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: 4LKNN

Calculation Name: 1L8R-A-Xray540

Preferred Name:

Target Type:

Ligand Name:

Ligand 3-letter code:

Ligand of Interest (LOI):

Structure Source: PDB

PDB ID: 1L8R

Chain ID: A

ChEMBL ID:

UniProt ID: Q9UI36

Base Structure: X-ray

Registration Date: 2025-07-08

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
Remarks
FMO calculation
FMO method FMO2-MP2/6-31G(d)
Fragmentation Auto
Number of fragment 191
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -754225.827607
FMO2-HF: Nuclear repulsion 713954.73905
FMO2-HF: Total energy -40271.088557
FMO2-MP2: Total energy -40384.555635


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:182:GLY)


Summations of interaction energy for fragment #1(A:182:GLY)
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.
-3.123-0.916-0.015-1.05-1.1420.005
Interaction energy analysis for fragmet #1(A:182:GLY)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.055 / q_NPA : 0.016
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].
3A183SER0-0.0620.0444.6580.4890.763-0.001-0.108-0.1650.000
4A184GLN00.169-0.0743.797-1.4770.074-0.009-0.881-0.6610.005
5A184GLN0-0.0610.1126.729-0.380-0.3800.0000.0000.0000.000
6A185ASN00.028-0.0816.5250.4400.4400.0000.0000.0000.000
7A185ASN0-0.0520.0936.897-0.425-0.4250.0000.0000.0000.000
8A186ASN00.009-0.1155.3070.7390.779-0.002-0.002-0.0360.000
9A186ASN0-0.0400.1244.0420.4240.509-0.001-0.014-0.0700.000
10A187GLU00.151-0.0986.4190.3300.3300.0000.0000.0000.000
11A187GLU-1-1.027-0.8324.125-4.334-4.155-0.001-0.042-0.1360.000
12A188CYS00.091-0.1147.2900.2610.2610.0000.0000.0000.000
13A188CYS0-0.1460.08210.7660.0960.0960.0000.0000.0000.000
14A189LYS00.040-0.09610.769-0.044-0.0440.0000.0000.0000.000
15A189LYS10.8781.06912.6250.8170.8170.0000.0000.0000.000
16A190MET00.076-0.11113.6800.0100.0100.0000.0000.0000.000
17A190MET0-0.0910.10915.2090.0280.0280.0000.0000.0000.000
18A191VAL0-0.003-0.12817.396-0.002-0.0020.0000.0000.0000.000
19A191VAL0-0.0480.11817.312-0.002-0.0020.0000.0000.0000.000
20A192ASP00.119-0.11719.8340.0170.0170.0000.0000.0000.000
21A192ASP-1-0.959-0.83524.261-0.251-0.2510.0000.0000.0000.000
22A193LEU00.103-0.10923.606-0.022-0.0220.0000.0000.0000.000
23A193LEU0-0.1290.11123.808-0.004-0.0040.0000.0000.0000.000
24A194ARG00.013-0.10525.5030.0090.0090.0000.0000.0000.000
25A194ARG10.8401.05028.6540.1750.1750.0000.0000.0000.000
26A195GLY00.057-0.07728.2790.0160.0160.0000.0000.0000.000
27A196ALA00.0840.01126.6390.0090.0090.0000.0000.0000.000
28A196ALA0-0.0580.11026.5200.0020.0020.0000.0000.0000.000
29A197LYS00.044-0.12122.634-0.019-0.0190.0000.0000.0000.000
30A197LYS10.8711.07821.0540.2920.2920.0000.0000.0000.000
31A198VAL0-0.001-0.12420.7880.0280.0280.0000.0000.0000.000
32A198VAL0-0.0630.10920.2830.0020.0020.0000.0000.0000.000
33A199ALA00.176-0.08716.711-0.035-0.0350.0000.0000.0000.000
34A199ALA0-0.0320.11115.6490.0050.0050.0000.0000.0000.000
35A200SER0-0.062-0.13415.2560.0680.0680.0000.0000.0000.000
36A200SER0-0.0610.04916.011-0.023-0.0230.0000.0000.0000.000
