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: J2ZN9

Calculation Name: 5MQC-C-Xray540

Preferred Name:

Target Type:

Ligand Name:

Ligand 3-letter code:

Ligand of Interest (LOI):

Structure Source: PDB

PDB ID: 5MQC

Chain ID: C

ChEMBL ID:

UniProt ID: Q9J7C2

Base Structure: X-ray

Registration Date: 2025-07-10

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 491
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -3045192.086643
FMO2-HF: Nuclear repulsion 2943766.896553
FMO2-HF: Total energy -101425.19009
FMO2-MP2: Total energy -101724.032355


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(C:1:SER)


Summations of interaction energy for fragment #1(C:1:SER)
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.
1.7862.986-0.019-0.105-1.0760.004
Interaction energy analysis for fragmet #1(C:1:SER)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.096 / 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].
4C2LYS10.8791.0673.8541.5281.8910.000-0.177-0.1860.000
5C3PRO00.040-0.0923.0760.4151.243-0.0170.073-0.8840.004
6C4LEU00.0750.0205.9140.0880.097-0.002-0.001-0.0060.000
7C4LEU0-0.0400.08710.0240.0490.0490.0000.0000.0000.000
8C5LEU00.004-0.1249.006-0.259-0.2590.0000.0000.0000.000
9C5LEU0-0.0160.1199.0050.0300.0300.0000.0000.0000.000
10C6PRO0-0.020-0.10311.4810.1020.1020.0000.0000.0000.000
11C7ILE00.0950.01215.001-0.045-0.0450.0000.0000.0000.000
12C7ILE0-0.0710.10319.1370.0010.0010.0000.0000.0000.000
13C8ALA00.098-0.08418.1490.0000.0000.0000.0000.0000.000
14C8ALA0-0.0600.09418.2800.0010.0010.0000.0000.0000.000
15C9ASN00.087-0.10519.4530.0190.0190.0000.0000.0000.000
16C9ASN0-0.1150.07823.068-0.003-0.0030.0000.0000.0000.000
17C10PRO0-0.010-0.09923.062-0.004-0.0040.0000.0000.0000.000
18C11THR00.0400.05225.8670.0080.0080.0000.0000.0000.000
19C11THR0-0.0330.05124.7640.0060.0060.0000.0000.0000.000
20C12VAL00.040-0.11427.257-0.003-0.0030.0000.0000.0000.000
21C12VAL0-0.0700.11230.8650.0020.0020.0000.0000.0000.000
22C13LEU00.087-0.06529.7840.0050.0050.0000.0000.0000.000
23C13LEU0-0.0600.09528.235-0.002-0.0020.0000.0000.0000.000
24C14ARG00.027-0.16430.5230.0060.0060.0000.0000.0000.000
25C14ARG10.9061.09333.1430.1410.1410.0000.0000.0000.000
26C15PRO0-0.024-0.08733.012-0.006-0.0060.0000.0000.0000.000
27C16ALA00.1040.00235.4990.0000.0000.0000.0000.0000.000
28C16ALA0-0.0280.12737.6660.0020.0020.0000.0000.0000.000
29C17ASN00.032-0.08435.953-0.006-0.0060.0000.0000.0000.000
30C17ASN0-0.0530.07635.006-0.004-0.0040.0000.0000.0000.000
31C18THR0-0.028-0.09536.4850.0040.0040.0000.0000.0000.000
32C18THR0-0.0620.03539.086-0.002-0.0020.0000.0000.0000.000
33C19PHE00.121-0.08139.8360.0000.0000.0000.0000.0000.000
34C19PHE0-0.0500.09040.0900.0000.0000.0000.0000.0000.000
35C20ALA00.145-0.03442.5350.0030.0030.0000.0000.0000.000
