FMODB

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

Last updated: 2025-04-23

All entries: 37539

Number of unique PDB entries: 7791

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FMODB ID: 98982

Calculation Name: 3HP4-A-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 3HP4

Chain ID: A

ChEMBL ID:

UniProt ID: Q1G1I7

Base Structure: X-ray

Registration Date: 2023-09-23

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
FMO calculation
FMO method FMO2-MP2/6-31G(d)
Fragmentation Auto
Number of fragment 183
LigandResidueName
LigandFragmentNumber 0
LigandCharge MIR=-1
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -2025462.09766
FMO2-HF: Nuclear repulsion 1952353.679461
FMO2-HF: Total energy -73108.4182
FMO2-MP2: Total energy -73318.634915


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:2:ASP)


Summations of interaction energy for fragment #1(A:2:ASP)
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.
91.83998.998.948-7.975-8.1230.058
Interaction energy analysis for fragmet #1(A:2:ASP)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : -1 / q_Mulliken : -0.923 / q_NPA : -0.970
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].
3A4THR00.0420.0211.843-37.479-34.6887.215-5.188-4.8180.061
4A5ILE0-0.039-0.0294.087-5.177-4.9680.004-0.090-0.1230.001
5A6LEU00.0110.0107.674-2.730-2.7300.0000.0000.0000.000
6A7ILE0-0.013-0.00910.293-1.584-1.5840.0000.0000.0000.000
7A8LEU00.003-0.00613.601-1.008-1.0080.0000.0000.0000.000
8A9GLY00.0720.02216.374-0.668-0.6680.0000.0000.0000.000
9A10ASP-1-0.823-0.89319.39112.95912.9590.0000.0000.0000.000
10A11MIR-1-0.759-0.87522.43011.64511.6450.0000.0000.0000.000
11A12LEU0-0.083-0.03623.516-0.149-0.1490.0000.0000.0000.000
12A13SER00.007-0.00918.4950.2590.2590.0000.0000.0000.000
13A14ALA0-0.0250.00019.6420.7240.7240.0000.0000.0000.000
14A15ALA0-0.025-0.00421.768-0.314-0.3140.0000.0000.0000.000
15A16TYR00.0320.01624.073-0.396-0.3960.0000.0000.0000.000
16A17GLY0-0.014-0.00927.220-0.194-0.1940.0000.0000.0000.000
17A18LEU0-0.088-0.02525.997-0.323-0.3230.0000.0000.0000.000
18A19GLN00.0420.02026.540-0.004-0.0040.0000.0000.0000.000
19A20GLN00.0440.02118.459-0.301-0.3010.0000.0000.0000.000
20A21GLU-1-0.906-0.97121.39713.77213.7720.0000.0000.0000.000
21A22GLU-1-0.929-0.98022.47711.04311.0430.0000.0000.0000.000
22A23GLY00.0030.00121.822-0.258-0.2580.0000.0000.0000.000
23A24TRP00.022-0.00615.9770.8850.8850.0000.0000.0000.000
24A25VAL00.0080.01314.3840.4620.4620.0000.0000.0000.000
25A26LYS10.8510.93615.771-14.005-14.0050.0000.0000.0000.000
26A27LEU0-0.037-0.01717.2390.1390.1390.0000.0000.0000.000
27A28LEU0-0.051-0.02013.851-0.206-0.2060.0000.0000.0000.000
28A29GLN0-0.012-0.0099.5781.4361.4360.0000.0000.0000.000
29A30ASP-1-0.783-0.88813.74816.40816.4080.0000.0000.0000.000
30A31LYS10.7850.89415.699-16.040-16.0400.0000.0000.0000.000
31A32TYR00.037-0.01410.584-0.440-0.4400.0000.0000.0000.000
32A33ASP-1-0.857-0.92712.11122.91922.9190.0000.0000.0000.000
