FMODB

FMODB: The database of quantum mechanical data based on the FMO method

Last updated: 2025-07-23

All entries: 44592

Number of unique PDB entries: 7794

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FMODB ID: J4LJ9

Calculation Name: 2SPC-A-Xray540

Preferred Name:

Target Type:

Ligand Name:

Ligand 3-letter code:

Ligand of Interest (LOI):

PDB ID: 2SPC

Chain ID: A

ChEMBL ID:

UniProt ID: P13395

Base Structure: X-ray

Registration Date: 2025-07-14

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
FMO calculation
FMO method FMO2-MP2/6-31G(d)
Fragmentation Auto
Number of fragment 209
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -624509.603071
FMO2-HF: Nuclear repulsion 581378.106695
FMO2-HF: Total energy -43131.496376
FMO2-MP2: Total energy -43257.059954


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:0:GLN)


Summations of interaction energy for fragment #1(A:0:GLN)
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.
-0.6570.2835.15-2.957-3.1350.001
Interaction energy analysis for fragmet #1(A:0:GLN)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.174 / q_NPA : 0.057
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].
4A1ASN0-0.0890.1024.349-0.725-0.416-0.001-0.084-0.2240.000
5A2LEU00.067-0.0913.808-1.567-0.5680.006-0.560-0.4440.002
6A2LEU0-0.0630.1045.9720.0710.0710.0000.0000.0000.000
7A3ASP00.038-0.1046.0370.0180.0180.0000.0000.0000.000
8A3ASP-1-0.820-0.7976.3731.2521.2520.0000.0000.0000.000
9A4LEU00.154-0.0853.897-0.473-0.3460.002-0.050-0.0790.000
10A4LEU0-0.1340.0911.7421.703-0.4274.975-1.479-1.3670.005
11A5GLN00.077-0.0944.7670.0530.137-0.002-0.007-0.0760.000
12A5GLN0-0.1110.0763.180-1.3040.2470.170-0.777-0.945-0.006
13A6LEU00.091-0.1455.7110.0520.0520.0000.0000.0000.000
14A6LEU0-0.1020.1329.758-0.012-0.0120.0000.0000.0000.000
15A7TYR00.095-0.0738.413-0.065-0.0650.0000.0000.0000.000
16A7TYR0-0.0330.0887.9160.0300.0300.0000.0000.0000.000
17A8MET00.066-0.0727.7110.0290.0290.0000.0000.0000.000
18A8MET0-0.0360.0856.110-0.007-0.0070.0000.0000.0000.000
19A9ARG00.180-0.0548.8450.0000.0000.0000.0000.0000.000
20A9ARG10.7060.98910.3120.1160.1160.0000.0000.0000.000
21A10ASP00.097-0.10311.302-0.012-0.0120.0000.0000.0000.000
22A10ASP-1-0.986-0.79912.7160.0330.0330.0000.0000.0000.000
23A11CYS00.029-0.14012.226-0.023-0.0230.0000.0000.0000.000
24A11CYS0-0.0740.09411.7200.0250.0250.0000.0000.0000.000
25A12GLU00.119-0.04412.8300.0110.0110.0000.0000.0000.000
26A12GLU-1-1.018-0.88311.695-0.033-0.0330.0000.0000.0000.000
27A13LEU00.060-0.11814.582-0.009-0.0090.0000.0000.0000.000
28A13LEU0-0.1550.07415.506-0.005-0.0050.0000.0000.0000.000
29A14ALA00.123-0.11516.724-0.015-0.0150.0000.0000.0000.000
