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: 1596Z

Calculation Name: 1AT3-A-Xray547

Preferred Name:

Target Type:

Ligand Name: diisopropyl phosphonate

Ligand 3-letter code: DFP

Ligand of Interest (LOI):

Structure Source: PDB

PDB ID: 1AT3

Chain ID: A

ChEMBL ID:

UniProt ID: Q69527

Base Structure: X-ray

Registration Date: 2025-09-02

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 231
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23 (BINDS Ver. 1) / 20230922
Total energy (hartree)
FMO2-HF: Electronic energy -2812700.792177
FMO2-HF: Nuclear repulsion 2725045.217801
FMO2-HF: Total energy -87655.574377
FMO2-MP2: Total energy -87914.194504


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:17:ARG)


Summations of interaction energy for fragment #1(A:17:ARG)
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.
-65.894-61.5221.12-1.822-3.669-0.009
Interaction energy analysis for fragmet #1(A:17:ARG)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 2 / q_Mulliken : 1.800 / q_NPA : 1.889
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].
3A19VAL00.0360.0223.501-9.122-7.080-0.003-1.004-1.035-0.003
73A89VAL00.0250.0042.473-1.238-0.0251.117-0.447-1.883-0.003
74A90GLN00.005-0.0075.3554.4864.603-0.001-0.004-0.1120.000
76A92GLU-1-0.791-0.8884.843-91.558-91.540-0.001-0.010-0.0070.000
77A93ARG10.8040.8963.79884.92685.9080.008-0.357-0.632-0.003
4A20PRO0-0.019-0.0065.2434.0144.0140.0000.0000.0000.000
5A21ILE0-0.011-0.0048.1413.3253.3250.0000.0000.0000.000
6A22TYR0-0.049-0.05111.6350.3880.3880.0000.0000.0000.000
7A23VAL0-0.031-0.02514.7000.4350.4350.0000.0000.0000.000
8A24ALA00.0270.01317.9360.4480.4480.0000.0000.0000.000
9A25GLY00.0460.01021.4080.0700.0700.0000.0000.0000.000
10A26PHE0-0.0080.00925.019-0.036-0.0360.0000.0000.0000.000
11A27LEU0-0.027-0.01924.839-0.356-0.3560.0000.0000.0000.000
12A28ALA00.007-0.00628.6170.2970.2970.0000.0000.0000.000
13A29LEU0-0.0030.00632.379-0.215-0.2150.0000.0000.0000.000
14A30TYR0-0.017-0.01334.8890.0880.0880.0000.0000.0000.000
15A31ASP-1-0.912-0.94538.094-14.621-14.6210.0000.0000.0000.000
16A32SER0-0.078-0.05537.6160.2100.2100.0000.0000.0000.000
17A33GLY00.0240.00939.6790.0790.0790.0000.0000.0000.000
18A34ASP-1-0.819-0.90635.994-17.791-17.7910.0000.0000.0000.000
19A35PRO0-0.016-0.01938.4310.3820.3820.0000.0000.0000.000
20A36GLY00.0220.00840.510-0.225-0.2250.0000.0000.0000.000
21A37GLU-1-0.911-0.93938.275-16.647-16.6470.0000.0000.0000.000
22A38LEU0-0.065-0.04034.696-0.372-0.3720.0000.0000.0000.000
23A39ALA00.0440.03736.210-0.567-0.5670.0000.0000.0000.000
24A40LEU0-0.007-0.00232.753-0.109-0.1090.0000.0000.0000.000
25A41ASP-1-0.758-0.84037.049-15.515-15.5150.0000.0000.0000.000
