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: N26YQ

Calculation Name: 1GPQ-A-Xray540

Preferred Name:

Target Type:

Ligand Name:

Ligand 3-letter code:

Ligand of Interest (LOI):

Structure Source: PDB

PDB ID: 1GPQ

Chain ID: A

ChEMBL ID:

UniProt ID: P0AD59

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 OptAll
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 239
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -1050580.567417
FMO2-HF: Nuclear repulsion 1000920.825046
FMO2-HF: Total energy -49659.742372
FMO2-MP2: Total energy -49800.434949


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:2:ASP)


Summations of interaction energy for fragment #1(A:2:ASP)
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.
2.1733.663-0.007-0.767-0.7160.004
Interaction energy analysis for fragmet #1(A:2:ASP)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.102 / q_NPA : -0.001
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].
4A3ASP-1-0.917-0.7914.4113.8914.2120.000-0.114-0.2070.000
5A4LEU00.131-0.0943.849-2.632-1.463-0.007-0.653-0.5090.004
6A4LEU0-0.0920.1227.2940.0500.0500.0000.0000.0000.000
7A5THR0-0.031-0.1086.6000.6440.6440.0000.0000.0000.000
8A5THR0-0.0300.0725.9390.1230.1230.0000.0000.0000.000
9A6ILE00.164-0.0558.353-0.333-0.3330.0000.0000.0000.000
10A6ILE0-0.0720.10412.3270.0130.0130.0000.0000.0000.000
11A7SER00.062-0.0669.661-0.134-0.1340.0000.0000.0000.000
12A7SER0-0.0600.0588.7100.0630.0630.0000.0000.0000.000
13A8SER0-0.001-0.0965.9490.2490.2490.0000.0000.0000.000
14A8SER0-0.0130.0795.1760.1870.1870.0000.0000.0000.000
15A9LEU00.045-0.1187.339-0.363-0.3630.0000.0000.0000.000
16A9LEU0-0.0580.1169.8480.0400.0400.0000.0000.0000.000
17A10ALA00.135-0.06910.272-0.028-0.0280.0000.0000.0000.000
18A10ALA0-0.0810.09412.1690.0370.0370.0000.0000.0000.000
19A11LYS0-0.010-0.1199.9760.1660.1660.0000.0000.0000.000
20A11LYS10.7661.0238.7690.3100.3100.0000.0000.0000.000
21A12GLY00.068-0.0759.2340.0020.0020.0000.0000.0000.000
22A13GLU00.0850.0069.7230.2480.2480.0000.0000.0000.000
23A13GLU-1-0.921-0.81412.488-0.965-0.9650.0000.0000.0000.000
24A14THR0-0.042-0.11112.0890.1920.1920.0000.0000.0000.000
25A14THR0-0.0240.07311.730-0.073-0.0730.0000.0000.0000.000
26A15THR00.036-0.08712.0730.1470.1470.0000.0000.0000.000
27A15THR0-0.0270.06910.908-0.122-0.1220.0000.0000.0000.000
28A16LYS00.174-0.04413.2550.1370.1370.0000.0000.0000.000
29A16LYS10.7060.99413.1070.9720.9720.0000.0000.0000.000
30A17ALA00.073-0.10314.7090.0970.0970.0000.0000.0000.000
31A17ALA0-0.0570.10418.1240.0020.0020.0000.0000.0000.000
32A18ALA00.157-0.11217.2150.0850.0850.0000.0000.0000.000
33A18ALA0-0.0650.14716.598-0.007-0.0070.0000.0000.0000.000
