Manual

About

FMODB

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

Last updated: 2024-05-02

All entries: 37386

Number of unique PDB entries: 7781

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FMODB ID: QV83Y

Calculation Name: 4OZR-E-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 4OZR

Chain ID: E

ChEMBL ID:

UniProt ID: E0VVT4

Base Structure: X-ray

Registration Date: 2023-09-20

Reference: C. Watanabe, N. Tani, K. Kamisaka, T. Honma et al., Interaction energy analysis of Apo structure dataset on FMODB, To be published.

DOI:


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 197
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 22 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -2271437.366301
FMO2-HF: Nuclear repulsion 2190704.97142
FMO2-HF: Total energy -80732.394881
FMO2-MP2: Total energy -80966.284561


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(E:282:LYS)


Summations of interaction energy for fragment #1(E:282:LYS)
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.
-30.461-28.170.008-1.076-1.2230
Interaction energy analysis for fragmet #1(E:282:LYS)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 1 / q_Mulliken : 0.983 / q_NPA : 0.970
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].
3E284ILE00.0670.0343.522-1.5280.125-0.001-0.845-0.8070.001
4E285SER00.0250.0156.2751.3121.3120.0000.0000.0000.000
5E286PRO0-0.0170.0118.7440.9010.9010.0000.0000.0000.000
6E287GLU-1-0.830-0.93312.310-15.737-15.7370.0000.0000.0000.000
7E288GLN0-0.024-0.03110.695-0.136-0.1360.0000.0000.0000.000
8E289GLU-1-0.948-0.98213.079-17.978-17.9780.0000.0000.0000.000
9E290GLU-1-0.851-0.92214.680-12.056-12.0560.0000.0000.0000.000
10E291LEU0-0.055-0.01616.3660.6980.6980.0000.0000.0000.000
11E292ILE0-0.006-0.02212.6940.5950.5950.0000.0000.0000.000
12E293HIS00.0290.02816.5890.7050.7050.0000.0000.0000.000
13E294ARG10.9050.95619.64711.96011.9600.0000.0000.0000.000
14E295LEU0-0.059-0.02419.4170.5340.5340.0000.0000.0000.000
15E296VAL0-0.004-0.01118.8180.4290.4290.0000.0000.0000.000
16E297TYR0-0.0060.00521.7230.4240.4240.0000.0000.0000.000
17E298PHE00.0570.00224.7920.4150.4150.0000.0000.0000.000
18E299GLN0-0.061-0.04421.6680.2920.2920.0000.0000.0000.000
19E300ASN0-0.042-0.03825.5000.0590.0590.0000.0000.0000.000
20E301GLU-1-0.935-0.94527.380-8.968-8.9680.0000.0000.0000.000
21E302TYR0-0.041-0.01929.6160.2370.2370.0000.0000.0000.000
22E303GLU-1-0.821-0.90328.373-9.827-9.8270.0000.0000.0000.000
23E304GLN0-0.046-0.02830.833-0.042-0.0420.0000.0000.0000.000
24E305PRO0-0.041-0.02234.506-0.069-0.0690.0000.0000.0000.000
25E306SER0-0.0030.03037.906-0.037-0.0370.0000.0000.0000.000
26E307ASP-1-0.929-0.97738.955-6.866-6.8660.0000.0000.0000.000
27E308GLU-1-0.948-0.98140.759-7.136-7.1360.0000.0000.0000.000
28E309ASP-1-1.009-0.98243.999-6.014-6.0140.0000.0000.0000.000
29E328PHE0-0.001-0.00951.2020.0160.0160.0000.0000.0000.000
30E329ARG10.9020.95749.3445.8595.8590.0000.0000.0000.000
31E330HIS00.0460.00249.303-0.112-0.1120.0000.0000.0000.000
32E331ILE00.0730.05547.429-0.023-0.0230.0000.0000.0000.000
33E332THR0-0.041-0.02643.810-0.176-0.1760.0000.0000.0000.000
34E333GLU-1-0.881-0.91144.048-6.372-6.3720.0000.0000.0000.000
35E334ILE00.0990.03740.258-0.136-0.1360.0000.0000.0000.000
