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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: 76NZK

Calculation Name: 1O5H-A-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 1O5H

Chain ID: A

ChEMBL ID:

UniProt ID: Q9X1P6

Base Structure: X-ray

Registration Date: 2023-09-23

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 200
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -2187824.662766
FMO2-HF: Nuclear repulsion 2106504.466349
FMO2-HF: Total energy -81320.196417
FMO2-MP2: Total energy -81548.557719


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:2:GLU)


Summations of interaction energy for fragment #1(A:2:GLU)
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.
14.50912.2631.637-14.769-14.6150.045
Interaction energy analysis for fragmet #1(A:2:GLU)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : -1 / q_Mulliken : -0.944 / q_NPA : -1.002
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].
3A4GLU-1-0.851-0.9322.31423.65228.3301.483-3.024-3.136-0.033
4A5ARG10.7980.9102.039-103.353-103.63115.703-8.027-7.3970.067
5A6LEU0-0.0270.0095.196-1.414-1.212-0.001-0.009-0.1910.000
6A7SER0-0.026-0.0157.364-3.464-3.4640.0000.0000.0000.000
7A8LEU00.0710.01111.0760.3090.3090.0000.0000.0000.000
8A9LYS10.8400.90513.456-17.538-17.5380.0000.0000.0000.000
9A10GLU-1-0.865-0.9259.94029.09129.0910.0000.0000.0000.000
10A11PHE00.0260.0108.680-0.153-0.1530.0000.0000.0000.000
11A12CYS0-0.003-0.00411.031-0.868-0.8680.0000.0000.0000.000
12A13ASP-1-0.832-0.89614.47117.29317.2930.0000.0000.0000.000
13A14MET0-0.043-0.0308.4960.4670.4670.0000.0000.0000.000
14A15VAL0-0.0220.00512.558-0.190-0.1900.0000.0000.0000.000
15A16ALA0-0.076-0.03714.520-1.002-1.0020.0000.0000.0000.000
16A17GLU-1-0.822-0.90013.45321.48521.4850.0000.0000.0000.000
17A18ARG10.9090.96817.114-13.797-13.7970.0000.0000.0000.000
18A19LYS10.7840.86211.892-24.149-24.1490.0000.0000.0000.000
19A20PRO00.0050.00415.193-0.318-0.3180.0000.0000.0000.000
20A21THR0-0.0310.0088.974-0.370-0.3700.0000.0000.0000.000
21A22PRO00.0530.0219.5910.7940.7940.0000.0000.0000.000
22A23GLY00.0870.04311.257-1.529-1.5290.0000.0000.0000.000
23A24GLY0-0.006-0.02013.8650.4090.4090.0000.0000.0000.000
24A25GLY00.0620.03014.931-0.020-0.0200.0000.0000.0000.000
25A26ALA00.0580.0349.7690.2790.2790.0000.0000.0000.000
26A27VAL0-0.028-0.01811.5060.2760.2760.0000.0000.0000.000
27A28GLY00.0190.01913.533-0.331-0.3310.0000.0000.0000.000
28A29SER00.0660.02511.026-0.380-0.3800.0000.0000.0000.000
29A30VAL0-0.032-0.0079.603-0.093-0.0930.0000.0000.0000.000
30A31VAL0-0.051-0.03612.102-0.649-0.6490.0000.0000.0000.000
31A32GLY00.0670.01915.305-0.659-0.6590.0000.0000.0000.000
32A33ALA0-0.018-0.00911.405-0.666-0.6660.0000.0000.0000.000
33A34MET0-0.049-0.03113.345-0.563-0.5630.0000.0000.0000.000
34A35ALA00.0070.00915.401-0.762-0.7620.0000.0000.0000.000
35A36CYS00.004-0.00215.352-0.663-0.6630.0000.0000.0000.000
36A37ALA0-0.0010.00215.095-0.452-0.4520.0000.0000.0000.000
37A38LEU0-0.0050.00716.997-0.507-0.5070.0000.0000.0000.000
38A39ALA00.0420.02120.372-0.499-0.4990.0000.0000.0000.000
39A40GLH0-0.061-0.05616.430-0.214-0.2140.0000.0000.0000.000
40A41MET0-0.069-0.02520.286-0.246-0.2460.0000.0000.0000.000
