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: JQ3Z9

Calculation Name: 2G7L-A-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 2G7L

Chain ID: A

ChEMBL ID:

UniProt ID: Q93JG8

Base Structure: X-ray

Registration Date: 2023-09-21

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 204
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 22 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -1984550.665772
FMO2-HF: Nuclear repulsion 1908664.076053
FMO2-HF: Total energy -75886.589719
FMO2-MP2: Total energy -76111.59751


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:16:LYS)


Summations of interaction energy for fragment #1(A:16: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.
-41.649-40.616-0.001-0.473-0.5590.002
Interaction energy analysis for fragmet #1(A:16:LYS)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 1 / q_Mulliken : 1.012 / q_NPA : 0.992
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].
3A18ALA00.0180.0123.915-1.320-0.287-0.001-0.473-0.5590.002
4A19LEU00.0270.0276.2422.4492.4490.0000.0000.0000.000
5A20SER00.0230.0088.3331.2721.2720.0000.0000.0000.000
6A21ARG10.9130.92811.95613.23413.2340.0000.0000.0000.000
7A22ARG10.9230.95112.60217.47017.4700.0000.0000.0000.000
8A23TRP0-0.0040.0085.5260.2180.2180.0000.0000.0000.000
9A24ILE00.0390.03012.1030.3900.3900.0000.0000.0000.000
10A25VAL00.011-0.00414.0230.5740.5740.0000.0000.0000.000
11A26ASP-1-0.827-0.89815.180-14.350-14.3500.0000.0000.0000.000
12A27THR0-0.031-0.02912.7190.2460.2460.0000.0000.0000.000
13A28ALA0-0.025-0.00815.2370.5150.5150.0000.0000.0000.000
14A29VAL00.0260.01218.2800.5450.5450.0000.0000.0000.000
15A30ALA0-0.024-0.01317.1040.5380.5380.0000.0000.0000.000
16A31LEU00.0180.00117.4030.3940.3940.0000.0000.0000.000
17A32MET0-0.038-0.01519.4330.4550.4550.0000.0000.0000.000
18A33ARG10.9100.95822.74310.61210.6120.0000.0000.0000.000
19A34ALA0-0.0090.02120.9750.3160.3160.0000.0000.0000.000
20A35GLU-1-0.854-0.91820.050-12.284-12.2840.0000.0000.0000.000
21A36GLY00.0040.02224.0340.2220.2220.0000.0000.0000.000
22A37LEU00.035-0.00424.4430.0810.0810.0000.0000.0000.000
23A38GLU-1-0.837-0.91025.139-10.093-10.0930.0000.0000.0000.000
24A39LYS10.7910.87822.04810.21710.2170.0000.0000.0000.000
25A40VAL00.0040.02119.846-0.624-0.6240.0000.0000.0000.000
26A41THR0-0.028-0.00920.2350.1020.1020.0000.0000.0000.000
27A42MET00.0570.01517.401-0.405-0.4050.0000.0000.0000.000
28A43ARG10.9520.97816.51012.25712.2570.0000.0000.0000.000
29A44ARG10.7080.80816.17013.50313.5030.0000.0000.0000.000
30A45LEU00.0290.02414.343-0.356-0.3560.0000.0000.0000.000
31A46ALA0-0.015-0.01712.285-0.829-0.8290.0000.0000.0000.000
32A47GLN0-0.025-0.00711.078-0.681-0.6810.0000.0000.0000.000
33A48GLU-1-0.811-0.88411.236-16.473-16.4730.0000.0000.0000.000
34A49LEU0-0.082-0.0378.636-0.558-0.5580.0000.0000.0000.000
35A50ASP-1-0.941-0.9465.884-27.645-27.6450.0000.0000.0000.000
36A51THR0-0.016-0.0176.940-2.235-2.2350.0000.0000.0000.000
37A52GLY00.0210.0118.9671.8091.8090.0000.0000.0000.000
38A53PRO00.016-0.02412.426-0.231-0.2310.0000.0000.0000.000
39A54ALA0-0.012-0.00714.6360.3650.3650.0000.0000.0000.000
40A55SER0-0.004-0.0059.8490.4640.4640.0000.0000.0000.000
41A56LEU00.0070.00211.6760.0770.0770.0000.0000.0000.000
