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: 7YRMK

Calculation Name: 2EZR-A-Other547

Preferred Name:

Target Type:

Ligand Name:

Ligand 3-letter code:

Ligand of Interest (LOI):

Structure Source: PDB

PDB ID: 2EZR

Chain ID: A

ChEMBL ID:

UniProt ID: Q88033

Base Structure: SolutionNMR

Registration Date: 2025-10-04

Reference: Sci Data 11, 1164 (2024).

DOI: https://doi.org/10.1038/s41597-024-03999-2

Apendix: None


IFIE MAP

IFIE Diagram


Modeling method
Optimization MOE:Amber10:EHT
Restraint OptAll
Protonation MOE:Protonate 3D
Complement MOE:Homology Modeling
Water No
Procedure Manual calculation
Remarks
ac.sh, 23 2024 Oct; Missing atoms/residues were imported from a 100% homology model, which was constructed by MOE.
FMO calculation
FMO method FMO2-MP2/6-31G(d)
Fragmentation Auto
Number of fragment 123
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23 (BINDS Ver. 1) / 20230922
Total energy (hartree)
FMO2-HF: Electronic energy -822139.426766
FMO2-HF: Nuclear repulsion 772475.365675
FMO2-HF: Total energy -49664.061091
FMO2-MP2: Total energy -49811.771903


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:1:ALA)


