FMODB

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

Last updated: 2024-07-23

All entries: 37450

Number of unique PDB entries: 7783

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FMODB ID: 72YVK

Calculation Name: 1CUN-A-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 1CUN

Chain ID: A

ChEMBL ID:

UniProt ID: P07751

Base Structure: X-ray

Registration Date: 2023-06-22

Reference: C. Watanabe, N. Tani, K. Kamisaka, T. Honma et al., Interaction energy analysis of Apo structure dataset on FMODB, To be published.

DOI:


IFIE MAP

IFIE Diagram


Modeling method
Optimization MOE:Amber10:EHT
Restraint OptAll
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 213
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -2109777.319671
FMO2-HF: Nuclear repulsion 2024521.686676
FMO2-HF: Total energy -85255.632995
FMO2-MP2: Total energy -85505.793024


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:7:MET)


Summations of interaction energy for fragment #1(A:7:MET)
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.
-9.186-4.6676.433-2.957-7.99-0.004
Interaction energy analysis for fragmet #1(A:7:MET)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.008 / q_NPA : 0.000
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].
3A9HIS00.010-0.0053.168-4.472-2.4280.083-0.741-1.3850.003
4A10GLN0-0.082-0.0302.942-1.536-0.4590.044-0.355-0.766-0.002
5A11PHE00.0630.0284.156-0.2430.4170.013-0.171-0.5020.000
6A12PHE00.0370.0066.101-0.225-0.2250.0000.0000.0000.000
7A13ARG10.9010.9525.192-0.440-0.4400.0000.0000.0000.000
8A14ASP-1-0.797-0.8887.198-0.212-0.2120.0000.0000.0000.000
9A15MET0-0.038-0.00610.052-0.092-0.0920.0000.0000.0000.000
10A16ASP-1-0.818-0.89112.0640.4350.4350.0000.0000.0000.000
11A17ASP-1-0.925-0.94612.8750.0550.0550.0000.0000.0000.000
12A18GLU-1-0.827-0.90414.062-0.127-0.1270.0000.0000.0000.000
13A19GLU-1-0.763-0.88515.7600.1570.1570.0000.0000.0000.000
14A20SER0-0.058-0.03517.432-0.006-0.0060.0000.0000.0000.000
15A21TRP0-0.042-0.03718.854-0.016-0.0160.0000.0000.0000.000
16A22ILE00.0200.00417.989-0.010-0.0100.0000.0000.0000.000
17A23LYS10.9410.96821.648-0.090-0.0900.0000.0000.0000.000
18A24GLU-1-0.928-0.95523.492-0.001-0.0010.0000.0000.0000.000
19A25LYS10.8150.87324.2640.0250.0250.0000.0000.0000.000
20A26LYS10.8350.91025.604-0.026-0.0260.0000.0000.0000.000
21A27LEU0-0.0240.00327.380-0.001-0.0010.0000.0000.0000.000
22A28LEU0-0.052-0.01728.498-0.003-0.0030.0000.0000.0000.000
23A29VAL0-0.015-0.00628.353-0.004-0.0040.0000.0000.0000.000
24A30SER0-0.048-0.03730.857-0.001-0.0010.0000.0000.0000.000
25A31SER0-0.044-0.00833.2190.0020.0020.0000.0000.0000.000
26A32GLU-1-0.807-0.88636.290-0.007-0.0070.0000.0000.0000.000
27A33ASP-1-0.929-0.96139.256-0.011-0.0110.0000.0000.0000.000