26A42PRO00.045-0.00137.495-0.379-0.3790.0000.0000.0000.000
27A43ASP-1-0.868-0.93137.671-15.089-15.0890.0000.0000.0000.000
28A44THR0-0.075-0.07136.332-0.213-0.2130.0000.0000.0000.000
29A45VAL0-0.026-0.02032.226-0.528-0.5280.0000.0000.0000.000
30A46ARG10.8940.95633.20016.88516.8850.0000.0000.0000.000
31A47ALA00.0300.01135.719-0.171-0.1710.0000.0000.0000.000
32A48ALA00.0340.02931.895-0.139-0.1390.0000.0000.0000.000
33A49LEU0-0.050-0.00428.524-0.681-0.6810.0000.0000.0000.000
34A50PRO0-0.068-0.05727.4840.5890.5890.0000.0000.0000.000
35A51PRO00.021-0.00325.7200.3830.3830.0000.0000.0000.000
36A52GLU-1-0.938-0.95927.066-19.668-19.6680.0000.0000.0000.000
37A53ASN0-0.027-0.01224.891-0.870-0.8700.0000.0000.0000.000
38A54PRO0-0.012-0.01220.425-0.236-0.2360.0000.0000.0000.000
39A55LEU00.0470.03622.128-0.323-0.3230.0000.0000.0000.000
40A56PRO0-0.017-0.00918.453-1.470-1.4700.0000.0000.0000.000
41A57ILE00.0140.01715.8861.4011.4010.0000.0000.0000.000
42A58ASN0-0.019-0.02417.106-1.378-1.3780.0000.0000.0000.000
43A59VAL00.0340.01916.5930.2860.2860.0000.0000.0000.000
44A60ASP-1-0.816-0.93119.749-24.781-24.7810.0000.0000.0000.000
45A61HIS00.0350.01223.3310.6030.6030.0000.0000.0000.000
46A62ARG10.9691.00720.44428.66428.6640.0000.0000.0000.000
47A63ALA00.005-0.00520.784-1.615-1.6150.0000.0000.0000.000
48A64ARG10.9100.95319.21227.36927.3690.0000.0000.0000.000
49A65CYS0-0.062-0.02916.300-2.088-2.0880.0000.0000.0000.000
50A66GLU-1-0.808-0.88915.852-34.539-34.5390.0000.0000.0000.000
51A67VAL0-0.019-0.04512.642-2.908-2.9080.0000.0000.0000.000
52A68GLY00.0590.01212.058-3.887-3.8870.0000.0000.0000.000
53A69ARG10.8690.95113.72934.83634.8360.0000.0000.0000.000
54A70VAL00.0070.00116.123-0.766-0.7660.0000.0000.0000.000
55A71LEU0-0.074-0.02314.7860.1330.1330.0000.0000.0000.000
56A72ALA00.0350.01618.8510.9860.9860.0000.0000.0000.000
57A73VAL0-0.012-0.01522.472-0.363-0.3630.0000.0000.0000.000
58A74VAL0-0.016-0.00425.6780.5560.5560.0000.0000.0000.000
59A75ASN0-0.0390.00528.780-0.033-0.0330.0000.0000.0000.000
60A76ASP-1-0.728-0.83830.842-18.398-18.3980.0000.0000.0000.000
61A77PRO00.001-0.01132.7720.1820.1820.0000.0000.0000.000
62A78ARG10.8110.90032.37618.64418.6440.0000.0000.0000.000
63A79GLY00.0340.01333.3100.1540.1540.0000.0000.0000.000
64A80PRO0-0.039-0.00129.669-0.292-0.2920.0000.0000.0000.000
65A81PHE00.0310.01724.285-0.547-0.5470.0000.0000.0000.000
66A82PHE0-0.038-0.03119.911-0.143-0.1430.0000.0000.0000.000
67A83VAL00.0570.02618.224-0.195-0.1950.0000.0000.0000.000
68A84GLY0-0.013-0.00617.5660.4730.4730.0000.0000.0000.000
69A85LEU00.0060.0249.900-0.707-0.7070.0000.0000.0000.000
70A86ILE0-0.015-0.00811.0400.4390.4390.0000.0000.0000.000
71A87ALA00.0590.0336.640-2.801-2.8010.0000.0000.0000.000