33A34ALA0-0.090-0.04713.437-0.588-0.5880.0000.0000.0000.000
34A35GLU-1-0.928-0.96513.77315.57615.5760.0000.0000.0000.000
35A36GLN0-0.080-0.02511.493-0.014-0.0140.0000.0000.0000.000
36A37SER0-0.0110.0058.5471.2571.2570.0000.0000.0000.000
37A38ASP-1-0.869-0.9342.75634.86036.9870.291-1.410-1.008-0.016
38A39ILE0-0.053-0.0254.5075.8795.996-0.001-0.010-0.1060.000
39A40VAL0-0.0010.0125.640-4.569-4.5690.0000.0000.0000.000
40A41LEU0-0.040-0.0167.0162.4052.4050.0000.0000.0000.000
41A42ILE00.0280.0237.439-1.800-1.8000.0000.0000.0000.000
42A43ASN0-0.014-0.02310.874-0.621-0.6210.0000.0000.0000.000
43A44ALA00.0140.02314.467-0.589-0.5890.0000.0000.0000.000
44A45SER0-0.027-0.01616.136-0.951-0.9510.0000.0000.0000.000
45A46ILE0-0.040-0.01219.096-0.292-0.2920.0000.0000.0000.000
46A47SER00.003-0.02022.608-0.237-0.2370.0000.0000.0000.000
47A48GLY00.0080.00525.851-0.176-0.1760.0000.0000.0000.000
48A49GLU-1-0.828-0.89022.17613.08413.0840.0000.0000.0000.000
49A50THR0-0.067-0.03425.377-0.266-0.2660.0000.0000.0000.000
50A51SER00.050-0.00623.9500.4250.4250.0000.0000.0000.000
51A52GLY0-0.012-0.01424.1890.3720.3720.0000.0000.0000.000
52A53GLY0-0.060-0.03525.5810.0620.0620.0000.0000.0000.000
53A54ALA00.0820.03920.1670.3130.3130.0000.0000.0000.000
54A55LEU0-0.032-0.02120.7460.5900.5900.0000.0000.0000.000
55A56ARG10.8680.93122.085-11.490-11.4900.0000.0000.0000.000
56A57ARG10.8590.91618.749-16.075-16.0750.0000.0000.0000.000
57A58LEU0-0.0100.01014.6070.4040.4040.0000.0000.0000.000
58A59ASP-1-0.816-0.90316.15117.54517.5450.0000.0000.0000.000
59A60ALA00.0210.00816.2650.8530.8530.0000.0000.0000.000
60A61LEU0-0.016-0.00413.8130.6550.6550.0000.0000.0000.000
61A62LEU0-0.032-0.02211.7441.8901.8900.0000.0000.0000.000
62A63GLU-1-0.952-0.96811.25020.82720.8270.0000.0000.0000.000
63A64GLN0-0.077-0.03712.3930.2650.2650.0000.0000.0000.000
64A65TYR0-0.047-0.0478.577-0.529-0.5290.0000.0000.0000.000
65A66GLU-1-0.952-0.9477.06539.27639.2760.0000.0000.0000.000
66A67PRO0-0.053-0.0095.6097.0657.0650.0000.0000.0000.000
67A68THR00.0830.0112.703-4.312-2.5131.440-1.268-1.9710.012
68A69HIS0-0.0070.0285.497-4.571-4.463-0.001-0.009-0.0970.000
69A70VAL0-0.013-0.0058.0790.4410.4410.0000.0000.0000.000
70A71LEU0-0.007-0.00211.237-1.442-1.4420.0000.0000.0000.000
71A72ILE0-0.001-0.00813.809-0.631-0.6310.0000.0000.0000.000
72A73GLH00.000-0.03317.234-0.332-0.3320.0000.0000.0000.000
73A74LEU00.0030.00419.984-0.470-0.4700.0000.0000.0000.000
74A75GLY00.0740.02822.750-0.118-0.1180.0000.0000.0000.000
75A76ALA00.0350.02426.202-0.561-0.5610.0000.0000.0000.000
76A77ASN0-0.022-0.04326.857-0.865-0.8650.0000.0000.0000.000
77A78ASP-1-0.787-0.89028.50410.90110.9010.0000.0000.0000.000
78A79GLY0-0.0020.00330.479-0.387-0.3870.0000.0000.0000.000
79A80LEU00.001-0.01031.224-0.433-0.4330.0000.0000.0000.000
80A81ARG10.9080.96331.742-10.082-10.0820.0000.0000.0000.000
81A82GLY00.0280.03035.350-0.223-0.2230.0000.0000.0000.000
82A83PHE0-0.046-0.00931.546-0.198-0.1980.0000.0000.0000.000
83A84PRO0-0.014-0.01334.6920.0640.0640.0000.0000.0000.000