28A34TYR0-0.006-0.04038.257-0.005-0.0050.0000.0000.0000.000
29A35GLY00.0270.02342.418-0.002-0.0020.0000.0000.0000.000
30A36ARG10.9240.95045.2380.0060.0060.0000.0000.0000.000
31A37ASP-1-0.801-0.89048.622-0.016-0.0160.0000.0000.0000.000
32A38LEU00.0600.03047.936-0.001-0.0010.0000.0000.0000.000
33A39THR00.0430.01947.087-0.002-0.0020.0000.0000.0000.000
34A40GLY00.0030.00245.871-0.001-0.0010.0000.0000.0000.000
35A41VAL00.006-0.00142.563-0.001-0.0010.0000.0000.0000.000
36A42GLN0-0.0050.00142.202-0.002-0.0020.0000.0000.0000.000
37A43ASN0-0.060-0.03641.666-0.005-0.0050.0000.0000.0000.000
38A44LEU0-0.033-0.00339.395-0.003-0.0030.0000.0000.0000.000
39A45ARG10.8430.90337.7640.0410.0410.0000.0000.0000.000
40A46LYS10.9480.96636.7870.0420.0420.0000.0000.0000.000
41A47LYS10.8970.95135.2410.0130.0130.0000.0000.0000.000
42A48HIS0-0.023-0.00432.3280.0020.0020.0000.0000.0000.000
43A49LYS10.9080.94432.0420.0540.0540.0000.0000.0000.000
44A50ARG10.8830.95031.3580.0400.0400.0000.0000.0000.000
45A51LEU00.0320.03328.007-0.005-0.0050.0000.0000.0000.000
46A52GLU-1-0.822-0.93427.344-0.068-0.0680.0000.0000.0000.000
47A53ALA0-0.012-0.00726.600-0.011-0.0110.0000.0000.0000.000
48A54GLU-1-0.826-0.88724.050-0.063-0.0630.0000.0000.0000.000
49A55LEU0-0.017-0.01622.874-0.008-0.0080.0000.0000.0000.000
50A56ALA00.006-0.00221.602-0.015-0.0150.0000.0000.0000.000
51A57ALA0-0.034-0.02121.337-0.021-0.0210.0000.0000.0000.000
52A58HIS10.8240.90117.7810.0810.0810.0000.0000.0000.000
53A59GLU-1-0.807-0.87116.980-0.182-0.1820.0000.0000.0000.000
54A60PRO00.0060.00315.492-0.027-0.0270.0000.0000.0000.000
55A61ALA00.0100.02313.238-0.072-0.0720.0000.0000.0000.000
56A62ILE00.0380.00212.149-0.020-0.0200.0000.0000.0000.000
57A63GLN0-0.035-0.03311.9310.0600.0600.0000.0000.0000.000
58A64SER0-0.007-0.0159.151-0.115-0.1150.0000.0000.0000.000
59A65VAL00.0060.0227.510-0.220-0.2200.0000.0000.0000.000
60A66LEU0-0.008-0.0027.507-0.015-0.0150.0000.0000.0000.000
61A67ASP-1-0.863-0.9177.814-0.796-0.7960.0000.0000.0000.000
62A68THR0-0.062-0.0442.507-1.195-0.7470.929-0.211-1.165-0.002
63A69GLY00.0430.0113.392-1.996-1.1430.025-0.492-0.386-0.004
64A70LYS10.8780.9245.9240.8940.8940.0000.0000.0000.000
65A71LYS10.7680.8633.0262.0342.5410.049-0.102-0.4540.000
66A72LEU00.0190.0102.4650.104-1.0785.292-0.878-3.2300.001
67A73SER00.0200.0004.8330.4780.516-0.001-0.005-0.0320.000
68A74ASP-1-0.853-0.9037.826-0.371-0.3710.0000.0000.0000.000
69A75ASP-1-0.817-0.8834.700-1.810-1.736-0.001-0.002-0.0700.000
70A76ASN0-0.106-0.0517.9790.2270.2270.0000.0000.0000.000
71A77THR0-0.0020.0026.3210.2440.2440.0000.0000.0000.000
72A78ILE0-0.004-0.0148.779-0.080-0.0800.0000.0000.0000.000
73A79GLY00.0650.0299.9030.2800.2800.0000.0000.0000.000
74A80LYS10.8090.90210.523-0.030-0.0300.0000.0000.0000.000