72A88CYS0-0.0200.0147.909-2.001-2.0010.0000.0000.0000.000
75A91LEU00.0510.0148.2873.5743.5740.0000.0000.0000.000
78A94VAL00.0270.0397.6703.4963.4960.0000.0000.0000.000
79A95LEU00.0130.00411.2873.3433.3430.0000.0000.0000.000
80A96GLU-1-0.913-0.9657.007-64.223-64.2230.0000.0000.0000.000
81A97THR0-0.074-0.0479.1922.3162.3160.0000.0000.0000.000
82A98ALA00.0100.01911.9402.4242.4240.0000.0000.0000.000
83A99ALA0-0.028-0.01414.5912.4892.4890.0000.0000.0000.000
84A100SER00.0240.02315.210-0.941-0.9410.0000.0000.0000.000
85A101ALA0-0.096-0.05416.1911.5361.5360.0000.0000.0000.000
86A102ALA00.0000.00117.9290.5670.5670.0000.0000.0000.000
87A103ILE00.001-0.00321.562-0.358-0.3580.0000.0000.0000.000
88A104PHE00.0340.01324.1950.8340.8340.0000.0000.0000.000
89A105GLU-1-0.798-0.85720.388-27.281-27.2810.0000.0000.0000.000
90A106ARG10.8810.92321.86225.48425.4840.0000.0000.0000.000
91A107ARG10.8740.93121.32123.98023.9800.0000.0000.0000.000
92A108GLY00.0790.04618.331-0.319-0.3190.0000.0000.0000.000
93A109PRO00.006-0.01019.010-0.862-0.8620.0000.0000.0000.000
94A110ALA0-0.0020.01921.6390.7400.7400.0000.0000.0000.000
95A111LEU0-0.043-0.01817.4880.6870.6870.0000.0000.0000.000
96A112SER0-0.018-0.01816.818-0.629-0.6290.0000.0000.0000.000
97A113ARG10.8520.93210.81744.29044.2900.0000.0000.0000.000
98A114GLU-1-0.829-0.9019.333-56.797-56.7970.0000.0000.0000.000
99A115GLU-1-0.821-0.93911.511-34.989-34.9890.0000.0000.0000.000
100A116ARG10.8880.93113.80634.70134.7010.0000.0000.0000.000
101A117LEU00.0340.0198.9091.7601.7600.0000.0000.0000.000
102A118LEU00.0190.01812.9521.4211.4210.0000.0000.0000.000
103A119TYR00.0250.01915.1882.2842.2840.0000.0000.0000.000
104A120LEU0-0.020-0.00113.6261.7781.7780.0000.0000.0000.000
105A121ILE0-0.006-0.00213.7171.4391.4390.0000.0000.0000.000
106A122THR0-0.019-0.02116.5711.7541.7540.0000.0000.0000.000
107A123ASN0-0.014-0.02219.6592.7002.7000.0000.0000.0000.000
108A124TYR0-0.059-0.03318.9671.4401.4400.0000.0000.0000.000
109A125LEU0-0.052-0.01717.3290.9820.9820.0000.0000.0000.000
110A126PRO00.0420.04821.065-0.520-0.5200.0000.0000.0000.000
111A127SER00.0040.00123.4741.2691.2690.0000.0000.0000.000
112A128VAL00.0010.01122.695-1.151-1.1510.0000.0000.0000.000
113A129SER0-0.031-0.01925.1401.2661.2660.0000.0000.0000.000
114A130LEU00.0090.01226.056-0.835-0.8350.0000.0000.0000.000
115A131SER0-0.075-0.04927.0730.9740.9740.0000.0000.0000.000
116A132THR00.0330.01228.937-0.178-0.1780.0000.0000.0000.000
117A133LYS10.9490.98632.02117.12417.1240.0000.0000.0000.000
118A134ARG10.8260.90928.35421.44921.4490.0000.0000.0000.000
119A135ARG10.7540.85125.05723.46123.4610.0000.0000.0000.000
120A136GLY00.0260.01431.512-0.023-0.0230.0000.0000.0000.000
121A137ASP-1-0.866-0.91727.347-22.686-22.6860.0000.0000.0000.000
