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: Y96J2

Calculation Name: 4ZWS-D-Xray540

Preferred Name:

Target Type:

Ligand Name:

Ligand 3-letter code:

Ligand of Interest (LOI):

PDB ID: 4ZWS

Chain ID: D

ChEMBL ID:

UniProt ID: P04537

Base Structure: X-ray

Registration Date: 2025-07-11

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
FMO calculation
FMO method FMO2-MP2/6-31G(d)
Fragmentation Auto
Number of fragment 188
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -656740.632946
FMO2-HF: Nuclear repulsion 617712.983735
FMO2-HF: Total energy -39027.649211
FMO2-MP2: Total energy -39140.382097


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(D:2:ARG)


Summations of interaction energy for fragment #1(D:2:ARG)
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.
-11.398-8.0451.309-1.287-3.375-0.005
Interaction energy analysis for fragmet #1(D:2:ARG)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.180 / q_NPA : 0.026
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].
4D3LEU0-0.0930.1124.4800.0330.3010.000-0.135-0.1340.000
5D4GLU00.040-0.1453.869-0.6030.4810.000-0.587-0.4970.002
6D4GLU-1-0.848-0.7644.164-4.064-3.8400.000-0.048-0.1750.000
7D5ASP00.085-0.0943.5731.8401.987-0.001-0.005-0.1410.000
8D5ASP-1-0.918-0.8063.440-9.140-9.4990.1290.813-0.583-0.004
9D6LEU00.024-0.1064.4381.0111.181-0.002-0.053-0.1150.000
10D6LEU0-0.0680.0763.590-0.0330.1890.001-0.061-0.1620.000
11D7GLN00.098-0.0926.0310.5650.5650.0000.0000.0000.000
12D7GLN0-0.0830.1057.925-0.247-0.2470.0000.0000.0000.000
13D8GLU00.123-0.0958.3250.4360.4360.0000.0000.0000.000
14D8GLU-1-0.876-0.7638.857-1.130-1.1300.0000.0000.0000.000
15D9GLU00.087-0.1088.6880.2420.2420.0000.0000.0000.000
16D9GLU-1-0.869-0.7748.258-0.398-0.3980.0000.0000.0000.000
17D10LEU00.104-0.1069.9820.1480.1480.0000.0000.0000.000
18D10LEU0-0.0730.12010.8080.0180.0180.0000.0000.0000.000
19D11LYS00.093-0.11911.9340.1360.1360.0000.0000.0000.000
20D11LYS10.6951.00413.0880.8360.8360.0000.0000.0000.000
21D12LYS00.101-0.07913.4240.0940.0940.0000.0000.0000.000
22D12LYS10.7110.97813.4400.4270.4270.0000.0000.0000.000
23D13ASP00.026-0.11514.2890.0240.0240.0000.0000.0000.000
24D13ASP-1-0.833-0.75913.502-0.215-0.2150.0000.0000.0000.000
25D14VAL00.050-0.10515.7680.0470.0470.0000.0000.0000.000
26D14VAL0-0.0670.10715.8210.0080.0080.0000.0000.0000.000
27D15PHE00.124-0.06618.0270.0390.0390.0000.0000.0000.000
28D15PHE0-0.0600.10019.706-0.008-0.0080.0000.0000.0000.000
29D16ILE00.022-0.10120.5560.0080.0080.0000.0000.0000.000
30D16ILE0-0.0800.09822.8370.0040.0040.0000.0000.0000.000
31D17ASP00.188-0.09223.8430.0000.0000.0000.0000.0000.000
32D17ASP-1-0.868-0.74124.819-0.166-0.1660.0000.0000.0000.000
33D18SER00.031-0.09426.0380.0140.0140.0000.0000.0000.000
34D18SER0-0.0150.08429.4090.0050.0050.0000.0000.0000.000
35D19THR0-0.006-0.07029.4490.0160.0160.0000.0000.0000.000
36D19THR0-0.0600.04029.399-0.003-0.0030.0000.0000.0000.000
37D20LYS00.023-0.09528.4330.0070.0070.0000.0000.0000.000