75A81GLU-1-0.845-0.90011.5320.1580.1580.0000.0000.0000.000
76A82GLU-1-0.915-0.95313.1550.6960.6960.0000.0000.0000.000
77A83ILE0-0.030-0.0137.208-0.023-0.0230.0000.0000.0000.000
78A84GLN0-0.016-0.02110.743-0.090-0.0900.0000.0000.0000.000
79A85GLN0-0.061-0.04212.751-0.047-0.0470.0000.0000.0000.000
80A86ARG10.7860.86512.667-0.410-0.4100.0000.0000.0000.000
81A87LEU00.0070.0128.571-0.066-0.0660.0000.0000.0000.000
82A88ALA0-0.025-0.00812.784-0.051-0.0510.0000.0000.0000.000
83A89GLN0-0.0020.00416.3500.0030.0030.0000.0000.0000.000
84A90PHE00.0220.01911.722-0.020-0.0200.0000.0000.0000.000
85A91VAL0-0.020-0.02414.516-0.036-0.0360.0000.0000.0000.000
86A92ASP-1-0.961-0.97417.051-0.001-0.0010.0000.0000.0000.000
87A93HIS0-0.052-0.04919.131-0.012-0.0120.0000.0000.0000.000
88A94TRP00.000-0.00417.7940.0040.0040.0000.0000.0000.000
89A95LYS10.9040.94919.7900.0730.0730.0000.0000.0000.000
90A96GLU-1-0.807-0.88222.5450.0100.0100.0000.0000.0000.000
91A97LEU00.0410.02822.437-0.003-0.0030.0000.0000.0000.000
92A98LYS10.8220.89920.2780.1300.1300.0000.0000.0000.000
93A99GLN0-0.0240.00025.505-0.003-0.0030.0000.0000.0000.000
94A100LEU00.005-0.00328.2030.0010.0010.0000.0000.0000.000
95A101ALA0-0.020-0.01127.9460.0010.0010.0000.0000.0000.000
96A102ALA00.0180.00729.6050.0000.0000.0000.0000.0000.000
97A103ALA0-0.0080.00431.4490.0010.0010.0000.0000.0000.000
98A104ARG10.8550.91233.2940.0200.0200.0000.0000.0000.000
99A105GLY00.0220.00333.7260.0010.0010.0000.0000.0000.000
100A106GLN0-0.007-0.00635.154-0.002-0.0020.0000.0000.0000.000
101A107ARG10.8410.91537.4660.0190.0190.0000.0000.0000.000
102A108LEU0-0.026-0.01736.4810.0020.0020.0000.0000.0000.000
103A109GLU-1-0.750-0.84538.547-0.047-0.0470.0000.0000.0000.000
104A110GLU-1-0.742-0.82341.103-0.018-0.0180.0000.0000.0000.000
105A111SER0-0.093-0.06242.9690.0020.0020.0000.0000.0000.000
106A112LEU0-0.019-0.00543.4460.0010.0010.0000.0000.0000.000
107A113GLU-1-0.864-0.94045.222-0.029-0.0290.0000.0000.0000.000
108A114TYR0-0.021-0.01047.5160.0010.0010.0000.0000.0000.000
109A115GLN00.020-0.00548.0480.0010.0010.0000.0000.0000.000
110A116GLN0-0.020-0.01347.842-0.001-0.0010.0000.0000.0000.000
111A117PHE00.0130.02451.2320.0010.0010.0000.0000.0000.000
112A118VAL0-0.025-0.01653.1630.0010.0010.0000.0000.0000.000
113A119ALA0-0.004-0.00753.8470.0010.0010.0000.0000.0000.000
114A120ASN00.0240.00754.1460.0000.0000.0000.0000.0000.000
115A121VAL0-0.023-0.00857.1390.0000.0000.0000.0000.0000.000
116A122GLU-1-0.890-0.93358.736-0.011-0.0110.0000.0000.0000.000
117A123GLU-1-0.946-0.97257.705-0.021-0.0210.0000.0000.0000.000
118A124GLU-1-0.787-0.87661.373-0.018-0.0180.0000.0000.0000.000
119A125GLU-1-0.808-0.89163.130-0.010-0.0100.0000.0000.0000.000
120A126ALA0-0.033-0.00764.0480.0010.0010.0000.0000.0000.000
121A127TRP0-0.006-0.00965.6160.0010.0010.0000.0000.0000.000
