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

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FMODB ID: 247GR

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 OptHSide
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 -746517.459513
FMO2-HF: Nuclear repulsion 706383.231221
FMO2-HF: Total energy -40134.228293
FMO2-MP2: Total energy -40248.862085


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.
-15.544-13.7299.099-5.38-5.534-0.046
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 : 0.200 / q_NPA : 0.034
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].
4A11ALA0-0.1150.0684.632-0.0010.180-0.001-0.078-0.1030.000
5A12LYS00.066-0.1293.595-2.371-1.144-0.001-0.613-0.6120.002
6A12LYS10.8961.1054.199-0.500-0.438-0.001-0.007-0.0530.000
7A13ALA00.116-0.1143.570-0.360-0.1630.0170.027-0.2420.000
8A13ALA0-0.0580.1312.919-0.1200.0870.209-0.231-0.1850.001
9A14GLU00.116-0.0794.1810.2700.408-0.001-0.062-0.0750.000
10A14GLU-1-0.886-0.7854.619-2.851-2.814-0.001-0.032-0.0040.000
11A15LYS00.068-0.0916.0730.1000.1000.0000.0000.0000.000
12A15LYS10.8501.0507.521-0.723-0.7230.0000.0000.0000.000
13A16VAL00.044-0.1047.9220.0330.0330.0000.0000.0000.000
14A16VAL0-0.0750.1008.4250.0170.0170.0000.0000.0000.000
15A17GLU00.139-0.1098.4040.0830.0830.0000.0000.0000.000
16A17GLU-1-0.956-0.7978.220-0.725-0.7250.0000.0000.0000.000
17A18CYS00.070-0.13610.0120.0340.0340.0000.0000.0000.000
18A18CYS0-0.1590.0769.7860.0010.0010.0000.0000.0000.000
19A19ALA00.084-0.08712.0700.0090.0090.0000.0000.0000.000
20A19ALA0-0.0700.10513.2940.0130.0130.0000.0000.0000.000
21A20LEU00.001-0.13013.4070.0320.0320.0000.0000.0000.000
22A20LEU0-0.0540.12412.6000.0020.0020.0000.0000.0000.000
23A21LYS00.144-0.05814.4060.0260.0260.0000.0000.0000.000
24A21LYS10.7350.99512.2630.3880.3880.0000.0000.0000.000
25A22GLY0-0.082-0.13816.1550.0020.0020.0000.0000.0000.000
26A23GLY0-0.040-0.02118.8000.0160.0160.0000.0000.0000.000
27A24ILE00.1180.01520.361-0.008-0.0080.0000.0000.0000.000
28A24ILE0-0.1090.08924.1770.0000.0000.0000.0000.0000.000
29A25PHE00.065-0.09621.7990.0060.0060.0000.0000.0000.000
30A25PHE0-0.1150.08517.9360.0020.0020.0000.0000.0000.000
31A26ARG00.150-0.07223.134-0.005-0.0050.0000.0000.0000.000
32A26ARG10.7380.96627.4340.0020.0020.0000.0000.0000.000
33A27GLY0-0.013-0.12126.3580.0080.0080.0000.0000.0000.000
34A28THR00.0340.01528.009-0.005-0.0050.0000.0000.0000.000
35A28THR0-0.0470.07432.1470.0010.0010.0000.0000.0000.000
36A29LEU00.050-0.08828.6050.0060.0060.0000.0000.0000.000
37A29LEU0-0.0660.10525.4930.0000.0000.0000.0000.0000.000
38A30PRO0-0.005-0.10228.935-0.003-0.0030.0000.0000.0000.000
39A31ALA00.1270.00931.740-0.002-0.0020.0000.0000.0000.000
40A31ALA0-0.0840.11234.570-0.001-0.0010.0000.0000.0000.000
41A32ALA00.081-0.09934.4230.0030.0030.0000.0000.0000.000
42A32ALA0-0.0930.08735.1990.0000.0000.0000.0000.0000.000
43A33ASP00.076-0.10336.3030.0020.0020.0000.0000.0000.000