122A138GLU-1-0.778-0.88129.928-19.932-19.9320.0000.0000.0000.000
123A139VAL00.0030.00732.2000.5400.5400.0000.0000.0000.000
124A140PRO0-0.041-0.04235.476-0.096-0.0960.0000.0000.0000.000
125A141PRO0-0.0090.00237.6800.0220.0220.0000.0000.0000.000
126A142ASP-1-0.753-0.85134.925-17.220-17.2200.0000.0000.0000.000
127A143ARG10.8570.92831.49317.65417.6540.0000.0000.0000.000
128A144THR0-0.037-0.03330.600-0.809-0.8090.0000.0000.0000.000
129A145LEU0-0.0370.00631.275-0.441-0.4410.0000.0000.0000.000
130A146PHE0-0.024-0.03927.660-0.160-0.1600.0000.0000.0000.000
131A147ALA00.0480.02627.258-0.286-0.2860.0000.0000.0000.000
132A148HIS0-0.017-0.01222.558-0.134-0.1340.0000.0000.0000.000
133A149VAL00.0110.01620.7831.0591.0590.0000.0000.0000.000
134A150ALA0-0.045-0.00721.671-1.289-1.2890.0000.0000.0000.000
135A151LEU00.0320.00917.4080.8300.8300.0000.0000.0000.000
136A152CYS0-0.040-0.01921.3720.2520.2520.0000.0000.0000.000
137A153ALA00.0600.02623.749-0.194-0.1940.0000.0000.0000.000
138A154ILE0-0.009-0.01625.2750.3700.3700.0000.0000.0000.000
139A155GLY00.0510.03628.503-0.011-0.0110.0000.0000.0000.000
140A156ARG10.8540.90629.40018.48018.4800.0000.0000.0000.000
141A157ARG10.8710.94930.56819.81719.8170.0000.0000.0000.000
142A158LEU0-0.005-0.00232.610-0.668-0.6680.0000.0000.0000.000
143A159GLY00.002-0.01032.251-0.230-0.2300.0000.0000.0000.000
144A160THR0-0.109-0.04528.442-0.644-0.6440.0000.0000.0000.000
145A161ILE0-0.030-0.01726.411-0.776-0.7760.0000.0000.0000.000
146A162VAL0-0.046-0.02021.4500.1810.1810.0000.0000.0000.000
147A163THR0-0.042-0.00920.1580.2730.2730.0000.0000.0000.000
148A164TYR0-0.024-0.04316.160-1.156-1.1560.0000.0000.0000.000
149A165ASP-1-0.827-0.92915.728-33.912-33.9120.0000.0000.0000.000
150A166THR0-0.040-0.01710.864-1.490-1.4900.0000.0000.0000.000
151A167SER00.0120.00612.319-0.761-0.7610.0000.0000.0000.000
152A168LEU00.0750.04515.0901.0351.0350.0000.0000.0000.000
153A169ASP-1-0.767-0.87817.439-24.597-24.5970.0000.0000.0000.000
154A170ALA0-0.047-0.02217.7331.2611.2610.0000.0000.0000.000
155A171ALA00.001-0.00617.7640.9140.9140.0000.0000.0000.000
156A172ILE00.037-0.00119.7761.1501.1500.0000.0000.0000.000
157A173ALA00.0140.02822.7271.2201.2200.0000.0000.0000.000
158A174PRO0-0.018-0.00823.3051.2451.2450.0000.0000.0000.000
159A175PHE00.0190.03123.6150.9680.9680.0000.0000.0000.000
160A176ARG10.8600.93327.45421.03621.0360.0000.0000.0000.000
161A177HIS00.0180.01431.3500.2420.2420.0000.0000.0000.000
162A178LEU00.0010.00427.225-0.188-0.1880.0000.0000.0000.000
163A179ASP-1-0.836-0.91531.603-17.093-17.0930.0000.0000.0000.000
164A180PRO0-0.024-0.03130.969-0.726-0.7260.0000.0000.0000.000
165A181ALA00.0240.01730.487-0.569-0.5690.0000.0000.0000.000
