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

tag_button

FMODB ID: MNJJZ

Calculation Name: 3L7N-A-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 3L7N

Chain ID: A

ChEMBL ID:

UniProt ID: Q8DTU5

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 OptHSide
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 234
LigandResidueName
LigandFragmentNumber 0
LigandCharge CYM=-1
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -3061278.421953
FMO2-HF: Nuclear repulsion 2967720.49836
FMO2-HF: Total energy -93557.923592
FMO2-MP2: Total energy -93826.949619


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:1:MET)


Summations of interaction energy for fragment #1(A:1: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.
-8.709-0.1254.588-5.777-7.393-0.029
Interaction energy analysis for fragmet #1(A:1:MET)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.049 / q_NPA : 0.026
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].
3A3ILE00.0170.0143.279-0.7491.0340.018-0.763-1.0380.002
4A4HIS00.0070.0005.4300.7660.7660.0000.0000.0000.000
5A5PHE00.013-0.0058.9140.1220.1220.0000.0000.0000.000
6A6ILE0-0.013-0.01111.9150.0630.0630.0000.0000.0000.000
7A7LEU00.002-0.00915.1740.0260.0260.0000.0000.0000.000
8A8HIS10.7750.83918.0230.3160.3160.0000.0000.0000.000
9A9GLU-1-0.765-0.90421.537-0.152-0.1520.0000.0000.0000.000
10A10THR0-0.137-0.05821.888-0.017-0.0170.0000.0000.0000.000
11A11PHE00.0730.02122.925-0.008-0.0080.0000.0000.0000.000
12A12GLU-1-0.855-0.91520.908-0.200-0.2000.0000.0000.0000.000
13A13ALA0-0.047-0.02118.872-0.038-0.0380.0000.0000.0000.000
14A14PRO00.013-0.01013.5010.0040.0040.0000.0000.0000.000
15A15GLY00.0380.01214.871-0.010-0.0100.0000.0000.0000.000
16A16ALA00.0340.00914.919-0.032-0.0320.0000.0000.0000.000
17A17TYR00.0770.03710.744-0.010-0.0100.0000.0000.0000.000
18A18LEU0-0.037-0.01010.158-0.107-0.1070.0000.0000.0000.000
19A19ALA00.0100.00510.924-0.006-0.0060.0000.0000.0000.000
20A20TRP0-0.007-0.0175.338-0.046-0.0460.0000.0000.0000.000
21A21ALA00.002-0.0076.9780.0570.0570.0000.0000.0000.000
22A22ALA0-0.036-0.0117.0330.1310.1310.0000.0000.0000.000
23A23LEU0-0.052-0.0379.3730.1570.1570.0000.0000.0000.000
24A24ARG10.7410.8345.9900.0070.0070.0000.0000.0000.000
25A25GLY0-0.0110.0115.1350.0660.187-0.001-0.005-0.1150.000
26A26HIS0-0.026-0.0072.422-2.1770.7004.102-3.004-3.975-0.023
27A27ASP-1-0.958-0.9893.595-1.807-0.5890.005-0.590-0.6330.002
28A28VAL00.0080.0015.660-0.702-0.7020.0000.0000.0000.000
29A29SER00.0000.0128.2260.3500.3500.0000.0000.0000.000
30A30MET0-0.032-0.03110.984-0.008-0.0080.0000.0000.0000.000
31A31THR0-0.0100.00213.8030.0670.0670.0000.0000.0000.000
32A32LYS10.9290.96116.8310.3260.3260.0000.0000.0000.000
33A33VAL00.0340.02019.6790.0330.0330.0000.0000.0000.000
34A34TYR00.0670.03420.5690.0240.0240.0000.0000.0000.000
35A35ARG10.8120.91722.2390.2170.2170.0000.0000.0000.000
36A36TYR0-0.049-0.02725.0570.0070.0070.0000.0000.0000.000
