FMODB

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

Last updated: 2025-10-17

All entries: 77277

Number of unique PDB entries: 32023

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FMODB ID: QN5JY

Calculation Name: 4B0E-A-Xray540

Preferred Name:

Target Type:

Ligand Name:

Ligand 3-letter code:

Ligand of Interest (LOI):

Structure Source: PDB

PDB ID: 4B0E

Chain ID: A

ChEMBL ID:

UniProt ID: P26949

Base Structure: X-ray

Registration Date: 2025-07-08

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 OptH
Protonation MOE:Protonate 3D
Complement MOE:Structure Preparation
Water No
Procedure Auto-FMO protocol ver. 2.20220422
Remarks
FMO calculation
FMO method FMO2-MP2/6-31G(d)
Fragmentation Auto
Number of fragment 178
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -712836.602662
FMO2-HF: Nuclear repulsion 675054.305762
FMO2-HF: Total energy -37782.296899
FMO2-MP2: Total energy -37893.740729


3D Structure Molmil
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:28:LEU)


Summations of interaction energy for fragment #1(A:28:LEU)
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.
-4.739-1.0220.711-1.993-2.4340.002
Interaction energy analysis for fragmet #1(A:28:LEU)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.129 / q_NPA : 0.010
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].
4A30GLY00.0360.0243.841-2.908-1.686-0.004-0.755-0.4620.004
5A31ASN00.1350.0386.4790.3850.3850.0000.0000.0000.000
6A31ASN0-0.1060.08810.4990.1260.1260.0000.0000.0000.000
7A32TYR00.077-0.1008.080-0.351-0.3510.0000.0000.0000.000
8A32TYR0-0.1320.0642.561-0.2280.9490.196-0.565-0.808-0.004
9A33PHE00.173-0.0629.0250.1550.1550.0000.0000.0000.000
10A33PHE0-0.0990.08912.7790.0210.0210.0000.0000.0000.000
11A34VAL0-0.016-0.15011.7820.0070.0070.0000.0000.0000.000
12A34VAL0-0.0600.12310.6600.0140.0140.0000.0000.0000.000
13A35ASN00.162-0.05913.2570.0010.0010.0000.0000.0000.000
14A35ASN0-0.1510.04616.527-0.007-0.0070.0000.0000.0000.000
15A36VAL00.118-0.09415.8210.0280.0280.0000.0000.0000.000
16A36VAL0-0.0730.12415.711-0.002-0.0020.0000.0000.0000.000
17A37PHE00.055-0.11517.587-0.001-0.0010.0000.0000.0000.000
18A37PHE0-0.1070.07917.9480.0070.0070.0000.0000.0000.000
19A38VAL00.139-0.07719.4050.0070.0070.0000.0000.0000.000
20A38VAL0-0.0580.12521.182-0.002-0.0020.0000.0000.0000.000
21A39ASN00.102-0.05622.1550.0010.0010.0000.0000.0000.000
22A39ASN0-0.1190.05924.3730.0040.0040.0000.0000.0000.000
23A40GLY00.016-0.11222.7240.0020.0020.0000.0000.0000.000
24A41ARG00.045-0.02523.9550.0020.0020.0000.0000.0000.000
25A41ARG10.8701.08125.5860.0150.0150.0000.0000.0000.000
26A42LYS00.129-0.07921.748-0.002-0.0020.0000.0000.0000.000
27A42LYS10.8421.06420.4410.1770.1770.0000.0000.0000.000
28A43VAL0-0.066-0.12321.7770.0050.0050.0000.0000.0000.000
29A43VAL0-0.0250.10321.3850.0000.0000.0000.0000.0000.000
30A44ASP00.003-0.13620.8650.0040.0040.0000.0000.0000.000