84A85VAL00.0890.05031.4260.2400.2400.0000.0000.0000.000
85A86LYS11.0001.00931.361-8.644-8.6440.0000.0000.0000.000
86A87LYS10.8880.94930.243-10.291-10.2910.0000.0000.0000.000
87A88MET00.0240.02927.3620.2900.2900.0000.0000.0000.000
88A89GLN00.0720.03526.9910.2980.2980.0000.0000.0000.000
89A90THR0-0.065-0.02726.5810.3460.3460.0000.0000.0000.000
90A91ASN0-0.032-0.02925.5060.2620.2620.0000.0000.0000.000
91A92LEU00.0380.01222.1800.5610.5610.0000.0000.0000.000
92A93THR00.0110.00621.6400.7650.7650.0000.0000.0000.000
93A94ALA0-0.039-0.01421.8780.5480.5480.0000.0000.0000.000
94A95LEU0-0.0070.00518.7920.5550.5550.0000.0000.0000.000
95A96VAL00.0300.01617.3981.2231.2230.0000.0000.0000.000
96A97LYS10.9550.97317.137-12.742-12.7420.0000.0000.0000.000
97A98LYS10.8210.91017.611-15.300-15.3000.0000.0000.0000.000
98A99SER00.0410.01113.1581.0671.0670.0000.0000.0000.000
99A100GLN0-0.019-0.01213.0320.8460.8460.0000.0000.0000.000
100A101ALA0-0.063-0.02214.2650.5860.5860.0000.0000.0000.000
101A102ALA0-0.044-0.01411.875-0.302-0.3020.0000.0000.0000.000
102A103ASN0-0.058-0.0359.6961.6541.6540.0000.0000.0000.000
103A104ALA00.0810.0679.0083.1493.1490.0000.0000.0000.000
104A105MET0-0.028-0.0129.258-5.055-5.0550.0000.0000.0000.000
105A106THR0-0.023-0.02310.8660.9370.9370.0000.0000.0000.000
106A107ALA0-0.038-0.01113.611-1.232-1.2320.0000.0000.0000.000
107A108LEU0-0.039-0.01815.6270.1430.1430.0000.0000.0000.000
108A109MET0-0.039-0.00218.880-0.618-0.6180.0000.0000.0000.000
109A110GLU-1-0.862-0.92720.78911.36511.3650.0000.0000.0000.000
110A111ILE0-0.033-0.00823.074-0.020-0.0200.0000.0000.0000.000
111A112TYR0-0.043-0.01726.639-0.638-0.6380.0000.0000.0000.000
112A113ILE0-0.032-0.00430.2900.1050.1050.0000.0000.0000.000
113A114PRO00.0670.03132.867-0.181-0.1810.0000.0000.0000.000
114A115PRO00.0090.00936.4260.0550.0550.0000.0000.0000.000
115A116ASN0-0.012-0.01837.371-0.353-0.3530.0000.0000.0000.000
116A117TYR0-0.0190.00037.200-0.254-0.2540.0000.0000.0000.000
117A118GLY00.0030.00540.817-0.088-0.0880.0000.0000.0000.000
118A119PRO00.0500.00139.8130.2320.2320.0000.0000.0000.000
119A120ARG10.9330.97237.778-8.074-8.0740.0000.0000.0000.000
120A121TYR00.047-0.00634.6510.1940.1940.0000.0000.0000.000
121A122SER00.0700.03035.1230.1860.1860.0000.0000.0000.000
122A123LYS10.9580.98334.064-7.968-7.9680.0000.0000.0000.000
123A124MET0-0.095-0.04034.0650.1270.1270.0000.0000.0000.000
124A125PHE00.0330.01128.5120.2040.2040.0000.0000.0000.000
125A126THR00.0270.00429.1200.1580.1580.0000.0000.0000.000
126A127SER0-0.047-0.03329.0650.2850.2850.0000.0000.0000.000
127A128SER0-0.040-0.02328.9560.2950.2950.0000.0000.0000.000
128A129PHE00.0460.01023.7310.2050.2050.0000.0000.0000.000
129A130THR00.0320.01524.9110.4310.4310.0000.0000.0000.000
130A131GLN0-0.006-0.00626.5970.1040.1040.0000.0000.0000.000
131A132ILE00.0010.00922.4240.1100.1100.0000.0000.0000.000
132A133SER0-0.052-0.02521.6490.2350.2350.0000.0000.0000.000
133A134GLU-1-0.927-0.96423.01811.13411.1340.0000.0000.0000.000
134A135ASP-1-0.992-0.98325.28111.62011.6200.0000.0000.0000.000