44A33ASP-1-1.010-0.86239.2030.0090.0090.0000.0000.0000.000
45A34CYS00.041-0.11737.8870.0000.0000.0000.0000.0000.000
46A34CYS0-0.1200.08938.9800.0010.0010.0000.0000.0000.000
47A35PRO0-0.031-0.10837.6840.0030.0030.0000.0000.0000.000
48A36GLY00.0310.00434.3360.0030.0030.0000.0000.0000.000
49A37ILE00.085-0.00832.835-0.002-0.0020.0000.0000.0000.000
50A37ILE0-0.0810.11631.6570.0000.0000.0000.0000.0000.000
51A38ASP00.129-0.09431.2330.0030.0030.0000.0000.0000.000
52A38ASP-1-0.911-0.77031.6780.0000.0000.0000.0000.0000.000
53A39THR0-0.016-0.10128.050-0.005-0.0050.0000.0000.0000.000
54A39THR0-0.0430.06626.2220.0000.0000.0000.0000.0000.000
55A40THR00.059-0.08226.4000.0060.0060.0000.0000.0000.000
56A40THR0-0.0720.06226.159-0.001-0.0010.0000.0000.0000.000
57A41VAL00.027-0.12022.222-0.004-0.0040.0000.0000.0000.000
58A41VAL0-0.0490.12620.4860.0000.0000.0000.0000.0000.000
59A42THR00.045-0.09721.9700.0060.0060.0000.0000.0000.000
60A42THR0-0.0460.06622.3570.0030.0030.0000.0000.0000.000
61A43PHE00.104-0.04117.444-0.004-0.0040.0000.0000.0000.000
62A43PHE0-0.0870.09016.5590.0040.0040.0000.0000.0000.000
63A44ASN00.169-0.06818.466-0.005-0.0050.0000.0000.0000.000
64A44ASN0-0.1250.06920.4660.0110.0110.0000.0000.0000.000
65A45ALA00.141-0.08216.805-0.016-0.0160.0000.0000.0000.000
66A45ALA0-0.0640.09617.5150.0010.0010.0000.0000.0000.000
67A46ASP0-0.041-0.14516.797-0.040-0.0400.0000.0000.0000.000
68A46ASP-1-0.846-0.77120.291-0.161-0.1610.0000.0000.0000.000
69A47GLY0-0.010-0.09315.808-0.019-0.0190.0000.0000.0000.000
70A48THR00.0140.00516.7010.0030.0030.0000.0000.0000.000
71A48THR0-0.0600.04220.8620.0090.0090.0000.0000.0000.000
72A49ALA00.097-0.10619.391-0.005-0.0050.0000.0000.0000.000
73A49ALA0-0.0810.09719.0450.0000.0000.0000.0000.0000.000
74A50GLN00.099-0.08420.9940.0000.0000.0000.0000.0000.000
75A50GLN0-0.1190.08224.838-0.001-0.0010.0000.0000.0000.000
76A51LYS00.109-0.08424.0010.0010.0010.0000.0000.0000.000
77A51LYS10.7291.00124.1990.0170.0170.0000.0000.0000.000
78A52VAL00.066-0.09925.759-0.003-0.0030.0000.0000.0000.000
79A52VAL0-0.1030.08328.2990.0000.0000.0000.0000.0000.000
80A53GLU00.093-0.10229.1500.0040.0040.0000.0000.0000.000
81A53GLU-1-0.871-0.77128.631-0.016-0.0160.0000.0000.0000.000
82A54LEU0-0.058-0.12131.5180.0000.0000.0000.0000.0000.000
83A54LEU00.0620.03333.7770.0000.0000.0000.0000.0000.000
84A63SER00.0680.03039.158-0.001-0.0010.0000.0000.0000.000
85A63SER0-0.0740.06038.5800.0010.0010.0000.0000.0000.000
86A64PRO0-0.025-0.12434.7740.0010.0010.0000.0000.0000.000
87A65LEU00.080-0.00233.405-0.003-0.0030.0000.0000.0000.000
88A65LEU0-0.0400.13032.7620.0000.0000.0000.0000.0000.000
89A66THR00.026-0.08230.2680.0020.0020.0000.0000.0000.000
90A66THR0-0.0720.04029.624-0.001-0.0010.0000.0000.0000.000
91A67TYR00.062-0.09727.2700.0000.0000.0000.0000.0000.000
92A67TYR0-0.1380.07626.423-0.001-0.0010.0000.0000.0000.000
93A68ARG00.122-0.07725.216-0.001-0.0010.0000.0000.0000.000
94A68ARG10.8181.02726.0820.0680.0680.0000.0000.0000.000