31A44ASP-1-0.844-0.79919.883-0.289-0.2890.0000.0000.0000.000
32A45SER00.004-0.12617.8250.0160.0160.0000.0000.0000.000
33A45SER0-0.0890.02818.4000.0140.0140.0000.0000.0000.000
34A46GLY0-0.022-0.05016.3420.0260.0260.0000.0000.0000.000
35A47ASN00.1220.05613.1800.0000.0000.0000.0000.0000.000
36A47ASN0-0.0830.06113.266-0.081-0.0810.0000.0000.0000.000
37A48ILE0-0.005-0.11311.9960.0900.0900.0000.0000.0000.000
38A48ILE0-0.0520.10011.4320.0290.0290.0000.0000.0000.000
39A49ASP00.108-0.10610.046-0.246-0.2460.0000.0000.0000.000
40A49ASP-1-0.987-0.85410.321-1.387-1.3870.0000.0000.0000.000
41A50PHE00.066-0.0907.0980.3910.3910.0000.0000.0000.000
42A50PHE0-0.1100.0806.3720.0900.0900.0000.0000.0000.000
43A51ARG00.093-0.0907.103-0.708-0.7080.0000.0000.0000.000
44A51ARG10.8731.0839.1610.3190.3190.0000.0000.0000.000
45A52LEU00.153-0.1097.2210.0920.0920.0000.0000.0000.000
46A52LEU0-0.1370.0994.7160.0100.070-0.001-0.004-0.0550.000
47A53GLU00.063-0.1167.763-0.134-0.1340.0000.0000.0000.000
48A53GLU-1-1.014-0.84211.007-0.060-0.0600.0000.0000.0000.000
49A54LYS00.194-0.05811.3070.1520.1520.0000.0000.0000.000
50A54LYS10.8151.05713.092-0.608-0.6080.0000.0000.0000.000
51A55HIS00.070-0.10613.514-0.088-0.0880.0000.0000.0000.000
52A55HIS0-0.0650.11814.4750.0220.0220.0000.0000.0000.000
53A56ASN00.070-0.09615.9700.0550.0550.0000.0000.0000.000
54A56ASN0-0.1130.07818.807-0.016-0.0160.0000.0000.0000.000
55A57GLY00.026-0.11717.0210.0140.0140.0000.0000.0000.000
56A58LYS00.032-0.00213.8030.0570.0570.0000.0000.0000.000
57A58LYS10.8991.07713.418-0.570-0.5700.0000.0000.0000.000
58A59GLU00.114-0.1089.738-0.211-0.2110.0000.0000.0000.000
59A59GLU-1-0.960-0.8258.5230.8550.8550.0000.0000.0000.000
60A60LEU00.019-0.1317.8350.3210.3210.0000.0000.0000.000
61A60LEU0-0.1060.1109.233-0.033-0.0330.0000.0000.0000.000
62A61LEU00.083-0.1025.517-0.008-0.0080.0000.0000.0000.000
63A61LEU0-0.0660.0982.331-0.7980.0620.500-0.533-0.8270.003
64A62TRP00.102-0.1236.6240.0060.0060.0000.0000.0000.000
65A62TRP0-0.0540.15110.6140.0320.0320.0000.0000.0000.000
66A63PRO0-0.038-0.1129.896-0.182-0.1820.0000.0000.0000.000
67A64CYS00.158-0.05311.5720.1350.1350.0000.0000.0000.000
68A64CYS0-0.2970.24913.605-0.024-0.0240.0000.0000.0000.000
69A65LEU00.029-0.10314.132-0.071-0.0710.0000.0000.0000.000
70A65LEU0-0.0780.08215.1000.0100.0100.0000.0000.0000.000
71A66SER00.159-0.03917.1660.0320.0320.0000.0000.0000.000
72A66SER0-0.0570.08520.2860.0120.0120.0000.0000.0000.000
73A67SER00.089-0.06920.5590.0100.0100.0000.0000.0000.000
74A67SER00.0150.10424.587-0.003-0.0030.0000.0000.0000.000
75A68LEU00.121-0.09423.8230.0230.0230.0000.0000.0000.000
76A68LEU0-0.0860.11323.823-0.002-0.0020.0000.0000.0000.000
77A69GLN00.061-0.12720.2640.0200.0200.0000.0000.0000.000
78A69GLN0-0.0660.12216.8870.0060.0060.0000.0000.0000.000
79A70LEU00.028-0.10921.7390.0030.0030.0000.0000.0000.000
80A70LEU0-0.0130.12719.7670.0010.0010.0000.0000.0000.000