38D20LYS10.7950.99427.1460.1580.1580.0000.0000.0000.000
39D21LEU00.190-0.07228.3600.0010.0010.0000.0000.0000.000
40D21LEU0-0.0840.11927.952-0.001-0.0010.0000.0000.0000.000
41D22GLN00.082-0.12028.7470.0080.0080.0000.0000.0000.000
42D22GLN0-0.0540.10331.9260.0000.0000.0000.0000.0000.000
43D23TYR00.083-0.06727.6950.0150.0150.0000.0000.0000.000
44D23TYR0-0.0910.08122.194-0.007-0.0070.0000.0000.0000.000
45D24GLU00.087-0.12124.3880.0090.0090.0000.0000.0000.000
46D24GLU-1-0.868-0.76022.884-0.140-0.1400.0000.0000.0000.000
47D25ALA00.145-0.08724.1750.0050.0050.0000.0000.0000.000
48D25ALA0-0.0680.11328.1740.0010.0010.0000.0000.0000.000
49D26ALA00.082-0.10425.4440.0180.0180.0000.0000.0000.000
50D26ALA0-0.0870.10726.857-0.001-0.0010.0000.0000.0000.000
51D27ASN00.066-0.10922.4190.0230.0230.0000.0000.0000.000
52D27ASN0-0.1480.07320.3260.0060.0060.0000.0000.0000.000
53D28ASN00.121-0.07520.7380.0040.0040.0000.0000.0000.000
54D28ASN0-0.0710.08821.788-0.021-0.0210.0000.0000.0000.000
55D29VAL00.030-0.12420.4470.0260.0260.0000.0000.0000.000
56D29VAL0-0.0530.11422.8830.0020.0020.0000.0000.0000.000
57D30MET00.082-0.10519.7300.0490.0490.0000.0000.0000.000
58D30MET0-0.0630.11219.2320.0040.0040.0000.0000.0000.000
59D31LEU00.051-0.11516.2640.0320.0320.0000.0000.0000.000
60D31LEU0-0.0800.11715.9640.0000.0000.0000.0000.0000.000
61D32TYR00.186-0.07115.6310.0470.0470.0000.0000.0000.000
62D32TYR0-0.0940.10119.2240.0010.0010.0000.0000.0000.000
63D33SER00.043-0.08016.6290.0790.0790.0000.0000.0000.000
64D33SER0-0.0450.07018.4960.0100.0100.0000.0000.0000.000
65D34LYS00.078-0.08914.0690.0940.0940.0000.0000.0000.000
66D34LYS10.6920.98111.4780.1730.1730.0000.0000.0000.000
67D35TRP00.057-0.12311.7020.1160.1160.0000.0000.0000.000
68D35TRP0-0.1030.1018.0280.1150.1150.0000.0000.0000.000
69D36LEU00.139-0.09412.6240.2000.2000.0000.0000.0000.000
70D36LEU0-0.0960.10916.680-0.010-0.0100.0000.0000.0000.000
71D37ASN00.094-0.08513.8270.1130.1130.0000.0000.0000.000
72D37ASN0-0.1410.05813.6020.0080.0080.0000.0000.0000.000
73D38LYS00.057-0.0939.4050.0820.0820.0000.0000.0000.000
74D38LYS10.7681.0056.739-0.132-0.1320.0000.0000.0000.000
75D39HIS00.184-0.04610.1370.3900.3900.0000.0000.0000.000
76D39HIS0-0.0660.10912.780-0.080-0.0800.0000.0000.0000.000
77D40SER00.016-0.09612.0940.1170.1170.0000.0000.0000.000
78D40SER0-0.0580.06014.831-0.017-0.0170.0000.0000.0000.000
79D41SER00.004-0.10511.074-0.057-0.0570.0000.0000.0000.000
80D41SER0-0.0610.05810.247-0.041-0.0410.0000.0000.0000.000
81D42ILE00.092-0.0859.657-0.041-0.0410.0000.0000.0000.000
82D42ILE0-0.0680.1257.0320.0810.0810.0000.0000.0000.000
83D43LYS00.104-0.09810.3430.0370.0370.0000.0000.0000.000
84D43LYS10.7951.03214.263-0.802-0.8020.0000.0000.0000.000
85D44LYS00.110-0.06514.020-0.086-0.0860.0000.0000.0000.000
86D44LYS10.8381.06014.044-0.695-0.6950.0000.0000.0000.000
87D45GLU00.028-0.12610.942-0.263-0.2630.0000.0000.0000.000
88D45GLU-1-0.872-0.7539.6011.2211.2210.0000.0000.0000.000
89D46MET00.085-0.10812.462-0.071-0.0710.0000.0000.0000.000