30A14ALA0-0.1060.11117.5610.0050.0050.0000.0000.0000.000
31A15GLU00.071-0.14117.373-0.003-0.0030.0000.0000.0000.000
32A15GLU-1-0.960-0.82315.8050.1300.1300.0000.0000.0000.000
33A16SER00.072-0.07418.880-0.001-0.0010.0000.0000.0000.000
34A16SER0-0.0920.06219.321-0.003-0.0030.0000.0000.0000.000
35A17TRP00.080-0.08620.738-0.007-0.0070.0000.0000.0000.000
36A17TRP0-0.1250.07022.106-0.003-0.0030.0000.0000.0000.000
37A18MET0-0.003-0.12122.139-0.008-0.0080.0000.0000.0000.000
38A18MET0-0.0460.10820.0800.0050.0050.0000.0000.0000.000
39A19SER00.141-0.06623.0950.0020.0020.0000.0000.0000.000
40A19SER0-0.0550.06822.457-0.002-0.0020.0000.0000.0000.000
41A20ALA00.052-0.11324.795-0.003-0.0030.0000.0000.0000.000
42A20ALA0-0.1390.10025.878-0.001-0.0010.0000.0000.0000.000
43A21ARG00.063-0.11226.866-0.005-0.0050.0000.0000.0000.000
44A21ARG10.8071.05627.701-0.034-0.0340.0000.0000.0000.000
45A22GLU00.095-0.10827.608-0.001-0.0010.0000.0000.0000.000
46A22GLU-1-0.991-0.85326.5410.0540.0540.0000.0000.0000.000
47A23ALA00.066-0.09729.1830.0010.0010.0000.0000.0000.000
48A23ALA0-0.1080.07429.703-0.002-0.0020.0000.0000.0000.000
49A24PHE00.051-0.06331.090-0.003-0.0030.0000.0000.0000.000
50A24PHE0-0.1380.04631.8300.0000.0000.0000.0000.0000.000
51A25LEU00.089-0.13132.527-0.003-0.0030.0000.0000.0000.000
52A25LEU0-0.0680.11231.2660.0010.0010.0000.0000.0000.000
53A26ASN00.091-0.01133.7940.0010.0010.0000.0000.0000.000
54A26ASN0-0.1030.02834.0550.0020.0020.0000.0000.0000.000
55A27ALA00.223-0.04635.5040.0000.0000.0000.0000.0000.000
56A27ALA0-0.1960.06036.207-0.001-0.0010.0000.0000.0000.000
57A28ASP00.037-0.10737.109-0.002-0.0020.0000.0000.0000.000
58A28ASP-1-0.979-0.85137.0960.0180.0180.0000.0000.0000.000
59A29ASP0-0.003-0.11938.404-0.001-0.0010.0000.0000.0000.000
60A29ASP-1-0.944-0.83038.5820.0200.0200.0000.0000.0000.000
61A30ASP00.114-0.09040.0460.0010.0010.0000.0000.0000.000
62A30ASP-1-0.980-0.85639.3990.0070.0070.0000.0000.0000.000
63A31ALA0-0.015-0.15742.012-0.001-0.0010.0000.0000.0000.000
64A31ALA0-0.1200.07943.199-0.001-0.0010.0000.0000.0000.000
65A32ASN0-0.018-0.03341.7230.0000.0000.0000.0000.0000.000
66A32ASN0-0.1510.00240.8950.0020.0020.0000.0000.0000.000
67A33ALA00.224-0.04242.778-0.002-0.0020.0000.0000.0000.000
68A33ALA0-0.1520.03043.3680.0000.0000.0000.0000.0000.000
69A34GLY00.038-0.09144.672-0.002-0.0020.0000.0000.0000.000
70A35GLY00.0110.01548.3950.0010.0010.0000.0000.0000.000
71A36ASN00.0710.00350.1210.0000.0000.0000.0000.0000.000
72A36ASN0-0.0760.09350.5200.0010.0010.0000.0000.0000.000
73A37VAL00.092-0.13049.5870.0010.0010.0000.0000.0000.000
74A37VAL0-0.0620.13650.8430.0000.0000.0000.0000.0000.000
