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: MN65Z

Calculation Name: 2QKO-A-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 2QKO

Chain ID: A

ChEMBL ID:

UniProt ID: Q0S912

Base Structure: X-ray

Registration Date: 2023-09-20

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 174
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 22 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -1694934.055802
FMO2-HF: Nuclear repulsion 1627661.935471
FMO2-HF: Total energy -67272.120331
FMO2-MP2: Total energy -67471.080131


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:5:PRO)


Summations of interaction energy for fragment #1(A:5:PRO)
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.
-4.0772.4610.547-2.765-4.32-0.002
Interaction energy analysis for fragmet #1(A:5:PRO)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.020 / q_NPA : -0.014
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].
3A7ARG10.9290.9532.584-0.3752.6730.223-1.458-1.813-0.005
4A8ARG11.0121.0202.538-3.340-1.5050.204-0.654-1.3850.002
5A9ALA00.0240.0124.458-0.421-0.227-0.001-0.034-0.1600.000
6A10ALA00.0070.0006.2500.1670.1670.0000.0000.0000.000
7A11LEU0-0.005-0.0026.8720.0650.0650.0000.0000.0000.000
8A12VAL0-0.011-0.0048.391-0.012-0.0120.0000.0000.0000.000
9A13ASN00.016-0.00410.394-0.024-0.0240.0000.0000.0000.000
10A14ALA00.0490.03911.814-0.003-0.0030.0000.0000.0000.000
11A15ALA00.002-0.00512.898-0.011-0.0110.0000.0000.0000.000
12A16ILE0-0.013-0.01313.711-0.026-0.0260.0000.0000.0000.000
13A17GLU-1-0.848-0.93116.218-0.011-0.0110.0000.0000.0000.000
14A18VAL0-0.016-0.01117.152-0.005-0.0050.0000.0000.0000.000
15A19LEU0-0.073-0.03717.750-0.005-0.0050.0000.0000.0000.000
16A20ALA0-0.0010.00120.581-0.009-0.0090.0000.0000.0000.000
17A21ARG10.8460.93819.818-0.090-0.0900.0000.0000.0000.000
18A22GLU-1-0.917-0.94723.1690.0890.0890.0000.0000.0000.000
19A23GLY00.0300.01123.447-0.005-0.0050.0000.0000.0000.000
20A24ALA0-0.064-0.03822.6000.0170.0170.0000.0000.0000.000
21A25ARG10.8230.90122.907-0.096-0.0960.0000.0000.0000.000
22A26GLY00.0480.03223.9470.0050.0050.0000.0000.0000.000
23A27LEU0-0.0080.01916.4720.0130.0130.0000.0000.0000.000
24A28THR0-0.035-0.02719.2850.0210.0210.0000.0000.0000.000
25A29PHE00.0640.01214.289-0.007-0.0070.0000.0000.0000.000
26A30ARG10.9740.98316.511-0.188-0.1880.0000.0000.0000.000
27A31ALA00.0480.01618.710-0.013-0.0130.0000.0000.0000.000
28A32VAL00.0060.00612.729-0.016-0.0160.0000.0000.0000.000
29A33ASP-1-0.812-0.91513.4580.4020.4020.0000.0000.0000.000
30A34VAL0-0.049-0.02015.184-0.037-0.0370.0000.0000.0000.000
31A35GLU-1-0.881-0.93016.0580.0330.0330.0000.0000.0000.000
32A36ALA0-0.0220.00611.562-0.029-0.0290.0000.0000.0000.000
33A37ASN00.014-0.00710.7460.0210.0210.0000.0000.0000.000
34A38VAL0-0.095-0.0478.940-0.046-0.0460.0000.0000.0000.000
