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: MZ71Z

Calculation Name: 2AP3-A-Xray549

Preferred Name:

Target Type:

Ligand Name:

Ligand 3-letter code:

Ligand of Interest (LOI):

Structure Source: PDB

PDB ID: 2AP3

Chain ID: A

ChEMBL ID:

UniProt ID: A0A0H3

Base Structure: X-ray

Registration Date: 2025-10-11

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 OptH
Protonation MOE:Protonate 3D
Complement ac.sh, 23 2024 Oct
Water No
Procedure Manual calculation
Remarks
FMO calculation
FMO method FMO2-MP2/6-31G(d)
Fragmentation Auto
Number of fragment 196
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23 (BINDS Ver. 1) / 20230922
Total energy (hartree)
FMO2-HF: Electronic energy -2038917.295475
FMO2-HF: Nuclear repulsion 1960499.332345
FMO2-HF: Total energy -78417.96313
FMO2-MP2: Total energy -78651.700963


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.
71.90776.7641.255-2.567-3.544-0.024
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 : 0.863 / q_NPA : 0.929
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].
3A3MET00.013-0.0013.491-4.502-3.2560.020-0.590-0.676-0.001
4A4GLY00.0370.0333.1254.9915.4400.015-0.154-0.310-0.001
5A5ILE0-0.064-0.0253.0023.1324.3320.124-0.423-0.901-0.004
6A6GLN00.0200.0142.546-11.462-9.5211.097-1.399-1.639-0.018
7A7ARG10.9100.9375.38735.07435.095-0.001-0.001-0.0180.000
8A8PRO00.0270.0137.999-1.340-1.3400.0000.0000.0000.000
9A9THR00.0760.0538.9950.2100.2100.0000.0000.0000.000
10A10SER00.0760.04311.0350.8160.8160.0000.0000.0000.000
11A11THR00.0540.02314.2590.5310.5310.0000.0000.0000.000
12A12THR0-0.049-0.03612.7360.8180.8180.0000.0000.0000.000
13A13THR0-0.033-0.02014.3670.9710.9710.0000.0000.0000.000
14A14ASP-1-0.765-0.88316.821-14.870-14.8700.0000.0000.0000.000
15A15LYS11.0101.00516.91518.03718.0370.0000.0000.0000.000
16A16LYS10.8370.94518.72215.23115.2310.0000.0000.0000.000
17A17GLU-1-0.814-0.90420.607-12.358-12.3580.0000.0000.0000.000
18A18ILE00.0690.03322.5490.5520.5520.0000.0000.0000.000
19A19LYS10.9000.93620.20014.94214.9420.0000.0000.0000.000
20A20ALA0-0.041-0.01325.1150.4730.4730.0000.0000.0000.000
21A21TYR0-0.007-0.03626.9310.4410.4410.0000.0000.0000.000
22A22LEU00.0480.02227.7750.4940.4940.0000.0000.0000.000
23A23LYS10.9640.98629.35010.78810.7880.0000.0000.0000.000
24A24GLN0-0.040-0.02629.9750.4990.4990.0000.0000.0000.000
25A25VAL00.0140.00332.9980.3610.3610.0000.0000.0000.000
26A26ASP-1-0.865-0.93434.027-8.765-8.7650.0000.0000.0000.000
27A27LYS10.8410.92035.0498.3328.3320.0000.0000.0000.000
28A28ILE0-0.027-0.00636.7260.2640.2640.0000.0000.0000.000
29A29LYS10.9430.97638.6548.1788.1780.0000.0000.0000.000
30A30ASP-1-0.920-0.96438.071-8.115-8.1150.0000.0000.0000.000
31A31ASP-1-0.875-0.93041.158-7.398-7.3980.0000.0000.0000.000
32A32GLU-1-0.797-0.85643.405-7.137-7.1370.0000.0000.0000.000
33A33GLU-1-0.939-0.95745.147-6.382-6.3820.0000.0000.0000.000
34A34PRO00.0360.00446.8060.1510.1510.0000.0000.0000.000
35A35ILE00.0350.02347.7550.1640.1640.0000.0000.0000.000
36A36LYS10.9170.95447.6996.7386.7380.0000.0000.0000.000
37A37THR0-0.033-0.01251.3200.1670.1670.0000.0000.0000.000
38A38VAL00.0040.00653.6180.1330.1330.0000.0000.0000.000