36E335THR0-0.040-0.04239.245-0.251-0.2510.0000.0000.0000.000
37E336ILE0-0.014-0.01639.044-0.197-0.1970.0000.0000.0000.000
38E337LEU00.0770.05138.033-0.157-0.1570.0000.0000.0000.000
39E338THR0-0.022-0.02135.029-0.286-0.2860.0000.0000.0000.000
40E339VAL0-0.010-0.00634.656-0.251-0.2510.0000.0000.0000.000
41E340GLN00.012-0.00435.135-0.155-0.1550.0000.0000.0000.000
42E341LEU0-0.0010.00933.139-0.146-0.1460.0000.0000.0000.000
43E342ILE0-0.029-0.00630.250-0.307-0.3070.0000.0000.0000.000
44E343VAL0-0.029-0.01730.835-0.269-0.2690.0000.0000.0000.000
45E344GLU-1-0.887-0.93932.526-8.400-8.4000.0000.0000.0000.000
46E345PHE0-0.026-0.02023.144-0.222-0.2220.0000.0000.0000.000
47E346ALA00.014-0.00827.652-0.311-0.3110.0000.0000.0000.000
48E347LYS10.8680.94928.7188.2378.2370.0000.0000.0000.000
49E348ARG10.7990.93227.5848.9998.9990.0000.0000.0000.000
50E349LEU00.0290.02023.551-0.382-0.3820.0000.0000.0000.000
51E350PRO00.0040.01122.2450.3140.3140.0000.0000.0000.000
52E351GLY00.0240.02724.019-0.392-0.3920.0000.0000.0000.000
53E352PHE00.0620.01926.0350.2670.2670.0000.0000.0000.000
54E353ASP-1-0.900-0.95128.687-9.835-9.8350.0000.0000.0000.000
55E354LYS10.8760.94327.83910.53010.5300.0000.0000.0000.000
56E355LEU0-0.0180.00428.8740.1040.1040.0000.0000.0000.000
57E356LEU00.0450.04032.1390.2060.2060.0000.0000.0000.000
58E357ARG10.9100.93735.6327.8097.8090.0000.0000.0000.000
59E358GLU-1-0.851-0.94837.591-7.621-7.6210.0000.0000.0000.000
60E359ASP-1-0.739-0.88232.732-8.966-8.9660.0000.0000.0000.000
61E360GLN0-0.054-0.02432.5330.1190.1190.0000.0000.0000.000
62E361ILE0-0.038-0.01233.858-0.021-0.0210.0000.0000.0000.000
63E362ALA0-0.022-0.01434.9370.0270.0270.0000.0000.0000.000
64E363LEU00.0230.01428.6320.0110.0110.0000.0000.0000.000
65E364LEU00.0260.00231.365-0.069-0.0690.0000.0000.0000.000
66E365LYS10.9000.94433.2577.7117.7110.0000.0000.0000.000
67E366ALA0-0.032-0.01232.6050.1140.1140.0000.0000.0000.000
68E367CYS0-0.0080.02328.980-0.074-0.0740.0000.0000.0000.000
69E368SER0-0.0130.00430.710-0.097-0.0970.0000.0000.0000.000
70E369SER00.0270.00532.7070.0330.0330.0000.0000.0000.000
71E370GLU-1-0.766-0.88928.197-10.168-10.1680.0000.0000.0000.000
72E371VAL00.0420.01127.392-0.214-0.2140.0000.0000.0000.000
73E372MET0-0.016-0.00629.004-0.018-0.0180.0000.0000.0000.000
74E373MET0-0.033-0.00929.3970.1130.1130.0000.0000.0000.000
75E374LEU00.0080.00323.742-0.085-0.0850.0000.0000.0000.000
76E375ARG10.8500.90327.0288.6898.6890.0000.0000.0000.000
77E376MET0-0.0250.00529.1040.1850.1850.0000.0000.0000.000
78E377ALA00.000-0.01626.5590.0690.0690.0000.0000.0000.000
79E378ARG10.7990.90023.81610.64810.6480.0000.0000.0000.000
80E379ARG10.8810.94626.6479.3579.3570.0000.0000.0000.000
81E380TYR0-0.034-0.01328.5620.2980.2980.0000.0000.0000.000
82E381ASP-1-0.876-0.95329.009-9.684-9.6840.0000.0000.0000.000
83E382VAL0-0.122-0.00929.7930.2690.2690.0000.0000.0000.000
84E383GLY00.1070.03432.466-0.060-0.0600.0000.0000.0000.000
85E384SER0-0.078-0.07434.5190.0440.0440.0000.0000.0000.000
86E385ASP-1-0.880-0.91736.165-7.293-7.2930.0000.0000.0000.000
87E386SER0-0.100-0.04937.157-0.120-0.1200.0000.0000.0000.000
88E387ILE0-0.022-0.01337.354-0.060-0.0600.0000.0000.0000.000
89E388LEU00.0050.01138.7870.1900.1900.0000.0000.0000.000