42A57TYR0-0.034-0.01414.1160.5880.5880.0000.0000.0000.000
43A58VAL0-0.0080.01714.1330.7270.7270.0000.0000.0000.000
44A59TYR0-0.067-0.03811.1410.7910.7910.0000.0000.0000.000
45A60VAL00.0350.02316.9130.7980.7980.0000.0000.0000.000
46A61ALA00.0620.03119.263-0.245-0.2450.0000.0000.0000.000
47A62ASN0-0.022-0.01921.6470.3060.3060.0000.0000.0000.000
48A63THR00.0560.01322.856-0.297-0.2970.0000.0000.0000.000
49A64ALA00.0480.04124.251-0.047-0.0470.0000.0000.0000.000
50A65GLU-1-0.800-0.89822.775-11.705-11.7050.0000.0000.0000.000
51A66LEU00.003-0.00218.783-0.207-0.2070.0000.0000.0000.000
52A67HIS0-0.021-0.01522.2210.2690.2690.0000.0000.0000.000
53A68ALA00.0700.04725.3510.1240.1240.0000.0000.0000.000
54A69ALA0-0.024-0.01421.3810.1360.1360.0000.0000.0000.000
55A70VAL0-0.007-0.00921.529-0.031-0.0310.0000.0000.0000.000
56A71LEU0-0.014-0.00623.7140.1990.1990.0000.0000.0000.000
57A72ASP-1-0.810-0.94025.101-10.342-10.3420.0000.0000.0000.000
58A73ALA0-0.027-0.00222.7890.1730.1730.0000.0000.0000.000
59A74LEU0-0.038-0.02724.8530.1430.1430.0000.0000.0000.000
60A75LEU00.0090.00327.7030.3300.3300.0000.0000.0000.000
61A76GLY0-0.050-0.01428.3930.1680.1680.0000.0000.0000.000
62A77GLU-1-1.024-1.00629.367-8.817-8.8170.0000.0000.0000.000
63A78VAL0-0.034-0.01831.5520.2090.2090.0000.0000.0000.000
64A79ASP-1-0.838-0.89934.664-7.582-7.5820.0000.0000.0000.000
65A80LEU0-0.057-0.02734.4820.1660.1660.0000.0000.0000.000
66A81THR0-0.032-0.01737.9310.0450.0450.0000.0000.0000.000
67A82GLY00.0310.00540.4310.1750.1750.0000.0000.0000.000
68A83ALA00.0180.01141.862-0.117-0.1170.0000.0000.0000.000
69A84GLY0-0.037-0.03344.1920.0250.0250.0000.0000.0000.000
70A85ALA0-0.0130.01847.3960.0700.0700.0000.0000.0000.000
71A86GLU-1-0.918-0.96148.850-5.713-5.7130.0000.0000.0000.000
72A87GLU-1-0.894-0.95848.319-6.330-6.3300.0000.0000.0000.000
73A88ASP-1-0.848-0.91650.949-5.629-5.6290.0000.0000.0000.000
74A89TRP00.0170.01148.896-0.073-0.0730.0000.0000.0000.000
75A90ARG10.7910.88948.3545.5165.5160.0000.0000.0000.000
76A91GLU-1-0.930-0.97949.237-5.993-5.9930.0000.0000.0000.000
77A92GLN00.0580.03045.577-0.164-0.1640.0000.0000.0000.000
78A93LEU00.022-0.00343.943-0.143-0.1430.0000.0000.0000.000
79A94ARG10.7950.89244.3565.8025.8020.0000.0000.0000.000
80A95ALA0-0.0050.01043.975-0.087-0.0870.0000.0000.0000.000
81A96VAL00.0440.02239.641-0.120-0.1200.0000.0000.0000.000
82A97LEU0-0.0210.00139.740-0.149-0.1490.0000.0000.0000.000
83A98THR0-0.026-0.01140.851-0.037-0.0370.0000.0000.0000.000
84A99SER00.000-0.00637.695-0.086-0.0860.0000.0000.0000.000
85A100TYR0-0.004-0.01933.973-0.256-0.2560.0000.0000.0000.000
86A101THR0-0.014-0.04536.280-0.132-0.1320.0000.0000.0000.000
87A102LEU0-0.041-0.02238.094-0.031-0.0310.0000.0000.0000.000
88A103VAL00.0300.02531.548-0.084-0.0840.0000.0000.0000.000
89A104LEU0-0.051-0.02533.334-0.149-0.1490.0000.0000.0000.000
90A105PHE0-0.027-0.02835.0670.0180.0180.0000.0000.0000.000
91A106ALA0-0.0180.01633.3730.0440.0440.0000.0000.0000.000
92A107HIS0-0.017-0.01328.849-0.219-0.2190.0000.0000.0000.000
93A108PRO00.0700.04932.363-0.189-0.1890.0000.0000.0000.000
94A109GLN0-0.056-0.03529.9720.2210.2210.0000.0000.0000.000
95A110LEU00.014-0.00226.830-0.149-0.1490.0000.0000.0000.000
96A111ALA00.0570.03630.736-0.051-0.0510.0000.0000.0000.000
