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: KGJ73

Calculation Name: 4HL6-A-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 4HL6

Chain ID: A

ChEMBL ID:

UniProt ID: P76518

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:


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 375
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -5533534.700537
FMO2-HF: Nuclear repulsion 5387567.825895
FMO2-HF: Total energy -145966.874641
FMO2-MP2: Total energy -146385.079781


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:LYS)


Summations of interaction energy for fragment #1(A:7:LYS)
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.
-263.261-266.19937.555-19.477-15.139-0.206
Interaction energy analysis for fragmet #1(A:7:LYS)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 1 / q_Mulliken : 0.807 / q_NPA : 0.863
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].
3A9PRO0-0.011-0.0063.869-4.197-1.826-0.027-1.381-0.9620.002
4A10PHE0-0.001-0.0056.4822.9182.9180.0000.0000.0000.000
5A11GLU-1-0.796-0.8631.700-172.304-179.27037.072-17.481-12.626-0.207
6A12GLY0-0.022-0.0085.2362.3642.443-0.001-0.003-0.0740.000
7A13LEU0-0.0400.0007.7463.5173.5170.0000.0000.0000.000
8A14LEU0-0.014-0.00310.362-1.910-1.9100.0000.0000.0000.000
9A15VAL0-0.026-0.02312.6381.7751.7750.0000.0000.0000.000
10A16ILE00.0350.01814.920-0.246-0.2460.0000.0000.0000.000
11A17ASP-1-0.726-0.83717.065-15.761-15.7610.0000.0000.0000.000
12A18MET00.0030.00919.0560.2570.2570.0000.0000.0000.000
13A19THR0-0.100-0.06020.1750.6760.6760.0000.0000.0000.000
14A20HIS0-0.062-0.04522.6870.0330.0330.0000.0000.0000.000
15A21VAL00.003-0.00824.8900.1720.1720.0000.0000.0000.000
16A22LEU00.0160.00722.408-0.439-0.4390.0000.0000.0000.000
17A23ASN0-0.040-0.00922.517-0.524-0.5240.0000.0000.0000.000
18A24GLY00.0220.01722.120-0.319-0.3190.0000.0000.0000.000
19A25PRO0-0.0070.01019.311-0.749-0.7490.0000.0000.0000.000
20A26PHE00.0510.02117.644-1.047-1.0470.0000.0000.0000.000
21A27GLY00.0370.01816.805-0.732-0.7320.0000.0000.0000.000
22A28THR0-0.012-0.03915.352-0.876-0.8760.0000.0000.0000.000
23A29GLN0-0.033-0.02111.686-0.824-0.8240.0000.0000.0000.000
24A30LEU0-0.042-0.01611.902-1.668-1.6680.0000.0000.0000.000
25A31LEU00.0140.00610.908-1.370-1.3700.0000.0000.0000.000
26A32CYS0-0.0170.0068.965-2.684-2.6840.0000.0000.0000.000
27A33ASN0-0.042-0.0317.572-3.508-3.5080.0000.0000.0000.000
28A34MET0-0.036-0.0115.860-1.131-1.1310.0000.0000.0000.000
29A35GLY00.006-0.0014.242-1.686-1.614-0.001-0.027-0.0450.000
30A36ALA00.0070.0204.875-2.394-2.311-0.001-0.002-0.0790.000
31A37ARG10.7310.8048.40524.70524.7050.0000.0000.0000.000
32A38VAL0-0.026-0.0159.8632.4692.4690.0000.0000.0000.000