34A19PHE00.139-0.07315.6470.0800.0800.0000.0000.0000.000
35A19PHE0-0.1110.07914.7630.0110.0110.0000.0000.0000.000
36A20ASN00.077-0.08416.9230.0690.0690.0000.0000.0000.000
37A20ASN0-0.1150.04518.353-0.015-0.0150.0000.0000.0000.000
38A21GLN00.055-0.11819.8040.0500.0500.0000.0000.0000.000
39A21GLN0-0.0870.10321.211-0.020-0.0200.0000.0000.0000.000
40A22MET00.163-0.07519.8370.0440.0440.0000.0000.0000.000
41A22MET0-0.1510.10016.5610.0010.0010.0000.0000.0000.000
42A23VAL0-0.031-0.11720.8990.0400.0400.0000.0000.0000.000
43A23VAL0-0.0930.09319.2270.0060.0060.0000.0000.0000.000
44A24GLN00.151-0.10022.0750.0260.0260.0000.0000.0000.000
45A24GLN0-0.0930.12824.643-0.014-0.0140.0000.0000.0000.000
46A25GLY0-0.046-0.13325.1440.0130.0130.0000.0000.0000.000
47A26HIS00.017-0.02524.8550.0210.0210.0000.0000.0000.000
48A26HIS0-0.0500.13023.9810.0140.0140.0000.0000.0000.000
49A27LYS00.189-0.05723.877-0.018-0.0180.0000.0000.0000.000
50A27LYS10.7761.03523.4780.0720.0720.0000.0000.0000.000
51A28LEU00.010-0.15721.2920.0280.0280.0000.0000.0000.000
52A28LEU0-0.0170.14019.6820.0000.0000.0000.0000.0000.000
53A29PRO0-0.014-0.10620.518-0.009-0.0090.0000.0000.0000.000
54A30ALA00.1540.01919.028-0.018-0.0180.0000.0000.0000.000
55A30ALA0-0.0660.11119.2240.0020.0020.0000.0000.0000.000
56A31TRP0-0.013-0.11916.561-0.024-0.0240.0000.0000.0000.000
57A31TRP0-0.0600.09515.9050.0050.0050.0000.0000.0000.000
58A32VAL00.059-0.09914.8520.0630.0630.0000.0000.0000.000
59A32VAL0-0.0570.10615.738-0.005-0.0050.0000.0000.0000.000
60A33MET00.137-0.09013.593-0.004-0.0040.0000.0000.0000.000
61A33MET0-0.0840.11814.8740.0190.0190.0000.0000.0000.000
62A34LYS00.088-0.06612.307-0.084-0.0840.0000.0000.0000.000
63A34LYS10.8531.05213.520-0.228-0.2280.0000.0000.0000.000
64A35GLY00.009-0.10310.8230.0080.0080.0000.0000.0000.000
65A36GLY0-0.029-0.01011.4520.0590.0590.0000.0000.0000.000
66A37THR00.0580.02511.9720.1200.1200.0000.0000.0000.000
67A37THR0-0.0380.06714.439-0.039-0.0390.0000.0000.0000.000
68A38TYR00.042-0.06711.102-0.153-0.1530.0000.0000.0000.000
69A38TYR0-0.1560.0046.261-0.242-0.2420.0000.0000.0000.000
70A39THR0-0.028-0.10912.2730.1920.1920.0000.0000.0000.000
71A39THR0-0.0150.07313.995-0.016-0.0160.0000.0000.0000.000
72A40PRO00.037-0.1029.825-0.074-0.0740.0000.0000.0000.000
73A41ALA00.1490.0369.938-0.012-0.0120.0000.0000.0000.000
74A41ALA0-0.1050.07410.326-0.063-0.0630.0000.0000.0000.000
75A42GLN0-0.007-0.12711.7490.0300.0300.0000.0000.0000.000
76A42GLN0-0.0610.09215.3750.0500.0500.0000.0000.0000.000
77A43THR00.081-0.07615.080-0.066-0.0660.0000.0000.0000.000
78A43THR0-0.0590.05315.4800.0190.0190.0000.0000.0000.000
79A44VAL0-0.025-0.09817.1170.0510.0510.0000.0000.0000.000