39A39GLY00.0300.01154.3310.1180.1180.0000.0000.0000.000
40A40LYS10.9280.96252.6666.1586.1580.0000.0000.0000.000
41A41LYS10.9400.98057.5055.6465.6460.0000.0000.0000.000
42A42ILE00.0230.01757.7130.1110.1110.0000.0000.0000.000
43A43ALA00.0520.02859.6970.1000.1000.0000.0000.0000.000
44A44GLU-1-0.919-0.97161.521-4.981-4.9810.0000.0000.0000.000
45A45LEU0-0.060-0.02563.3050.1190.1190.0000.0000.0000.000
46A46ASP-1-0.827-0.91362.877-4.987-4.9870.0000.0000.0000.000
47A47GLU-1-0.861-0.92064.916-4.807-4.8070.0000.0000.0000.000
48A48LYS10.8550.93466.1544.9424.9420.0000.0000.0000.000
49A49LYS10.8820.95768.3634.7554.7550.0000.0000.0000.000
50A50LYS10.8520.90565.3514.9774.9770.0000.0000.0000.000
51A51LYS10.9640.98870.4634.6534.6530.0000.0000.0000.000
52A52LEU00.0200.02773.4290.0560.0560.0000.0000.0000.000
53A53THR0-0.060-0.05174.3510.0460.0460.0000.0000.0000.000
54A54GLU-1-0.950-0.95776.999-3.951-3.9510.0000.0000.0000.000
55A55ASP-1-0.843-0.94379.721-3.972-3.9720.0000.0000.0000.000
56A56VAL0-0.073-0.03878.0260.0520.0520.0000.0000.0000.000
57A57ASN0-0.001-0.01080.7240.0460.0460.0000.0000.0000.000
58A58SER00.0210.03183.5310.0770.0770.0000.0000.0000.000
59A59LYS10.9630.96685.7073.5513.5510.0000.0000.0000.000
60A60ASP-1-0.828-0.88387.882-3.625-3.6250.0000.0000.0000.000
61A61THR00.0580.00587.316-0.037-0.0370.0000.0000.0000.000
62A62ALA0-0.031-0.00687.083-0.033-0.0330.0000.0000.0000.000
63A63VAL0-0.017-0.00383.203-0.052-0.0520.0000.0000.0000.000
64A64ARG10.8840.94182.7473.7323.7320.0000.0000.0000.000
65A65GLY0-0.001-0.00282.276-0.048-0.0480.0000.0000.0000.000
66A66LYS10.8330.90277.4974.1134.1130.0000.0000.0000.000
67A67ALA00.0660.03578.267-0.060-0.0600.0000.0000.0000.000
68A68VAL00.0100.00277.279-0.073-0.0730.0000.0000.0000.000
69A69LYS10.8680.92377.1453.8903.8900.0000.0000.0000.000
70A70ASP-1-0.821-0.89974.818-4.279-4.2790.0000.0000.0000.000
71A71LEU0-0.015-0.00772.849-0.093-0.0930.0000.0000.0000.000
72A72ILE0-0.066-0.03272.225-0.067-0.0670.0000.0000.0000.000
73A73LYS10.8650.92169.8704.5354.5350.0000.0000.0000.000
74A74ASN00.003-0.01068.258-0.097-0.0970.0000.0000.0000.000
75A75ALA0-0.016-0.00567.483-0.088-0.0880.0000.0000.0000.000
76A76ASP-1-0.784-0.87466.416-4.688-4.6880.0000.0000.0000.000
77A77ASP-1-0.848-0.91165.638-4.785-4.7850.0000.0000.0000.000
78A78ARG10.7930.88762.9474.7944.7940.0000.0000.0000.000
79A79LEU0-0.040-0.01761.660-0.108-0.1080.0000.0000.0000.000
80A80LYS10.8370.89261.0995.0265.0260.0000.0000.0000.000
81A81GLU-1-0.846-0.91758.229-5.554-5.5540.0000.0000.0000.000
82A82PHE00.008-0.00255.417-0.107-0.1070.0000.0000.0000.000
83A83GLU-1-0.789-0.86456.281-5.326-5.3260.0000.0000.0000.000
84A84LYS10.8680.92054.5225.3985.3980.0000.0000.0000.000
85A85GLU-1-0.861-0.92051.627-6.179-6.1790.0000.0000.0000.000
86A86GLU-1-0.806-0.89951.221-5.748-5.7480.0000.0000.0000.000
87A87ASP-1-0.902-0.94851.247-5.991-5.9910.0000.0000.0000.000
88A88ALA0-0.035-0.01148.496-0.144-0.1440.0000.0000.0000.000
89A89ILE0-0.003-0.00746.565-0.216-0.2160.0000.0000.0000.000
90A90LYS10.9380.96946.4666.1406.1400.0000.0000.0000.000
91A91LYS10.8440.91642.9857.1667.1660.0000.0000.0000.000
92A92SER0-0.011-0.02642.791-0.228-0.2280.0000.0000.0000.000