35A39PRO00.0850.03112.1160.0870.0870.0000.0000.0000.000
36A40LYS10.8970.95614.176-0.055-0.0550.0000.0000.0000.000
37A41GLY00.0300.01114.200-0.017-0.0170.0000.0000.0000.000
38A42THR0-0.086-0.0348.6450.0180.0180.0000.0000.0000.000
39A43ALA00.0440.01510.7800.1920.1920.0000.0000.0000.000
40A44SER0-0.008-0.00811.6260.1260.1260.0000.0000.0000.000
41A45ASN0-0.034-0.01710.425-0.036-0.0360.0000.0000.0000.000
42A46TYR0-0.042-0.0293.291-1.1090.3520.121-0.619-0.9620.001
43A47PHE0-0.033-0.0148.6440.3350.3350.0000.0000.0000.000
44A48PRO00.0100.02611.771-0.155-0.1550.0000.0000.0000.000
45A49SER00.0550.02214.764-0.117-0.1170.0000.0000.0000.000
46A50ARG10.9140.95515.925-0.204-0.2040.0000.0000.0000.000
47A51ASP-1-0.883-0.97317.8160.3200.3200.0000.0000.0000.000
48A52ASP-1-0.842-0.91712.3140.9260.9260.0000.0000.0000.000
49A53LEU0-0.042-0.00912.5050.0680.0680.0000.0000.0000.000
50A54PHE0-0.049-0.04613.880-0.009-0.0090.0000.0000.0000.000
51A55ASP-1-0.773-0.87414.3260.3570.3570.0000.0000.0000.000
52A56GLN0-0.045-0.0117.7120.1090.1090.0000.0000.0000.000
53A57VAL00.015-0.00511.747-0.081-0.0810.0000.0000.0000.000
54A58GLY00.0180.00713.653-0.075-0.0750.0000.0000.0000.000
55A59LYS10.8460.91612.015-0.270-0.2700.0000.0000.0000.000
56A60ARG10.7870.8537.2550.0350.0350.0000.0000.0000.000
57A61ILE0-0.0040.00612.509-0.073-0.0730.0000.0000.0000.000
58A62HIS00.010-0.01715.786-0.038-0.0380.0000.0000.0000.000
59A63GLU-1-0.828-0.85710.952-0.158-0.1580.0000.0000.0000.000
60A64ARG10.8050.90914.775-0.008-0.0080.0000.0000.0000.000
61A65LEU0-0.0240.02216.842-0.005-0.0050.0000.0000.0000.000
62A81ASN00.0380.00037.726-0.001-0.0010.0000.0000.0000.000
63A82LEU00.0380.01638.3660.0000.0000.0000.0000.0000.000
64A83GLU-1-0.930-0.97439.491-0.027-0.0270.0000.0000.0000.000
65A84LEU00.0360.03133.382-0.001-0.0010.0000.0000.0000.000
66A85ALA00.0030.00234.472-0.002-0.0020.0000.0000.0000.000
67A86ILE0-0.010-0.00734.8070.0010.0010.0000.0000.0000.000
68A87GLU-1-0.891-0.94435.777-0.039-0.0390.0000.0000.0000.000
69A88TYR0-0.053-0.02126.431-0.006-0.0060.0000.0000.0000.000
70A89MET0-0.013-0.00831.000-0.001-0.0010.0000.0000.0000.000
71A90GLN0-0.006-0.02532.5660.0000.0000.0000.0000.0000.000
72A91GLY00.0240.02631.7610.0000.0000.0000.0000.0000.000
73A92LEU0-0.094-0.05525.644-0.004-0.0040.0000.0000.0000.000
74A93PHE0-0.013-0.01228.5380.0020.0020.0000.0000.0000.000
75A94GLY00.0680.04131.1630.0030.0030.0000.0000.0000.000
76A95ARG10.8560.92522.3790.0740.0740.0000.0000.0000.000
77A96ILE00.0140.02126.019-0.003-0.0030.0000.0000.0000.000
78A97THR00.032-0.00126.7730.0060.0060.0000.0000.0000.000
79A98ARG10.9050.96722.6490.0880.0880.0000.0000.0000.000
80A99ASP-1-0.902-0.95521.432-0.066-0.0660.0000.0000.0000.000
81A100ARG10.9780.99723.1660.0010.0010.0000.0000.0000.000