95A69GLY00.044-0.08722.5070.0050.0050.0000.0000.0000.000
96A70THR0-0.0070.04118.5690.0010.0010.0000.0000.0000.000
97A70THR0-0.0130.06217.5450.0040.0040.0000.0000.0000.000
98A71TRP00.097-0.08315.8550.0190.0190.0000.0000.0000.000
99A71TRP0-0.1210.07611.840-0.004-0.0040.0000.0000.0000.000
100A72MET00.069-0.10012.071-0.031-0.0310.0000.0000.0000.000
101A72MET0-0.0950.09111.723-0.014-0.0140.0000.0000.0000.000
102A73VAL00.053-0.1188.5630.0700.0700.0000.0000.0000.000
103A73VAL0-0.0640.1227.381-0.003-0.0030.0000.0000.0000.000
104A74ARG00.073-0.0797.694-0.125-0.1250.0000.0000.0000.000
105A74ARG10.7080.9678.599-0.003-0.0030.0000.0000.0000.000
106A75GLU00.144-0.1064.1060.0370.124-0.001-0.022-0.0640.000
107A75GLU-1-0.940-0.8001.994-9.117-9.5798.880-4.288-4.130-0.049
108A76ASP0-0.036-0.1514.0060.1620.303-0.001-0.074-0.0660.000
109A76ASP-1-0.820-0.7968.0320.1500.1500.0000.0000.0000.000
110A77GLY0-0.064-0.1466.7350.1360.1360.0000.0000.0000.000
111A78ILE00.0650.0207.893-0.058-0.0580.0000.0000.0000.000
112A78ILE0-0.0920.09011.024-0.001-0.0010.0000.0000.0000.000
113A79VAL00.063-0.13210.491-0.046-0.0460.0000.0000.0000.000
114A79VAL0-0.0930.11511.283-0.003-0.0030.0000.0000.0000.000
115A80GLU00.151-0.10312.7540.0330.0330.0000.0000.0000.000
116A80GLU-1-0.911-0.78013.796-0.095-0.0950.0000.0000.0000.000
117A81LEU00.073-0.08714.983-0.033-0.0330.0000.0000.0000.000
118A81LEU0-0.1330.09717.8390.0010.0010.0000.0000.0000.000
119A82SER00.021-0.08818.1010.0180.0180.0000.0000.0000.000
120A82SER0-0.0380.06718.340-0.002-0.0020.0000.0000.0000.000
121A83LEU00.067-0.08220.593-0.014-0.0140.0000.0000.0000.000
122A83LEU0-0.0740.08722.3000.0020.0020.0000.0000.0000.000
123A84VAL0-0.031-0.11623.8610.0040.0040.0000.0000.0000.000
124A84VAL00.0620.04026.259-0.001-0.0010.0000.0000.0000.000
125A94GLU00.150-0.01024.8660.0040.0040.0000.0000.0000.000
126A94GLU-1-1.043-0.86924.449-0.055-0.0550.0000.0000.0000.000
127A95LYS00.031-0.08620.242-0.010-0.0100.0000.0000.0000.000
128A95LYS10.7790.99516.4620.1130.1130.0000.0000.0000.000
129A96GLU00.015-0.14120.0990.0130.0130.0000.0000.0000.000
130A96GLU-1-0.816-0.75320.685-0.021-0.0210.0000.0000.0000.000
131A97LEU00.133-0.09916.668-0.022-0.0220.0000.0000.0000.000
132A97LEU0-0.1070.08715.4720.0040.0040.0000.0000.0000.000
133A98TYR00.020-0.10415.6130.0110.0110.0000.0000.0000.000
134A98TYR0-0.1150.07216.0430.0000.0000.0000.0000.0000.000
135A99GLU00.207-0.08613.862-0.008-0.0080.0000.0000.0000.000
136A99GLU-1-0.906-0.77813.7320.2110.2110.0000.0000.0000.000
137A100LEU00.086-0.10013.208-0.025-0.0250.0000.0000.0000.000
138A100LEU0-0.1090.11112.3410.0020.0020.0000.0000.0000.000
139A101ILE00.042-0.07714.0610.0570.0570.0000.0000.0000.000
140A101ILE0-0.1080.05818.215-0.003-0.0030.0000.0000.0000.000
141A102ASP00.040-0.08216.1130.0440.0440.0000.0000.0000.000
142A102ASP-1-0.882-0.83418.4610.1060.1060.0000.0000.0000.000
143A103SER00.063-0.07516.191-0.013-0.0130.0000.0000.0000.000
