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: 16ZGZ

Calculation Name: 4A9A-C-Xray540

Preferred Name:

Target Type:

Ligand Name:

Ligand 3-letter code:

Ligand of Interest (LOI):

Structure Source: PDB

PDB ID: 4A9A

Chain ID: C

ChEMBL ID:

UniProt ID: P39729

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 202
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -596106.01375
FMO2-HF: Nuclear repulsion 554523.253992
FMO2-HF: Total energy -41582.759758
FMO2-MP2: Total energy -41705.626942


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:214:LEU)


Summations of interaction energy for fragment #1(C:214:LEU)
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.
-4.449-5.4769.76-4.435-4.3-0.042
Interaction energy analysis for fragmet #1(C:214:LEU)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.121 / q_NPA : 0.021
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].
4C215GLU-1-0.979-0.8841.925-4.423-6.2609.738-4.157-3.744-0.044
5C216LYS00.172-0.0613.858-1.073-0.371-0.003-0.419-0.2810.002
6C216LYS10.7361.0107.9720.8590.8590.0000.0000.0000.000
7C217GLN00.062-0.1275.5820.3390.3390.0000.0000.0000.000
8C217GLN0-0.0400.1193.7410.3630.4710.0250.141-0.2750.000
9C218PRO00.001-0.0936.6270.4540.4540.0000.0000.0000.000
10C219LYS00.0250.0169.587-0.149-0.1490.0000.0000.0000.000
11C219LYS10.8901.03311.7510.3710.3710.0000.0000.0000.000
12C220ILE00.063-0.07712.3540.0130.0130.0000.0000.0000.000
13C220ILE0-0.0290.10512.293-0.011-0.0110.0000.0000.0000.000
14C221THR0-0.016-0.10814.8110.0060.0060.0000.0000.0000.000
15C221THR0-0.0590.04718.9940.0110.0110.0000.0000.0000.000
16C222LEU00.113-0.10017.341-0.041-0.0410.0000.0000.0000.000
17C222LEU0-0.0880.10419.3000.0020.0020.0000.0000.0000.000
18C223GLU00.046-0.12119.356-0.007-0.0070.0000.0000.0000.000
19C223GLU-1-0.887-0.80221.750-0.192-0.1920.0000.0000.0000.000
20C224GLU00.157-0.10017.6360.0170.0170.0000.0000.0000.000
21C224GLU-1-0.855-0.75516.780-0.369-0.3690.0000.0000.0000.000
22C225PHE00.103-0.04815.743-0.026-0.0260.0000.0000.0000.000
23C225PHE0-0.1090.05314.0090.0040.0040.0000.0000.0000.000
24C226ILE0-0.021-0.13216.647-0.013-0.0130.0000.0000.0000.000
25C226ILE0-0.1040.08820.1000.0040.0040.0000.0000.0000.000
26C227GLU00.078-0.12819.9710.0100.0100.0000.0000.0000.000
27C227GLU-1-0.975-0.83421.172-0.188-0.1880.0000.0000.0000.000
28C228THR0-0.061-0.10418.2560.0210.0210.0000.0000.0000.000
29C228THR0-0.0670.05017.605-0.014-0.0140.0000.0000.0000.000
30C229GLU00.099-0.09413.7260.0200.0200.0000.0000.0000.000
31C229GLU-1-0.878-0.79012.335-0.618-0.6180.0000.0000.0000.000
32C230ARG00.079-0.11314.142-0.034-0.0340.0000.0000.0000.000
33C230ARG10.8431.07916.6830.1940.1940.0000.0000.0000.000
34C231GLY0-0.037-0.12816.0530.0310.0310.0000.0000.0000.000
35C232LYS00.087-0.00714.0810.0490.0490.0000.0000.0000.000
36C232LYS10.7440.99412.7770.5370.5370.0000.0000.0000.000
37C233LEU0-0.002-0.10413.688-0.017-0.0170.0000.0000.0000.000
38C233LEU0-0.0950.10011.3950.0040.0040.0000.0000.0000.000
39C234ASP00.189-0.08214.5990.0320.0320.0000.0000.0000.000
40C234ASP-1-0.861-0.73115.587-0.125-0.1250.0000.0000.0000.000
41C235LYS00.087-0.10016.5870.0050.0050.0000.0000.0000.000
42C235LYS10.8911.07319.4710.1490.1490.0000.0000.0000.000