80A44VAL0-0.0490.09619.2800.0020.0020.0000.0000.0000.000
81A45THR00.028-0.09820.559-0.045-0.0450.0000.0000.0000.000
82A45THR0-0.0240.10022.102-0.013-0.0130.0000.0000.0000.000
83A46LEU00.055-0.09323.2080.0290.0290.0000.0000.0000.000
84A46LEU0-0.1020.09724.0970.0000.0000.0000.0000.0000.000
85A47GLY00.022-0.10426.105-0.017-0.0170.0000.0000.0000.000
86A48ASP00.0420.01626.8540.0100.0100.0000.0000.0000.000
87A48ASP-1-0.906-0.83727.625-0.201-0.2010.0000.0000.0000.000
88A49GLU00.051-0.11723.581-0.026-0.0260.0000.0000.0000.000
89A49GLU-1-0.878-0.77822.816-0.310-0.3100.0000.0000.0000.000
90A50THR00.069-0.07820.4760.0330.0330.0000.0000.0000.000
91A50THR0-0.0360.06518.470-0.003-0.0030.0000.0000.0000.000
92A51TYR0-0.005-0.11218.010-0.060-0.0600.0000.0000.0000.000
93A51TYR0-0.0850.09218.3850.0010.0010.0000.0000.0000.000
94A52GLN00.129-0.06013.6270.0740.0740.0000.0000.0000.000
95A52GLN0-0.0420.12211.4260.0450.0450.0000.0000.0000.000
96A53VAL00.050-0.12515.044-0.064-0.0640.0000.0000.0000.000
97A53VAL0-0.0540.11217.2460.0060.0060.0000.0000.0000.000
98A54MET00.060-0.09512.9120.0560.0560.0000.0000.0000.000
99A54MET0-0.0850.10011.039-0.088-0.0880.0000.0000.0000.000
100A55SER00.070-0.06814.001-0.069-0.0690.0000.0000.0000.000
101A55SER00.0050.09516.0990.0210.0210.0000.0000.0000.000
102A56ALA00.111-0.07413.4660.0680.0680.0000.0000.0000.000
103A56ALA0-0.1240.07213.100-0.009-0.0090.0000.0000.0000.000
104A57CYS00.029-0.12514.975-0.072-0.0720.0000.0000.0000.000
105A57CYS0-0.1980.23617.8030.0300.0300.0000.0000.0000.000
106A58LYS00.149-0.10016.6370.0510.0510.0000.0000.0000.000
107A58LYS10.7251.02520.690-0.151-0.1510.0000.0000.0000.000
108A59PRO0-0.003-0.12215.5230.0090.0090.0000.0000.0000.000
109A60HIS0-0.0080.01718.077-0.038-0.0380.0000.0000.0000.000
110A60HIS0-0.0820.07618.848-0.003-0.0030.0000.0000.0000.000
111A61ASP00.178-0.06821.121-0.008-0.0080.0000.0000.0000.000
112A61ASP-1-0.896-0.77423.0800.1600.1600.0000.0000.0000.000
113A62CYS00.097-0.13120.330-0.036-0.0360.0000.0000.0000.000
114A63GLY00.021-0.09621.109-0.014-0.0140.0000.0000.0000.000
115A64SER00.0540.00924.425-0.018-0.0180.0000.0000.0000.000
116A64SER0-0.0510.05525.549-0.004-0.0040.0000.0000.0000.000
117A65GLN00.100-0.07423.335-0.025-0.0250.0000.0000.0000.000
118A65GLN0-0.1170.04922.4170.0080.0080.0000.0000.0000.000
119A66ARG0-0.005-0.11619.7270.0340.0340.0000.0000.0000.000
120A66ARG10.7941.01419.919-0.109-0.1090.0000.0000.0000.000
121A67ILE00.057-0.08918.463-0.020-0.0200.0000.0000.0000.000
122A67ILE0-0.1060.05816.372-0.005-0.0050.0000.0000.0000.000
123A68ALA00.122-0.10117.5010.0450.0450.0000.0000.0000.000
124A68ALA0-0.0410.12619.2680.0020.0020.0000.0000.0000.000
125A69VAL00.045-0.11916.1350.0010.0010.0000.0000.0000.000