135A136THR0-0.117-0.08620.4180.4170.4170.0000.0000.0000.000
136A137ASN0-0.0090.00318.2520.3530.3530.0000.0000.0000.000
137A138ALA0-0.0060.01917.4340.8480.8480.0000.0000.0000.000
138A139HIS00.0360.02516.070-1.434-1.4340.0000.0000.0000.000
139A140LEU0-0.003-0.00718.0630.4150.4150.0000.0000.0000.000
140A141MET0-0.025-0.00214.5780.0290.0290.0000.0000.0000.000
141A142ASN00.0390.00520.299-0.756-0.7560.0000.0000.0000.000
142A143PHE00.038-0.00122.3290.4000.4000.0000.0000.0000.000
143A144PHE00.0790.02220.236-0.454-0.4540.0000.0000.0000.000
144A145MET0-0.022-0.00824.192-0.249-0.2490.0000.0000.0000.000
145A146LEU0-0.050-0.00827.422-0.513-0.5130.0000.0000.0000.000
146A147ASP-1-0.874-0.91428.57410.28110.2810.0000.0000.0000.000
147A148ILE0-0.010-0.01027.027-0.251-0.2510.0000.0000.0000.000
148A149ALA00.021-0.02930.400-0.346-0.3460.0000.0000.0000.000
149A150GLY0-0.039-0.00732.649-0.257-0.2570.0000.0000.0000.000
150A151LYS10.8540.92832.497-9.913-9.9130.0000.0000.0000.000
151A152SER00.0380.01635.0470.1960.1960.0000.0000.0000.000
152A153ASP-1-0.827-0.91035.4299.0119.0110.0000.0000.0000.000
153A154LEU0-0.034-0.00730.5580.1900.1900.0000.0000.0000.000
154A155MET0-0.0060.02531.3690.5280.5280.0000.0000.0000.000
155A156GLN0-0.046-0.02930.103-0.468-0.4680.0000.0000.0000.000
156A157ASN00.017-0.00434.555-0.098-0.0980.0000.0000.0000.000
157A158ASP-1-0.792-0.86634.1109.3359.3350.0000.0000.0000.000
158A159SER0-0.055-0.02636.086-0.096-0.0960.0000.0000.0000.000
159A160LEU0-0.059-0.02532.4300.0560.0560.0000.0000.0000.000
160A161HIS10.7650.84628.576-10.034-10.0340.0000.0000.0000.000
161A162PRO00.0870.04526.651-0.344-0.3440.0000.0000.0000.000
162A163ASN0-0.039-0.03429.0890.3660.3660.0000.0000.0000.000
163A164LYS11.0090.98928.064-10.233-10.2330.0000.0000.0000.000
164A165LYS10.8090.91127.977-8.848-8.8480.0000.0000.0000.000
165A166ALA00.0340.01227.8550.1150.1150.0000.0000.0000.000
166A167GLN00.0160.02123.4880.9120.9120.0000.0000.0000.000
167A168PRO0-0.004-0.00923.1220.5520.5520.0000.0000.0000.000
168A169LEU00.0150.01623.3170.2400.2400.0000.0000.0000.000
169A170ILE00.0610.03220.9380.1980.1980.0000.0000.0000.000
170A171ARG10.8240.90818.348-13.506-13.5060.0000.0000.0000.000
171A172ASP-1-0.832-0.91018.84614.58414.5840.0000.0000.0000.000
172A173GLU-1-0.895-0.95019.92412.86412.8640.0000.0000.0000.000
173A174MET0-0.029-0.01916.3250.2260.2260.0000.0000.0000.000
174A175TYR0-0.0110.00713.4880.9810.9810.0000.0000.0000.000
175A176ASP-1-0.908-0.95215.18315.29215.2920.0000.0000.0000.000
176A177SER0-0.062-0.04516.9080.0600.0600.0000.0000.0000.000
177A178ILE0-0.016-0.01011.2180.4530.4530.0000.0000.0000.000
178A179LYS10.9881.00212.183-15.901-15.9010.0000.0000.0000.000
179A180LYS10.9420.96113.235-14.190-14.1900.0000.0000.0000.000
180A181TRP0-0.001-0.00311.1490.1710.1710.0000.0000.0000.000
181A182LEU0-0.007-0.0057.496-0.075-0.0750.0000.0000.0000.000
182A183ASN0-0.100-0.03710.429-0.480-0.4800.0000.0000.0000.000
183A184ASN0-0.077-0.02012.944-1.105-1.1050.0000.0000.0000.000