43C236SER0-0.009-0.08118.9720.0110.0110.0000.0000.0000.000
44C236SER0-0.0650.03419.5290.0060.0060.0000.0000.0000.000
45C237LYS00.030-0.11815.5960.0290.0290.0000.0000.0000.000
46C237LYS10.7831.00114.9500.0860.0860.0000.0000.0000.000
47C238LEU00.049-0.10515.2560.0040.0040.0000.0000.0000.000
48C238LEU0-0.0800.11314.585-0.002-0.0020.0000.0000.0000.000
49C239THR00.059-0.09315.1360.0160.0160.0000.0000.0000.000
50C239THR0-0.0350.09115.0160.0180.0180.0000.0000.0000.000
51C240PRO0-0.008-0.08816.742-0.012-0.0120.0000.0000.0000.000
52C241ILE00.1390.03618.9660.0270.0270.0000.0000.0000.000
53C241ILE0-0.0600.12017.695-0.003-0.0030.0000.0000.0000.000
54C242THR00.009-0.10319.713-0.005-0.0050.0000.0000.0000.000
55C242THR0-0.0240.06522.2570.0050.0050.0000.0000.0000.000
56C243ILE00.136-0.06921.3570.0060.0060.0000.0000.0000.000
57C243ILE0-0.0300.12325.0790.0000.0000.0000.0000.0000.000
58C244ALA00.097-0.09822.3590.0100.0100.0000.0000.0000.000
59C244ALA0-0.0510.12022.962-0.001-0.0010.0000.0000.0000.000
60C245ASN00.080-0.09418.6540.0290.0290.0000.0000.0000.000
61C245ASN0-0.1320.06417.8360.0140.0140.0000.0000.0000.000
62C246PHE00.123-0.09117.2530.0260.0260.0000.0000.0000.000
63C246PHE0-0.0820.10017.976-0.001-0.0010.0000.0000.0000.000
64C247ALA00.106-0.09818.1800.0150.0150.0000.0000.0000.000
65C247ALA0-0.0660.11721.590-0.001-0.0010.0000.0000.0000.000
66C248GLN00.067-0.10317.3230.0210.0210.0000.0000.0000.000
67C248GLN0-0.0740.10114.390-0.039-0.0390.0000.0000.0000.000
68C249TRP00.135-0.08013.8180.0710.0710.0000.0000.0000.000
69C249TRP0-0.0720.09711.094-0.001-0.0010.0000.0000.0000.000
70C250LYS00.080-0.11514.4050.0480.0480.0000.0000.0000.000
71C250LYS10.8731.09618.063-0.104-0.1040.0000.0000.0000.000
72C251LYS00.113-0.09917.0990.0020.0020.0000.0000.0000.000
73C251LYS10.7361.01116.368-0.350-0.3500.0000.0000.0000.000
74C252ASP00.081-0.12113.113-0.004-0.0040.0000.0000.0000.000
75C252ASP-1-0.887-0.76512.1900.4910.4910.0000.0000.0000.000
76C253HIS00.166-0.05712.6130.1230.1230.0000.0000.0000.000
77C253HIS0-0.1390.07713.250-0.022-0.0220.0000.0000.0000.000
78C254VAL00.029-0.12313.6110.0140.0140.0000.0000.0000.000
79C254VAL0-0.0670.11618.092-0.007-0.0070.0000.0000.0000.000
80C255ILE00.103-0.09615.434-0.034-0.0340.0000.0000.0000.000
81C255ILE0-0.0700.11213.9530.0050.0050.0000.0000.0000.000
82C256ALA00.098-0.10611.7310.0160.0160.0000.0000.0000.000
83C256ALA0-0.0720.11811.0880.0180.0180.0000.0000.0000.000
84C257LYS00.029-0.12212.7870.0100.0100.0000.0000.0000.000
85C257LYS10.8301.04114.017-0.134-0.1340.0000.0000.0000.000
86C258ILE00.107-0.08215.597-0.031-0.0310.0000.0000.0000.000
87C258ILE0-0.0690.11017.711-0.001-0.0010.0000.0000.0000.000
88C259ASN00.062-0.08314.408-0.063-0.0630.0000.0000.0000.000
89C259ASN0-0.0960.07213.678-0.038-0.0380.0000.0000.0000.000
90C260ALA00.120-0.08914.4410.0200.0200.0000.0000.0000.000
91C260ALA0-0.0920.09513.630-0.010-0.0100.0000.0000.0000.000
92C261GLU00.083-0.11815.061-0.025-0.0250.0000.0000.0000.000
93C261GLU-1-0.803-0.74019.7300.1270.1270.0000.0000.0000.000
94C262LYS00.121-0.08718.447-0.036-0.0360.0000.0000.0000.000
95C262LYS10.8011.05117.620-0.354-0.3540.0000.0000.0000.000
96C263LYS00.074-0.07716.082-0.026-0.0260.0000.0000.0000.000