122A128ILE00.009-0.00667.0830.0010.0010.0000.0000.0000.000
123A129ASN0-0.0070.00966.8690.0010.0010.0000.0000.0000.000
124A130GLU-1-0.858-0.90569.494-0.014-0.0140.0000.0000.0000.000
125A131LYS10.8420.91070.9160.0150.0150.0000.0000.0000.000
126A132MET0-0.0020.00473.1390.0000.0000.0000.0000.0000.000
127A133THR0-0.053-0.02474.2240.0010.0010.0000.0000.0000.000
128A134LEU0-0.045-0.01975.7210.0000.0000.0000.0000.0000.000
129A135VAL0-0.024-0.01977.3600.0000.0000.0000.0000.0000.000
130A136ALA0-0.037-0.01779.2710.0000.0000.0000.0000.0000.000
131A137SER0-0.072-0.01881.1440.0000.0000.0000.0000.0000.000
132A138GLU-1-0.824-0.92283.532-0.008-0.0080.0000.0000.0000.000
133A139ASP-1-0.871-0.92686.464-0.009-0.0090.0000.0000.0000.000
134A140TYR0-0.056-0.04385.9110.0000.0000.0000.0000.0000.000
135A141GLY00.0120.00289.5950.0000.0000.0000.0000.0000.000
136A142ASP-1-0.864-0.92591.558-0.009-0.0090.0000.0000.0000.000
137A143THR0-0.039-0.03694.5690.0000.0000.0000.0000.0000.000
138A144LEU00.0410.01294.3610.0000.0000.0000.0000.0000.000
139A145ALA0-0.024-0.00993.6860.0000.0000.0000.0000.0000.000
140A146ALA00.0180.01690.9110.0000.0000.0000.0000.0000.000
141A147ILE00.0290.02089.5600.0000.0000.0000.0000.0000.000
142A148GLN00.0090.00689.001-0.001-0.0010.0000.0000.0000.000
143A149GLY0-0.0100.00086.9700.0000.0000.0000.0000.0000.000
144A150LEU0-0.041-0.02285.124-0.001-0.0010.0000.0000.0000.000
145A151LEU0-0.0120.00584.2950.0000.0000.0000.0000.0000.000
146A152LYS10.8250.88583.5150.0130.0130.0000.0000.0000.000
147A153LYS10.9340.97280.7750.0120.0120.0000.0000.0000.000
148A154HIS0-0.031-0.00979.6160.0000.0000.0000.0000.0000.000
149A155GLU-1-0.840-0.90079.297-0.015-0.0150.0000.0000.0000.000
150A156ALA0-0.011-0.00177.116-0.001-0.0010.0000.0000.0000.000
151A157PHE00.0000.00273.967-0.001-0.0010.0000.0000.0000.000
152A158GLU-1-0.759-0.90374.530-0.014-0.0140.0000.0000.0000.000
153A159THR0-0.060-0.01373.186-0.001-0.0010.0000.0000.0000.000
154A160ASP-1-0.807-0.90269.447-0.018-0.0180.0000.0000.0000.000
155A161PHE0-0.010-0.02169.943-0.001-0.0010.0000.0000.0000.000
156A162THR0-0.027-0.02670.2080.0000.0000.0000.0000.0000.000
157A163VAL0-0.008-0.00365.366-0.001-0.0010.0000.0000.0000.000
158A164HIS10.7710.85765.3660.0180.0180.0000.0000.0000.000
159A165LYS10.8000.90265.9670.0150.0150.0000.0000.0000.000
160A166ASP-1-0.882-0.93764.500-0.022-0.0220.0000.0000.0000.000
161A167ARG10.8940.93961.7210.0210.0210.0000.0000.0000.000
162A168VAL00.0000.00261.3680.0000.0000.0000.0000.0000.000
163A169ASN0-0.0210.00262.3730.0010.0010.0000.0000.0000.000
164A170ASP-1-0.910-0.94257.661-0.026-0.0260.0000.0000.0000.000
165A171VAL00.000-0.01157.400-0.001-0.0010.0000.0000.0000.000
166A172CYS0-0.093-0.05757.5450.0010.0010.0000.0000.0000.000
167A173ALA00.0640.03757.4820.0000.0000.0000.0000.0000.000