41A42VAL00.0170.00022.041-0.420-0.4200.0000.0000.0000.000
42A43ALA00.0580.04223.145-0.427-0.4270.0000.0000.0000.000
43A44ASN00.006-0.01620.438-0.525-0.5250.0000.0000.0000.000
44A45PHE0-0.110-0.04324.567-0.367-0.3670.0000.0000.0000.000
45A46THR0-0.020-0.01527.451-0.489-0.4890.0000.0000.0000.000
46A47ARG10.9250.99023.957-10.957-10.9570.0000.0000.0000.000
47A48LYS10.8850.94127.155-9.888-9.8880.0000.0000.0000.000
48A49LYS10.9110.97131.398-8.390-8.3900.0000.0000.0000.000
49A50LYS10.9300.96433.722-6.935-6.9350.0000.0000.0000.000
50A51GLY0-0.077-0.04837.4110.0000.0000.0000.0000.0000.000
51A52TYR00.0400.01833.261-0.061-0.0610.0000.0000.0000.000
52A53GLU-1-0.799-0.90633.7937.7457.7450.0000.0000.0000.000
53A54ASP-1-0.982-0.98834.9757.6647.6640.0000.0000.0000.000
54A55VAL00.0200.01032.2290.0220.0220.0000.0000.0000.000
55A56GLU-1-0.873-0.94930.0579.4229.4220.0000.0000.0000.000
56A57PRO00.0090.00628.9680.3010.3010.0000.0000.0000.000
57A58GLU-1-0.834-0.92828.07410.01910.0190.0000.0000.0000.000
58A59MET0-0.0190.00526.5670.4580.4580.0000.0000.0000.000
59A60GLU-1-0.928-0.98824.39010.38410.3840.0000.0000.0000.000
60A61ARG10.7850.89223.078-10.284-10.2840.0000.0000.0000.000
61A62ILE00.0100.01322.1650.4540.4540.0000.0000.0000.000
62A63VAL0-0.038-0.02519.5500.5690.5690.0000.0000.0000.000
63A64GLU-1-0.939-0.96817.77414.64614.6460.0000.0000.0000.000
64A65ALA00.0450.02617.4670.6820.6820.0000.0000.0000.000
65A66MET0-0.070-0.04317.0660.6350.6350.0000.0000.0000.000
66A67GLU-1-0.844-0.87813.58517.26517.2650.0000.0000.0000.000
67A68GLU-1-0.864-0.93212.63118.93918.9390.0000.0000.0000.000
68A69ALA0-0.023-0.02512.9630.9260.9260.0000.0000.0000.000
69A70ARG10.8730.93410.529-16.726-16.7260.0000.0000.0000.000
70A71LEU00.0050.0177.6581.6531.6530.0000.0000.0000.000
71A72LYS10.9170.9668.446-14.326-14.3260.0000.0000.0000.000
72A73LEU0-0.0110.0079.7211.0471.0470.0000.0000.0000.000
73A74PHE00.010-0.0245.5240.7060.7060.0000.0000.0000.000
74A75ASP-1-0.929-0.9575.37634.44934.4490.0000.0000.0000.000
75A76LEU0-0.025-0.0326.4401.6841.6840.0000.0000.0000.000
76A77ALA00.0290.0256.981-0.421-0.4210.0000.0000.0000.000
77A78LYS10.9210.9631.449-64.025-70.87614.452-3.709-3.8910.011
78A79LYS10.9570.9815.605-24.473-24.4730.0000.0000.0000.000
79A80ASP-1-0.884-0.9318.87019.85419.8540.0000.0000.0000.000
80A81MET0-0.014-0.0016.6790.5270.5270.0000.0000.0000.000
81A82GLU-1-0.954-0.9915.55437.75537.7550.0000.0000.0000.000
82A83ALA0-0.023-0.0139.674-2.031-2.0310.0000.0000.0000.000
83A84PHE00.0250.01112.807-2.010-2.0100.0000.0000.0000.000
84A85GLU-1-0.903-0.95710.87923.65223.6520.0000.0000.0000.000
85A86LYS10.8570.91613.617-19.842-19.8420.0000.0000.0000.000
86A87VAL00.0460.02915.367-1.112-1.1120.0000.0000.0000.000
87A88MET00.0040.01017.292-0.796-0.7960.0000.0000.0000.000
88A89LYS10.7410.84913.267-23.586-23.5860.0000.0000.0000.000
89A90ALA00.014-0.00818.981-0.082-0.0820.0000.0000.0000.000
90A91TYR0-0.0210.01421.555-0.703-0.7030.0000.0000.0000.000
91A92LYS10.9240.96922.276-14.519-14.5190.0000.0000.0000.000
92A93SER0-0.058-0.01722.716-0.289-0.2890.0000.0000.0000.000
93A94SER0-0.036-0.01425.622-0.381-0.3810.0000.0000.0000.000
94A95GLU-1-0.835-0.94526.06111.15511.1550.0000.0000.0000.000
95A96GLY0-0.034-0.00427.0960.0030.0030.0000.0000.0000.000