36C20ALA0-0.1120.07344.6060.0000.0000.0000.0000.0000.000
37C21ILE00.008-0.08641.3190.0050.0050.0000.0000.0000.000
38C21ILE0-0.1160.06637.950-0.001-0.0010.0000.0000.0000.000
39C22THR00.043-0.07842.6660.0000.0000.0000.0000.0000.000
40C22THR0-0.0320.06544.0040.0020.0020.0000.0000.0000.000
41C23ASP00.030-0.06539.6500.0030.0030.0000.0000.0000.000
42C23ASP-1-0.886-0.85139.481-0.093-0.0930.0000.0000.0000.000
43C24THR00.041-0.05035.688-0.002-0.0020.0000.0000.0000.000
44C24THR0-0.1060.01834.300-0.003-0.0030.0000.0000.0000.000
45C25ASN00.077-0.07933.104-0.004-0.0040.0000.0000.0000.000
46C25ASN0-0.1170.02931.379-0.002-0.0020.0000.0000.0000.000
47C26ASP00.047-0.09234.0470.0010.0010.0000.0000.0000.000
48C26ASP-1-0.834-0.77236.271-0.104-0.1040.0000.0000.0000.000
49C27MET00.003-0.10832.046-0.004-0.0040.0000.0000.0000.000
50C27MET0-0.0940.07330.393-0.005-0.0050.0000.0000.0000.000
51C28SER00.032-0.11232.627-0.007-0.0070.0000.0000.0000.000
52C28SER0-0.0460.06335.9800.0030.0030.0000.0000.0000.000
53C29HIS00.061-0.07532.004-0.004-0.0040.0000.0000.0000.000
54C29HIS0-0.0850.08029.3610.0010.0010.0000.0000.0000.000
55C30SER00.080-0.07132.1820.0060.0060.0000.0000.0000.000
56C30SER0-0.0620.05732.2550.0020.0020.0000.0000.0000.000
57C31LEU00.000-0.09933.598-0.003-0.0030.0000.0000.0000.000
58C31LEU0-0.0850.09135.4040.0010.0010.0000.0000.0000.000
59C32ALA00.081-0.08035.4530.0060.0060.0000.0000.0000.000
60C32ALA0-0.0540.09035.4860.0000.0000.0000.0000.0000.000
61C33LEU00.051-0.10333.941-0.005-0.0050.0000.0000.0000.000
62C33LEU0-0.0990.09033.0440.0010.0010.0000.0000.0000.000
63C34SER00.011-0.09330.5900.0000.0000.0000.0000.0000.000
64C34SER0-0.0120.08530.9040.0030.0030.0000.0000.0000.000
65C35ASN00.150-0.03029.3940.0040.0040.0000.0000.0000.000
66C35ASN0-0.1110.03328.776-0.001-0.0010.0000.0000.0000.000
67C36ASP00.006-0.10530.7350.0070.0070.0000.0000.0000.000
68C36ASP-1-0.906-0.80729.751-0.103-0.1030.0000.0000.0000.000
69C37THR00.042-0.09332.9070.0030.0030.0000.0000.0000.000
70C37THR0-0.0520.05133.9000.0020.0020.0000.0000.0000.000
71C38ASN00.062-0.06835.490-0.001-0.0010.0000.0000.0000.000
72C38ASN0-0.1210.05336.0360.0010.0010.0000.0000.0000.000
73C39VAL00.098-0.12038.7080.0020.0020.0000.0000.0000.000
74C39VAL0-0.0790.12242.4910.0000.0000.0000.0000.0000.000
75C40PRO0-0.026-0.11241.302-0.002-0.0020.0000.0000.0000.000
76C41PHE00.1610.03743.1210.0020.0020.0000.0000.0000.000
77C41PHE0-0.0750.09245.2310.0000.0000.0000.0000.0000.000
78C42VAL00.000-0.13345.9660.0010.0010.0000.0000.0000.000
79C42VAL0-0.0920.10947.5050.0000.0000.0000.0000.0000.000
80C43LYS00.124-0.03549.345-0.001-0.0010.0000.0000.0000.000
81C43LYS10.8811.03551.4200.0300.0300.0000.0000.0000.000
82C44ALA00.146-0.06752.2600.0010.0010.0000.0000.0000.000
83C44ALA0-0.1140.08655.6110.0000.0000.0000.0000.0000.000