33A39ILE00.0250.02112.7860.2510.2510.0000.0000.0000.000
34A40LYS10.7940.90915.49616.00616.0060.0000.0000.0000.000
35A41VAL0-0.019-0.01118.1500.2140.2140.0000.0000.0000.000
36A42GLU-1-0.692-0.80620.975-13.863-13.8630.0000.0000.0000.000
37A43PRO00.0220.00924.1180.1600.1600.0000.0000.0000.000
38A44PRO00.0440.00427.816-0.093-0.0930.0000.0000.0000.000
39A45GLY0-0.035-0.01229.2110.3280.3280.0000.0000.0000.000
40A46HIS0-0.032-0.02029.984-0.015-0.0150.0000.0000.0000.000
41A47GLY00.0270.00125.853-0.226-0.2260.0000.0000.0000.000
42A48ASP-1-0.793-0.89622.928-12.684-12.6840.0000.0000.0000.000
43A49ASP-1-0.825-0.91425.472-10.612-10.6120.0000.0000.0000.000
44A50THR0-0.049-0.03224.0530.1180.1180.0000.0000.0000.000
45A51ARG10.7370.84820.66613.96813.9680.0000.0000.0000.000
46A52THR0-0.064-0.03326.4550.3240.3240.0000.0000.0000.000
47A53PHE0-0.0040.01627.8990.3390.3390.0000.0000.0000.000
48A54GLY00.0380.05228.785-0.207-0.2070.0000.0000.0000.000
49A55PRO0-0.036-0.03427.531-0.047-0.0470.0000.0000.0000.000
50A56TYR0-0.021-0.04127.489-0.225-0.2250.0000.0000.0000.000
51A57VAL0-0.017-0.01124.9150.3460.3460.0000.0000.0000.000
52A58ASP-1-0.896-0.94724.332-11.972-11.9720.0000.0000.0000.000
53A59GLY0-0.020-0.00325.370-0.258-0.2580.0000.0000.0000.000
54A60GLN00.0220.03319.793-0.356-0.3560.0000.0000.0000.000
55A61SER00.004-0.01724.6480.1310.1310.0000.0000.0000.000
56A62LEU00.003-0.01222.751-0.541-0.5410.0000.0000.0000.000
57A63TYR0-0.0230.00422.183-0.541-0.5410.0000.0000.0000.000
58A64TYR00.002-0.01219.045-0.633-0.6330.0000.0000.0000.000
59A65SER00.021-0.03518.991-0.672-0.6720.0000.0000.0000.000
60A66PHE00.002-0.02717.437-0.930-0.9300.0000.0000.0000.000
61A67ILE0-0.064-0.02917.083-0.650-0.6500.0000.0000.0000.000
62A68ASN00.0590.01916.212-0.459-0.4590.0000.0000.0000.000
63A69HIS10.8800.96811.58320.24320.2430.0000.0000.0000.000
64A70GLY00.0160.00010.565-1.080-1.0800.0000.0000.0000.000
65A71LYS10.7510.91110.72416.16416.1640.0000.0000.0000.000
66A72GLU-1-0.837-0.89112.108-24.520-24.5200.0000.0000.0000.000
67A73SER0-0.017-0.03514.5380.9590.9590.0000.0000.0000.000
68A74VAL00.0010.00218.4100.1360.1360.0000.0000.0000.000
69A75VAL0-0.038-0.01321.1430.2870.2870.0000.0000.0000.000
70A76LEU00.0120.00523.087-0.018-0.0180.0000.0000.0000.000
71A77ASP-1-0.837-0.89926.803-9.637-9.6370.0000.0000.0000.000
72A78LEU00.0400.01726.5490.1740.1740.0000.0000.0000.000
73A79LYS10.8070.88530.5309.5929.5920.0000.0000.0000.000
74A80ASN0-0.043-0.01531.5730.5310.5310.0000.0000.0000.000
75A81ASP-1-0.856-0.94931.813-9.502-9.5020.0000.0000.0000.000
76A82HIS0-0.0330.00028.2890.0440.0440.0000.0000.0000.000
77A83ASP-1-0.773-0.89927.682-11.520-11.5200.0000.0000.0000.000