90E407ALA0-0.020-0.02242.5980.0210.0210.0000.0000.0000.000
91E408THR00.0270.01338.113-0.026-0.0260.0000.0000.0000.000
92E409VAL00.0560.02637.696-0.199-0.1990.0000.0000.0000.000
93E410ASP-1-0.890-0.94636.425-8.096-8.0960.0000.0000.0000.000
94E411ASP-1-0.793-0.89533.662-8.680-8.6800.0000.0000.0000.000
95E412LEU0-0.0150.00031.968-0.334-0.3340.0000.0000.0000.000
96E413LEU00.0840.02131.729-0.292-0.2920.0000.0000.0000.000
97E414ARG10.7640.89230.2618.8058.8050.0000.0000.0000.000
98E415PHE00.0300.03025.714-0.329-0.3290.0000.0000.0000.000
99E416CYS0-0.010-0.00327.086-0.388-0.3880.0000.0000.0000.000
100E417ARG10.9580.95727.3578.5868.5860.0000.0000.0000.000
101E418GLN0-0.025-0.00122.694-0.025-0.0250.0000.0000.0000.000
102E419MET00.004-0.00121.763-0.671-0.6710.0000.0000.0000.000
103E420TYR00.0490.02222.516-0.594-0.5940.0000.0000.0000.000
104E421GLY0-0.024-0.01223.359-0.230-0.2300.0000.0000.0000.000
105E422MET0-0.106-0.04918.595-0.746-0.7460.0000.0000.0000.000
106E423LYS10.8470.92918.12311.08211.0820.0000.0000.0000.000
107E424VAL0-0.0130.01117.951-0.582-0.5820.0000.0000.0000.000
108E425ASP-1-0.760-0.84715.330-15.541-15.5410.0000.0000.0000.000
109E426ASN00.0860.01218.5790.1500.1500.0000.0000.0000.000
110E427ALA00.0560.04215.4480.3710.3710.0000.0000.0000.000
111E428GLU-1-0.799-0.89813.595-17.256-17.2560.0000.0000.0000.000
112E429TYR00.0110.00116.6570.3110.3110.0000.0000.0000.000
113E430ALA00.0230.04919.5680.3170.3170.0000.0000.0000.000
114E431LEU00.005-0.00714.1800.2740.2740.0000.0000.0000.000
115E432LEU0-0.021-0.00618.3100.1220.1220.0000.0000.0000.000
116E433THR0-0.035-0.03519.9890.5120.5120.0000.0000.0000.000
117E434ALA00.001-0.00420.4260.3800.3800.0000.0000.0000.000
118E435ILE0-0.030-0.01716.7170.1940.1940.0000.0000.0000.000
119E436VAL0-0.0150.01221.3700.2830.2830.0000.0000.0000.000
120E437ILE0-0.010-0.02524.5940.3980.3980.0000.0000.0000.000
121E438PHE0-0.064-0.03222.8650.4330.4330.0000.0000.0000.000
122E439SER0-0.006-0.01224.533-0.300-0.3000.0000.0000.0000.000
123E440GLU-1-0.901-0.95525.861-10.029-10.0290.0000.0000.0000.000
124E441ARG10.7670.88328.03310.18310.1830.0000.0000.0000.000
125E442PRO00.0430.01831.4910.0200.0200.0000.0000.0000.000
126E443SER0-0.094-0.05934.6620.2240.2240.0000.0000.0000.000
127E444LEU00.0160.02930.8740.1510.1510.0000.0000.0000.000
128E445ILE0-0.030-0.00734.9160.0330.0330.0000.0000.0000.000
129E446GLU-1-0.924-0.97532.054-9.219-9.2190.0000.0000.0000.000
130E447GLY00.0680.03630.234-0.214-0.2140.0000.0000.0000.000
131E448TRP00.0420.01427.965-0.543-0.5430.0000.0000.0000.000
132E449LYS10.8560.94426.5269.2259.2250.0000.0000.0000.000
133E450VAL00.0140.00525.695-0.446-0.4460.0000.0000.0000.000
134E451GLU-1-0.895-0.94823.217-12.789-12.7890.0000.0000.0000.000
135E452LYS10.9100.95122.14012.40612.4060.0000.0000.0000.000
136E453ILE0-0.019-0.00821.072-0.618-0.6180.0000.0000.0000.000
137E454GLN0-0.0020.00320.245-0.322-0.3220.0000.0000.0000.000
138E455GLU-1-0.932-0.97817.795-15.839-15.8390.0000.0000.0000.000
139E456ILE00.0170.01316.040-1.144-1.1440.0000.0000.0000.000
140E457TYR0-0.031-0.03415.453-0.814-0.8140.0000.0000.0000.000
141E458LEU0-0.022-0.01615.141-0.629-0.6290.0000.0000.0000.000
142E459GLU-1-0.931-0.95710.659-25.577-25.5770.0000.0000.0000.000
143E460ALA00.001-0.00110.683-1.637-1.6370.0000.0000.0000.000