84C45LEU00.057-0.12754.9770.0020.0020.0000.0000.0000.000
85C45LEU0-0.0860.10151.5710.0000.0000.0000.0000.0000.000
86C46ASP00.034-0.10755.9850.0010.0010.0000.0000.0000.000
87C46ASP-1-0.831-0.76158.394-0.027-0.0270.0000.0000.0000.000
88C47GLY0-0.046-0.09658.8160.0010.0010.0000.0000.0000.000
89C48SER0-0.094-0.04159.3810.0010.0010.0000.0000.0000.000
90C48SER0-0.0730.02660.1320.0000.0000.0000.0000.0000.000
91C49GLY00.011-0.11557.1380.0000.0000.0000.0000.0000.000
92C50LEU0-0.010-0.05056.444-0.001-0.0010.0000.0000.0000.000
93C50LEU0-0.0560.11658.9610.0000.0000.0000.0000.0000.000
94C51ASP00.148-0.05654.0360.0010.0010.0000.0000.0000.000
95C51ASP-1-0.962-0.83952.575-0.041-0.0410.0000.0000.0000.000
96C52GLU00.056-0.14955.092-0.001-0.0010.0000.0000.0000.000
97C52GLU-1-0.955-0.82755.127-0.032-0.0320.0000.0000.0000.000
98C53MET00.079-0.10853.4860.0010.0010.0000.0000.0000.000
99C53MET0-0.0930.09850.900-0.001-0.0010.0000.0000.0000.000
100C54SER00.051-0.09954.225-0.002-0.0020.0000.0000.0000.000
101C54SER0-0.0500.08254.6670.0010.0010.0000.0000.0000.000
102C55PHE00.107-0.06254.9890.0020.0020.0000.0000.0000.000
103C55PHE0-0.0830.07855.5300.0000.0000.0000.0000.0000.000
104C56ASP00.036-0.13456.5690.0010.0010.0000.0000.0000.000
105C56ASP-1-0.912-0.79755.648-0.041-0.0410.0000.0000.0000.000
106C57TYR00.122-0.08158.1920.0010.0010.0000.0000.0000.000
107C57TYR0-0.0890.09558.5450.0010.0010.0000.0000.0000.000
108C58LEU00.094-0.11359.3420.0020.0020.0000.0000.0000.000
109C58LEU0-0.0930.11657.5630.0000.0000.0000.0000.0000.000
110C59LYS00.063-0.08160.8740.0010.0010.0000.0000.0000.000
111C59LYS10.6900.96159.0970.0370.0370.0000.0000.0000.000
112C60LYS00.070-0.09862.7560.0010.0010.0000.0000.0000.000
113C60LYS10.7220.98262.6670.0300.0300.0000.0000.0000.000
114C61ILE00.077-0.11465.0070.0010.0010.0000.0000.0000.000
115C61ILE0-0.0830.13063.1480.0000.0000.0000.0000.0000.000
116C62PRO0-0.038-0.12466.781-0.001-0.0010.0000.0000.0000.000
117C63GLN00.137-0.00570.3530.0000.0000.0000.0000.0000.000
118C63GLN0-0.0560.13869.733-0.001-0.0010.0000.0000.0000.000
119C64PHE00.100-0.09071.9140.0000.0000.0000.0000.0000.000
120C64PHE0-0.0880.10975.8890.0000.0000.0000.0000.0000.000
121C65ILE00.015-0.12574.6970.0000.0000.0000.0000.0000.000
122C65ILE0-0.0890.10472.8490.0000.0000.0000.0000.0000.000
123C66GLN00.081-0.09275.7880.0000.0000.0000.0000.0000.000
124C66GLN0-0.0630.07578.6590.0010.0010.0000.0000.0000.000
125C67SER00.019-0.07179.5750.0000.0000.0000.0000.0000.000
126C67SER0-0.0250.05682.6990.0000.0000.0000.0000.0000.000
127C68LYS0-0.008-0.12683.0940.0000.0000.0000.0000.0000.000
128C68LYS10.8611.05883.4600.0210.0210.0000.0000.0000.000
129C69PHE00.097-0.07286.4980.0000.0000.0000.0000.0000.000
130C69PHE0-0.0660.09789.0050.0000.0000.0000.0000.0000.000
131C70PHE00.145-0.07489.9980.0000.0000.0000.0000.0000.000
