.0740.10012.7650.0150.0150.0000.0000.0000.000
21A20LEU0-0.017-0.12413.0270.0330.0330.0000.0000.0000.000
22A20LEU0-0.0500.11012.5900.0030.0030.0000.0000.0000.000
23A21LYS00.126-0.06513.8100.0280.0280.0000.0000.0000.000
24A21LYS10.7410.99911.6380.4240.4240.0000.0000.0000.000
25A22GLY0-0.052-0.13615.378-0.002-0.0020.0000.0000.0000.000
26A23GLY0-0.0190.00118.3620.0150.0150.0000.0000.0000.000
27A24ILE00.0930.00019.940-0.006-0.0060.0000.0000.0000.000
28A24ILE0-0.0990.09123.7450.0000.0000.0000.0000.0000.000
29A25PHE00.037-0.11321.4760.0040.0040.0000.0000.0000.000
30A25PHE0-0.0740.09417.5070.0030.0030.0000.0000.0000.000
31A26ARG00.140-0.06722.823-0.004-0.0040.0000.0000.0000.000
32A26ARG10.7360.97026.957-0.005-0.0050.0000.0000.0000.000
33A27GLY0-0.008-0.11326.0110.0080.0080.0000.0000.0000.000
34A28THR00.0330.02727.596-0.005-0.0050.0000.0000.0000.000
35A28THR0-0.0530.07331.5360.0000.0000.0000.0000.0000.000
36A29LEU00.095-0.09228.0280.0060.0060.0000.0000.0000.000
37A29LEU0-0.0690.11424.7900.0000.0000.0000.0000.0000.000
38A30PRO0-0.010-0.10328.296-0.004-0.0040.0000.0000.0000.000
39A31ALA00.1220.00830.8430.0000.0000.0000.0000.0000.000
40A31ALA0-0.0820.11033.630-0.001-0.0010.0000.0000.0000.000
41A32ALA00.083-0.09833.5650.0020.0020.0000.0000.0000.000
42A32ALA0-0.0920.08734.6480.0000.0000.0000.0000.0000.000
43A33ASP00.072-0.10235.6700.0010.0010.0000.0000.0000.000
44A33ASP-1-1.008-0.86238.4010.0200.0200.0000.0000.0000.000
45A34CYS00.044-0.11537.1260.0000.0000.0000.0000.0000.000
46A34CYS0-0.1190.08838.1490.0010.0010.0000.0000.0000.000
47A35PRO0-0.030-0.10636.8000.0030.0030.0000.0000.0000.000
48A36GLY00.0320.00333.3530.0030.0030.0000.0000.0000.000
49A37ILE00.086-0.01132.116-0.002-0.0020.0000.0000.0000.000
50A37ILE0-0.0770.11631.5740.0000.0000.0000.0000.0000.000
51A38ASP00.113-0.08330.8230.0040.0040.0000.0000.0000.000
52A38ASP-1-0.899-0.77231.3450.0080.0080.0000.0000.0000.000
53A39THR0-0.021-0.10627.989-0.006-0.0060.0000.0000.0000.000
54A39THR0-0.0380.06526.0410.0000.0000.0000.0000.0000.000
55A40THR00.032-0.08325.9320.0070.0070.0000.0000.0000.000
56A40THR0-0.0440.06325.844-0.001-0.0010.0000.0000.0000.000
57A41VAL00.041-0.10921.856-0.004-0.0040.0000.0000.0000.000
58A41VAL0-0.0400.12620.0350.0010.0010.0000.0000.0000.000
59A42THR00.000-0.09121.4910.0060.0060.0000.0000.0000.000
60A42THR0-0.0290.06721.9060.0010.0010.0000.0000.0000.000
61A43PHE00.092-0.04416.982-0.002-0.0020.0000.0000.0000.000
62A43PHE0-0.0770.09116.0270.0060.0060.0000.0000.0000.000
63A44ASN00.161-0.07117.748-0.010-0.0100.0000.0000.0000.000