97A112ARG10.8250.90333.7137.8787.8780.0000.0000.0000.000
98A113SER0-0.046-0.04629.0780.1070.1070.0000.0000.0000.000
99A114ALA00.0230.02231.417-0.103-0.1030.0000.0000.0000.000
100A115LEU0-0.078-0.03332.3570.1010.1010.0000.0000.0000.000
101A116VAL0-0.067-0.01731.2050.0620.0620.0000.0000.0000.000
102A117ALA0-0.043-0.03528.671-0.071-0.0710.0000.0000.0000.000
103A118ARG10.8470.90530.1458.1158.1150.0000.0000.0000.000
104A119PRO0-0.017-0.01627.806-0.252-0.2520.0000.0000.0000.000
105A120SER0-0.029-0.00626.1430.1450.1450.0000.0000.0000.000
106A121GLY0-0.0080.01225.433-0.233-0.2330.0000.0000.0000.000
107A122GLU-1-0.853-0.95425.622-9.633-9.6330.0000.0000.0000.000
108A123ASN0-0.0060.00326.4660.4920.4920.0000.0000.0000.000
109A124TYR00.0320.02229.1820.4120.4120.0000.0000.0000.000
110A125LEU00.008-0.00729.0160.3440.3440.0000.0000.0000.000
111A126ARG10.9110.96329.9519.5129.5120.0000.0000.0000.000
112A127LEU0-0.0120.00233.3970.2800.2800.0000.0000.0000.000
113A128VAL0-0.017-0.03234.6080.2570.2570.0000.0000.0000.000
114A129GLU-1-0.930-0.94836.042-7.542-7.5420.0000.0000.0000.000
115A130ARG10.8490.91337.7477.2787.2780.0000.0000.0000.000
116A131VAL0-0.040-0.02739.3880.2390.2390.0000.0000.0000.000
117A132LEU00.007-0.00739.1790.2320.2320.0000.0000.0000.000
118A133GLU-1-0.827-0.88442.025-6.684-6.6840.0000.0000.0000.000
119A134LEU00.0090.00143.2050.1920.1920.0000.0000.0000.000
120A135LEU0-0.008-0.00845.2800.1820.1820.0000.0000.0000.000
121A136ALA0-0.0140.00046.5280.1650.1650.0000.0000.0000.000
122A137ARG10.7560.87346.1686.4756.4750.0000.0000.0000.000
123A138SER0-0.081-0.04250.6840.1610.1610.0000.0000.0000.000
124A139GLY0-0.008-0.00352.3460.1300.1300.0000.0000.0000.000
125A140ALA0-0.067-0.02751.7460.0510.0510.0000.0000.0000.000
126A141PRO00.0550.02251.937-0.086-0.0860.0000.0000.0000.000
127A142GLY00.0660.02548.676-0.072-0.0720.0000.0000.0000.000
128A143ALA0-0.006-0.00847.319-0.129-0.1290.0000.0000.0000.000
129A144GLN0-0.004-0.01847.599-0.067-0.0670.0000.0000.0000.000
130A145VAL00.0060.00345.489-0.062-0.0620.0000.0000.0000.000
131A146ALA00.0250.02343.492-0.127-0.1270.0000.0000.0000.000
132A147TRP0-0.028-0.03442.996-0.079-0.0790.0000.0000.0000.000
133A148GLY00.0260.00444.678-0.043-0.0430.0000.0000.0000.000
134A149VAL00.0350.01640.6730.0030.0030.0000.0000.0000.000
135A150ASP-1-0.793-0.86339.030-7.797-7.7970.0000.0000.0000.000
136A151LYS10.8880.95341.0866.7576.7570.0000.0000.0000.000
137A152LEU00.0180.00443.4070.0250.0250.0000.0000.0000.000
138A153LEU00.0160.01937.064-0.038-0.0380.0000.0000.0000.000
139A154GLN0-0.026-0.00739.4160.0040.0040.0000.0000.0000.000
140A155ASP-1-0.825-0.89340.412-6.519-6.5190.0000.0000.0000.000
141A156ALA00.0290.02640.2530.0310.0310.0000.0000.0000.000
142A157THR0-0.042-0.04235.819-0.128-0.1280.0000.0000.0000.000
143A158ALA0-0.020-0.01438.547-0.082-0.0820.0000.0000.0000.000
144A159THR00.0300.01141.0190.0590.0590.0000.0000.0000.000
145A160ALA00.006-0.00637.6850.0490.0490.0000.0000.0000.000
146A161ALA0-0.036-0.01137.487-0.088-0.0880.0000.0000.0000.000
147A162GLU-1-0.956-0.96838.511-6.651-6.6510.0000.0000.0000.000
148A163GLN0-0.082-0.02939.0380.2010.2010.0000.0000.0000.000
149A164ALA0-0.038-0.02938.849-0.147-0.1470.0000.0000.0000.000
150A165THR00.0190.01633.163-0.060-0.0600.0000.0000.0000.000