75A38GLU00.163-0.07149.0690.0020.0020.0000.0000.0000.000
76A38GLU-1-1.013-0.86449.5510.0140.0140.0000.0000.0000.000
77A39ALA00.064-0.12046.2800.0020.0020.0000.0000.0000.000
78A39ALA0-0.0950.09446.249-0.001-0.0010.0000.0000.0000.000
79A40LEU00.064-0.15045.1420.0000.0000.0000.0000.0000.000
80A40LEU0-0.0880.13246.0760.0000.0000.0000.0000.0000.000
81A41ILE00.112-0.10444.1930.0020.0020.0000.0000.0000.000
82A41ILE0-0.1200.13245.2320.0000.0000.0000.0000.0000.000
83A42LYS00.109-0.12343.1880.0030.0030.0000.0000.0000.000
84A42LYS10.7631.03941.746-0.018-0.0180.0000.0000.0000.000
85A43LYS00.086-0.10440.6150.0010.0010.0000.0000.0000.000
86A43LYS10.7711.04539.701-0.022-0.0220.0000.0000.0000.000
87A44HIS00.094-0.08439.3020.0010.0010.0000.0000.0000.000
88A44HIS0-0.0980.09340.332-0.002-0.0020.0000.0000.0000.000
89A45GLU00.102-0.15338.7860.0040.0040.0000.0000.0000.000
90A45GLU-1-0.917-0.79539.4930.0230.0230.0000.0000.0000.000
91A46ASP00.091-0.14336.6780.0030.0030.0000.0000.0000.000
92A46ASP-1-0.933-0.76936.8060.0200.0200.0000.0000.0000.000
93A47PHE00.025-0.12534.7890.0010.0010.0000.0000.0000.000
94A47PHE0-0.1130.11435.6800.0000.0000.0000.0000.0000.000
95A48ASP00.135-0.10633.7160.0050.0050.0000.0000.0000.000
96A48ASP-1-0.967-0.82936.3350.0470.0470.0000.0000.0000.000
97A49LYS00.069-0.11833.3700.0070.0070.0000.0000.0000.000
98A49LYS10.7441.01133.455-0.026-0.0260.0000.0000.0000.000
99A50ALA00.026-0.11030.5450.0030.0030.0000.0000.0000.000
100A50ALA0-0.0930.08830.673-0.001-0.0010.0000.0000.0000.000
101A51ILE00.103-0.18829.1640.0040.0040.0000.0000.0000.000
102A51ILE0-0.1070.18730.394-0.001-0.0010.0000.0000.0000.000
103A52ASN00.084-0.03228.8700.0090.0090.0000.0000.0000.000
104A52ASN0-0.1210.04830.8150.0050.0050.0000.0000.0000.000
105A53GLY00.030-0.11227.5150.0070.0070.0000.0000.0000.000
106A54HIS00.063-0.04224.7110.0060.0060.0000.0000.0000.000
107A54HIS0-0.0430.14324.160-0.007-0.0070.0000.0000.0000.000
108A55GLU00.120-0.14423.7760.0130.0130.0000.0000.0000.000
109A55GLU-1-0.979-0.78726.9460.0940.0940.0000.0000.0000.000
110A56GLN00.061-0.14124.1610.0190.0190.0000.0000.0000.000
111A56GLN0-0.0830.11225.249-0.006-0.0060.0000.0000.0000.000
112A57LYS00.085-0.13021.4500.0140.0140.0000.0000.0000.000
113A57LYS10.8071.11117.211-0.108-0.1080.0000.0000.0000.000
114A58ILE00.006-0.13219.7040.0170.0170.0000.0000.0000.000
115A58ILE0-0.0590.12620.1130.0020.0020.0000.0000.0000.000
116A59ALA00.193-0.10219.3380.0330.0330.0000.0000.0000.000
117A59ALA0-0.0840.13422.755-0.003-0.0030.0000.0000.0000.000
118A60ALA00.123-0.13319.4240.0300.0300.0000.0000.0000.000
119A60ALA0-0.1080.10519.061-0.006-0.0060.0000.0000.0000.000
120A61LEU0-0.043-0.13515.5230.0220.0220.0000.0000.0000.000