78A84LYS10.8320.91127.0799.2559.2550.0000.0000.0000.000
79A85SER0-0.0160.00228.032-0.365-0.3650.0000.0000.0000.000
80A86ILE00.0140.00823.007-0.375-0.3750.0000.0000.0000.000
81A87PHE00.0400.00623.340-0.640-0.6400.0000.0000.0000.000
82A88ILE00.0180.00223.574-0.454-0.4540.0000.0000.0000.000
83A89ASN0-0.041-0.03022.821-0.028-0.0280.0000.0000.0000.000
84A90MET0-0.0040.01819.144-0.521-0.5210.0000.0000.0000.000
85A91LEU00.0060.00419.737-0.610-0.6100.0000.0000.0000.000
86A92LYS10.8400.92621.66812.13712.1370.0000.0000.0000.000
87A93GLN0-0.078-0.03717.192-0.596-0.5960.0000.0000.0000.000
88A94ALA0-0.0240.01416.512-1.113-1.1130.0000.0000.0000.000
89A95ASP-1-0.772-0.86913.951-21.121-21.1210.0000.0000.0000.000
90A96VAL0-0.042-0.02715.5030.9180.9180.0000.0000.0000.000
91A97LEU00.0080.01417.963-0.386-0.3860.0000.0000.0000.000
92A98ALA00.0080.00518.8930.5670.5670.0000.0000.0000.000
93A99GLU-1-0.813-0.89320.841-11.142-11.1420.0000.0000.0000.000
94A100ASN00.0510.01224.075-0.243-0.2430.0000.0000.0000.000
95A101PHE0-0.0090.01726.3390.3780.3780.0000.0000.0000.000
96A102ARG10.8880.92829.6578.6278.6270.0000.0000.0000.000
97A103PRO00.0910.04832.832-0.104-0.1040.0000.0000.0000.000
98A104GLY00.0340.02433.5140.2050.2050.0000.0000.0000.000
99A105THR0-0.094-0.06331.9760.2560.2560.0000.0000.0000.000
100A106MET00.0480.03325.9120.0470.0470.0000.0000.0000.000
101A107GLU-1-0.889-0.95230.620-8.963-8.9630.0000.0000.0000.000
102A108LYS10.8570.92233.5458.9008.9000.0000.0000.0000.000
103A109LEU0-0.026-0.00630.7020.1850.1850.0000.0000.0000.000
104A110GLY0-0.037-0.01433.451-0.060-0.0600.0000.0000.0000.000
105A111PHE00.0150.00329.110-0.140-0.1400.0000.0000.0000.000
106A112SER00.0600.05530.836-0.218-0.2180.0000.0000.0000.000
107A113TRP00.0360.01125.451-0.394-0.3940.0000.0000.0000.000
108A114GLU-1-0.872-0.95129.940-9.803-9.8030.0000.0000.0000.000
109A115THR00.010-0.00631.238-0.052-0.0520.0000.0000.0000.000
110A116LEU0-0.033-0.02325.779-0.295-0.2950.0000.0000.0000.000
111A117GLN0-0.080-0.02627.036-0.427-0.4270.0000.0000.0000.000
112A118GLU-1-0.951-0.97928.439-9.659-9.6590.0000.0000.0000.000
113A119ILE0-0.055-0.01925.358-0.085-0.0850.0000.0000.0000.000
114A120ASN0-0.013-0.02920.346-0.100-0.1000.0000.0000.0000.000
115A121PRO00.0280.02324.796-0.218-0.2180.0000.0000.0000.000
116A122ARG10.8260.90118.01516.00916.0090.0000.0000.0000.000
117A123LEU00.0030.01520.070-0.678-0.6780.0000.0000.0000.000
118A124ILE0-0.045-0.02818.9040.7310.7310.0000.0000.0000.000
119A125TYR0-0.039-0.03220.818-0.345-0.3450.0000.0000.0000.000
120A126ALA00.005-0.01220.7410.1780.1780.0000.0000.0000.000
121A127SER00.0170.01122.737-0.264-0.2640.0000.0000.0000.000