132C70PHE0-0.1190.08990.2520.0000.0000.0000.0000.0000.000
133C71THR00.033-0.08191.9430.0000.0000.0000.0000.0000.000
134C71THR0-0.0410.06294.0600.0000.0000.0000.0000.0000.000
135C72THR00.089-0.03895.6700.0000.0000.0000.0000.0000.000
136C72THR0-0.0440.06999.2360.0000.0000.0000.0000.0000.000
137C73THR0-0.012-0.09198.6020.0000.0000.0000.0000.0000.000
138C73THR0-0.0080.08397.7960.0000.0000.0000.0000.0000.000
139C74THR00.005-0.06695.3310.0000.0000.0000.0000.0000.000
140C74THR0-0.0720.06693.6810.0000.0000.0000.0000.0000.000
141C75LYS00.094-0.08996.4280.0000.0000.0000.0000.0000.000
142C75LYS10.8791.06296.7850.0150.0150.0000.0000.0000.000
143C76PRO0-0.028-0.11495.5620.0000.0000.0000.0000.0000.000
144C77GLN00.010-0.01992.9320.0000.0000.0000.0000.0000.000
145C77GLN0-0.0280.11092.8660.0000.0000.0000.0000.0000.000
146C78GLU00.141-0.10692.367-0.001-0.0010.0000.0000.0000.000
147C78GLU-1-0.871-0.76492.157-0.016-0.0160.0000.0000.0000.000
148C79VAL00.098-0.10988.4050.0000.0000.0000.0000.0000.000
149C79VAL0-0.1120.09886.4140.0000.0000.0000.0000.0000.000
150C80LEU00.064-0.08688.1040.0000.0000.0000.0000.0000.000
151C80LEU0-0.0980.09887.3700.0000.0000.0000.0000.0000.000
152C81PHE00.129-0.09883.5700.0000.0000.0000.0000.0000.000
153C81PHE0-0.0620.09078.3690.0000.0000.0000.0000.0000.000
154C82GLN00.103-0.07982.1780.0000.0000.0000.0000.0000.000
155C82GLN0-0.1040.07781.5930.0000.0000.0000.0000.0000.000
156C83THR0-0.032-0.08477.9570.0000.0000.0000.0000.0000.000
157C83THR0-0.0240.07376.2690.0000.0000.0000.0000.0000.000
158C84LYS00.146-0.07775.2270.0000.0000.0000.0000.0000.000
159C84LYS10.7090.98674.2930.0280.0280.0000.0000.0000.000
160C85VAL00.109-0.07773.4720.0000.0000.0000.0000.0000.000
161C85VAL0-0.0990.11871.5740.0000.0000.0000.0000.0000.000
162C86MET00.067-0.06669.512-0.001-0.0010.0000.0000.0000.000
163C86MET0-0.1130.06669.4440.0000.0000.0000.0000.0000.000
164C87PRO00.042-0.07765.2360.0010.0010.0000.0000.0000.000
165C88HIS00.0730.01467.7060.0010.0010.0000.0000.0000.000
166C88HIS0-0.0970.08866.6670.0000.0000.0000.0000.0000.000
167C89TYR00.031-0.13168.6140.0000.0000.0000.0000.0000.000
168C89TYR0-0.0470.09672.0000.0000.0000.0000.0000.0000.000
169C90PHE00.128-0.08170.419-0.001-0.0010.0000.0000.0000.000
170C90PHE0-0.0730.09670.7350.0000.0000.0000.0000.0000.000
171C91VAL00.123-0.09672.6100.0000.0000.0000.0000.0000.000
172C91VAL0-0.0880.12071.1960.0000.0000.0000.0000.0000.000
173C92PRO0-0.067-0.12773.8780.0000.0000.0000.0000.0000.000
174C93GLY00.0100.00376.9880.0010.0010.0000.0000.0000.000
175C94GLY0-0.017-0.00974.6160.0010.0010.0000.0000.0000.000
176C95ASP00.082-0.02073.290-0.001-0.0010.0000.0000.0000.000
177C95ASP-1-0.904-0.83075.394-0.025-0.0250.0000.0000.0000.000
178C96VAL00.114-0.07971.6770.0010.0010.0000.0000.0000.000