93A93GLU-1-0.833-0.91441.842-7.050-7.0500.0000.0000.0000.000
94A94GLN0-0.036-0.02342.2860.0120.0120.0000.0000.0000.000
95A95ASP-1-0.832-0.90339.669-7.743-7.7430.0000.0000.0000.000
96A96PHE0-0.008-0.00436.343-0.225-0.2250.0000.0000.0000.000
97A97LYS10.8750.91537.4026.8426.8420.0000.0000.0000.000
98A98LYS10.8110.90736.2238.0408.0400.0000.0000.0000.000
99A99ALA00.0490.02333.529-0.184-0.1840.0000.0000.0000.000
100A100LYS10.8970.98032.5118.4118.4110.0000.0000.0000.000
101A101SER0-0.041-0.04231.2400.2140.2140.0000.0000.0000.000
102A102HIS0-0.093-0.02926.2870.0930.0930.0000.0000.0000.000
103A103VAL00.0280.01027.687-0.214-0.2140.0000.0000.0000.000
104A104ASP-1-0.813-0.90526.589-10.663-10.6630.0000.0000.0000.000
105A105ASN0-0.061-0.03922.790-0.048-0.0480.0000.0000.0000.000
106A106ILE0-0.082-0.03521.487-0.659-0.6590.0000.0000.0000.000
107A107ASP-1-0.872-0.94217.098-16.387-16.3870.0000.0000.0000.000
108A108ASN00.006-0.00119.5530.9850.9850.0000.0000.0000.000
109A109ASP-1-0.810-0.91121.042-12.240-12.2400.0000.0000.0000.000
110A110VAL0-0.042-0.01224.0320.5840.5840.0000.0000.0000.000
111A111LYS10.8420.91722.20812.60212.6020.0000.0000.0000.000
112A112ARG10.7990.90723.63312.66312.6630.0000.0000.0000.000
113A113LYS10.9070.95526.56710.67910.6790.0000.0000.0000.000
114A114GLU-1-0.813-0.90127.047-11.205-11.2050.0000.0000.0000.000
115A115VAL00.0060.00626.8500.3700.3700.0000.0000.0000.000
116A116LYS10.8500.90929.80010.50510.5050.0000.0000.0000.000
117A117GLN0-0.010-0.00432.5990.3840.3840.0000.0000.0000.000
118A118LEU0-0.003-0.01031.8960.3450.3450.0000.0000.0000.000
119A119ASP-1-0.771-0.88333.595-8.682-8.6820.0000.0000.0000.000
120A120ASP-1-0.856-0.93035.577-8.141-8.1410.0000.0000.0000.000
121A121VAL0-0.070-0.03537.9580.3260.3260.0000.0000.0000.000
122A122LEU0-0.032-0.01235.9660.2430.2430.0000.0000.0000.000
123A123LYS10.7850.88836.3798.6408.6400.0000.0000.0000.000
124A124GLU-1-0.829-0.90841.871-6.550-6.5500.0000.0000.0000.000
125A125LYS10.8190.90142.3797.5617.5610.0000.0000.0000.000
126A126TYR0-0.007-0.02440.9740.1270.1270.0000.0000.0000.000
127A127LYS10.8580.93246.2346.7196.7190.0000.0000.0000.000
128A128LEU00.025-0.00847.1600.1680.1680.0000.0000.0000.000
129A129HIS0-0.065-0.03448.6770.0950.0950.0000.0000.0000.000
130A130SER00.0310.02150.4310.1750.1750.0000.0000.0000.000
131A131ASP-1-0.944-0.97352.495-5.868-5.8680.0000.0000.0000.000
132A132TYR0-0.040-0.03152.9730.1740.1740.0000.0000.0000.000
133A133ALA00.0220.01554.4080.1360.1360.0000.0000.0000.000
134A134LYS10.9140.95856.1385.4765.4760.0000.0000.0000.000
135A135ALA0-0.035-0.01958.0710.1310.1310.0000.0000.0000.000
136A136TYR00.0450.01758.3750.1250.1250.0000.0000.0000.000
137A137LYS10.8610.91258.1305.5925.5920.0000.0000.0000.000
138A138LYS10.8790.96262.1084.9674.9670.0000.0000.0000.000
139A139ALA00.0370.01863.5160.1010.1010.0000.0000.0000.000
140A140VAL00.0570.05563.6110.1100.1100.0000.0000.0000.000
141A141ASN0-0.019-0.02465.2180.1480.1480.0000.0000.0000.000
142A142SER0-0.065-0.02668.0580.0810.0810.0000.0000.0000.000
143A143GLU-1-0.764-0.87467.909-4.703-4.7030.0000.0000.0000.000
144A144LYS10.8620.91170.1954.6294.6290.0000.0000.0000.000