122A128SER0-0.045-0.05724.4490.0240.0240.0000.0000.0000.000
123A129SER00.0150.00326.3670.1250.1250.0000.0000.0000.000
124A130GLY00.0460.00729.907-0.003-0.0030.0000.0000.0000.000
125A131PHE0-0.036-0.04532.5890.0960.0960.0000.0000.0000.000
126A132GLY00.0570.05130.7580.1260.1260.0000.0000.0000.000
127A133HIS0-0.024-0.03929.1930.5050.5050.0000.0000.0000.000
128A134THR0-0.037-0.02333.1990.3030.3030.0000.0000.0000.000
129A135GLY00.0660.03536.142-0.008-0.0080.0000.0000.0000.000
130A136PRO0-0.031-0.03339.229-0.034-0.0340.0000.0000.0000.000
131A137LEU00.0090.00239.0320.1320.1320.0000.0000.0000.000
132A138LYS10.8500.93535.7368.0978.0970.0000.0000.0000.000
133A139ASP-1-0.799-0.88435.938-8.307-8.3070.0000.0000.0000.000
134A140ALA0-0.0080.00738.2750.0760.0760.0000.0000.0000.000
135A141PRO0-0.044-0.03637.288-0.241-0.2410.0000.0000.0000.000
136A142ALA00.0230.01334.6550.1310.1310.0000.0000.0000.000
137A143TYR00.0610.03332.862-0.151-0.1510.0000.0000.0000.000
138A144ASP-1-0.679-0.82130.339-9.321-9.3210.0000.0000.0000.000
139A145THR00.005-0.00432.4570.0690.0690.0000.0000.0000.000
140A146ILE0-0.0160.00235.7770.2200.2200.0000.0000.0000.000
141A147ILE00.0330.02532.7030.1960.1960.0000.0000.0000.000
142A148GLN0-0.018-0.01931.8750.3150.3150.0000.0000.0000.000
143A149ALA0-0.0090.00135.8010.1630.1630.0000.0000.0000.000
144A150MET0-0.030-0.02238.6860.1120.1120.0000.0000.0000.000
145A151SER0-0.029-0.03235.9400.0810.0810.0000.0000.0000.000
146A152GLY00.0420.02137.9180.0180.0180.0000.0000.0000.000
147A153ILE00.0330.01634.2580.1250.1250.0000.0000.0000.000
148A154MET0-0.032-0.00737.4200.1180.1180.0000.0000.0000.000
149A155MET0-0.014-0.00539.4680.1650.1650.0000.0000.0000.000
150A156GLU-1-0.770-0.87539.372-6.912-6.9120.0000.0000.0000.000
151A157THR0-0.057-0.02137.202-0.027-0.0270.0000.0000.0000.000
152A158GLY00.0370.01339.5600.1070.1070.0000.0000.0000.000
153A159TYR0-0.003-0.00741.8250.0440.0440.0000.0000.0000.000
154A160PRO00.0080.00144.7730.0020.0020.0000.0000.0000.000
155A161ASP-1-0.897-0.94747.406-5.982-5.9820.0000.0000.0000.000
156A162ALA0-0.073-0.01845.7450.0650.0650.0000.0000.0000.000
157A163PRO00.002-0.00745.914-0.007-0.0070.0000.0000.0000.000
158A164PRO00.007-0.00443.209-0.112-0.1120.0000.0000.0000.000
159A165VAL0-0.040-0.00939.1340.0400.0400.0000.0000.0000.000
160A166ARG10.8510.93430.7589.1799.1790.0000.0000.0000.000
161A167VAL00.0450.03031.4330.0490.0490.0000.0000.0000.000
162A168GLY0-0.015-0.01732.397-0.038-0.0380.0000.0000.0000.000
163A169THR0-0.022-0.02026.342-0.254-0.2540.0000.0000.0000.000
164A170SER00.002-0.00527.2770.3890.3890.0000.0000.0000.000
165A171LEU00.0090.00627.302-0.368-0.3680.0000.0000.0000.000