151A177SER00.0420.00648.8410.0400.0400.0000.0000.0000.000
152A178ALA00.0330.00250.0870.1050.1050.0000.0000.0000.000
153A179THR00.0560.02450.3820.0850.0850.0000.0000.0000.000
154A180VAL00.0250.01652.2660.1020.1020.0000.0000.0000.000
155A181ARG10.9130.95050.9295.7795.7790.0000.0000.0000.000
156A182ALA00.0630.03755.9220.0810.0810.0000.0000.0000.000
157A183LEU0-0.029-0.01555.4470.0700.0700.0000.0000.0000.000
158A184ARG10.8730.92057.1135.2295.2290.0000.0000.0000.000
159A185ASP-1-0.916-0.94160.324-4.954-4.9540.0000.0000.0000.000
160A186ALA0-0.060-0.01561.5560.0520.0520.0000.0000.0000.000
161A187ASP-1-0.889-0.93563.294-4.494-4.4940.0000.0000.0000.000
162A188GLU-1-0.933-0.98867.093-4.387-4.3870.0000.0000.0000.000
163A189ALA0-0.036-0.01269.0100.0170.0170.0000.0000.0000.000
164A190THR0-0.005-0.02366.2440.0380.0380.0000.0000.0000.000
165A191HIS0-0.044-0.01662.778-0.028-0.0280.0000.0000.0000.000
166A192PRO00.1090.07165.906-0.040-0.0400.0000.0000.0000.000
167A193ALA0-0.032-0.01264.462-0.010-0.0100.0000.0000.0000.000
168A194ILE00.0260.00060.050-0.039-0.0390.0000.0000.0000.000
169A195ALA00.0390.02963.122-0.033-0.0330.0000.0000.0000.000
170A196SER0-0.005-0.00765.7370.0210.0210.0000.0000.0000.000
171A197HIS0-0.095-0.04961.6910.0010.0010.0000.0000.0000.000
172A198MET0-0.0200.02959.591-0.144-0.1440.0000.0000.0000.000
173A199PRO00.016-0.00660.9070.0640.0640.0000.0000.0000.000
174A200LEU00.027-0.01259.241-0.100-0.1000.0000.0000.0000.000
175A201LEU00.0070.01456.904-0.100-0.1000.0000.0000.0000.000
176A202VAL0-0.044-0.03354.938-0.116-0.1160.0000.0000.0000.000
177A203ALA0-0.0410.00754.837-0.057-0.0570.0000.0000.0000.000
178A204GLY00.0210.01054.036-0.044-0.0440.0000.0000.0000.000
179A205SER0-0.017-0.02749.589-0.112-0.1120.0000.0000.0000.000
180A206ALA00.0760.01945.5140.0270.0270.0000.0000.0000.000
181A207HIS00.0330.00947.215-0.083-0.0830.0000.0000.0000.000
182A208ASP-1-0.837-0.90048.047-5.641-5.6410.0000.0000.0000.000
183A209ARG10.8220.90549.2135.7005.7000.0000.0000.0000.000
184A210LEU00.0720.05143.6830.0130.0130.0000.0000.0000.000
185A211ARG10.8960.95447.9435.7425.7420.0000.0000.0000.000
186A212TRP0-0.007-0.00750.4050.0160.0160.0000.0000.0000.000
187A213SER00.017-0.01547.4610.0680.0680.0000.0000.0000.000
188A214PHE00.0660.04146.745-0.002-0.0020.0000.0000.0000.000
189A215ASP-1-0.797-0.86249.180-5.660-5.6600.0000.0000.0000.000
190A216VAL0-0.027-0.00552.4770.0560.0560.0000.0000.0000.000
191A217LEU00.0120.01446.6690.0510.0510.0000.0000.0000.000
192A218VAL00.0440.02649.1720.0240.0240.0000.0000.0000.000
193A219ASN0-0.046-0.00351.3290.0530.0530.0000.0000.0000.000
194A220GLY00.0370.02153.8520.0760.0760.0000.0000.0000.000
195A221ILE00.0100.02347.5340.0240.0240.0000.0000.0000.000
196A222THR0-0.047-0.04051.6190.0660.0660.0000.0000.0000.000
197A223ARG10.8560.91953.8605.3235.3230.0000.0000.0000.000
198A224THR0-0.045-0.01953.8640.1300.1300.0000.0000.0000.000
199A225PRO00.0080.00653.744-0.108-0.1080.0000.0000.0000.000
200A226VAL0-0.022-0.00849.3440.0020.0020.0000.0000.0000.000
201A227PRO0-0.028-0.00152.4480.0400.0400.0000.0000.0000.000
202A228GLY00.0340.01952.184-0.111-0.1110.0000.0000.0000.000
203A229PRO00.014-0.01350.239-0.005-0.0050.0000.0000.0000.000
204A230ALA0-0.040-0.00451.0730.1680.1680.0000.0000.0000.000