97C263LYS10.8451.04712.149-0.393-0.3930.0000.0000.0000.000
98C264LEU00.016-0.11017.580-0.019-0.0190.0000.0000.0000.000
99C264LEU0-0.0550.12017.862-0.005-0.0050.0000.0000.0000.000
100C265SER00.085-0.07719.971-0.024-0.0240.0000.0000.0000.000
101C265SER0-0.0510.03922.278-0.001-0.0010.0000.0000.0000.000
102C266SER00.009-0.04621.670-0.019-0.0190.0000.0000.0000.000
103C266SER0-0.0860.04220.3500.0040.0040.0000.0000.0000.000
104C267LYS00.048-0.10022.2210.0030.0030.0000.0000.0000.000
105C267LYS10.7410.97818.744-0.152-0.1520.0000.0000.0000.000
106C268ARG00.156-0.07023.586-0.017-0.0170.0000.0000.0000.000
107C268ARG10.6820.96623.937-0.094-0.0940.0000.0000.0000.000
108C269LYS00.053-0.10325.3470.0070.0070.0000.0000.0000.000
109C269LYS10.8991.07629.329-0.028-0.0280.0000.0000.0000.000
110C270PRO0-0.043-0.09429.1490.0010.0010.0000.0000.0000.000
111C271THR00.0710.00930.797-0.007-0.0070.0000.0000.0000.000
112C271THR0-0.0640.04130.478-0.001-0.0010.0000.0000.0000.000
113C272GLY00.052-0.07332.8680.0020.0020.0000.0000.0000.000
114C273ARG00.1810.05035.3680.0000.0000.0000.0000.0000.000
115C273ARG10.8811.07632.190-0.066-0.0660.0000.0000.0000.000
116C274GLU00.096-0.09832.0380.0010.0010.0000.0000.0000.000
117C274GLU-1-0.855-0.75728.7280.0820.0820.0000.0000.0000.000
118C275ILE00.025-0.06433.4630.0070.0070.0000.0000.0000.000
119C275ILE0-0.0550.08634.6450.0000.0000.0000.0000.0000.000
120C276ILE00.079-0.08336.0730.0020.0020.0000.0000.0000.000
121C276ILE0-0.0740.10338.9390.0000.0000.0000.0000.0000.000
122C277LEU00.139-0.08635.744-0.002-0.0020.0000.0000.0000.000
123C277LEU0-0.1090.06334.0610.0010.0010.0000.0000.0000.000
124C278LYS00.102-0.04736.0950.0030.0030.0000.0000.0000.000
125C278LYS10.7750.98031.223-0.075-0.0750.0000.0000.0000.000
126C279MET00.127-0.06536.8340.0020.0020.0000.0000.0000.000
127C279MET0-0.1160.06539.496-0.001-0.0010.0000.0000.0000.000
128C280SER00.038-0.04939.971-0.003-0.0030.0000.0000.0000.000
129C280SER0-0.0820.03940.012-0.001-0.0010.0000.0000.0000.000
130C281ALA00.029-0.08638.192-0.002-0.0020.0000.0000.0000.000
131C281ALA0-0.0990.07737.6830.0010.0010.0000.0000.0000.000
132C282GLU0-0.135-0.19539.7030.0000.0000.0000.0000.0000.000
133C282GLU-1-0.876-0.89339.3910.0520.0520.0000.0000.0000.000
134C302ALA00.1610.01155.3490.0000.0000.0000.0000.0000.000
135C302ALA0-0.1260.08156.8740.0000.0000.0000.0000.0000.000
136C303TRP00.079-0.09454.974-0.001-0.0010.0000.0000.0000.000
137C303TRP0-0.1410.07154.5580.0000.0000.0000.0000.0000.000
138C304ASP00.093-0.12054.4390.0010.0010.0000.0000.0000.000
139C304ASP-1-0.883-0.76255.7770.0160.0160.0000.0000.0000.000
140C305LEU00.064-0.09952.922-0.001-0.0010.0000.0000.0000.000
141C305LEU0-0.0840.09350.0610.0000.0000.0000.0000.0000.000
142C306THR0-0.008-0.11652.8730.0000.0000.0000.0000.0000.000
143C306THR0-0.0330.06553.4400.0010.0010.0000.0000.0000.000
144C307GLU00.228-0.06253.3840.0010.0010.0000.0000.0000.000
145C307GLU-1-1.014-0.84757.2560.0120.0120.0000.0000.0000.000
146C308PHE00.045-0.10853.9490.0000.0000.0000.0000.0000.000
147C308PHE0-0.0680.09953.2700.0000.0000.0000.0000.0000.000
148C309THR00.028-0.08149.880-0.001-0.0010.0000.0000.0000.000
149C309THR0-0.0670.04948.8800.0010.0010.0000.0000.0000.000