145A145THR0-0.075-0.04771.8810.0800.0800.0000.0000.0000.000
146A146LEU0-0.0070.00373.9670.0720.0720.0000.0000.0000.000
147A147PHE00.0460.00371.4400.0560.0560.0000.0000.0000.000
148A148LYS10.9600.96575.0444.2964.2960.0000.0000.0000.000
149A149TYR0-0.0250.01177.8560.0460.0460.0000.0000.0000.000
150A150LEU00.0290.01078.5640.0520.0520.0000.0000.0000.000
151A151ASN0-0.0340.00479.9180.0530.0530.0000.0000.0000.000
152A152GLN0-0.066-0.02981.9430.0010.0010.0000.0000.0000.000
153A153ASN00.0360.01584.854-0.033-0.0330.0000.0000.0000.000
154A154ASP-1-0.880-0.94187.669-3.574-3.5740.0000.0000.0000.000
155A155ALA0-0.044-0.00283.991-0.016-0.0160.0000.0000.0000.000
156A156THR00.0430.00985.3160.0160.0160.0000.0000.0000.000
157A157GLN00.038-0.00881.925-0.023-0.0230.0000.0000.0000.000
158A158GLN00.0180.01782.904-0.026-0.0260.0000.0000.0000.000
159A159GLY00.0520.02381.829-0.053-0.0530.0000.0000.0000.000
160A160VAL00.0240.00179.140-0.070-0.0700.0000.0000.0000.000
161A161ASN00.0360.03178.184-0.090-0.0900.0000.0000.0000.000
162A162GLU-1-0.980-0.99977.502-4.111-4.1110.0000.0000.0000.000
163A163LYS10.9050.95175.4754.0364.0360.0000.0000.0000.000
164A164SER00.0220.00173.784-0.082-0.0820.0000.0000.0000.000
165A165LYS10.9631.00172.6684.1274.1270.0000.0000.0000.000
166A166ALA0-0.034-0.01671.194-0.068-0.0680.0000.0000.0000.000
167A167ILE00.0010.00868.943-0.087-0.0870.0000.0000.0000.000
168A168GLU-1-0.917-0.95667.879-4.609-4.6090.0000.0000.0000.000
169A169GLN0-0.043-0.02366.222-0.157-0.1570.0000.0000.0000.000
170A170ASN0-0.032-0.03864.911-0.117-0.1170.0000.0000.0000.000
171A171TYR00.019-0.01563.106-0.133-0.1330.0000.0000.0000.000
172A172LYS10.9220.97062.4644.6884.6880.0000.0000.0000.000
173A173LYS10.9840.99460.8794.9534.9530.0000.0000.0000.000
174A174LEU00.0100.01357.884-0.099-0.0990.0000.0000.0000.000
175A175LYS10.8480.91457.1055.5075.5070.0000.0000.0000.000
176A176GLU-1-0.935-0.96456.599-5.496-5.4960.0000.0000.0000.000
177A177VAL0-0.033-0.00753.690-0.118-0.1180.0000.0000.0000.000
178A178SER00.0470.02953.001-0.186-0.1860.0000.0000.0000.000
179A179ASP-1-0.817-0.88952.193-5.933-5.9330.0000.0000.0000.000
180A180LYS10.8700.93350.3315.7555.7550.0000.0000.0000.000
181A181TYR00.0600.02747.033-0.208-0.2080.0000.0000.0000.000
182A182THR00.004-0.01347.471-0.168-0.1680.0000.0000.0000.000
183A183LYS10.9190.95346.5866.3036.3030.0000.0000.0000.000
184A184VAL00.0050.01543.244-0.176-0.1760.0000.0000.0000.000
185A185LEU0-0.0010.00442.664-0.220-0.2200.0000.0000.0000.000
186A186ASN0-0.007-0.00841.854-0.243-0.2430.0000.0000.0000.000
187A187LYS10.8880.96339.7827.5677.5670.0000.0000.0000.000
188A188VAL00.0350.01037.754-0.228-0.2280.0000.0000.0000.000
189A189GLN0-0.024-0.00835.439-0.415-0.4150.0000.0000.0000.000
190A190LYS10.8750.92835.7598.4538.4530.0000.0000.0000.000
191A191GLU-1-0.728-0.86834.432-8.865-8.8650.0000.0000.0000.000
192A192LYS10.8560.92232.2658.6198.6190.0000.0000.0000.000
193A193GLN0-0.061-0.02930.987-0.068-0.0680.0000.0000.0000.000
194A194ASP-1-0.917-0.93530.267-9.937-9.9370.0000.0000.0000.000
195A195VAL0-0.049-0.03327.934-0.392-0.3920.0000.0000.0000.000
196A196ASP-2-1.913-1.93425.736-24.699-24.6990.0000.0000.0000.000