64A44ASN0-0.1170.06420.0120.0110.0110.0000.0000.0000.000
65A45ALA00.124-0.08816.672-0.016-0.0160.0000.0000.0000.000
66A45ALA0-0.0610.09417.7560.0020.0020.0000.0000.0000.000
67A46ASP0-0.033-0.13516.434-0.042-0.0420.0000.0000.0000.000
68A46ASP-1-0.825-0.77519.604-0.161-0.1610.0000.0000.0000.000
69A47GLY0-0.006-0.08215.447-0.024-0.0240.0000.0000.0000.000
70A48THR00.0350.01416.2970.0100.0100.0000.0000.0000.000
71A48THR0-0.0670.04320.7120.0090.0090.0000.0000.0000.000
72A49ALA00.075-0.11818.966-0.006-0.0060.0000.0000.0000.000
73A49ALA0-0.0650.10218.6880.0010.0010.0000.0000.0000.000
74A50GLN00.087-0.07820.6570.0000.0000.0000.0000.0000.000
75A50GLN0-0.1140.07124.152-0.002-0.0020.0000.0000.0000.000
76A51LYS00.106-0.08123.2370.0010.0010.0000.0000.0000.000
77A51LYS10.7460.99723.903-0.003-0.0030.0000.0000.0000.000
78A52VAL00.057-0.10625.393-0.004-0.0040.0000.0000.0000.000
79A52VAL0-0.0940.08227.8550.0000.0000.0000.0000.0000.000
80A53GLU00.090-0.11028.8030.0040.0040.0000.0000.0000.000
81A53GLU-1-0.885-0.76328.1150.0000.0000.0000.0000.0000.000
82A54LEU0-0.083-0.13531.0950.0000.0000.0000.0000.0000.000
83A54LEU00.0440.02733.3190.0000.0000.0000.0000.0000.000
84A63SER00.0700.02938.537-0.001-0.0010.0000.0000.0000.000
85A63SER0-0.0490.06738.3050.0010.0010.0000.0000.0000.000
86A64PRO0-0.005-0.10234.2500.0020.0020.0000.0000.0000.000
87A65LEU00.1000.00433.247-0.005-0.0050.0000.0000.0000.000
88A65LEU0-0.0380.12832.6630.0000.0000.0000.0000.0000.000
89A66THR00.007-0.09229.9860.0020.0020.0000.0000.0000.000
90A66THR0-0.0780.04729.496-0.001-0.0010.0000.0000.0000.000
91A67TYR00.055-0.09627.180-0.001-0.0010.0000.0000.0000.000
92A67TYR0-0.1270.06126.296-0.001-0.0010.0000.0000.0000.000
93A68ARG00.086-0.09224.8800.0000.0000.0000.0000.0000.000
94A68ARG10.8161.02725.8190.0600.0600.0000.0000.0000.000
95A69GLY00.028-0.08522.4120.0060.0060.0000.0000.0000.000
96A70THR0-0.0120.01218.429-0.003-0.0030.0000.0000.0000.000
97A70THR00.0090.08417.407-0.002-0.0020.0000.0000.0000.000
98A71TRP00.052-0.07415.5200.0210.0210.0000.0000.0000.000
99A71TRP0-0.1270.07211.6510.0000.0000.0000.0000.0000.000
100A72MET00.075-0.09211.635-0.035-0.0350.0000.0000.0000.000
101A72MET0-0.0770.09311.217-0.014-0.0140.0000.0000.0000.000
102A73VAL00.066-0.1228.3090.0700.0700.0000.0000.0000.000
103A73VAL0-0.0690.1256.9680.0020.0020.0000.0000.0000.000
104A74ARG00.071-0.0677.203-0.141-0.1410.0000.0000.0000.000
105A74ARG10.7040.9487.601-0.108-0.1080.0000.0000.0000.000
106A75GLU00.182-0.0883.156-0.1640.1300.037-0.126-0.2050.000
107A75GLU-1-0.944-0.8081.857-7.293-11.60214.073-5.454-4.310-0.057