37A37GLU-1-0.855-0.91819.746-0.291-0.2910.0000.0000.0000.000
38A38LYS10.8700.91921.5210.1970.1970.0000.0000.0000.000
39A39LEU00.0670.04017.542-0.024-0.0240.0000.0000.0000.000
40A40PRO00.0180.03313.5860.0510.0510.0000.0000.0000.000
41A41LYS10.9520.96416.3050.2920.2920.0000.0000.0000.000
42A42ASP-1-0.909-0.94715.158-0.281-0.2810.0000.0000.0000.000
43A43ILE0-0.045-0.02311.935-0.073-0.0730.0000.0000.0000.000
44A44ASP-1-0.894-0.96110.399-0.529-0.5290.0000.0000.0000.000
45A45ASP-1-0.915-0.9499.771-0.610-0.6100.0000.0000.0000.000
46A46PHE0-0.045-0.0206.475-0.107-0.1070.0000.0000.0000.000
47A47ASP-1-0.809-0.8842.504-5.767-3.3750.465-1.404-1.452-0.010
48A48MET0-0.033-0.0084.5580.5160.709-0.001-0.011-0.1800.000
49A49LEU0-0.0310.0026.006-0.167-0.1670.0000.0000.0000.000
50A50ILE00.0080.0027.5630.1540.1540.0000.0000.0000.000
51A51LEU0-0.028-0.01611.0480.0050.0050.0000.0000.0000.000
52A52MET00.0410.02013.4630.0430.0430.0000.0000.0000.000
53A53GLY00.0600.04016.9400.0120.0120.0000.0000.0000.000
54A54GLY0-0.016-0.02820.684-0.021-0.0210.0000.0000.0000.000
55A55PRO00.0200.02823.6450.0080.0080.0000.0000.0000.000
56A56GLN0-0.041-0.00624.9490.0020.0020.0000.0000.0000.000
57A57SER00.1510.07626.748-0.006-0.0060.0000.0000.0000.000
58A58PRO0-0.048-0.02024.893-0.007-0.0070.0000.0000.0000.000
59A59SER0-0.005-0.00926.6230.0010.0010.0000.0000.0000.000
60A60SER0-0.0330.00328.9260.0050.0050.0000.0000.0000.000
61A61THR0-0.053-0.02530.116-0.008-0.0080.0000.0000.0000.000
62A62LYS10.8430.89128.1080.1570.1570.0000.0000.0000.000
63A63LYS10.8980.94832.2040.0900.0900.0000.0000.0000.000
64A64GLU-1-0.751-0.86832.704-0.113-0.1130.0000.0000.0000.000
65A65PHE00.0490.03228.805-0.003-0.0030.0000.0000.0000.000
66A66PRO0-0.012-0.00729.764-0.009-0.0090.0000.0000.0000.000
67A67TYR0-0.084-0.02925.3240.0000.0000.0000.0000.0000.000
68A68TYR0-0.053-0.03623.281-0.023-0.0230.0000.0000.0000.000
69A69ASP-1-0.815-0.91324.620-0.165-0.1650.0000.0000.0000.000
70A70ALA00.1040.06323.881-0.018-0.0180.0000.0000.0000.000
71A71GLN00.0420.01823.675-0.012-0.0120.0000.0000.0000.000
72A72ALA0-0.041-0.01322.257-0.007-0.0070.0000.0000.0000.000
73A73GLU-1-0.764-0.87619.389-0.339-0.3390.0000.0000.0000.000
74A74VAL00.0050.00618.911-0.029-0.0290.0000.0000.0000.000
75A75LYS10.8890.93620.0330.1600.1600.0000.0000.0000.000
76A76LEU00.0060.01614.265-0.001-0.0010.0000.0000.0000.000
77A77ILE00.0510.01815.476-0.039-0.0390.0000.0000.0000.000
78A78GLN0-0.044-0.02315.998-0.004-0.0040.0000.0000.0000.000
79A79LYS10.7830.88916.2600.3300.3300.0000.0000.0000.000
80A80ALA00.0480.01511.8930.0010.0010.0000.0000.0000.000
81A81ALA00.0370.01212.9830.0070.0070.0000.0000.0000.000
82A82LYS10.8730.95314.9350.2460.2460.0000.0000.0000.000
83A83SER0-0.059-0.04012.6930.0310.0310.0000.0000.0000.000
84A84GLU-1-0.977-0.98112.068-0.072-0.0720.0000.0000.0000.000
85A85LYS10.8320.9268.0180.8820.8820.0000.0000.0000.000
86A86ILE00.0440.0375.5180.1190.1190.0000.0000.0000.000
87A87ILE0-0.043-0.0268.615-0.205-0.2050.0000.0000.0000.000
