Manual

About

FMODB

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

Last updated: 2024-04-05

All entries: 36946

Number of unique PDB entries: 7781

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FMODB ID: LZR79

Calculation Name: 1UAN-A-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 1UAN

Chain ID: A

ChEMBL ID:

UniProt ID: Q84BR2

Base Structure: X-ray

Registration Date: 2023-06-26

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 OptHSide
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 220
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 22 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -2603479.698945
FMO2-HF: Nuclear repulsion 2519969.083958
FMO2-HF: Total energy -83510.614987
FMO2-MP2: Total energy -83758.611471


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:1:MET)


Summations of interaction energy for fragment #1(A:1:MET)
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.
-21.767-12.78812.964-8.681-13.259-0.057
Interaction energy analysis for fragmet #1(A:1:MET)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : -0.064 / q_NPA : -0.023
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].
3A3ASP-1-0.767-0.8942.529-11.283-7.7953.993-2.754-4.726-0.022
4A4LEU0-0.032-0.0153.5651.1731.2410.0260.120-0.2140.000
5A5LEU0-0.0100.0016.894-0.160-0.1600.0000.0000.0000.000
6A6VAL0-0.0050.0028.9710.2800.2800.0000.0000.0000.000
7A7VAL0-0.003-0.00211.799-0.030-0.0300.0000.0000.0000.000
8A8ALA00.0510.01314.0110.0730.0730.0000.0000.0000.000
9A9PRO0-0.020-0.00317.5000.0080.0080.0000.0000.0000.000
10A10HIS00.0410.02520.5670.0390.0390.0000.0000.0000.000
11A11PRO00.0300.01419.980-0.031-0.0310.0000.0000.0000.000
12A12ASP-1-0.829-0.90820.728-0.312-0.3120.0000.0000.0000.000
13A13ASP-1-0.785-0.85321.006-0.444-0.4440.0000.0000.0000.000
14A14GLY00.0520.01417.418-0.010-0.0100.0000.0000.0000.000
15A15GLU-1-0.734-0.83518.049-0.646-0.6460.0000.0000.0000.000
16A16LEU0-0.025-0.01219.4740.0210.0210.0000.0000.0000.000
17A17GLY0-0.022-0.01120.3830.0300.0300.0000.0000.0000.000
18A18CYS0-0.046-0.01415.415-0.001-0.0010.0000.0000.0000.000
19A19GLY00.0610.03116.280-0.066-0.0660.0000.0000.0000.000
20A20GLY00.005-0.00117.029-0.024-0.0240.0000.0000.0000.000
21A21THR0-0.034-0.05713.4030.0010.0010.0000.0000.0000.000
22A22LEU0-0.023-0.00811.146-0.105-0.1050.0000.0000.0000.000
23A23ALA0-0.0010.01012.398-0.084-0.0840.0000.0000.0000.000
24A24ARG10.7780.87014.2930.5830.5830.0000.0000.0000.000
25A25ALA00.007-0.0039.0340.0120.0120.0000.0000.0000.000
26A26LYS10.8640.9459.5130.9860.9860.0000.0000.0000.000
27A27ALA0-0.038-0.01110.9200.0830.0830.0000.0000.0000.000
28A28GLU-1-0.926-0.94811.020-0.598-0.5980.0000.0000.0000.000
29A29GLY0-0.029-0.0099.1840.0320.0320.0000.0000.0000.000
30A30LEU0-0.074-0.0305.414-0.134-0.1340.0000.0000.0000.000