96A97GLU-1-0.885-0.97422.11413.12713.1270.0000.0000.0000.000
97A98LEU00.0450.04321.8630.6210.6210.0000.0000.0000.000
98A99GLN00.0210.02422.3620.4010.4010.0000.0000.0000.000
99A100ASN0-0.056-0.03319.9580.4760.4760.0000.0000.0000.000
100A101ALA00.0160.01618.1800.4540.4540.0000.0000.0000.000
101A102LEU00.030-0.00118.4380.6250.6250.0000.0000.0000.000
102A103LYS10.8480.94020.440-11.497-11.4970.0000.0000.0000.000
103A104GLU-1-0.872-0.92415.70318.03418.0340.0000.0000.0000.000
104A105ALA00.026-0.00615.7410.5370.5370.0000.0000.0000.000
105A106ALA0-0.012-0.01216.8110.2010.2010.0000.0000.0000.000
106A107SER0-0.035-0.02017.208-0.511-0.5110.0000.0000.0000.000
107A108VAL00.0040.02212.1200.0770.0770.0000.0000.0000.000
108A109PRO00.0280.02214.964-0.033-0.0330.0000.0000.0000.000
109A110MET0-0.013-0.00516.816-0.481-0.4810.0000.0000.0000.000
110A111ASP-1-0.919-0.96714.98215.83815.8380.0000.0000.0000.000
111A112VAL0-0.035-0.01113.320-0.289-0.2890.0000.0000.0000.000
112A113ILE0-0.008-0.01615.778-0.554-0.5540.0000.0000.0000.000
113A114ARG10.8610.94718.703-13.656-13.6560.0000.0000.0000.000
114A115VAL00.0060.01014.540-0.446-0.4460.0000.0000.0000.000
115A116MET0-0.0190.00016.602-0.526-0.5260.0000.0000.0000.000
116A117LYS10.9190.96220.077-12.162-12.1620.0000.0000.0000.000
117A118ASP-1-0.964-0.98820.06812.36612.3660.0000.0000.0000.000
118A119LEU0-0.032-0.02618.945-0.330-0.3300.0000.0000.0000.000
119A120ALA00.0370.01121.554-0.412-0.4120.0000.0000.0000.000
120A121HIS00.006-0.01224.994-0.672-0.6720.0000.0000.0000.000
121A122GLU-1-0.845-0.90222.28910.79510.7950.0000.0000.0000.000
122A123LEU0-0.040-0.00723.192-0.299-0.2990.0000.0000.0000.000
123A124GLU-1-0.800-0.89726.2748.5618.5610.0000.0000.0000.000
124A125LYS10.9070.96227.985-9.966-9.9660.0000.0000.0000.000
125A126LEU0-0.033-0.02224.196-0.234-0.2340.0000.0000.0000.000
126A127ALA0-0.028-0.01228.767-0.213-0.2130.0000.0000.0000.000
127A128GLU-1-0.966-0.99031.3277.7917.7910.0000.0000.0000.000
128A129PHE0-0.077-0.04231.991-0.223-0.2230.0000.0000.0000.000
129A130GLY00.0290.01329.9930.0280.0280.0000.0000.0000.000
130A131ASN0-0.061-0.04930.062-0.495-0.4950.0000.0000.0000.000
131A132LYS11.0360.99431.557-7.505-7.5050.0000.0000.0000.000
132A133ASN0-0.114-0.04832.933-0.029-0.0290.0000.0000.0000.000
133A134LEU00.0270.01426.4980.0620.0620.0000.0000.0000.000
134A135ALA00.0490.03428.7150.2820.2820.0000.0000.0000.000
135A136SER00.0440.00028.5450.1270.1270.0000.0000.0000.000
136A137ASP-1-0.901-0.94324.75810.79510.7950.0000.0000.0000.000
137A138THR00.0230.00725.0740.3980.3980.0000.0000.0000.000
138A139LEU0-0.002-0.00326.3150.1750.1750.0000.0000.0000.000
139A140ASN0-0.0150.00024.611-0.031-0.0310.0000.0000.0000.000
140A141ALA00.0060.00122.0510.3280.3280.0000.0000.0000.000
141A142ALA00.010-0.00123.1350.3140.3140.0000.0000.0000.000
142A143ASP-1-0.857-0.90525.58010.00510.0050.0000.0000.0000.000
143A144LEU0-0.060-0.02719.9520.2280.2280.0000.0000.0000.000
144A145CYS0-0.025-0.00721.1190.2640.2640.0000.0000.0000.000
145A146HIS0-0.0100.00022.1680.4340.4340.0000.0000.0000.000
146A147ALA00.0340.01922.4670.0590.0590.0000.0000.0000.000
147A148VAL0-0.018-0.00117.2100.2480.2480.0000.0000.0000.000