108A76ASP0-0.011-0.1363.134-0.8550.3920.074-0.804-0.516-0.007
109A76ASP-1-0.823-0.7737.3890.2780.2780.0000.0000.0000.000
110A77GLY0-0.060-0.1455.8190.1320.1320.0000.0000.0000.000
111A78ILE00.061-0.0037.006-0.038-0.0380.0000.0000.0000.000
112A78ILE0-0.0790.0959.983-0.002-0.0020.0000.0000.0000.000
113A79VAL00.045-0.1199.918-0.047-0.0470.0000.0000.0000.000
114A79VAL0-0.0880.10110.987-0.004-0.0040.0000.0000.0000.000
115A80GLU00.155-0.08712.4390.0340.0340.0000.0000.0000.000
116A80GLU-1-0.910-0.78313.584-0.026-0.0260.0000.0000.0000.000
117A81LEU00.110-0.09214.795-0.038-0.0380.0000.0000.0000.000
118A81LEU0-0.1230.10417.6980.0010.0010.0000.0000.0000.000
119A82SER00.009-0.09617.6730.0190.0190.0000.0000.0000.000
120A82SER0-0.0330.06017.855-0.003-0.0030.0000.0000.0000.000
121A83LEU0-0.002-0.11220.126-0.016-0.0160.0000.0000.0000.000
122A83LEU0-0.0360.10821.9040.0010.0010.0000.0000.0000.000
123A84VAL0-0.032-0.10723.5850.0060.0060.0000.0000.0000.000
124A84VAL00.0770.04826.227-0.001-0.0010.0000.0000.0000.000
125A94GLU00.1430.02824.5500.0050.0050.0000.0000.0000.000
126A94GLU-1-1.026-0.88724.121-0.031-0.0310.0000.0000.0000.000
127A95LYS00.011-0.11920.131-0.013-0.0130.0000.0000.0000.000
128A95LYS10.7911.00216.3180.0730.0730.0000.0000.0000.000
129A96GLU00.013-0.13219.7530.0120.0120.0000.0000.0000.000
130A96GLU-1-0.786-0.71620.4360.0050.0050.0000.0000.0000.000
131A97LEU00.118-0.10616.276-0.021-0.0210.0000.0000.0000.000
132A97LEU0-0.1220.08814.7750.0050.0050.0000.0000.0000.000
133A98TYR00.041-0.10315.2920.0090.0090.0000.0000.0000.000
134A98TYR0-0.1120.06515.798-0.003-0.0030.0000.0000.0000.000
135A99GLU00.200-0.09313.113-0.001-0.0010.0000.0000.0000.000
136A99GLU-1-0.901-0.76312.9470.2780.2780.0000.0000.0000.000
137A100LEU00.081-0.10912.622-0.023-0.0230.0000.0000.0000.000
138A100LEU0-0.0890.11612.023-0.001-0.0010.0000.0000.0000.000
139A101ILE00.017-0.10013.2640.0710.0710.0000.0000.0000.000
140A101ILE0-0.0920.07317.343-0.002-0.0020.0000.0000.0000.000
141A102ASP00.022-0.08515.8750.0420.0420.0000.0000.0000.000
142A102ASP-1-0.848-0.80018.1100.1110.1110.0000.0000.0000.000
143A103SER00.053-0.07215.955-0.014-0.0140.0000.0000.0000.000
144A103SER0-0.0140.06616.7720.0090.0090.0000.0000.0000.000
145A104ASN00.072-0.06316.926-0.035-0.0350.0000.0000.0000.000
146A104ASN0-0.1230.05120.6230.0020.0020.0000.0000.0000.000
147A105SER00.073-0.06718.248-0.019-0.0190.0000.0000.0000.000
148A105SER0-0.0260.04019.209-0.003-0.0030.0000.0000.0000.000
149A106VAL00.052-0.07917.0550.0270.0270.0000.0000.0000.000
150A106VAL0-0.0490.12016.119-0.003-0.0030.0000.0000.0000.000