31A31SER0-0.032-0.0293.7560.1030.3760.006-0.040-0.2380.000
32A32THR0-0.009-0.0285.241-0.982-0.9820.0000.0000.0000.000
33A33GLY00.0400.0097.8350.1000.1000.0000.0000.0000.000
34A34ILE0-0.0140.0029.8520.0370.0370.0000.0000.0000.000
35A35LEU0-0.022-0.01610.726-0.002-0.0020.0000.0000.0000.000
36A36ASP-1-0.807-0.88312.807-0.618-0.6180.0000.0000.0000.000
37A37LEU0-0.013-0.02515.8140.0190.0190.0000.0000.0000.000
38A38THR00.0130.01618.1180.0490.0490.0000.0000.0000.000
39A39ARG10.8910.92819.4810.2760.2760.0000.0000.0000.000
40A40GLY00.0100.01422.4860.0020.0020.0000.0000.0000.000
41A41GLU-1-0.816-0.91925.210-0.241-0.2410.0000.0000.0000.000
42A42MET0-0.073-0.02627.9600.0230.0230.0000.0000.0000.000
43A43GLY0-0.002-0.00429.1920.0110.0110.0000.0000.0000.000
44A44SER0-0.067-0.01627.658-0.002-0.0020.0000.0000.0000.000
45A45LYS10.8850.92329.6580.2250.2250.0000.0000.0000.000
46A46GLY00.0070.00830.869-0.011-0.0110.0000.0000.0000.000
47A47THR0-0.054-0.06231.223-0.003-0.0030.0000.0000.0000.000
48A48PRO00.023-0.01126.968-0.014-0.0140.0000.0000.0000.000
49A49GLU-1-0.789-0.88926.127-0.195-0.1950.0000.0000.0000.000
50A50GLU-1-0.850-0.88826.711-0.190-0.1900.0000.0000.0000.000
51A51ARG10.8720.93424.4180.3170.3170.0000.0000.0000.000
52A52GLU-1-0.877-0.93221.812-0.330-0.3300.0000.0000.0000.000
53A53LYS10.8140.89422.2880.1610.1610.0000.0000.0000.000
54A54GLU-1-0.813-0.86923.830-0.298-0.2980.0000.0000.0000.000
55A55VAL00.0250.01818.301-0.030-0.0300.0000.0000.0000.000
56A56ALA0-0.0090.01719.089-0.063-0.0630.0000.0000.0000.000
57A57GLU-1-0.768-0.84819.933-0.356-0.3560.0000.0000.0000.000
58A58ALA00.004-0.00220.463-0.017-0.0170.0000.0000.0000.000
59A59SER0-0.012-0.04015.738-0.080-0.0800.0000.0000.0000.000
60A60ARG10.7830.86116.3510.2830.2830.0000.0000.0000.000
61A61ILE0-0.060-0.01717.943-0.011-0.0110.0000.0000.0000.000
62A62LEU0-0.038-0.02515.3350.0090.0090.0000.0000.0000.000
63A63GLY00.0050.01414.085-0.070-0.0700.0000.0000.0000.000
64A64LEU0-0.076-0.03411.478-0.110-0.1100.0000.0000.0000.000
65A65ASP-1-0.796-0.8627.827-1.111-1.1110.0000.0000.0000.000
66A66PHE0-0.035-0.0247.3100.0710.0710.0000.0000.0000.000
67A67ARG10.7680.8359.4410.7640.7640.0000.0000.0000.000
68A68GLY0-0.0120.00212.1370.0830.0830.0000.0000.0000.000
69A69ASN0-0.029-0.04512.9670.0320.0320.0000.0000.0000.000
70A70LEU0-0.053-0.02213.2570.0250.0250.0000.0000.0000.000
71A71GLY0-0.0300.00116.7490.0520.0520.0000.0000.0000.000
72A72PHE0-0.053-0.03817.8920.0350.0350.0000.0000.0000.000
73A73PRO00.0290.01122.062-0.014-0.0140.0000.0000.0000.000
74A74ASP-1-0.846-0.93125.609-0.276-0.2760.0000.0000.0000.000
75A75GLY0-0.008-0.00726.4550.0210.0210.0000.0000.0000.000
76A76GLY0-0.044-0.02126.9670.0180.0180.0000.0000.0000.000
77A77LEU0-0.039-0.00121.243-0.001-0.0010.0000.0000.0000.000
78A78ALA00.001-0.02323.7640.0150.0150.0000.0000.0000.000