37A201PHE00.086-0.09411.957-0.080-0.0800.0000.0000.0000.000
38A201PHE0-0.0690.1099.3420.1220.1220.0000.0000.0000.000
39A202THR00.063-0.07511.5640.1720.1720.0000.0000.0000.000
40A202THR0-0.0280.09312.2430.0140.0140.0000.0000.0000.000
41A203VAL00.011-0.12911.353-0.292-0.2920.0000.0000.0000.000
42A203VAL0-0.0530.10611.6230.0060.0060.0000.0000.0000.000
43A204GLU00.007-0.15013.0180.0440.0440.0000.0000.0000.000
44A204GLU-1-0.970-0.82215.161-0.433-0.4330.0000.0000.0000.000
45A205GLY00.016-0.08714.2430.0760.0760.0000.0000.0000.000
46A206CYS00.105-0.00616.0740.0400.0400.0000.0000.0000.000
47A206CYS0-0.1100.10617.9900.0230.0230.0000.0000.0000.000
48A207GLU00.141-0.11416.041-0.084-0.0840.0000.0000.0000.000
49A207GLU-1-0.999-0.84016.575-0.586-0.5860.0000.0000.0000.000
50A208LEU00.027-0.15816.0370.0890.0890.0000.0000.0000.000
51A208LEU0-0.1030.12715.5960.0120.0120.0000.0000.0000.000
52A209ILE00.034-0.06816.662-0.078-0.0780.0000.0000.0000.000
53A209ILE0-0.0290.11219.2760.0050.0050.0000.0000.0000.000
54A210CYS00.171-0.11718.5770.0180.0180.0000.0000.0000.000
55A210CYS0-0.1630.14217.8220.0160.0160.0000.0000.0000.000
56A211LEU00.101-0.09619.1520.0180.0180.0000.0000.0000.000
57A211LEU0-0.1180.08222.0430.0030.0030.0000.0000.0000.000
58A212PRO0-0.016-0.13520.8730.0170.0170.0000.0000.0000.000
59A213GLN00.2110.06322.1440.0240.0240.0000.0000.0000.000
60A213GLN0-0.0230.11920.320-0.038-0.0380.0000.0000.0000.000
61A214ALA00.108-0.09323.3490.0160.0160.0000.0000.0000.000
62A214ALA0-0.0550.10223.834-0.003-0.0030.0000.0000.0000.000
63A215PHE00.057-0.09625.1830.0090.0090.0000.0000.0000.000
64A215PHE0-0.1260.06226.6530.0020.0020.0000.0000.0000.000
65A216ASP00.077-0.14726.8510.0110.0110.0000.0000.0000.000
66A216ASP-1-0.943-0.81226.184-0.130-0.1300.0000.0000.0000.000
67A217LEU00.018-0.11527.5640.0170.0170.0000.0000.0000.000
68A217LEU0-0.0760.10425.035-0.003-0.0030.0000.0000.0000.000
69A218PHE00.004-0.09429.0320.0090.0090.0000.0000.0000.000
70A218PHE0-0.0880.08726.886-0.003-0.0030.0000.0000.0000.000
71A219LEU00.122-0.08530.7690.0060.0060.0000.0000.0000.000
72A219LEU0-0.0780.08129.913-0.001-0.0010.0000.0000.0000.000
73A220LYS00.101-0.08832.0830.0060.0060.0000.0000.0000.000
74A220LYS10.8031.02929.4770.1050.1050.0000.0000.0000.000
75A221HIS00.031-0.08733.0400.0060.0060.0000.0000.0000.000
76A221HIS0-0.0030.09336.649-0.002-0.0020.0000.0000.0000.000
77A222LEU00.039-0.13136.2190.0070.0070.0000.0000.0000.000
78A222LEU0-0.0660.11435.259-0.001-0.0010.0000.0000.0000.000
79A223VAL00.044-0.08935.1480.0020.0020.0000.0000.0000.000
80A223VAL0-0.1070.08833.016-0.001-0.0010.0000.0000.0000.000
81A224GLY00.041-0.05434.8820.0050.0050.0000.0000.0000.000
82A225GLY00.018-0.00132.9780.0050.0050.0000.0000.0000.000
83A226LEU00.140-0.02328.532-0.005-0.0050.0000.0000.0000.000
84A226LEU0-0.0870.12425.1020.0000.0000.0000.0000.0000.000
85A227HIS00.067-0.10129.534-0.010-0.0100.0000.0000.0000.000
86A227HIS0-0.0590.10732.212-0.002-0.0020.0000.0000.0000.000
87A228THR00.042-0.08131.551-0.001-0.0010.0000.0000.0000.000
88A228THR00.0300.09734.1060.0020.0020.0000.0000.0000.000