82A101THR0-0.007-0.01519.1930.0110.0110.0000.0000.0000.000
83A102GLY00.0250.00619.4860.0190.0190.0000.0000.0000.000
84A103TYR00.0760.01320.3700.0180.0180.0000.0000.0000.000
85A104LEU00.0310.01923.5820.0110.0110.0000.0000.0000.000
86A105ALA00.0170.01519.4040.0130.0130.0000.0000.0000.000
87A106LEU0-0.0200.00620.7640.0230.0230.0000.0000.0000.000
88A107GLN00.005-0.00321.8960.0110.0110.0000.0000.0000.000
89A108GLU-1-0.811-0.90822.8950.1140.1140.0000.0000.0000.000
90A109LEU0-0.030-0.02317.5670.0140.0140.0000.0000.0000.000
91A110ARG10.9410.97122.164-0.068-0.0680.0000.0000.0000.000
92A111LEU00.002-0.00125.1230.0020.0020.0000.0000.0000.000
93A112GLU-1-0.855-0.93322.5070.1850.1850.0000.0000.0000.000
94A113ALA00.0080.01323.6110.0090.0090.0000.0000.0000.000
95A114VAL0-0.039-0.01724.7160.0000.0000.0000.0000.0000.000
96A115ARG10.8660.93226.996-0.140-0.1400.0000.0000.0000.000
97A116ARG10.8440.94221.457-0.265-0.2650.0000.0000.0000.000
98A117PRO00.013-0.00923.6940.0020.0020.0000.0000.0000.000
99A118GLU-1-0.893-0.93518.7170.2780.2780.0000.0000.0000.000
100A119LEU00.0780.04818.3160.0020.0020.0000.0000.0000.000
101A120ARG10.8760.93720.374-0.158-0.1580.0000.0000.0000.000
102A121THR0-0.0190.00721.395-0.028-0.0280.0000.0000.0000.000
103A122THR0-0.001-0.00415.753-0.028-0.0280.0000.0000.0000.000
104A123LEU0-0.009-0.00918.887-0.018-0.0180.0000.0000.0000.000
105A124THR0-0.059-0.04020.387-0.028-0.0280.0000.0000.0000.000
106A125ARG10.9450.97619.528-0.192-0.1920.0000.0000.0000.000
107A126THR00.0480.02616.944-0.016-0.0160.0000.0000.0000.000
108A127ILE00.0020.01219.428-0.023-0.0230.0000.0000.0000.000
109A128SER00.0020.00222.677-0.017-0.0170.0000.0000.0000.000
110A129GLU-1-1.016-1.00819.5860.0810.0810.0000.0000.0000.000
111A130ASN0-0.010-0.00820.811-0.019-0.0190.0000.0000.0000.000
112A131LEU00.0340.02922.667-0.009-0.0090.0000.0000.0000.000
113A132LYS10.9080.94425.213-0.047-0.0470.0000.0000.0000.000
114A133ARG10.9110.95419.400-0.021-0.0210.0000.0000.0000.000
115A134ASP-1-0.844-0.90925.755-0.014-0.0140.0000.0000.0000.000
116A135ILE0-0.072-0.03827.831-0.002-0.0020.0000.0000.0000.000
117A136GLY0-0.013-0.00929.454-0.002-0.0020.0000.0000.0000.000
118A137PHE00.0390.01827.819-0.004-0.0040.0000.0000.0000.000
119A138HIS0-0.020-0.02629.851-0.004-0.0040.0000.0000.0000.000
120A139LEU0-0.057-0.03233.0470.0000.0000.0000.0000.0000.000
121A140ASP-1-0.921-0.95531.382-0.020-0.0200.0000.0000.0000.000
122A141SER0-0.115-0.05133.132-0.003-0.0030.0000.0000.0000.000
123A142GLY0-0.010-0.00334.693-0.002-0.0020.0000.0000.0000.000
124A143LEU0-0.067-0.02634.7420.0010.0010.0000.0000.0000.000
125A144PRO00.0140.02038.5600.0020.0020.0000.0000.0000.000
126A145GLY00.0590.02239.301-0.001-0.0010.0000.0000.0000.000
127A146ASP-1-0.842-0.92438.9030.0060.0060.0000.0000.0000.000
128A147ARG10.9490.94632.374-0.024-0.0240.0000.0000.0000.000