90D46MET0-0.0870.11111.6040.0360.0360.0000.0000.0000.000
91D47LEU00.107-0.08713.737-0.098-0.0980.0000.0000.0000.000
92D47LEU0-0.1010.10417.301-0.013-0.0130.0000.0000.0000.000
93D48ARG00.083-0.08915.833-0.115-0.1150.0000.0000.0000.000
94D48ARG10.7240.95412.811-0.922-0.9220.0000.0000.0000.000
95D49ILE00.103-0.08414.937-0.137-0.1370.0000.0000.0000.000
96D49ILE0-0.0680.10611.6110.0250.0250.0000.0000.0000.000
97D50GLU00.075-0.12316.161-0.073-0.0730.0000.0000.0000.000
98D50GLU-1-0.905-0.79117.7670.6500.6500.0000.0000.0000.000
99D51ALA00.087-0.10719.163-0.070-0.0700.0000.0000.0000.000
100D51ALA0-0.0980.09620.213-0.003-0.0030.0000.0000.0000.000
101D52GLN00.039-0.10219.236-0.066-0.0660.0000.0000.0000.000
102D52GLN0-0.0930.07916.7960.0660.0660.0000.0000.0000.000
103D53LYS00.155-0.06319.834-0.053-0.0530.0000.0000.0000.000
104D53LYS10.7080.97919.589-0.584-0.5840.0000.0000.0000.000
105D54LYS0-0.017-0.09621.281-0.035-0.0350.0000.0000.0000.000
106D54LYS10.8361.03123.429-0.410-0.4100.0000.0000.0000.000
107D55VAL00.104-0.09723.961-0.025-0.0250.0000.0000.0000.000
108D55VAL0-0.0790.10323.8730.0000.0000.0000.0000.0000.000
109D56ALA0-0.116-0.15225.684-0.035-0.0350.0000.0000.0000.000
110D56ALA00.0530.04526.1030.0030.0030.0000.0000.0000.000
111D96VAL00.1210.02518.6100.0060.0060.0000.0000.0000.000
112D96VAL0-0.0770.07917.830-0.010-0.0100.0000.0000.0000.000
113D97ASP00.051-0.11514.765-0.020-0.0200.0000.0000.0000.000
114D97ASP-1-0.861-0.76213.0941.0201.0200.0000.0000.0000.000
115D98THR0-0.037-0.10412.486-0.052-0.0520.0000.0000.0000.000
116D98THR0-0.0220.08310.694-0.069-0.0690.0000.0000.0000.000
117D99SER00.080-0.1119.5590.2240.2240.0000.0000.0000.000
118D99SER0-0.0640.05510.3190.0420.0420.0000.0000.0000.000
119D100LEU00.103-0.0899.8640.5340.5340.0000.0000.0000.000
120D100LEU0-0.0960.10713.608-0.019-0.0190.0000.0000.0000.000
121D101GLN00.035-0.11712.0000.1530.1530.0000.0000.0000.000
122D101GLN0-0.0380.10912.2370.0610.0610.0000.0000.0000.000
123D102TYR00.132-0.0707.497-0.209-0.2090.0000.0000.0000.000
124D102TYR0-0.0590.1122.691-0.5830.3551.122-0.922-1.139-0.005
125D103TRP00.014-0.1417.5670.7380.7380.0000.0000.0000.000
126D103TRP0-0.0430.0966.3250.5140.5140.0000.0000.0000.000
127D104GLY00.086-0.0688.714-0.040-0.0400.0000.0000.0000.000
128D105ILE00.1240.0189.006-0.156-0.1560.0000.0000.0000.000
129D105ILE0-0.0960.1008.086-0.035-0.0350.0000.0000.0000.000
130D106LEU00.067-0.0986.336-0.765-0.7650.0000.0000.0000.000
131D106LEU0-0.0880.0963.533-0.6430.0160.060-0.289-0.4290.002
132D107LEU00.109-0.0827.428-0.344-0.3440.0000.0000.0000.000
133D107LEU0-0.0750.09711.146-0.033-0.0330.0000.0000.0000.000
134D108ASP00.078-0.11710.739-0.213-0.2130.0000.0000.0000.000
135D108ASP-1-0.980-0.81612.4200.8950.8950.0000.0000.0000.000
136D109PHE00.102-0.0829.511-0.264-0.2640.0000.0000.0000.000
137D109PHE0-0.0930.0918.365-0.053-0.0530.0000.0000.0000.000
138D110CYS00.101-0.11910.013-0.298-0.2980.0000.0000.0000.000
139D110CYS0-0.1670.0768.261-0.007-0.0070.0000.0000.0000.000