144E461LEU0-0.008-0.01210.897-1.005-1.0050.0000.0000.0000.000
145E462LYS10.9070.9578.14727.07627.0760.0000.0000.0000.000
146E463VAL00.0230.0096.056-1.732-1.7320.0000.0000.0000.000
147E464TYR0-0.076-0.0446.235-1.876-1.8760.0000.0000.0000.000
148E465VAL0-0.020-0.0288.158-0.277-0.2770.0000.0000.0000.000
149E466ASP-1-1.019-1.0153.886-35.490-35.4260.000-0.023-0.0410.000
150E467ASN0-0.075-0.0393.528-5.777-5.2030.009-0.208-0.375-0.001
151E468ARG10.9710.9955.73720.80020.8000.0000.0000.0000.000
152E469ARG10.7880.9039.21218.54618.5460.0000.0000.0000.000
153E470LYS10.9820.9948.74915.44815.4480.0000.0000.0000.000
154E471PRO0-0.030-0.0266.2111.5311.5310.0000.0000.0000.000
155E472ARG10.9851.0267.15824.84824.8480.0000.0000.0000.000
156E473SER0-0.068-0.0308.8032.5682.5680.0000.0000.0000.000
157E474GLY00.1270.0447.017-2.683-2.6830.0000.0000.0000.000
158E475THR0-0.037-0.03110.071-0.103-0.1030.0000.0000.0000.000
159E476ILE00.027-0.02011.6941.0931.0930.0000.0000.0000.000
160E477PHE00.1050.06511.0680.4220.4220.0000.0000.0000.000
161E478ALA00.0510.02213.1830.8000.8000.0000.0000.0000.000
162E479LYS10.9050.95416.12616.02216.0220.0000.0000.0000.000
163E480LEU00.0470.02314.2900.7580.7580.0000.0000.0000.000
164E481LEU00.0170.01015.6680.6290.6290.0000.0000.0000.000
165E482SER0-0.083-0.03018.8350.6960.6960.0000.0000.0000.000
166E483VAL00.0610.02021.2830.6210.6210.0000.0000.0000.000
167E484LEU00.0380.02020.6690.5240.5240.0000.0000.0000.000
168E485THR0-0.016-0.01524.2070.3820.3820.0000.0000.0000.000
169E486GLU-1-0.918-0.96125.898-10.000-10.0000.0000.0000.0000.000
170E487LEU0-0.034-0.01025.2670.4900.4900.0000.0000.0000.000
171E488ARG10.9270.98027.02110.81710.8170.0000.0000.0000.000
172E489THR00.0240.02130.5340.3620.3620.0000.0000.0000.000
173E490LEU00.002-0.00630.0440.3200.3200.0000.0000.0000.000
174E491GLY00.0170.01032.3130.2660.2660.0000.0000.0000.000
175E492ASN00.0000.01433.7920.2360.2360.0000.0000.0000.000
176E493LEU00.0440.04636.0820.2470.2470.0000.0000.0000.000
177E494ASN0-0.015-0.01235.9430.4500.4500.0000.0000.0000.000
178E495SER0-0.039-0.04337.7990.2020.2020.0000.0000.0000.000
179E496GLU-1-0.870-0.94839.478-7.150-7.1500.0000.0000.0000.000
180E497MET0-0.042-0.01541.0180.3180.3180.0000.0000.0000.000
181E498CYS00.000-0.00141.4780.2490.2490.0000.0000.0000.000
182E499PHE0-0.003-0.00543.3500.2050.2050.0000.0000.0000.000
183E500SER00.010-0.00745.3760.2150.2150.0000.0000.0000.000
184E501LEU0-0.079-0.02846.1620.2020.2020.0000.0000.0000.000
185E502LYS10.9290.95846.3996.6226.6220.0000.0000.0000.000
186E503LEU0-0.029-0.01349.0380.1360.1360.0000.0000.0000.000
187E504LYS10.9330.97850.2416.1166.1160.0000.0000.0000.000
188E505ASN0-0.042-0.02350.9570.0220.0220.0000.0000.0000.000
189E506LYS10.9900.99654.0425.2935.2930.0000.0000.0000.000
190E507LYS10.9670.99256.2485.4025.4020.0000.0000.0000.000
191E508LEU00.022-0.02957.9030.0060.0060.0000.0000.0000.000
192E509PRO0-0.0120.02561.6870.0140.0140.0000.0000.0000.000
193E510PRO0-0.013-0.01764.5500.0000.0000.0000.0000.0000.000
194E511PHE00.0220.01263.4440.0260.0260.0000.0000.0000.000
195E512LEU00.0070.00666.712-0.037-0.0370.0000.0000.0000.000
196E513ALA00.002-0.00562.462-0.067-0.0670.0000.0000.0000.000
197E514GLU-1-0.961-0.95760.637-5.071-5.0710.0000.0000.0000.000