126A69VAL0-0.0820.08115.207-0.008-0.0080.0000.0000.0000.000
127A70MET00.094-0.07416.5630.0160.0160.0000.0000.0000.000
128A70MET0-0.1110.09719.1350.0190.0190.0000.0000.0000.000
129A71TRP00.110-0.10115.1640.0310.0310.0000.0000.0000.000
130A71TRP0-0.0820.08411.022-0.056-0.0560.0000.0000.0000.000
131A72SER00.093-0.04616.542-0.015-0.0150.0000.0000.0000.000
132A72SER0-0.0480.04919.873-0.005-0.0050.0000.0000.0000.000
133A73GLU00.072-0.12715.7820.0150.0150.0000.0000.0000.000
134A73GLU-1-0.993-0.84713.221-1.060-1.0600.0000.0000.0000.000
135A74LYS00.053-0.10716.666-0.020-0.0200.0000.0000.0000.000
136A74LYS10.6920.97920.5740.2690.2690.0000.0000.0000.000
137A75SER0-0.040-0.09020.0930.0200.0200.0000.0000.0000.000
138A75SER0-0.0270.06621.4920.0140.0140.0000.0000.0000.000
139A76ASN00.048-0.06517.4660.0300.0300.0000.0000.0000.000
140A76ASN0-0.1240.04615.8640.0370.0370.0000.0000.0000.000
141A77GLN00.156-0.11217.644-0.058-0.0580.0000.0000.0000.000
142A77GLN0-0.0830.09121.2810.0320.0320.0000.0000.0000.000
143A78MET00.102-0.06817.460-0.015-0.0150.0000.0000.0000.000
144A78MET0-0.1460.09913.8700.0130.0130.0000.0000.0000.000
145A79THR0-0.003-0.09818.5500.0170.0170.0000.0000.0000.000
146A79THR0-0.0450.07421.537-0.005-0.0050.0000.0000.0000.000
147A80GLY00.043-0.10319.630-0.010-0.0100.0000.0000.0000.000
148A81LEU00.064-0.02620.695-0.003-0.0030.0000.0000.0000.000
149A81LEU0-0.0990.12622.2420.0010.0010.0000.0000.0000.000
150A82PHE00.196-0.03221.4250.0190.0190.0000.0000.0000.000
151A82PHE0-0.1100.06120.5700.0000.0000.0000.0000.0000.000
152A83SER00.013-0.11322.640-0.013-0.0130.0000.0000.0000.000
153A83SER0-0.0510.04123.7430.0050.0050.0000.0000.0000.000
154A84THR00.009-0.05724.0380.0170.0170.0000.0000.0000.000
155A84THR0-0.0510.04326.1210.0000.0000.0000.0000.0000.000
156A85ILE00.046-0.09226.746-0.017-0.0170.0000.0000.0000.000
157A85ILE0-0.0520.13026.4410.0010.0010.0000.0000.0000.000
158A86ASP00.097-0.07429.0880.0070.0070.0000.0000.0000.000
159A86ASP-1-0.924-0.80233.0440.0630.0630.0000.0000.0000.000
160A87GLU00.183-0.07232.003-0.010-0.0100.0000.0000.0000.000
161A87GLU-1-0.977-0.84931.6910.1060.1060.0000.0000.0000.000
162A88LYS00.111-0.08533.367-0.003-0.0030.0000.0000.0000.000
163A88LYS10.7500.97434.526-0.073-0.0730.0000.0000.0000.000
164A89THR0-0.098-0.07736.125-0.003-0.0030.0000.0000.0000.000
165A89THR0-0.0700.03236.373-0.003-0.0030.0000.0000.0000.000
166A90SER00.029-0.07434.774-0.006-0.0060.0000.0000.0000.000
167A90SER0-0.0130.08736.1210.0010.0010.0000.0000.0000.000
168A91GLN00.053-0.09434.140-0.003-0.0030.0000.0000.0000.000
169A91GLN0-0.0990.05334.247-0.008-0.0080.0000.0000.0000.000
170A92GLU00.115-0.08430.1330.0100.0100.0000.0000.0000.000