121A61LEU0-0.0400.09513.964-0.007-0.0070.0000.0000.0000.000
122A62GLN00.088-0.09514.8320.0700.0700.0000.0000.0000.000
123A62GLN0-0.0330.14417.459-0.032-0.0320.0000.0000.0000.000
124A63THR00.045-0.07716.5220.0510.0510.0000.0000.0000.000
125A63THR0-0.0660.07517.743-0.011-0.0110.0000.0000.0000.000
126A64VAL00.072-0.13413.3630.0300.0300.0000.0000.0000.000
127A64VAL0-0.0770.10611.232-0.004-0.0040.0000.0000.0000.000
128A65ALA00.099-0.12211.5430.1090.1090.0000.0000.0000.000
129A65ALA0-0.0560.12912.817-0.006-0.0060.0000.0000.0000.000
130A66ASP00.059-0.12412.3600.1610.1610.0000.0000.0000.000
131A66ASP-1-0.999-0.83116.6310.4000.4000.0000.0000.0000.000
132A67GLN00.097-0.12413.9710.0370.0370.0000.0000.0000.000
133A67GLN0-0.1000.11113.409-0.019-0.0190.0000.0000.0000.000
134A68LEU00.010-0.1239.216-0.029-0.0290.0000.0000.0000.000
135A68LEU0-0.0570.1147.4300.0470.0470.0000.0000.0000.000
136A69ILE00.086-0.11710.3130.2700.2700.0000.0000.0000.000
137A69ILE0-0.0740.14211.2290.0060.0060.0000.0000.0000.000
138A70ALA00.086-0.11611.9020.0430.0430.0000.0000.0000.000
139A70ALA0-0.0480.13115.254-0.023-0.0230.0000.0000.0000.000
140A71GLN00.017-0.14311.760-0.097-0.0970.0000.0000.0000.000
141A71GLN0-0.0800.0989.786-0.135-0.1350.0000.0000.0000.000
142A72ASN00.060-0.08310.392-0.067-0.0670.0000.0000.0000.000
143A72ASN0-0.1000.0757.3970.2170.2170.0000.0000.0000.000
144A73HIS00.114-0.13111.219-0.037-0.0370.0000.0000.0000.000
145A73HIS0-0.0430.14013.626-0.065-0.0650.0000.0000.0000.000
146A74TYR00.040-0.09914.822-0.076-0.0760.0000.0000.0000.000
147A74TYR0-0.0720.09015.389-0.030-0.0300.0000.0000.0000.000
148A75ALA00.084-0.11912.987-0.139-0.1390.0000.0000.0000.000
149A75ALA0-0.0780.13712.2990.0330.0330.0000.0000.0000.000
150A76SER00.041-0.13714.055-0.094-0.0940.0000.0000.0000.000
151A76SER0-0.0330.12113.0340.0020.0020.0000.0000.0000.000
152A77ASN00.080-0.14015.239-0.070-0.0700.0000.0000.0000.000
153A77ASN0-0.0640.11518.681-0.008-0.0080.0000.0000.0000.000
154A78LEU00.056-0.08217.843-0.066-0.0660.0000.0000.0000.000
155A78LEU0-0.1020.11217.496-0.003-0.0030.0000.0000.0000.000
156A79VAL00.029-0.14016.935-0.074-0.0740.0000.0000.0000.000
157A79VAL0-0.0940.14715.1950.0000.0000.0000.0000.0000.000
158A80ASP00.077-0.15118.239-0.061-0.0610.0000.0000.0000.000
159A80ASP-1-0.890-0.74719.2400.3230.3230.0000.0000.0000.000
160A81GLU00.135-0.10520.503-0.039-0.0390.0000.0000.0000.000
161A81GLU-1-0.939-0.82622.7300.2340.2340.0000.0000.0000.000
162A82LYS00.083-0.16922.040-0.035-0.0350.0000.0000.0000.000
163A82LYS10.8621.12321.636-0.153-0.1530.0000.0000.0000.000
164A83ARG00.038-0.09422.312-0.036-0.0360.0000.0000.0000.000
165A83ARG10.7831.00421.854-0.242-0.2420.0000.0000.0000.000