Summations of interaction energy for fragment #1(A:1:ALA)
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.
-5.085-3.937-0.009-0.527-0.6120
Interaction energy analysis for fragmet #1(A:1:ALA)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 1 / q_Mulliken : 0.868 / q_NPA : 0.922
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].
3A3SER00.0510.0353.870-3.183-2.035-0.009-0.527-0.6120.000
4A4ARG10.9070.9565.87837.22337.2230.0000.0000.0000.000
5A5THR00.0140.0187.9213.9923.9920.0000.0000.0000.000
6A6LEU00.0300.0169.6172.1412.1410.0000.0000.0000.000
7A7LEU00.004-0.0039.0991.7601.7600.0000.0000.0000.000
8A8ALA00.0440.02311.8941.8791.8790.0000.0000.0000.000
9A9GLY00.0270.02213.8611.6051.6050.0000.0000.0000.000
10A10ILE0-0.036-0.02313.8781.3321.3320.0000.0000.0000.000
11A11VAL00.0240.01615.8131.0741.0740.0000.0000.0000.000
12A12GLN00.0070.00317.8290.4730.4730.0000.0000.0000.000
13A13GLN0-0.011-0.01319.5181.3551.3550.0000.0000.0000.000
14A14GLN0-0.006-0.01020.2590.5550.5550.0000.0000.0000.000
15A15GLN00.0210.01522.2350.2110.2110.0000.0000.0000.000
16A16GLN0-0.020-0.01323.2450.3690.3690.0000.0000.0000.000
17A17LEU0-0.023-0.01724.4810.5800.5800.0000.0000.0000.000
18A18LEU00.0110.01526.7780.4730.4730.0000.0000.0000.000
19A19ASP-1-0.844-0.88028.523-9.696-9.6960.0000.0000.0000.000
20A20VAL0-0.006-0.00630.0870.4420.4420.0000.0000.0000.000
21A21VAL00.0160.00731.1460.3750.3750.0000.0000.0000.000
22A22LYS10.9630.98832.8249.5319.5310.0000.0000.0000.000
23A23ARG10.8540.88632.6779.7879.7870.0000.0000.0000.000
24A24GLN0-0.027-0.01334.8500.2760.2760.0000.0000.0000.000
25A25GLN00.0410.03237.6500.1760.1760.0000.0000.0000.000
26A26GLU-1-0.948-0.98537.499-8.279-8.2790.0000.0000.0000.000
27A27LEU0-0.008-0.00640.4920.2570.2570.0000.0000.0000.000
28A28LEU00.0250.01040.8090.2550.2550.0000.0000.0000.000
29A29ARG10.8950.94941.7207.8487.8480.0000.0000.0000.000
30A30LEU00.0020.01144.6970.2240.2240.0000.0000.0000.000
31A31THR0-0.062-0.04246.1120.1900.1900.0000.0000.0000.000
32A32VAL00.0350.02547.8560.1990.1990.0000.0000.0000.000
33A33TRP00.0060.00649.9150.1670.1670.0000.0000.0000.000
34A34GLY00.0240.01051.5310.1510.1510.0000.0000.0000.000
35A35THR0-0.039-0.02852.0650.1630.1630.0000.0000.0000.000
36A36LYS10.9030.94151.7836.3696.3690.0000.0000.0000.000
37A37ASN00.0230.02655.8770.1360.1360.0000.0000.0000.000
38A38LEU0-0.0010.00356.6150.1440.1440.0000.0000.0000.000
39A39GLN00.0420.02458.7610.0390.0390.0000.0000.0000.000
40A40THR0-0.038-0.04059.9260.0980.0980.0000.0000.0000.000
41A41ARG10.8990.95158.9835.5375.5370.0000.0000.0000.000
42A42VAL00.0110.01063.2570.0980.0980.0000.0000.0000.000
43A43THR0-0.020-0.01564.5980.0950.0950.0000.0000.0000.000
44A44ALA0-0.0010.00367.2140.0870.0870.0000.0000.0000.000
45A45ILE0-0.014-0.00866.4490.0870.0870.0000.0000.0000.000
46A46GLU-1-0.915-0.96968.745-4.703-4.7030.0000.0000.0000.000
47A47LYS10.9450.97771.4614.4804.4800.0000.0000.0000.000
48A48TYR00.002-0.00271.3400.0450.0450.0000.0000.0000.000
49A49LEU00.0250.01872.0550.0690.0690.0000.0000.0000.000
50A50LYS10.9400.97775.7044.2234.2230.0000.0000.0000.000
51A51ASP-1-0.889-0.94877.589-4.157-4.1570.0000.0000.0000.000
52A52GLN0-0.046-0.05077.2650.0180.0180.0000.0000.0000.000
53A53ALA00.0080.02380.3730.0460.0460.0000.0000.0000.000
54A54GLN0-0.031-0.00482.1820.0180.0180.0000.0000.0000.000
55A55LEU0-0.060-0.02182.2060.0600.0600.0000.0000.0000.000
56A56ASN0-0.0170.00085.5590.0090.0090.0000.0000.0000.000
57A57ALA00.033-0.00488.3420.0170.0170.0000.0000.0000.000
58A58TRP00.0140.01487.2490.0460.0460.0000.0000.0000.000
59A59GLY00.0090.00392.4590.0100.0100.0000.0000.0000.000
60A60ALA0-0.019-0.00995.1850.0330.0330.0000.0000.0000.000
61A61ALA0-0.0050.00497.0880.0280.0280.0000.0000.0000.000