166A172ALA00.0510.03427.733-0.249-0.2490.0000.0000.0000.000
167A173ASP-1-0.855-0.94825.574-10.945-10.9450.0000.0000.0000.000
168A174LEU00.0110.00521.956-0.414-0.4140.0000.0000.0000.000
169A175CYS0-0.0070.00822.863-0.546-0.5460.0000.0000.0000.000
170A176GLY00.0330.01424.250-0.220-0.2200.0000.0000.0000.000
171A177GLY00.0610.03121.391-0.268-0.2680.0000.0000.0000.000
172A178VAL0-0.013-0.01519.440-0.791-0.7910.0000.0000.0000.000
173A179TYR0-0.022-0.00320.302-0.475-0.4750.0000.0000.0000.000
174A180LEU0-0.0020.01519.950-0.170-0.1700.0000.0000.0000.000
175A181PHE0-0.004-0.00612.518-0.283-0.2830.0000.0000.0000.000
176A182SER0-0.029-0.03717.125-0.332-0.3320.0000.0000.0000.000
177A183GLY00.0360.02818.907-0.014-0.0140.0000.0000.0000.000
178A184ILE00.0110.00515.6940.0180.0180.0000.0000.0000.000
179A185VAL00.0160.00913.900-0.272-0.2720.0000.0000.0000.000
180A186SER0-0.046-0.03716.2170.0940.0940.0000.0000.0000.000
181A187ALA0-0.018-0.00819.4980.3380.3380.0000.0000.0000.000
182A188LEU00.0110.01113.9080.2190.2190.0000.0000.0000.000
183A189TYR0-0.023-0.00716.5400.2420.2420.0000.0000.0000.000
184A190GLY0-0.010-0.00517.7330.4040.4040.0000.0000.0000.000
185A191ARG10.7500.84915.01318.78818.7880.0000.0000.0000.000
186A192GLU-1-0.820-0.89515.057-18.160-18.1600.0000.0000.0000.000
187A193LYS10.8830.94318.66911.93511.9350.0000.0000.0000.000
188A194SER0-0.023-0.01722.1440.2880.2880.0000.0000.0000.000
189A195GLN0-0.0030.01619.1760.1750.1750.0000.0000.0000.000
190A196ARG10.8550.92622.95211.92911.9290.0000.0000.0000.000
191A197GLY00.0490.03222.595-0.315-0.3150.0000.0000.0000.000
192A198ALA0-0.060-0.03523.5960.5520.5520.0000.0000.0000.000
193A199HIS0-0.014-0.00724.207-0.200-0.2000.0000.0000.0000.000
194A200VAL0-0.035-0.01321.5800.2660.2660.0000.0000.0000.000
195A201ASP-1-0.769-0.85924.806-10.396-10.3960.0000.0000.0000.000
196A202ILE0-0.024-0.00923.9900.1440.1440.0000.0000.0000.000
197A203ALA00.0310.02327.4240.0740.0740.0000.0000.0000.000
198A204MET0-0.035-0.02528.184-0.056-0.0560.0000.0000.0000.000
199A205PHE00.0020.00630.1600.0980.0980.0000.0000.0000.000
200A206ASP-1-0.819-0.91231.408-8.959-8.9590.0000.0000.0000.000
201A207ALA0-0.023-0.00527.569-0.019-0.0190.0000.0000.0000.000
202A208THR0-0.038-0.03729.345-0.159-0.1590.0000.0000.0000.000
203A209LEU0-0.008-0.01231.7840.1450.1450.0000.0000.0000.000
204A210SER0-0.058-0.02930.1470.0460.0460.0000.0000.0000.000
205A211PHE0-0.007-0.01325.685-0.135-0.1350.0000.0000.0000.000
206A212LEU0-0.053-0.01531.8710.1090.1090.0000.0000.0000.000
207A213GLU-1-0.860-0.92933.665-7.954-7.9540.0000.0000.0000.000
208A214HIS00.0480.02435.7740.3100.3100.0000.0000.0000.000
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