166A84LYS00.036-0.14823.727-0.025-0.0250.0000.0000.0000.000
167A84LYS10.8701.10324.100-0.252-0.2520.0000.0000.0000.000
168A85GLN00.136-0.09126.469-0.017-0.0170.0000.0000.0000.000
169A85GLN0-0.1010.08126.938-0.007-0.0070.0000.0000.0000.000
170A86VAL0-0.014-0.15126.890-0.017-0.0170.0000.0000.0000.000
171A86VAL0-0.0870.12425.312-0.001-0.0010.0000.0000.0000.000
172A87LEU00.043-0.12127.772-0.017-0.0170.0000.0000.0000.000
173A87LEU0-0.0420.10626.5730.0020.0020.0000.0000.0000.000
174A88GLU00.115-0.08929.472-0.011-0.0110.0000.0000.0000.000
175A88GLU-1-0.913-0.78131.5460.1070.1070.0000.0000.0000.000
176A89ARG00.081-0.10631.564-0.008-0.0080.0000.0000.0000.000
177A89ARG10.8391.06028.855-0.111-0.1110.0000.0000.0000.000
178A90TRP00.009-0.09732.138-0.010-0.0100.0000.0000.0000.000
179A90TRP0-0.0590.08831.648-0.003-0.0030.0000.0000.0000.000
180A91ARG00.120-0.10933.438-0.009-0.0090.0000.0000.0000.000
181A91ARG10.8031.07034.488-0.101-0.1010.0000.0000.0000.000
182A92HIS00.083-0.06535.653-0.005-0.0050.0000.0000.0000.000
183A92HIS0-0.0710.08837.2680.0010.0010.0000.0000.0000.000
184A93LEU00.158-0.10436.601-0.005-0.0050.0000.0000.0000.000
185A93LEU0-0.1020.05635.1880.0000.0000.0000.0000.0000.000
186A94LYS00.028-0.11336.998-0.006-0.0060.0000.0000.0000.000
187A94LYS10.8711.08836.646-0.061-0.0610.0000.0000.0000.000
188A95GLU00.039-0.13638.547-0.004-0.0040.0000.0000.0000.000
189A95GLU-1-0.991-0.80340.2370.0620.0620.0000.0000.0000.000
190A96GLY00.014-0.09741.258-0.004-0.0040.0000.0000.0000.000
191A97LEU0-0.001-0.00941.274-0.003-0.0030.0000.0000.0000.000
192A97LEU0-0.0870.07738.3610.0000.0000.0000.0000.0000.000
193A98ILE00.109-0.13042.513-0.004-0.0040.0000.0000.0000.000
194A98ILE0-0.1180.12741.0730.0000.0000.0000.0000.0000.000
195A99GLU00.185-0.09344.176-0.003-0.0030.0000.0000.0000.000
196A99GLU-1-0.955-0.81846.1440.0380.0380.0000.0000.0000.000
197A100LYS00.112-0.11446.284-0.002-0.0020.0000.0000.0000.000
198A100LYS10.7921.06546.021-0.028-0.0280.0000.0000.0000.000
199A101ARG00.112-0.04046.622-0.003-0.0030.0000.0000.0000.000
200A101ARG10.8041.02744.357-0.034-0.0340.0000.0000.0000.000
201A102SER0-0.009-0.12447.866-0.002-0.0020.0000.0000.0000.000
202A102SER0-0.0220.06149.3470.0000.0000.0000.0000.0000.000
203A103ARG00.159-0.05450.489-0.001-0.0010.0000.0000.0000.000
204A103ARG10.8181.02950.024-0.030-0.0300.0000.0000.0000.000
205A104LEU0-0.041-0.12151.594-0.001-0.0010.0000.0000.0000.000
206A104LEU0-0.1300.09649.9470.0000.0000.0000.0000.0000.000
207A105GLY0-0.032-0.11853.045-0.002-0.0020.0000.0000.0000.000
208A106ASP0-0.141-0.04655.1190.0000.0000.0000.0000.0000.000
209A106ASP-1-0.825-0.91354.9820.0270.0270.0000.0000.0000.000