150C310ASP00.028-0.10949.8070.0010.0010.0000.0000.0000.000
151C310ASP-1-0.904-0.78351.8580.0190.0190.0000.0000.0000.000
152C311ALA00.110-0.09351.9050.0000.0000.0000.0000.0000.000
153C311ALA0-0.0770.10754.1040.0000.0000.0000.0000.0000.000
154C312LEU00.085-0.10049.420-0.001-0.0010.0000.0000.0000.000
155C312LEU0-0.1160.09545.9950.0000.0000.0000.0000.0000.000
156C313LYS00.085-0.08447.001-0.001-0.0010.0000.0000.0000.000
157C313LYS10.7370.96946.694-0.019-0.0190.0000.0000.0000.000
158C314LYS00.122-0.07047.7470.0010.0010.0000.0000.0000.000
159C314LYS10.8471.04652.005-0.011-0.0110.0000.0000.0000.000
160C315ALA00.095-0.10349.7630.0000.0000.0000.0000.0000.000
161C315ALA0-0.0950.09549.9000.0000.0000.0000.0000.0000.000
162C316ASP00.063-0.09245.518-0.002-0.0020.0000.0000.0000.000
163C316ASP-1-0.992-0.86043.3480.0160.0160.0000.0000.0000.000
164C317HIS00.017-0.09444.6730.0000.0000.0000.0000.0000.000
165C317HIS10.6730.93941.703-0.018-0.0180.0000.0000.0000.000
166C318GLN00.132-0.09246.4960.0010.0010.0000.0000.0000.000
167C318GLN0-0.1720.04949.6290.0000.0000.0000.0000.0000.000
168C319ASP00.045-0.09747.3950.0000.0000.0000.0000.0000.000
169C319ASP-1-0.921-0.81946.6950.0050.0050.0000.0000.0000.000
170C320ASP00.086-0.12744.136-0.001-0.0010.0000.0000.0000.000
171C320ASP-1-0.897-0.76943.9530.0180.0180.0000.0000.0000.000
172C321GLY0-0.048-0.11743.9790.0010.0010.0000.0000.0000.000
173C322GLY0-0.055-0.04245.1600.0000.0000.0000.0000.0000.000
174C323ILE00.0740.01941.355-0.002-0.0020.0000.0000.0000.000
175C323ILE0-0.0500.11739.9370.0000.0000.0000.0000.0000.000
176C324LYS00.040-0.13237.8700.0010.0010.0000.0000.0000.000
177C324LYS10.7220.99533.826-0.022-0.0220.0000.0000.0000.000
178C325ASP00.069-0.11936.906-0.002-0.0020.0000.0000.0000.000
179C325ASP-1-0.885-0.77836.7410.0320.0320.0000.0000.0000.000
180C326TYR0-0.027-0.13732.6280.0000.0000.0000.0000.0000.000
181C326TYR0-0.0890.08631.6700.0000.0000.0000.0000.0000.000
182C327GLY00.076-0.08032.5160.0060.0060.0000.0000.0000.000
183C328ASP00.023-0.02631.371-0.005-0.0050.0000.0000.0000.000
184C328ASP-1-0.888-0.78630.3630.0770.0770.0000.0000.0000.000
185C329GLY0-0.043-0.11428.6530.0030.0030.0000.0000.0000.000
186C330SER0-0.021-0.02426.9360.0020.0020.0000.0000.0000.000
187C330SER0-0.0640.04127.7060.0030.0030.0000.0000.0000.000
188C331ASN0-0.080-0.10626.887-0.006-0.0060.0000.0000.0000.000
189C331ASN0-0.0880.06127.2550.0070.0070.0000.0000.0000.000
190C332PRO00.070-0.08026.681-0.004-0.0040.0000.0000.0000.000
191C333THR00.008-0.00229.1450.0020.0020.0000.0000.0000.000
192C333THR0-0.0120.07432.0900.0000.0000.0000.0000.0000.000
193C334PHE00.064-0.07331.329-0.002-0.0020.0000.0000.0000.000
194C334PHE0-0.1120.08527.611-0.001-0.0010.0000.0000.0000.000
195C335ASP00.143-0.10432.596-0.005-0.0050.0000.0000.0000.000
196C335ASP-1-0.902-0.81135.5760.0300.0300.0000.0000.0000.000
197C336ILE00.007-0.12436.2220.0000.0000.0000.0000.0000.000
198C336ILE0-0.0550.11935.470-0.001-0.0010.0000.0000.0000.000
199C337LYS00.062-0.10738.6170.0010.0010.0000.0000.0000.000
200C337LYS10.8671.06441.080-0.014-0.0140.0000.0000.0000.000
201C338LYS0-0.056-0.09742.203-0.002-0.0020.0000.0000.0000.000
202C338LYS11.0241.00945.022-0.002-0.0020.0000.0000.0000.000