88A88VAL00.0290.00910.1090.0890.0890.0000.0000.0000.000
89A89GLY00.0120.01112.415-0.057-0.0570.0000.0000.0000.000
90A90VAL0-0.011-0.01515.2760.0310.0310.0000.0000.0000.000
91A91CYM-1-0.768-0.84917.943-0.177-0.1770.0000.0000.0000.000
92A92LEU00.0240.03821.670-0.007-0.0070.0000.0000.0000.000
93A93GLY00.013-0.00317.936-0.003-0.0030.0000.0000.0000.000
94A94ALA0-0.043-0.03618.661-0.010-0.0100.0000.0000.0000.000
95A95GLN0-0.039-0.04219.8250.0140.0140.0000.0000.0000.000
96A96LEU0-0.020-0.00320.0720.0120.0120.0000.0000.0000.000
97A97MET0-0.0100.01315.100-0.005-0.0050.0000.0000.0000.000
98A98GLY00.0380.01519.7030.0150.0150.0000.0000.0000.000
99A99VAL0-0.019-0.00523.1020.0090.0090.0000.0000.0000.000
100A100ALA0-0.057-0.01420.1260.0080.0080.0000.0000.0000.000
101A101TYR0-0.017-0.01016.8650.0010.0010.0000.0000.0000.000
102A102GLY0-0.031-0.01222.8140.0170.0170.0000.0000.0000.000
103A103ALA0-0.046-0.01726.0090.0110.0110.0000.0000.0000.000
104A104ASP-1-0.867-0.93926.925-0.130-0.1300.0000.0000.0000.000
105A105TYR0-0.078-0.04427.0750.0040.0040.0000.0000.0000.000
106A106LEU0-0.013-0.01528.7240.0080.0080.0000.0000.0000.000
107A107HIS0-0.021-0.02430.427-0.002-0.0020.0000.0000.0000.000
108A108SER0-0.038-0.03830.6640.0010.0010.0000.0000.0000.000
109A109PRO0-0.036-0.02232.3870.0030.0030.0000.0000.0000.000
110A110LYS10.8480.90834.2160.0590.0590.0000.0000.0000.000
111A111LYS10.8710.95032.4200.0790.0790.0000.0000.0000.000
112A112GLU-1-0.771-0.83829.311-0.080-0.0800.0000.0000.0000.000
113A113ILE0-0.002-0.00629.635-0.009-0.0090.0000.0000.0000.000
114A114GLY00.0600.02829.0160.0070.0070.0000.0000.0000.000
115A115ASN0-0.055-0.05326.962-0.013-0.0130.0000.0000.0000.000
116A116TYR00.0450.01928.2570.0080.0080.0000.0000.0000.000
117A117LEU0-0.011-0.00527.903-0.004-0.0040.0000.0000.0000.000
118A118ILE0-0.058-0.01722.673-0.005-0.0050.0000.0000.0000.000
119A119SER00.011-0.04527.2740.0040.0040.0000.0000.0000.000
120A120LEU0-0.072-0.02622.762-0.006-0.0060.0000.0000.0000.000
121A121THR0-0.030-0.01826.1780.0040.0040.0000.0000.0000.000
122A122GLU-1-0.884-0.96227.139-0.016-0.0160.0000.0000.0000.000
123A123ALA0-0.014-0.00724.9540.0040.0040.0000.0000.0000.000
124A124GLY00.025-0.00722.8220.0020.0020.0000.0000.0000.000
125A125LYS10.8170.91822.9580.0220.0220.0000.0000.0000.000
126A126MET0-0.043-0.01824.4180.0090.0090.0000.0000.0000.000
127A127ASP-1-0.801-0.87217.684-0.018-0.0180.0000.0000.0000.000
128A128SER00.0390.01217.4120.0020.0020.0000.0000.0000.000
129A129TYR0-0.017-0.00213.0000.0130.0130.0000.0000.0000.000
130A130LEU00.0220.00115.847-0.016-0.0160.0000.0000.0000.000
131A131SER0-0.034-0.01618.751-0.001-0.0010.0000.0000.0000.000
132A132ASP-1-0.856-0.89717.5020.0400.0400.0000.0000.0000.000
133A133PHE0-0.042-0.01917.250-0.011-0.0110.0000.0000.0000.000
134A134SER0-0.007-0.01122.1470.0050.0050.0000.0000.0000.000
135A135ASP-1-0.835-0.91525.547-0.023-0.0230.0000.0000.0000.000
136A136ASP-1-0.858-0.88827.799-0.041-0.0410.0000.0000.0000.000