144A103SER0-0.0340.06016.9710.0090.0090.0000.0000.0000.000
145A104ASN00.063-0.05417.225-0.029-0.0290.0000.0000.0000.000
146A104ASN0-0.1300.04020.8500.0060.0060.0000.0000.0000.000
147A105SER00.055-0.04719.007-0.018-0.0180.0000.0000.0000.000
148A105SER0-0.0370.03219.894-0.002-0.0020.0000.0000.0000.000
149A106VAL00.065-0.10317.8370.0210.0210.0000.0000.0000.000
150A106VAL0-0.0310.13416.584-0.002-0.0020.0000.0000.0000.000
151A107ARG00.161-0.06818.072-0.013-0.0130.0000.0000.0000.000
152A107ARG10.6840.96617.765-0.150-0.1500.0000.0000.0000.000
153A108TYR00.123-0.09418.7740.0030.0030.0000.0000.0000.000
154A108TYR0-0.1180.09822.1560.0020.0020.0000.0000.0000.000
155A109MET0-0.022-0.13718.9610.0040.0040.0000.0000.0000.000
156A109MET0-0.1010.11115.5340.0010.0010.0000.0000.0000.000
157A110GLY00.019-0.07720.3670.0040.0040.0000.0000.0000.000
158A111ALA00.1220.00820.895-0.003-0.0030.0000.0000.0000.000
159A111ALA0-0.0460.12323.660-0.001-0.0010.0000.0000.0000.000
160A112PRO0-0.071-0.13118.3740.0140.0140.0000.0000.0000.000
161A113GLY00.0090.00419.694-0.004-0.0040.0000.0000.0000.000
162A114ALA00.138-0.00921.127-0.001-0.0010.0000.0000.0000.000
163A114ALA0-0.0230.16422.325-0.001-0.0010.0000.0000.0000.000
164A115GLY0-0.069-0.14520.2660.0040.0040.0000.0000.0000.000
165A116LYS00.1220.00420.9960.0170.0170.0000.0000.0000.000
166A116LYS10.7311.04525.506-0.080-0.0800.0000.0000.0000.000
167A117PRO00.047-0.07022.574-0.004-0.0040.0000.0000.0000.000
168A118SER00.0370.03724.257-0.010-0.0100.0000.0000.0000.000
169A118SER0-0.0470.06527.9860.0030.0030.0000.0000.0000.000
170A119LYS00.242-0.04827.211-0.009-0.0090.0000.0000.0000.000
171A119LYS10.7681.01323.400-0.083-0.0830.0000.0000.0000.000
172A120GLU00.006-0.14226.8600.0040.0040.0000.0000.0000.000
173A120GLU-1-0.915-0.79229.2130.0790.0790.0000.0000.0000.000
174A121MET00.079-0.11428.1710.0020.0020.0000.0000.0000.000
175A121MET0-0.0750.11628.619-0.001-0.0010.0000.0000.0000.000
176A122ALA00.146-0.09524.058-0.011-0.0110.0000.0000.0000.000
177A122ALA0-0.0770.09623.0860.0030.0030.0000.0000.0000.000
178A123PRO0-0.030-0.13624.767-0.002-0.0020.0000.0000.0000.000
179A124PHE00.0660.00526.260-0.002-0.0020.0000.0000.0000.000
180A124PHE0-0.0750.11129.0250.0000.0000.0000.0000.0000.000
181A125TYR00.131-0.06324.545-0.009-0.0090.0000.0000.0000.000
182A125TYR0-0.1230.07523.8020.0020.0020.0000.0000.0000.000
183A126VAL00.122-0.09222.673-0.001-0.0010.0000.0000.0000.000
184A126VAL0-0.1290.07022.2130.0030.0030.0000.0000.0000.000
185A127LEU00.019-0.11822.346-0.003-0.0030.0000.0000.0000.000
186A127LEU0-0.0760.11621.555-0.003-0.0030.0000.0000.0000.000
187A128LYS00.182-0.06622.0010.0040.0040.0000.0000.0000.000
188A128LYS10.8011.03923.531-0.070-0.0700.0000.0000.0000.000
189A129LYS00.129-0.08922.220-0.008-0.0080.0000.0000.0000.000
190A129LYS10.7441.02917.9840.0400.0400.0000.0000.0000.000
191A130THR0-0.176-0.18523.1900.0030.0030.0000.0000.0000.000
192A130THR00.0780.05826.5660.0000.0000.0000.0000.0000.000