148A149PHE00.0250.01720.0290.2450.2450.0000.0000.0000.000
149A150GLN0-0.023-0.02422.1010.1060.1060.0000.0000.0000.000
150A151VAL0-0.078-0.03217.798-0.031-0.0310.0000.0000.0000.000
151A152GLU-1-0.786-0.94115.75716.98316.9830.0000.0000.0000.000
152A153LYS10.8850.96819.525-10.305-10.3050.0000.0000.0000.000
153A154VAL0-0.035-0.01922.253-0.230-0.2300.0000.0000.0000.000
154A155ASN00.004-0.00317.710-0.366-0.3660.0000.0000.0000.000
155A156VAL00.0550.03720.2510.0980.0980.0000.0000.0000.000
156A157LEU0-0.033-0.02521.649-0.278-0.2780.0000.0000.0000.000
157A158ILE0-0.113-0.04819.715-0.385-0.3850.0000.0000.0000.000
158A159ASN0-0.011-0.02318.7910.0220.0220.0000.0000.0000.000
159A160LEU00.0300.01922.589-0.331-0.3310.0000.0000.0000.000
160A161LYS10.8350.93325.501-11.442-11.4420.0000.0000.0000.000
161A162GLU-1-0.893-0.94624.87610.88910.8890.0000.0000.0000.000
162A163ILE0-0.082-0.01922.875-0.072-0.0720.0000.0000.0000.000
163A164SER00.022-0.00727.185-0.319-0.3190.0000.0000.0000.000
164A165ASP-1-0.849-0.93128.4109.9089.9080.0000.0000.0000.000
165A166GLU-1-0.919-0.97230.0498.6478.6470.0000.0000.0000.000
166A167THR0-0.0150.00531.4380.1100.1100.0000.0000.0000.000
167A168PHE00.0220.00422.1490.0260.0260.0000.0000.0000.000
168A169ARG10.9190.96627.620-9.509-9.5090.0000.0000.0000.000
169A170LYS10.8540.91529.046-8.916-8.9160.0000.0000.0000.000
170A171ASN0-0.003-0.02428.282-0.306-0.3060.0000.0000.0000.000
171A172MET00.0260.02621.5410.0260.0260.0000.0000.0000.000
172A173LEU0-0.042-0.04026.1980.1540.1540.0000.0000.0000.000
173A174GLU-1-0.828-0.89528.7428.8338.8330.0000.0000.0000.000
174A175GLU-1-0.847-0.92423.04612.30212.3020.0000.0000.0000.000
175A176LEU0-0.028-0.01524.2410.0830.0830.0000.0000.0000.000
176A177GLU-1-0.922-0.95826.3288.8478.8470.0000.0000.0000.000
177A178GLU-1-0.927-0.96328.4449.2209.2200.0000.0000.0000.000
178A179GLN0-0.080-0.04723.5920.3750.3750.0000.0000.0000.000
179A180GLU-1-0.806-0.89326.4019.9949.9940.0000.0000.0000.000
180A181ALA0-0.0120.00627.924-0.124-0.1240.0000.0000.0000.000
181A182GLN0-0.045-0.03227.8220.0630.0630.0000.0000.0000.000
182A183ILE00.0290.01823.186-0.120-0.1200.0000.0000.0000.000
183A184GLU-1-0.856-0.94827.2929.4529.4520.0000.0000.0000.000
184A185GLY0-0.042-0.01530.304-0.215-0.2150.0000.0000.0000.000
185A186CYS0-0.049-0.02928.511-0.167-0.1670.0000.0000.0000.000
186A187TYR0-0.030-0.03028.215-0.213-0.2130.0000.0000.0000.000
187A188GLN0-0.004-0.00829.925-0.229-0.2290.0000.0000.0000.000
188A189ARG10.7630.88532.299-8.929-8.9290.0000.0000.0000.000
189A190VAL00.0480.03528.965-0.183-0.1830.0000.0000.0000.000
190A191LYS10.9690.97431.421-9.212-9.2120.0000.0000.0000.000
191A192LYS10.8820.95133.461-7.625-7.6250.0000.0000.0000.000
192A193MET0-0.065-0.03034.598-0.153-0.1530.0000.0000.0000.000
193A194LEU0-0.005-0.00730.780-0.096-0.0960.0000.0000.0000.000
194A195GLU-1-0.931-0.95734.9377.4037.4030.0000.0000.0000.000
195A196GLY00.0520.01636.618-0.044-0.0440.0000.0000.0000.000
196A197ILE0-0.0220.00332.644-0.130-0.1300.0000.0000.0000.000
197A198VAL0-0.058-0.01634.9540.0080.0080.0000.0000.0000.000
198A199TRP0-0.047-0.01737.359-0.077-0.0770.0000.0000.0000.000
199A200SER0-0.113-0.06140.294-0.174-0.1740.0000.0000.0000.000
200A201SER0-0.0090.00239.9620.0520.0520.0000.0000.0000.000