137A137LEU0-0.038-0.01321.9130.0040.0040.0000.0000.0000.000
138A138LEU00.0240.01326.441-0.004-0.0040.0000.0000.0000.000
139A139VAL0-0.020-0.02422.348-0.004-0.0040.0000.0000.0000.000
140A140GLY00.0850.03923.3360.0060.0060.0000.0000.0000.000
141A141HIS0-0.093-0.03624.314-0.015-0.0150.0000.0000.0000.000
142A142TRP00.038-0.01825.9310.0030.0030.0000.0000.0000.000
143A143HIS10.7930.88026.3450.1030.1030.0000.0000.0000.000
144A144GLY00.0620.02028.3650.0090.0090.0000.0000.0000.000
145A145ASP-1-0.820-0.88528.559-0.104-0.1040.0000.0000.0000.000
146A146MET0-0.045-0.00726.476-0.001-0.0010.0000.0000.0000.000
147A147PRO00.0600.03423.1180.0010.0010.0000.0000.0000.000
148A148GLY00.0320.02225.5970.0130.0130.0000.0000.0000.000
149A149LEU0-0.050-0.03125.065-0.008-0.0080.0000.0000.0000.000
150A150PRO0-0.0150.00024.2700.0080.0080.0000.0000.0000.000
151A151ASP-1-0.863-0.94026.697-0.070-0.0700.0000.0000.0000.000
152A152LYS10.8280.90923.6300.1160.1160.0000.0000.0000.000
153A153ALA0-0.056-0.01022.873-0.001-0.0010.0000.0000.0000.000
154A154GLN0-0.008-0.00422.7070.0130.0130.0000.0000.0000.000
155A155VAL00.0540.02322.987-0.011-0.0110.0000.0000.0000.000
156A156LEU0-0.060-0.03419.2760.0100.0100.0000.0000.0000.000
157A157ALA00.0520.02423.4430.0070.0070.0000.0000.0000.000
158A158ILE0-0.0300.00925.160-0.009-0.0090.0000.0000.0000.000
159A159SER00.051-0.01128.0490.0010.0010.0000.0000.0000.000
160A160GLN0-0.014-0.01829.8410.0010.0010.0000.0000.0000.000
161A161GLY00.0130.02032.4190.0020.0020.0000.0000.0000.000
162A162CYS0-0.050-0.01028.838-0.005-0.0050.0000.0000.0000.000
163A163PRO00.0330.01729.5650.0000.0000.0000.0000.0000.000
164A164ARG10.8740.90825.8060.0950.0950.0000.0000.0000.000
165A165GLN0-0.004-0.00324.051-0.020-0.0200.0000.0000.0000.000
166A166ILE00.0450.02918.627-0.016-0.0160.0000.0000.0000.000
167A167ILE0-0.035-0.01319.7940.0170.0170.0000.0000.0000.000
168A168LYS10.8400.93316.7000.0160.0160.0000.0000.0000.000
169A169PHE00.021-0.00518.0010.0160.0160.0000.0000.0000.000
170A170GLY00.0070.00616.9440.0060.0060.0000.0000.0000.000
171A171PRO0-0.025-0.01014.9450.0020.0020.0000.0000.0000.000
172A172LYS10.8990.9219.145-0.313-0.3130.0000.0000.0000.000
173A173GLN00.0020.00211.420-0.025-0.0250.0000.0000.0000.000
174A174TYR0-0.032-0.04013.4990.0440.0440.0000.0000.0000.000
175A175ALA0-0.004-0.00615.075-0.047-0.0470.0000.0000.0000.000
176A176PHE00.0070.01214.6010.0260.0260.0000.0000.0000.000
177A177GLN0-0.008-0.04418.928-0.019-0.0190.0000.0000.0000.000
178A178CYS0-0.0070.02421.835-0.001-0.0010.0000.0000.0000.000
179A179HIS10.7860.86319.8510.1720.1720.0000.0000.0000.000
180A180LEU00.0310.01017.7680.0150.0150.0000.0000.0000.000
181A181GLU-1-0.828-0.90616.092-0.204-0.2040.0000.0000.0000.000
182A182PHE00.0360.01017.804-0.004-0.0040.0000.0000.0000.000
183A183THR00.0250.00420.0690.0010.0010.0000.0000.0000.000
184A184PRO00.0700.03322.838-0.005-0.0050.0000.0000.0000.000
185A185GLU-1-0.849-0.91924.000-0.096-0.0960.0000.0000.0000.000