79A79ASP-1-0.812-0.87822.065-0.190-0.1900.0000.0000.0000.000
80A80VAL00.0020.00123.7290.0240.0240.0000.0000.0000.000
81A81PRO00.009-0.01722.785-0.014-0.0140.0000.0000.0000.000
82A82GLU-1-0.833-0.89521.606-0.135-0.1350.0000.0000.0000.000
83A83GLN00.0610.02720.173-0.028-0.0280.0000.0000.0000.000
84A84ARG10.8660.90918.3400.1090.1090.0000.0000.0000.000
85A85LEU0-0.031-0.01816.920-0.016-0.0160.0000.0000.0000.000
86A86LYS10.8870.93216.0740.1660.1660.0000.0000.0000.000
87A87LEU00.0220.02212.692-0.042-0.0420.0000.0000.0000.000
88A88ALA00.007-0.00412.313-0.076-0.0760.0000.0000.0000.000
89A89GLN0-0.017-0.01811.3050.0260.0260.0000.0000.0000.000
90A90ALA0-0.024-0.0209.9840.0730.0730.0000.0000.0000.000
91A91LEU00.0210.0087.833-0.238-0.2380.0000.0000.0000.000
92A92ARG10.8440.9276.553-0.416-0.4160.0000.0000.0000.000
93A93ARG10.9120.9746.7141.0001.0000.0000.0000.0000.000
94A94LEU0-0.028-0.0253.8540.8741.2040.000-0.069-0.2600.000
95A95ARG10.9090.9712.226-12.634-9.6214.466-3.862-3.617-0.021
96A96PRO00.0070.0222.621-2.935-0.9471.265-1.442-1.811-0.015
97A97ARG10.8590.9092.5373.1062.9253.208-0.634-2.3930.001
98A98VAL0-0.008-0.0065.7780.6240.6240.0000.0000.0000.000
99A99VAL00.0300.0098.289-0.364-0.3640.0000.0000.0000.000
100A100PHE0-0.016-0.01210.7970.1750.1750.0000.0000.0000.000
101A101ALA00.0270.01314.053-0.050-0.0500.0000.0000.0000.000
102A102PRO00.0410.02816.4780.0300.0300.0000.0000.0000.000
103A103LEU0-0.0170.01020.2040.0190.0190.0000.0000.0000.000
104A104GLU-1-0.783-0.87122.808-0.208-0.2080.0000.0000.0000.000
105A105ALA0-0.029-0.00424.9840.0160.0160.0000.0000.0000.000
106A106ASP-1-0.738-0.87326.824-0.300-0.3000.0000.0000.0000.000
107A107ARG10.8780.94229.0080.2110.2110.0000.0000.0000.000
108A108HIS00.0050.00027.5700.0180.0180.0000.0000.0000.000
109A109PRO00.0750.03027.623-0.016-0.0160.0000.0000.0000.000
110A110ASP-1-0.737-0.87524.318-0.265-0.2650.0000.0000.0000.000
111A111HIS10.7360.85822.9590.3250.3250.0000.0000.0000.000
112A112THR00.0120.00622.748-0.021-0.0210.0000.0000.0000.000
113A113ALA00.0070.00723.743-0.002-0.0020.0000.0000.0000.000
114A114ALA00.0090.00019.108-0.008-0.0080.0000.0000.0000.000
115A115SER0-0.058-0.02918.736-0.025-0.0250.0000.0000.0000.000
116A116ARG10.8460.87619.4330.1900.1900.0000.0000.0000.000
117A117LEU0-0.026-0.00418.1660.0110.0110.0000.0000.0000.000
118A118ALA00.0040.00814.9510.0000.0000.0000.0000.0000.000
119A119VAL00.0070.00715.3410.0040.0040.0000.0000.0000.000
120A120ALA0-0.005-0.00517.1690.0330.0330.0000.0000.0000.000
121A121ALA0-0.002-0.00514.0500.0490.0490.0000.0000.0000.000
122A122VAL00.0400.01511.6480.0420.0420.0000.0000.0000.000
123A123HIS0-0.041-0.01313.4830.0800.0800.0000.0000.0000.000
124A124LEU0-0.009-0.02516.1200.0610.0610.0000.0000.0000.000
125A125ALA00.0240.02310.6510.0770.0770.0000.0000.0000.000
126A126GLY00.0530.03712.3900.1460.1460.0000.0000.0000.000