81A71THR00.120-0.06822.5760.0170.0170.0000.0000.0000.000
82A71THR0-0.0780.08426.2660.0060.0060.0000.0000.0000.000
83A72LYS00.029-0.11224.2590.0230.0230.0000.0000.0000.000
84A72LYS10.8141.04921.9490.2640.2640.0000.0000.0000.000
85A73TYR0-0.057-0.15522.1370.0080.0080.0000.0000.0000.000
86A73TYR0-0.0410.09517.277-0.005-0.0050.0000.0000.0000.000
87A74GLY00.003-0.11123.5200.0160.0160.0000.0000.0000.000
88A75ILE00.0800.03424.8840.0170.0170.0000.0000.0000.000
89A75ILE0-0.0910.07322.2550.0010.0010.0000.0000.0000.000
90A76ASP00.116-0.14726.295-0.017-0.0170.0000.0000.0000.000
91A76ASP-1-0.965-0.83130.363-0.053-0.0530.0000.0000.0000.000
92A77ILE00.064-0.10027.1850.0150.0150.0000.0000.0000.000
93A77ILE0-0.0570.09925.467-0.004-0.0040.0000.0000.0000.000
94A78ASP00.142-0.14027.9280.0020.0020.0000.0000.0000.000
95A78ASP-1-1.024-0.81932.159-0.074-0.0740.0000.0000.0000.000
96A79LYS00.031-0.12530.9050.0040.0040.0000.0000.0000.000
97A79LYS10.8061.07330.8220.0320.0320.0000.0000.0000.000
98A80TYR0-0.015-0.11427.7620.0100.0100.0000.0000.0000.000
99A80TYR0-0.0950.09027.1110.0060.0060.0000.0000.0000.000
100A81PRO00.085-0.08527.712-0.007-0.0070.0000.0000.0000.000
101A82ASP00.084-0.00227.367-0.014-0.0140.0000.0000.0000.000
102A82ASP-1-0.971-0.83826.711-0.011-0.0110.0000.0000.0000.000
103A83LEU00.062-0.07723.5550.0040.0040.0000.0000.0000.000
104A83LEU0-0.1160.06022.277-0.003-0.0030.0000.0000.0000.000
105A84ILE00.107-0.10623.266-0.013-0.0130.0000.0000.0000.000
106A84ILE0-0.0430.10224.731-0.002-0.0020.0000.0000.0000.000
107A85LYS00.028-0.08125.480-0.009-0.0090.0000.0000.0000.000
108A85LYS10.8731.06128.5610.0400.0400.0000.0000.0000.000
109A86SER0-0.057-0.09724.687-0.003-0.0030.0000.0000.0000.000
110A86SER00.0110.09124.1410.0020.0020.0000.0000.0000.000
111A87GLY00.036-0.09721.6700.0090.0090.0000.0000.0000.000
112A88THR0-0.0190.02021.6610.0100.0100.0000.0000.0000.000
113A88THR0-0.0320.05320.714-0.018-0.0180.0000.0000.0000.000
114A89GLU00.106-0.10322.341-0.002-0.0020.0000.0000.0000.000
115A89GLU-1-1.014-0.83825.278-0.148-0.1480.0000.0000.0000.000
116A90GLN00.021-0.11720.864-0.002-0.0020.0000.0000.0000.000
117A90GLN0-0.0400.09820.0210.0060.0060.0000.0000.0000.000
118A91CYS00.029-0.16017.732-0.048-0.0480.0000.0000.0000.000
119A92VAL00.142-0.02518.5890.0190.0190.0000.0000.0000.000
120A92VAL0-0.0820.05019.2210.0030.0030.0000.0000.0000.000
121A93ASP00.125-0.14618.510-0.018-0.0180.0000.0000.0000.000
122A93ASP-1-0.947-0.77620.2280.0050.0050.0000.0000.0000.000
123A94LEU00.082-0.11318.0340.0110.0110.0000.0000.0000.000
124A94LEU0-0.1280.08215.5790.0000.0000.0000.0000.0000.000
125A95LEU00.042-0.09919.3670.0040.0040.0000.0000.0000.000
126A95LEU0-0.0810.10017.4470.0060.0060.0000.0000.0000.000
127A96ALA00.125-0.09220.5390.0190.0190.0000.0000.0000.000
128A96ALA0-0.0660.10923.940-0.004-0.0040.0000.0000.0000.000
129A97ILE0-0.002-0.12922.9910.0000.0000.0000.0000.0000.000
130A97ILE0-0.0870.08922.156-0.003-0.0030.0000.0000.0000.000