62A62PHE00.0210.00899.0130.0010.0010.0000.0000.0000.000
63A63ARG10.9300.964103.0773.0743.0740.0000.0000.0000.000
64A64GLN0-0.006-0.007102.3550.0270.0270.0000.0000.0000.000
65A65VAL00.0080.009102.772-0.021-0.0210.0000.0000.0000.000
66A66ALA0-0.003-0.00499.386-0.009-0.0090.0000.0000.0000.000
67A67HIS00.0200.01694.658-0.007-0.0070.0000.0000.0000.000
68A68THR0-0.020-0.00793.261-0.011-0.0110.0000.0000.0000.000
69A69THR0-0.004-0.00688.955-0.035-0.0350.0000.0000.0000.000
70A70VAL0-0.004-0.01687.1460.0220.0220.0000.0000.0000.000
71A71PRO00.0150.02583.868-0.038-0.0380.0000.0000.0000.000
72A72TRP0-0.038-0.02180.113-0.029-0.0290.0000.0000.0000.000
73A73PRO0-0.006-0.02078.133-0.032-0.0320.0000.0000.0000.000
74A74ASN0-0.029-0.01276.776-0.012-0.0120.0000.0000.0000.000
75A75ALA00.0290.02371.860-0.040-0.0400.0000.0000.0000.000
76A76SER0-0.017-0.01370.2920.0400.0400.0000.0000.0000.000
77A77LEU00.0050.00770.394-0.071-0.0710.0000.0000.0000.000
78A78THR0-0.003-0.01365.6110.0330.0330.0000.0000.0000.000
79A79PRO0-0.052-0.01367.854-0.038-0.0380.0000.0000.0000.000
80A80LYS10.9620.96366.4574.6554.6550.0000.0000.0000.000
81A81TRP00.1150.06064.110-0.051-0.0510.0000.0000.0000.000
82A82ASN00.0490.05061.653-0.015-0.0150.0000.0000.0000.000
83A83ASN00.0360.02460.967-0.139-0.1390.0000.0000.0000.000
84A84GLU-1-0.961-0.97060.514-5.287-5.2870.0000.0000.0000.000
85A85THR00.018-0.02758.277-0.114-0.1140.0000.0000.0000.000
86A86TRP00.0000.00455.933-0.134-0.1340.0000.0000.0000.000
87A87GLN0-0.004-0.01155.746-0.096-0.0960.0000.0000.0000.000
88A88GLU-1-0.884-0.93253.970-6.067-6.0670.0000.0000.0000.000
89A89TRP0-0.042-0.02550.809-0.136-0.1360.0000.0000.0000.000
90A90GLU-1-0.852-0.92551.005-6.253-6.2530.0000.0000.0000.000
91A91ARG10.9350.96650.4986.0006.0000.0000.0000.0000.000
92A92LYS10.8780.93748.4546.1506.1500.0000.0000.0000.000
93A93VAL0-0.021-0.00646.402-0.178-0.1780.0000.0000.0000.000
94A94ASP-1-0.938-0.96145.676-6.945-6.9450.0000.0000.0000.000
95A95PHE00.0540.01645.246-0.108-0.1080.0000.0000.0000.000
96A96LEU0-0.049-0.01941.909-0.220-0.2200.0000.0000.0000.000
97A97GLU-1-0.856-0.92641.051-7.612-7.6120.0000.0000.0000.000
98A98GLU-1-0.917-0.94840.637-7.644-7.6440.0000.0000.0000.000
99A99ASN00.002-0.00239.134-0.310-0.3100.0000.0000.0000.000
100A100ILE0-0.023-0.00636.296-0.323-0.3230.0000.0000.0000.000
101A101THR0-0.109-0.07135.772-0.260-0.2600.0000.0000.0000.000
102A102ALA00.0780.04435.486-0.254-0.2540.0000.0000.0000.000
103A103LEU00.0240.01532.252-0.333-0.3330.0000.0000.0000.000
104A104LEU0-0.064-0.03831.181-0.447-0.4470.0000.0000.0000.000
105A105GLU-1-0.931-0.95330.853-9.612-9.6120.0000.0000.0000.000
106A106GLU-1-0.931-0.97529.618-10.603-10.6030.0000.0000.0000.000
107A107ALA0-0.026-0.01626.973-0.580-0.5800.0000.0000.0000.000
108A108GLN0-0.046-0.03026.014-0.442-0.4420.0000.0000.0000.000
109A109ILE00.0350.01726.014-0.601-0.6010.0000.0000.0000.000
110A110GLN00.0110.00822.469-0.906-0.9060.0000.0000.0000.000
111A111GLN00.0000.00220.752-1.488-1.4880.0000.0000.0000.000
112A112GLU-1-0.920-0.96020.849-13.067-13.0670.0000.0000.0000.000
113A113LYS10.8470.93020.62412.15012.1500.0000.0000.0000.000
114A114ASN00.0500.02417.638-0.875-0.8750.0000.0000.0000.000
115A115MET0-0.017-0.00216.067-1.414-1.4140.0000.0000.0000.000
116A116TYR00.0180.00516.023-1.274-1.2740.0000.0000.0000.000
117A117GLU-1-0.956-0.98714.952-18.801-18.8010.0000.0000.0000.000
118A118LEU0-0.040-0.01910.306-2.422-2.4220.0000.0000.0000.000
119A119GLN0-0.040-0.04111.411-1.901-1.9010.0000.0000.0000.000
120A120LYS10.9760.98212.56818.28818.2880.0000.0000.0000.000
121A121LEU0-0.071-0.0187.919-1.360-1.3600.0000.0000.0000.000
122A122ASN0-0.118-0.0717.955-3.606-3.6060.0000.0000.0000.000
123A123SER-1-0.889-0.92010.055-20.141-20.1410.0000.0000.0000.000