127A127LEU0-0.075-0.03513.6500.0570.0570.0000.0000.0000.000
128A128ARG10.9660.96416.740-0.237-0.2370.0000.0000.0000.000
129A129LYS10.9370.95317.738-0.124-0.1240.0000.0000.0000.000
130A130ALA00.0240.04216.917-0.025-0.0250.0000.0000.0000.000
131A131PRO0-0.034-0.00618.5850.0380.0380.0000.0000.0000.000
132A132LEU0-0.037-0.02914.044-0.041-0.0410.0000.0000.0000.000
133A133GLU-1-0.889-0.93514.3760.2700.2700.0000.0000.0000.000
134A134GLY0-0.019-0.01011.6070.0190.0190.0000.0000.0000.000
135A135GLU-1-0.932-0.9729.7400.7830.7830.0000.0000.0000.000
136A136PRO0-0.036-0.02110.4630.0070.0070.0000.0000.0000.000
137A137PHE0-0.035-0.0155.0890.4390.4390.0000.0000.0000.000
138A138ARG10.9160.9559.258-0.403-0.4030.0000.0000.0000.000
139A139VAL00.0170.0208.0710.0310.0310.0000.0000.0000.000
140A140GLU-1-0.849-0.8898.690-0.440-0.4400.0000.0000.0000.000
141A141ARG10.8020.88010.3410.6810.6810.0000.0000.0000.000
142A142LEU00.0050.01111.533-0.175-0.1750.0000.0000.0000.000
143A143PHE0-0.037-0.01713.5840.0890.0890.0000.0000.0000.000
144A144PHE0-0.007-0.01916.345-0.052-0.0520.0000.0000.0000.000
145A145TYR0-0.002-0.02017.3010.0010.0010.0000.0000.0000.000
146A146PRO00.0060.01620.1700.0190.0190.0000.0000.0000.000
147A147GLY00.0280.01023.632-0.024-0.0240.0000.0000.0000.000
148A148ASN0-0.092-0.07825.7470.0280.0280.0000.0000.0000.000
149A149HIS0-0.0050.01629.0040.0200.0200.0000.0000.0000.000
150A150PRO00.009-0.00729.219-0.017-0.0170.0000.0000.0000.000
151A151PHE00.013-0.00126.418-0.005-0.0050.0000.0000.0000.000
152A152ALA00.0220.01028.3550.0080.0080.0000.0000.0000.000
153A153PRO0-0.060-0.01324.564-0.010-0.0100.0000.0000.0000.000
154A154SER00.0150.00321.8330.0140.0140.0000.0000.0000.000
155A155PHE0-0.031-0.01116.3630.0200.0200.0000.0000.0000.000
156A156LEU0-0.006-0.00121.567-0.007-0.0070.0000.0000.0000.000
157A157VAL00.0120.01516.0580.0050.0050.0000.0000.0000.000
158A158LYS10.9370.97819.2040.2910.2910.0000.0000.0000.000
159A159ILE00.0320.00418.106-0.036-0.0360.0000.0000.0000.000
160A160SER0-0.066-0.07920.553-0.001-0.0010.0000.0000.0000.000
161A161ALA00.0010.00620.8790.0140.0140.0000.0000.0000.000
162A162PHE00.0360.01817.384-0.004-0.0040.0000.0000.0000.000
163A163ILE0-0.047-0.01120.642-0.022-0.0220.0000.0000.0000.000
164A164ASP-1-0.836-0.92723.601-0.279-0.2790.0000.0000.0000.000
165A165GLN0-0.032-0.02417.0580.0140.0140.0000.0000.0000.000
166A166TRP0-0.076-0.02320.5730.0090.0090.0000.0000.0000.000
167A167GLU-1-0.815-0.91621.603-0.261-0.2610.0000.0000.0000.000
168A168ALA0-0.010-0.00223.7010.0130.0130.0000.0000.0000.000
169A169ALA0-0.008-0.00520.3880.0080.0080.0000.0000.0000.000
170A170VAL0-0.004-0.00722.3930.0030.0030.0000.0000.0000.000
171A171LEU0-0.012-0.01724.4840.0180.0180.0000.0000.0000.000
172A172ALA0-0.0090.01024.1240.0240.0240.0000.0000.0000.000
173A173TYR0-0.050-0.04220.4010.0220.0220.0000.0000.0000.000