129A148SER0-0.010-0.01135.6100.0030.0030.0000.0000.0000.000
130A149THR00.0320.03036.6290.0010.0010.0000.0000.0000.000
131A150VAL00.0430.02031.0760.0000.0000.0000.0000.0000.000
132A151LEU0-0.051-0.02332.1520.0020.0020.0000.0000.0000.000
133A152MET00.0060.01733.9700.0020.0020.0000.0000.0000.000
134A153LEU00.0250.01433.7240.0010.0010.0000.0000.0000.000
135A154TYR0-0.013-0.00926.4690.0040.0040.0000.0000.0000.000
136A155LEU0-0.060-0.04130.9620.0030.0030.0000.0000.0000.000
137A156ALA00.0120.01033.1960.0020.0020.0000.0000.0000.000
138A157MET00.0370.02331.0990.0010.0010.0000.0000.0000.000
139A158ASN0-0.035-0.02027.816-0.003-0.0030.0000.0000.0000.000
140A159ALA0-0.016-0.01430.3220.0030.0030.0000.0000.0000.000
141A160LEU00.0130.02233.3060.0000.0000.0000.0000.0000.000
142A161ILE00.009-0.00427.471-0.001-0.0010.0000.0000.0000.000
143A162VAL0-0.002-0.01328.9640.0010.0010.0000.0000.0000.000
144A163GLU-1-0.869-0.92531.0330.0260.0260.0000.0000.0000.000
145A164HIS00.0190.01531.8410.0020.0020.0000.0000.0000.000
146A165LEU0-0.089-0.04727.011-0.001-0.0010.0000.0000.0000.000
147A166THR0-0.106-0.07330.8820.0030.0030.0000.0000.0000.000
148A167LEU0-0.034-0.00933.0560.0010.0010.0000.0000.0000.000
149A168PRO00.0470.02934.821-0.002-0.0020.0000.0000.0000.000
150A169GLY0-0.006-0.00837.182-0.002-0.0020.0000.0000.0000.000
151A170VAL0-0.040-0.00839.499-0.001-0.0010.0000.0000.0000.000
152A171LEU0-0.030-0.03236.929-0.001-0.0010.0000.0000.0000.000
153A172GLU-1-0.927-0.94040.9330.0000.0000.0000.0000.0000.000
154A173GLY0-0.035-0.01242.587-0.002-0.0020.0000.0000.0000.000
155A174VAL0-0.079-0.04941.7510.0000.0000.0000.0000.0000.000
156A175ASP-1-0.859-0.92442.383-0.012-0.0120.0000.0000.0000.000
157A176THR0-0.001-0.02637.764-0.001-0.0010.0000.0000.0000.000
158A177GLU-1-0.890-0.93438.826-0.023-0.0230.0000.0000.0000.000
159A178ARG10.9951.00640.0130.0040.0040.0000.0000.0000.000
160A179LEU0-0.051-0.00939.5050.0010.0010.0000.0000.0000.000
161A180VAL00.021-0.00235.6850.0020.0020.0000.0000.0000.000
162A181ALA00.0420.02638.6340.0000.0000.0000.0000.0000.000
163A182ASP-1-0.910-0.94641.025-0.005-0.0050.0000.0000.0000.000
164A183LEU0-0.069-0.03936.1660.0010.0010.0000.0000.0000.000
165A184VAL00.0130.00036.4020.0010.0010.0000.0000.0000.000
166A185THR0-0.029-0.03639.1250.0000.0000.0000.0000.0000.000
167A186ARG10.8930.94142.7420.0010.0010.0000.0000.0000.000
168A187ALA0-0.0130.00338.6910.0010.0010.0000.0000.0000.000
169A188VAL0-0.0060.00838.9000.0010.0010.0000.0000.0000.000
170A189ALA0-0.0330.00241.1610.0000.0000.0000.0000.0000.000
171A190THR0-0.001-0.00442.9770.0010.0010.0000.0000.0000.000
172A191PRO0-0.046-0.01845.5030.0000.0000.0000.0000.0000.000
173A192ASP-1-0.906-0.94347.6670.0070.0070.0000.0000.0000.000
174A193ALA0-0.063-0.03547.2370.0010.0010.0000.0000.0000.000