89A229VAL00.084-0.08029.5100.0020.0020.0000.0000.0000.000
90A229VAL0-0.0460.10827.778-0.002-0.0020.0000.0000.0000.000
91A230TYR00.069-0.07528.529-0.010-0.0100.0000.0000.0000.000
92A230TYR0-0.0560.07023.8220.0040.0040.0000.0000.0000.000
93A231THR00.021-0.08729.344-0.005-0.0050.0000.0000.0000.000
94A231THR0-0.0560.06433.5100.0040.0040.0000.0000.0000.000
95A232LYS00.057-0.08932.7740.0030.0030.0000.0000.0000.000
96A232LYS10.8611.06332.4270.1040.1040.0000.0000.0000.000
97A233LEU00.089-0.09328.5140.0000.0000.0000.0000.0000.000
98A233LEU0-0.1440.07925.639-0.002-0.0020.0000.0000.0000.000
99A234LYS00.123-0.04729.862-0.008-0.0080.0000.0000.0000.000
100A234LYS10.8221.01629.8550.0970.0970.0000.0000.0000.000
101A235ARG00.189-0.02731.065-0.002-0.0020.0000.0000.0000.000
102A235ARG10.7611.01334.9940.1080.1080.0000.0000.0000.000
103A236LEU0-0.042-0.12632.0690.0070.0070.0000.0000.0000.000
104A236LEU0-0.0950.06731.213-0.001-0.0010.0000.0000.0000.000
105A237GLU00.112-0.09330.714-0.008-0.0080.0000.0000.0000.000
106A237GLU-1-1.014-0.84030.988-0.128-0.1280.0000.0000.0000.000
107A238ILE00.087-0.10727.001-0.011-0.0110.0000.0000.0000.000
108A238ILE0-0.1160.09025.387-0.002-0.0020.0000.0000.0000.000
109A239THR0-0.020-0.13724.6690.0120.0120.0000.0000.0000.000
110A239THR0-0.0010.11322.8790.0070.0070.0000.0000.0000.000
111A240PRO0-0.089-0.14821.780-0.021-0.0210.0000.0000.0000.000
112A241VAL00.1030.00817.2210.0410.0410.0000.0000.0000.000
113A241VAL0-0.0350.13115.117-0.009-0.0090.0000.0000.0000.000
114A242VAL00.054-0.13817.235-0.006-0.0060.0000.0000.0000.000
115A242VAL0-0.1030.10416.5280.0090.0090.0000.0000.0000.000
116A243CYS00.069-0.12313.732-0.042-0.0420.0000.0000.0000.000
117A243CYS0-0.1270.10513.9720.0090.0090.0000.0000.0000.000
118A244ASN00.094-0.02710.8840.0790.0790.0000.0000.0000.000
119A244ASN0-0.0630.0598.4020.1040.1040.0000.0000.0000.000
120A245VAL00.105-0.12012.033-0.064-0.0640.0000.0000.0000.000
121A245VAL0-0.0540.11111.5360.0120.0120.0000.0000.0000.000
122A246GLU00.095-0.1577.7870.0690.0690.0000.0000.0000.000
123A246GLU-1-0.951-0.7945.061-0.362-0.284-0.001-0.003-0.0740.000
124A247GLN00.120-0.0929.295-0.031-0.0310.0000.0000.0000.000
125A247GLN0-0.0990.0959.1430.1990.1990.0000.0000.0000.000
126A248VAL00.068-0.10310.864-0.017-0.0170.0000.0000.0000.000
127A248VAL0-0.1110.09614.3580.0060.0060.0000.0000.0000.000
128A249ARG00.071-0.07912.779-0.014-0.0140.0000.0000.0000.000
129A249ARG10.8781.05411.779-0.328-0.3280.0000.0000.0000.000
130A250ILE00.065-0.09611.4490.0940.0940.0000.0000.0000.000
131A250ILE0-0.0240.1278.0550.0010.0010.0000.0000.0000.000
132A251LEU00.123-0.07812.6140.0050.0050.0000.0000.0000.000
133A251LEU0-0.0990.07614.0400.0040.0040.0000.0000.0000.000
134A252ARG00.060-0.11115.6310.0010.0010.0000.0000.0000.000
135A252ARG10.7630.99816.935-0.010-0.0100.0000.0000.0000.000
136A253GLY0-0.073-0.11015.7970.0200.0200.0000.0000.0000.000
137A254LEU00.000-0.04116.3040.0280.0280.0000.0000.0000.000
138A254LEU0-0.0230.11813.825-0.012-0.0120.0000.0000.0000.000
139A255GLY0-0.009-0.08217.396-0.001-0.0010.0000.0000.0000.000
140A256ALA00.070-0.00418.9490.0170.0170.0000.0000.0000.000