174A174ARG10.9800.98527.2180.2360.2360.0000.0000.0000.000
175A175SER0-0.048-0.03929.2680.0150.0150.0000.0000.0000.000
176A176GLN0-0.045-0.01227.7510.0290.0290.0000.0000.0000.000
177A177PHE0-0.038-0.02926.2520.0140.0140.0000.0000.0000.000
178A178THR0-0.052-0.00831.4710.0090.0090.0000.0000.0000.000
179A186VAL00.0060.00728.6770.0010.0010.0000.0000.0000.000
180A187GLY00.0610.01731.9670.0020.0020.0000.0000.0000.000
181A188PRO00.0580.02432.132-0.012-0.0120.0000.0000.0000.000
182A189LYS10.8450.89433.5560.1660.1660.0000.0000.0000.000
183A190GLY0-0.0040.00331.704-0.002-0.0020.0000.0000.0000.000
184A191VAL00.0540.02127.956-0.011-0.0110.0000.0000.0000.000
185A192GLU-1-0.784-0.86729.580-0.191-0.1910.0000.0000.0000.000
186A193ALA00.0080.00431.9290.0000.0000.0000.0000.0000.000
187A194ARG10.8960.95924.9170.3320.3320.0000.0000.0000.000
188A195LYS10.8900.93627.2850.2420.2420.0000.0000.0000.000
189A196ALA00.014-0.00128.6300.0010.0010.0000.0000.0000.000
190A197MET0-0.026-0.00126.321-0.006-0.0060.0000.0000.0000.000
191A198ARG10.8340.90521.1210.4380.4380.0000.0000.0000.000
192A199ARG10.8590.93726.7660.2110.2110.0000.0000.0000.000
193A200TYR0-0.017-0.00929.6090.0070.0070.0000.0000.0000.000
194A201TRP00.035-0.00926.7260.0070.0070.0000.0000.0000.000
195A202GLY00.0190.00826.6630.0010.0010.0000.0000.0000.000
196A203ASN00.0060.00727.4830.0090.0090.0000.0000.0000.000
197A204TYR0-0.038-0.01430.0320.0150.0150.0000.0000.0000.000
198A205LEU0-0.037-0.01926.1620.0080.0080.0000.0000.0000.000
199A206GLY0-0.0120.01528.267-0.002-0.0020.0000.0000.0000.000
200A207VAL0-0.095-0.04524.617-0.005-0.0050.0000.0000.0000.000
201A208ASP-1-0.819-0.88527.336-0.232-0.2320.0000.0000.0000.000
202A209TYR00.0280.00124.6480.0060.0060.0000.0000.0000.000
203A210ALA0-0.003-0.00522.491-0.015-0.0150.0000.0000.0000.000
204A211GLU-1-0.733-0.82018.471-0.567-0.5670.0000.0000.0000.000
205A212PRO0-0.007-0.00120.867-0.015-0.0150.0000.0000.0000.000
206A213PHE00.0280.00716.748-0.032-0.0320.0000.0000.0000.000
207A214VAL00.0070.00420.4800.0420.0420.0000.0000.0000.000
208A215SER0-0.001-0.02619.171-0.060-0.0600.0000.0000.0000.000
209A216PRO0-0.017-0.00419.8590.0270.0270.0000.0000.0000.000
210A217LEU0-0.0090.00718.8600.0340.0340.0000.0000.0000.000
211A218PRO00.0390.03421.652-0.030-0.0300.0000.0000.0000.000
212A219VAL00.0170.00018.151-0.002-0.0020.0000.0000.0000.000
213A220LEU0-0.017-0.00616.5090.0320.0320.0000.0000.0000.000
214A221TYR00.0170.01518.034-0.030-0.0300.0000.0000.0000.000
215A222VAL00.0310.01419.1260.0310.0310.0000.0000.0000.000
216A223PRO00.0120.00621.567-0.014-0.0140.0000.0000.0000.000
217A224TRP00.0380.02223.576-0.002-0.0020.0000.0000.0000.000
218A225SER0-0.087-0.04319.590-0.007-0.0070.0000.0000.0000.000
219A226ARG10.9610.96920.0080.2070.2070.0000.0000.0000.000
220A227ALA00.0440.03819.347-0.041-0.0410.0000.0000.0000.000