151A107ARG00.148-0.08317.370-0.015-0.0150.0000.0000.0000.000
152A107ARG10.6750.95817.036-0.196-0.1960.0000.0000.0000.000
153A108TYR00.124-0.09218.0900.0070.0070.0000.0000.0000.000
154A108TYR0-0.1530.06822.0980.0030.0030.0000.0000.0000.000
155A109MET00.000-0.13918.3160.0050.0050.0000.0000.0000.000
156A109MET0-0.1120.11314.7400.0020.0020.0000.0000.0000.000
157A110GLY00.006-0.09519.7350.0040.0040.0000.0000.0000.000
158A111ALA00.1440.01820.428-0.001-0.0010.0000.0000.0000.000
159A111ALA0-0.0420.12923.266-0.001-0.0010.0000.0000.0000.000
160A112PRO0-0.075-0.14117.8610.0180.0180.0000.0000.0000.000
161A113GLY00.0590.02219.419-0.008-0.0080.0000.0000.0000.000
162A114ALA00.055-0.01021.1330.0080.0080.0000.0000.0000.000
163A114ALA0-0.0520.13721.832-0.002-0.0020.0000.0000.0000.000
164A115GLY0-0.036-0.13619.9590.0040.0040.0000.0000.0000.000
165A116LYS00.1170.00420.6920.0190.0190.0000.0000.0000.000
166A116LYS10.7371.04425.053-0.108-0.1080.0000.0000.0000.000
167A117PRO00.061-0.06622.208-0.003-0.0030.0000.0000.0000.000
168A118SER00.0440.03523.795-0.012-0.0120.0000.0000.0000.000
169A118SER0-0.0490.06827.7070.0030.0030.0000.0000.0000.000
170A119LYS00.217-0.05226.059-0.011-0.0110.0000.0000.0000.000
171A119LYS10.7711.02022.339-0.121-0.1210.0000.0000.0000.000
172A120GLU00.042-0.14226.0720.0060.0060.0000.0000.0000.000
173A120GLU-1-0.904-0.79928.5710.1020.1020.0000.0000.0000.000
174A121MET00.065-0.10827.7500.0040.0040.0000.0000.0000.000
175A121MET0-0.0750.12127.961-0.001-0.0010.0000.0000.0000.000
176A122ALA00.136-0.09323.738-0.012-0.0120.0000.0000.0000.000
177A122ALA0-0.0860.10022.7320.0040.0040.0000.0000.0000.000
178A123PRO0-0.026-0.13324.0990.0000.0000.0000.0000.0000.000
179A124PHE00.0690.01325.775-0.002-0.0020.0000.0000.0000.000
180A124PHE0-0.0910.09828.6150.0000.0000.0000.0000.0000.000
181A125TYR00.122-0.06023.969-0.011-0.0110.0000.0000.0000.000
182A125TYR0-0.1160.07723.1740.0030.0030.0000.0000.0000.000
183A126VAL00.105-0.10322.0710.0020.0020.0000.0000.0000.000
184A126VAL0-0.1120.07821.6400.0030.0030.0000.0000.0000.000
185A127LEU00.029-0.11521.785-0.006-0.0060.0000.0000.0000.000
186A127LEU0-0.0600.11421.384-0.002-0.0020.0000.0000.0000.000
187A128LYS00.112-0.08021.5410.0100.0100.0000.0000.0000.000
188A128LYS10.7941.01822.581-0.085-0.0850.0000.0000.0000.000
189A129LYS00.145-0.09621.705-0.008-0.0080.0000.0000.0000.000
190A129LYS10.7041.01717.3440.0320.0320.0000.0000.0000.000
191A130THR0-0.160-0.17522.7720.0010.0010.0000.0000.0000.000
192A130THR00.0660.05026.2610.0010.0010.0000.0000.0000.000