168A174ASN0-0.024-0.01651.516-0.001-0.0010.0000.0000.0000.000
169A175GLY00.020-0.00353.2900.0000.0000.0000.0000.0000.000
170A176GLU-1-0.856-0.93954.594-0.016-0.0160.0000.0000.0000.000
171A177ASP-1-0.792-0.88651.556-0.026-0.0260.0000.0000.0000.000
172A178LEU0-0.071-0.03448.7490.0000.0000.0000.0000.0000.000
173A179ILE0-0.0050.01050.0190.0010.0010.0000.0000.0000.000
174A180LYS10.7850.87950.8360.0260.0260.0000.0000.0000.000
175A181LYS10.8110.91945.6090.0220.0220.0000.0000.0000.000
176A182ASN0-0.055-0.04545.0610.0010.0010.0000.0000.0000.000
177A183ASN00.010-0.00348.1850.0010.0010.0000.0000.0000.000
178A184HIS10.8410.90343.4050.0150.0150.0000.0000.0000.000
179A185HIS00.0720.04548.013-0.001-0.0010.0000.0000.0000.000
180A186VAL00.0580.04452.282-0.001-0.0010.0000.0000.0000.000
181A187GLU-1-0.882-0.93354.588-0.006-0.0060.0000.0000.0000.000
182A188ASN0-0.017-0.02154.5450.0000.0000.0000.0000.0000.000
183A189ILE00.0110.01752.0060.0000.0000.0000.0000.0000.000
184A190THR0-0.004-0.01956.688-0.001-0.0010.0000.0000.0000.000
185A191ALA0-0.053-0.02059.6810.0000.0000.0000.0000.0000.000
186A192LYS10.8670.91258.2960.0120.0120.0000.0000.0000.000
187A193MET0-0.0070.03558.113-0.001-0.0010.0000.0000.0000.000
188A194LYS10.9220.96461.8080.0070.0070.0000.0000.0000.000
189A195GLY00.0030.00064.5540.0000.0000.0000.0000.0000.000
190A196LEU00.0330.02061.8580.0000.0000.0000.0000.0000.000
191A197LYS10.8910.92462.4140.0150.0150.0000.0000.0000.000
192A198GLY0-0.0200.00367.3070.0000.0000.0000.0000.0000.000
193A199LYS10.8260.88066.6700.0110.0110.0000.0000.0000.000
194A200VAL00.0350.02567.9200.0000.0000.0000.0000.0000.000
195A201SER0-0.003-0.00770.7030.0000.0000.0000.0000.0000.000
196A202ASP-1-0.869-0.93873.462-0.008-0.0080.0000.0000.0000.000
197A203LEU00.0020.00872.0910.0000.0000.0000.0000.0000.000
198A204GLU-1-0.875-0.93273.812-0.014-0.0140.0000.0000.0000.000
199A205LYS10.8430.92676.5070.0080.0080.0000.0000.0000.000
200A206ALA0-0.019-0.01378.1380.0000.0000.0000.0000.0000.000
201A207ALA00.0230.00777.8950.0000.0000.0000.0000.0000.000
202A208ALA00.0030.00179.9440.0000.0000.0000.0000.0000.000
203A209GLN0-0.060-0.03982.4470.0000.0000.0000.0000.0000.000
204A210ARG10.8540.93181.9890.0100.0100.0000.0000.0000.000
205A211LYS10.8130.88283.2330.0120.0120.0000.0000.0000.000
206A212ALA00.0220.01585.1430.0000.0000.0000.0000.0000.000
207A213LYS10.9280.97787.8740.0080.0080.0000.0000.0000.000
208A214LEU0-0.0010.01985.3080.0000.0000.0000.0000.0000.000
209A215ASP-1-0.788-0.86688.414-0.011-0.0110.0000.0000.0000.000
210A216GLU-1-0.917-0.97791.137-0.008-0.0080.0000.0000.0000.000
211A217ASN0-0.066-0.04392.2490.0000.0000.0000.0000.0000.000
212A218SER0-0.076-0.05192.2770.0000.0000.0000.0000.0000.000
213A219ALA0-0.061-0.01194.9600.0000.0000.0000.0000.0000.000