131A98PRO0-0.017-0.07123.7450.0150.0150.0000.0000.0000.000
132A99HIS00.0820.03425.121-0.008-0.0080.0000.0000.0000.000
133A99HIS0-0.1380.05926.8510.0050.0050.0000.0000.0000.000
134A100SER00.057-0.09822.243-0.003-0.0030.0000.0000.0000.000
135A100SER0-0.0620.04721.567-0.003-0.0030.0000.0000.0000.000
136A101ASP00.076-0.11718.7990.0130.0130.0000.0000.0000.000
137A101ASP-1-1.022-0.85618.3700.1710.1710.0000.0000.0000.000
138A102VAL00.070-0.13715.411-0.030-0.0300.0000.0000.0000.000
139A102VAL0-0.0810.12813.291-0.011-0.0110.0000.0000.0000.000
140A103GLN00.106-0.13712.8580.0520.0520.0000.0000.0000.000
141A103GLN0-0.1190.12112.4380.0520.0520.0000.0000.0000.000
142A104PHE00.123-0.0889.217-0.083-0.0830.0000.0000.0000.000
143A104PHE0-0.0530.1155.6250.0570.0570.0000.0000.0000.000
144A105TYR00.039-0.0919.6890.1990.1990.0000.0000.0000.000
145A105TYR0-0.1600.05712.612-0.009-0.0090.0000.0000.0000.000
146A106PHE00.198-0.0977.004-0.242-0.2420.0000.0000.0000.000
147A106PHE0-0.0760.1153.3990.2850.6830.020-0.136-0.282-0.001
148A107ASN00.110-0.0738.245-0.196-0.1960.0000.0000.0000.000
149A107ASN0-0.0930.0619.6280.1150.1150.0000.0000.0000.000
150A108GLN00.011-0.08810.543-0.069-0.0690.0000.0000.0000.000
151A108GLN0-0.0790.07413.758-0.033-0.0330.0000.0000.0000.000
152A109GLN00.072-0.09510.608-0.016-0.0160.0000.0000.0000.000
153A109GLN0-0.1250.11110.0740.0580.0580.0000.0000.0000.000
154A110LYS00.174-0.07811.604-0.069-0.0690.0000.0000.0000.000
155A110LYS10.7891.04914.054-0.023-0.0230.0000.0000.0000.000
156A111LEU00.143-0.09612.4580.0810.0810.0000.0000.0000.000
157A111LEU0-0.0860.12011.789-0.015-0.0150.0000.0000.0000.000
158A112SER00.036-0.09013.732-0.033-0.0330.0000.0000.0000.000
159A112SER0-0.0750.06816.2410.0060.0060.0000.0000.0000.000
160A113LEU00.043-0.10516.3360.0360.0360.0000.0000.0000.000
161A113LEU0-0.0610.10616.137-0.007-0.0070.0000.0000.0000.000
162A114ILE00.082-0.14418.738-0.017-0.0170.0000.0000.0000.000
163A114ILE0-0.0690.15519.9560.0010.0010.0000.0000.0000.000
164A115VAL00.052-0.07221.6880.0130.0130.0000.0000.0000.000
165A115VAL0-0.0230.09922.354-0.003-0.0030.0000.0000.0000.000
166A116PRO00.050-0.06724.378-0.001-0.0010.0000.0000.0000.000
167A117PRO00.017-0.01727.932-0.011-0.0110.0000.0000.0000.000
168A118GLN00.074-0.00430.542-0.009-0.0090.0000.0000.0000.000
169A118GLN0-0.0210.11930.9940.0000.0000.0000.0000.0000.000
170A119ALA00.017-0.10227.418-0.004-0.0040.0000.0000.0000.000
171A119ALA0-0.0140.09726.8080.0010.0010.0000.0000.0000.000
172A120LEU00.064-0.08528.236-0.012-0.0120.0000.0000.0000.000
173A120LEU0-0.1200.08026.5770.0010.0010.0000.0000.0000.000
174A121LEU00.091-0.11229.4290.0070.0070.0000.0000.0000.000
175A121LEU0-0.1170.10529.095-0.001-0.0010.0000.0000.0000.000
176A122PRO0-0.018-0.09531.5610.0030.0030.0000.0000.0000.000
177A123ARG0-0.049-0.01532.4850.0070.0070.0000.0000.0000.000
178A123ARG10.9230.98227.6560.1060.1060.0000.0000.0000.000