171A92GLU-1-0.781-0.71426.5890.0650.0650.0000.0000.0000.000
172A93LYS00.024-0.10429.415-0.008-0.0080.0000.0000.0000.000
173A93LYS10.7721.01430.039-0.023-0.0230.0000.0000.0000.000
174A94LEU00.103-0.10927.1150.0050.0050.0000.0000.0000.000
175A94LEU0-0.0620.11726.356-0.002-0.0020.0000.0000.0000.000
176A95THR0-0.002-0.08126.249-0.001-0.0010.0000.0000.0000.000
177A95THR0-0.0330.05325.9300.0010.0010.0000.0000.0000.000
178A96TRP00.075-0.08125.033-0.002-0.0020.0000.0000.0000.000
179A96TRP0-0.0870.09525.284-0.002-0.0020.0000.0000.0000.000
180A97LEU00.020-0.12022.5570.0070.0070.0000.0000.0000.000
181A97LEU0-0.0890.10520.562-0.001-0.0010.0000.0000.0000.000
182A98ASN00.160-0.04023.293-0.004-0.0040.0000.0000.0000.000
183A98ASN0-0.1310.07222.1110.0130.0130.0000.0000.0000.000
184A99VAL00.114-0.09724.545-0.027-0.0270.0000.0000.0000.000
185A99VAL0-0.0970.09125.3240.0050.0050.0000.0000.0000.000
186A100ASN00.092-0.04326.0630.0160.0160.0000.0000.0000.000
187A100ASN0-0.0470.05724.8500.0160.0160.0000.0000.0000.000
188A101ASP00.126-0.11027.9860.0080.0080.0000.0000.0000.000
189A101ASP-1-0.990-0.83931.808-0.119-0.1190.0000.0000.0000.000
190A102ALA00.114-0.07228.6520.0180.0180.0000.0000.0000.000
191A102ALA0-0.0600.10627.745-0.004-0.0040.0000.0000.0000.000
192A103LEU00.022-0.11326.0220.0090.0090.0000.0000.0000.000
193A103LEU0-0.0750.10923.0860.0010.0010.0000.0000.0000.000
194A104SER00.028-0.12927.3970.0100.0100.0000.0000.0000.000
195A104SER0-0.0300.08331.4840.0060.0060.0000.0000.0000.000
196A105ILE00.005-0.09530.3190.0100.0100.0000.0000.0000.000
197A105ILE0-0.0370.10732.1650.0010.0010.0000.0000.0000.000
198A106ASP00.139-0.11028.7130.0110.0110.0000.0000.0000.000
199A106ASP-1-0.911-0.79427.890-0.076-0.0760.0000.0000.0000.000
200A107GLY00.059-0.08724.7580.0050.0050.0000.0000.0000.000
201A108LYS00.079-0.01024.5910.0020.0020.0000.0000.0000.000
202A108LYS10.7631.02027.6880.0780.0780.0000.0000.0000.000
203A109THR0-0.007-0.08626.2530.0130.0130.0000.0000.0000.000
204A109THR0-0.0470.06228.1220.0040.0040.0000.0000.0000.000
205A110VAL00.090-0.08723.4000.0270.0270.0000.0000.0000.000
206A110VAL0-0.0620.12021.302-0.002-0.0020.0000.0000.0000.000
207A111LEU00.131-0.07121.4020.0220.0220.0000.0000.0000.000
208A111LEU0-0.1340.07720.0340.0010.0010.0000.0000.0000.000
209A112PHE00.121-0.09622.3120.0220.0220.0000.0000.0000.000
210A112PHE0-0.1040.09026.5000.0000.0000.0000.0000.0000.000
211A113ALA00.069-0.11424.3640.0260.0260.0000.0000.0000.000
212A113ALA0-0.0540.11923.879-0.002-0.0020.0000.0000.0000.000
213A114ALA00.081-0.08819.6990.0340.0340.0000.0000.0000.000
214A114ALA0-0.0580.10218.723-0.006-0.0060.0000.0000.0000.000
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