141A256ALA0-0.0790.09518.199-0.012-0.0120.0000.0000.0000.000
142A257ILE00.027-0.10219.890-0.001-0.0010.0000.0000.0000.000
143A257ILE0-0.1030.07917.3660.0030.0030.0000.0000.0000.000
144A258GLN00.099-0.10421.1970.0050.0050.0000.0000.0000.000
145A258GLN0-0.0610.11624.8060.0140.0140.0000.0000.0000.000
146A259PRO00.064-0.08721.6740.0000.0000.0000.0000.0000.000
147A260GLY00.0190.01122.0560.0150.0150.0000.0000.0000.000
148A261VAL00.021-0.03521.8830.0130.0130.0000.0000.0000.000
149A261VAL0-0.0710.14120.379-0.002-0.0020.0000.0000.0000.000
150A262ASN00.086-0.08819.073-0.002-0.0020.0000.0000.0000.000
151A262ASN0-0.0720.09219.8720.0120.0120.0000.0000.0000.000
152A263ARG00.118-0.08318.4530.0100.0100.0000.0000.0000.000
153A263ARG10.8961.06020.3100.0550.0550.0000.0000.0000.000
154A264CYS00.091-0.12618.0740.0160.0160.0000.0000.0000.000
155A264CYS0-0.0760.14717.0060.0010.0010.0000.0000.0000.000
156A265LYS00.075-0.07417.797-0.011-0.0110.0000.0000.0000.000
157A265LYS10.8511.05620.3190.1590.1590.0000.0000.0000.000
158A266LEU00.050-0.12917.1460.0250.0250.0000.0000.0000.000
159A266LEU00.0000.13013.853-0.009-0.0090.0000.0000.0000.000
160A267ILE00.025-0.08318.5930.0030.0030.0000.0000.0000.000
161A267ILE0-0.0280.11922.1930.0070.0070.0000.0000.0000.000
162A268SER00.174-0.04220.777-0.025-0.0250.0000.0000.0000.000
163A268SER0-0.0050.10221.4900.0100.0100.0000.0000.0000.000
164A269ARG00.100-0.09721.7410.0300.0300.0000.0000.0000.000
165A269ARG10.8371.05321.9290.3940.3940.0000.0000.0000.000
166A270LYS00.124-0.07924.0010.0240.0240.0000.0000.0000.000
167A270LYS10.9011.08626.0870.2330.2330.0000.0000.0000.000
168A271ASP00.096-0.11325.2300.0250.0250.0000.0000.0000.000
169A271ASP-1-0.959-0.82924.544-0.267-0.2670.0000.0000.0000.000
170A272PHE00.122-0.09825.5130.0240.0240.0000.0000.0000.000
171A272PHE0-0.0740.09724.919-0.003-0.0030.0000.0000.0000.000
172A273GLU00.050-0.09426.7790.0180.0180.0000.0000.0000.000
173A273GLU-1-0.939-0.83528.138-0.212-0.2120.0000.0000.0000.000
174A274THR00.003-0.08529.5060.0170.0170.0000.0000.0000.000
175A274THR0-0.0300.06429.8530.0020.0020.0000.0000.0000.000
176A275LEU00.132-0.08429.5970.0160.0160.0000.0000.0000.000
177A275LEU0-0.1490.08727.9560.0000.0000.0000.0000.0000.000
178A276TYR00.098-0.09130.6410.0150.0150.0000.0000.0000.000
179A276TYR0-0.1110.08830.704-0.001-0.0010.0000.0000.0000.000
180A277ASN00.076-0.08432.2670.0110.0110.0000.0000.0000.000
181A277ASN0-0.0910.06633.8860.0010.0010.0000.0000.0000.000
182A278ASP00.071-0.07734.3180.0090.0090.0000.0000.0000.000
183A278ASP-1-0.902-0.83134.193-0.118-0.1180.0000.0000.0000.000
184A279CYS0-0.024-0.17034.8650.0100.0100.0000.0000.0000.000
185A279CYS0-0.1670.06333.2480.0010.0010.0000.0000.0000.000
186A280THR0-0.007-0.10136.0980.0080.0080.0000.0000.0000.000
187A280THR0-0.0750.06035.9530.0000.0000.0000.0000.0000.000
188A281ASN00.074-0.02438.2990.0070.0070.0000.0000.0000.000
189A281ASN0-0.1310.04439.2430.0040.0040.0000.0000.0000.000
190A282ALA0-0.025-0.12339.554-0.001-0.0010.0000.0000.0000.000
191A282ALA00.0450.04539.1170.0010.0010.0000.0000.0000.000