186A186LEU0-0.048-0.02019.262-0.008-0.0080.0000.0000.0000.000
187A187VAL00.0130.01223.875-0.001-0.0010.0000.0000.0000.000
188A188ALA00.0120.00926.7240.0030.0030.0000.0000.0000.000
189A189ALA0-0.047-0.02525.8390.0030.0030.0000.0000.0000.000
190A190LEU0-0.020-0.00624.2540.0010.0010.0000.0000.0000.000
191A191ILE0-0.021-0.02128.2680.0050.0050.0000.0000.0000.000
192A192ALA0-0.080-0.02031.1720.0040.0040.0000.0000.0000.000
193A193GLN0-0.057-0.03429.723-0.002-0.0020.0000.0000.0000.000
194A194GLU-1-0.885-0.92331.962-0.095-0.0950.0000.0000.0000.000
195A195ASP-1-0.901-0.95333.722-0.074-0.0740.0000.0000.0000.000
196A196ASP-1-0.905-0.93437.292-0.055-0.0550.0000.0000.0000.000
197A197LEU00.0610.02833.742-0.001-0.0010.0000.0000.0000.000
198A198ASP-1-0.939-0.97837.314-0.047-0.0470.0000.0000.0000.000
199A199THR0-0.021-0.03740.7100.0010.0010.0000.0000.0000.000
200A200GLN0-0.098-0.05835.8120.0000.0000.0000.0000.0000.000
201A201SER00.0080.00037.8290.0010.0010.0000.0000.0000.000
202A202GLN0-0.060-0.01439.5280.0020.0020.0000.0000.0000.000
203A203THR0-0.086-0.04442.4970.0000.0000.0000.0000.0000.000
204A204GLU-1-0.824-0.87837.261-0.060-0.0600.0000.0000.0000.000
205A205THR0-0.064-0.03338.1070.0010.0010.0000.0000.0000.000
206A206TYR0-0.042-0.03833.6490.0030.0030.0000.0000.0000.000
207A207VAL00.0470.02933.632-0.006-0.0060.0000.0000.0000.000
208A208GLN00.0210.03332.1630.0010.0010.0000.0000.0000.000
209A209THR00.055-0.00735.317-0.002-0.0020.0000.0000.0000.000
210A210ALA00.001-0.01934.187-0.002-0.0020.0000.0000.0000.000
211A211GLU-1-0.934-0.96534.042-0.043-0.0430.0000.0000.0000.000
212A212GLU-1-0.841-0.88234.559-0.050-0.0500.0000.0000.0000.000
213A213MET0-0.0160.01130.045-0.003-0.0030.0000.0000.0000.000
214A214GLN0-0.042-0.00229.176-0.005-0.0050.0000.0000.0000.000
215A215THR0-0.083-0.05930.9470.0010.0010.0000.0000.0000.000
216A216PHE0-0.0310.00126.6900.0050.0050.0000.0000.0000.000
217A217ASP-1-0.809-0.88626.503-0.047-0.0470.0000.0000.0000.000
218A218TYR0-0.062-0.06822.888-0.003-0.0030.0000.0000.0000.000
219A219SER0-0.027-0.03222.025-0.007-0.0070.0000.0000.0000.000
220A220SER0-0.012-0.01021.4130.0050.0050.0000.0000.0000.000
221A221MET0-0.0140.02721.077-0.004-0.0040.0000.0000.0000.000
222A222ASN0-0.032-0.01917.649-0.001-0.0010.0000.0000.0000.000
223A223GLN00.0240.02216.378-0.008-0.0080.0000.0000.0000.000
224A224ALA00.0420.01917.2000.0100.0100.0000.0000.0000.000
225A225LEU0-0.0070.00313.4120.0100.0100.0000.0000.0000.000
226A226TYR0-0.047-0.03012.558-0.012-0.0120.0000.0000.0000.000
227A227SER0-0.050-0.02612.4170.0260.0260.0000.0000.0000.000
228A228PHE00.0550.02312.1720.0270.0270.0000.0000.0000.000
229A229LEU0-0.044-0.0168.6110.0180.0180.0000.0000.0000.000
230A230ASP-1-0.738-0.8258.5450.1840.1840.0000.0000.0000.000
231A231ARG10.8250.8909.3930.0470.0470.0000.0000.0000.000
232A232LEU0-0.073-0.0208.7620.0440.0440.0000.0000.0000.000
233A233THR0-0.100-0.0825.0170.0390.0390.0000.0000.0000.000
234A234GLU-1-0.999-0.9646.6380.7650.7650.0000.0000.0000.000