179C96VAL0-0.1100.10069.6650.0000.0000.0000.0000.0000.000
180C97THR0-0.016-0.12273.110-0.001-0.0010.0000.0000.0000.000
181C97THR0-0.0460.07177.2300.0000.0000.0000.0000.0000.000
182C98VAL00.014-0.10774.5120.0010.0010.0000.0000.0000.000
183C98VAL0-0.0420.11572.6410.0000.0000.0000.0000.0000.000
184C99ALA00.123-0.10575.9870.0000.0000.0000.0000.0000.000
185C99ALA0-0.0410.13178.4390.0000.0000.0000.0000.0000.000
186C100MET00.013-0.12176.2290.0000.0000.0000.0000.0000.000
187C100MET0-0.1290.05872.9590.0000.0000.0000.0000.0000.000
188C101ASP00.122-0.07377.2790.0000.0000.0000.0000.0000.000
189C101ASP-1-0.922-0.81280.302-0.021-0.0210.0000.0000.0000.000
190C102LYS00.019-0.11080.4010.0000.0000.0000.0000.0000.000
191C102LYS10.6830.95183.9920.0200.0200.0000.0000.0000.000
192C103ASP00.054-0.08783.3370.0010.0010.0000.0000.0000.000
193C103ASP-1-0.841-0.80084.565-0.020-0.0200.0000.0000.0000.000
194C104ILE00.132-0.08981.4270.0000.0000.0000.0000.0000.000
195C104ILE0-0.1200.08679.6360.0000.0000.0000.0000.0000.000
196C105THR00.003-0.11079.4350.0000.0000.0000.0000.0000.000
197C105THR0-0.0160.10579.5890.0000.0000.0000.0000.0000.000
198C106ARG00.007-0.08376.5840.0000.0000.0000.0000.0000.000
199C106ARG10.8691.03573.2220.0280.0280.0000.0000.0000.000
200C107THR00.037-0.06976.0460.0000.0000.0000.0000.0000.000
201C107THR0-0.0040.08376.5930.0000.0000.0000.0000.0000.000
202C108ILE00.015-0.10671.7460.0000.0000.0000.0000.0000.000
203C108ILE0-0.0550.11069.6220.0000.0000.0000.0000.0000.000
204C109TRP00.178-0.05272.9510.0000.0000.0000.0000.0000.000
205C109TRP0-0.1300.06173.1530.0000.0000.0000.0000.0000.000
206C110GLN00.071-0.11569.850-0.001-0.0010.0000.0000.0000.000
207C110GLN0-0.0810.13567.5590.0000.0000.0000.0000.0000.000
208C111PRO0-0.021-0.11565.7200.0010.0010.0000.0000.0000.000
209C112SER00.0830.02868.5560.0010.0010.0000.0000.0000.000
210C112SER0-0.0690.04969.1490.0000.0000.0000.0000.0000.000
211C113HIS00.113-0.08265.986-0.001-0.0010.0000.0000.0000.000
212C113HIS0-0.1200.07563.5740.0000.0000.0000.0000.0000.000
213C114LEU00.076-0.12264.395-0.001-0.0010.0000.0000.0000.000
214C114LEU0-0.0300.14564.8910.0000.0000.0000.0000.0000.000
215C115ALA00.161-0.06863.957-0.002-0.0020.0000.0000.0000.000
216C115ALA0-0.1300.08466.8330.0000.0000.0000.0000.0000.000
217C116TYR00.083-0.08363.183-0.001-0.0010.0000.0000.0000.000
218C116TYR0-0.0830.09759.3970.0000.0000.0000.0000.0000.000
219C117ILE00.054-0.08459.978-0.002-0.0020.0000.0000.0000.000
220C117ILE0-0.0680.11459.2400.0000.0000.0000.0000.0000.000
221C118THR00.020-0.08459.103-0.002-0.0020.0000.0000.0000.000
222C118THR0-0.1060.02260.8240.0000.0000.0000.0000.0000.000
223C119SER00.054-0.08560.379-0.001-0.0010.0000.0000.0000.000
224C119SER0-0.0920.04060.6780.0000.0000.0000.0000.0000.000
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