166A182THR0-0.030-0.04527.861-0.419-0.4190.0000.0000.0000.000
167A183ARG10.8410.92326.34719.21419.2140.0000.0000.0000.000
168A184GLU-1-0.847-0.92225.553-22.608-22.6080.0000.0000.0000.000
169A185GLY0-0.012-0.00526.446-0.366-0.3660.0000.0000.0000.000
170A186VAL0-0.028-0.02422.628-0.626-0.6260.0000.0000.0000.000
171A187ARG10.7990.86821.52122.35722.3570.0000.0000.0000.000
172A188ARG10.9500.99021.34520.38420.3840.0000.0000.0000.000
173A189GLU0-0.009-0.01422.807-0.465-0.4650.0000.0000.0000.000
174A190ALA00.0020.00518.308-0.746-0.7460.0000.0000.0000.000
175A191ALA00.0440.01717.671-1.449-1.4490.0000.0000.0000.000
176A192GLU-1-0.939-0.97218.171-24.054-24.0540.0000.0000.0000.000
177A193ALA0-0.004-0.00318.556-0.737-0.7370.0000.0000.0000.000
178A194GLU-1-0.872-0.94013.148-39.652-39.6520.0000.0000.0000.000
179A195LEU0-0.030-0.00913.846-2.260-2.2600.0000.0000.0000.000
180A196ALA0-0.0210.01315.719-0.356-0.3560.0000.0000.0000.000
181A197LEU0-0.082-0.04111.711-0.964-0.9640.0000.0000.0000.000
182A198ALA00.0760.04510.921-4.093-4.0930.0000.0000.0000.000
183A199GLY0-0.016-0.0086.812-0.224-0.2240.0000.0000.0000.000
184A200ARG10.8500.9357.02835.35835.3580.0000.0000.0000.000
185A201THR0-0.045-0.0204.823-6.859-6.8590.0000.0000.0000.000
186A202TRP0-0.097-0.0567.6533.9273.9270.0000.0000.0000.000
187A203ALA0-0.019-0.0338.179-5.858-5.8580.0000.0000.0000.000
188A204PRO00.0040.0159.9241.9771.9770.0000.0000.0000.000
189A205GLY00.0330.01811.7463.0763.0760.0000.0000.0000.000
190A206VAL00.013-0.0078.3350.9600.9600.0000.0000.0000.000
191A207GLU-1-0.818-0.89611.636-34.789-34.7890.0000.0000.0000.000
192A208ALA0-0.0270.00515.0842.2432.2430.0000.0000.0000.000
193A209LEU00.0330.01211.9651.7681.7680.0000.0000.0000.000
194A210THR00.0230.00313.8681.2881.2880.0000.0000.0000.000
195A211HIS0-0.029-0.03116.2832.6842.6840.0000.0000.0000.000
196A212THR0-0.080-0.04918.9131.9451.9450.0000.0000.0000.000
197A213LEU00.0360.01515.5551.0851.0850.0000.0000.0000.000
198A214LEU00.0240.02919.7331.1501.1500.0000.0000.0000.000
199A215SER0-0.0100.00321.9541.5641.5640.0000.0000.0000.000
200A216THR0-0.031-0.01222.4770.5380.5380.0000.0000.0000.000
201A217ALA00.0030.01123.5240.8770.8770.0000.0000.0000.000
202A218VAL00.022-0.00425.2350.9580.9580.0000.0000.0000.000
203A219ASN0-0.055-0.03627.4001.5421.5420.0000.0000.0000.000
204A220ASN0-0.047-0.03627.4440.9530.9530.0000.0000.0000.000
205A221MET0-0.0130.00829.5350.3040.3040.0000.0000.0000.000
206A222MET0-0.035-0.01730.8710.6370.6370.0000.0000.0000.000
207A223LEU0-0.039-0.00631.4710.6200.6200.0000.0000.0000.000
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209A225ASP-1-0.811-0.88534.125-18.252-18.2520.0000.0000.0000.000
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