140D111SER0-0.019-0.10210.944-0.164-0.1640.0000.0000.0000.000
141D111SER0-0.0430.05914.032-0.027-0.0270.0000.0000.0000.000
142D112GLY00.008-0.08914.011-0.102-0.1020.0000.0000.0000.000
143D113ALA00.121-0.00212.465-0.127-0.1270.0000.0000.0000.000
144D113ALA0-0.0590.10111.6810.0120.0120.0000.0000.0000.000
145D114LEU00.024-0.11613.834-0.098-0.0980.0000.0000.0000.000
146D114LEU0-0.1160.08614.707-0.001-0.0010.0000.0000.0000.000
147D115ASP00.070-0.12316.374-0.055-0.0550.0000.0000.0000.000
148D115ASP-1-0.971-0.82818.5890.2040.2040.0000.0000.0000.000
149D116ALA00.123-0.10517.301-0.031-0.0310.0000.0000.0000.000
150D116ALA0-0.0760.12016.400-0.008-0.0080.0000.0000.0000.000
151D117ILE00.095-0.09017.572-0.052-0.0520.0000.0000.0000.000
152D117ILE0-0.1370.09414.7400.0000.0000.0000.0000.0000.000
153D118LYS00.059-0.08118.854-0.028-0.0280.0000.0000.0000.000
154D118LYS10.8441.04321.026-0.200-0.2000.0000.0000.0000.000
155D119SER00.061-0.07721.639-0.013-0.0130.0000.0000.0000.000
156D119SER0-0.0400.08121.804-0.006-0.0060.0000.0000.0000.000
157D120ARG00.069-0.11421.342-0.011-0.0110.0000.0000.0000.000
158D120ARG10.6760.97919.4800.1000.1000.0000.0000.0000.000
159D121GLY00.019-0.10022.645-0.014-0.0140.0000.0000.0000.000
160D122PHE00.0640.00124.824-0.010-0.0100.0000.0000.0000.000
161D122PHE0-0.0960.08225.7960.0040.0040.0000.0000.0000.000
162D123ALA00.138-0.09126.0770.0000.0000.0000.0000.0000.000
163D123ALA0-0.0760.11625.445-0.003-0.0030.0000.0000.0000.000
164D124ILE00.076-0.08926.569-0.010-0.0100.0000.0000.0000.000
165D124ILE0-0.1250.08224.135-0.001-0.0010.0000.0000.0000.000
166D125LYS00.094-0.07828.078-0.009-0.0090.0000.0000.0000.000
167D125LYS10.7190.97230.299-0.011-0.0110.0000.0000.0000.000
168D126HIS00.072-0.10030.618-0.003-0.0030.0000.0000.0000.000
169D126HIS0-0.0640.08329.708-0.002-0.0020.0000.0000.0000.000
170D127ILE00.158-0.06230.8690.0010.0010.0000.0000.0000.000
171D127ILE0-0.1030.08228.179-0.003-0.0030.0000.0000.0000.000
172D128GLN00.074-0.08832.222-0.006-0.0060.0000.0000.0000.000
173D128GLN0-0.0820.08333.001-0.006-0.0060.0000.0000.0000.000
174D129ASP00.106-0.09634.331-0.003-0.0030.0000.0000.0000.000
175D129ASP-1-0.930-0.79935.6560.0070.0070.0000.0000.0000.000
176D130MET00.117-0.09235.5650.0030.0030.0000.0000.0000.000
177D130MET0-0.1240.08133.331-0.003-0.0030.0000.0000.0000.000
178D131ARG00.082-0.08536.277-0.001-0.0010.0000.0000.0000.000
179D131ARG10.7270.99231.9620.0650.0650.0000.0000.0000.000
180D132ALA00.089-0.07037.931-0.003-0.0030.0000.0000.0000.000
181D132ALA0-0.1080.07839.5510.0010.0010.0000.0000.0000.000
182D133PHE00.099-0.05940.0770.0010.0010.0000.0000.0000.000
183D133PHE0-0.1560.05040.3510.0020.0020.0000.0000.0000.000
184D134GLU00.025-0.10340.8670.0030.0030.0000.0000.0000.000
185D134GLU-1-1.034-0.87839.753-0.036-0.0360.0000.0000.0000.000
186D135ALA00.070-0.11242.418-0.004-0.0040.0000.0000.0000.000
187D135ALA0-0.0890.09443.0900.0000.0000.0000.0000.0000.000
188D136GLY0-0.041-0.11644.7830.0040.0040.0000.0000.0000.000