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: M9MRZ

Calculation Name: 1IUH-A-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 1IUH

Chain ID: A

ChEMBL ID:

UniProt ID: Q5SHB1

Base Structure: X-ray

Registration Date: 2023-09-26

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 OptAll
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 183
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -1995811.033616
FMO2-HF: Nuclear repulsion 1924975.097939
FMO2-HF: Total energy -70835.935677
FMO2-MP2: Total energy -71049.831885


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.
-51.553-46.94329.58-13.165-21.024-0.043
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 : 0.033 / q_NPA : 0.038
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].
3A3LEU00.0260.0172.6240.4873.7230.629-1.372-2.4930.007
4A4PHE0-0.086-0.0485.134-0.618-0.593-0.001-0.004-0.0200.000
5A5TYR00.0900.0468.8060.4150.4150.0000.0000.0000.000
6A6ALA0-0.079-0.05611.667-0.129-0.1290.0000.0000.0000.000
7A7VAL00.0750.05414.3870.0410.0410.0000.0000.0000.000
8A8PHE0-0.022-0.02412.983-0.012-0.0120.0000.0000.0000.000
9A9LEU0-0.001-0.00118.536-0.054-0.0540.0000.0000.0000.000
10A10PRO00.0390.03522.2380.0420.0420.0000.0000.0000.000
11A11GLU-1-0.795-0.88425.2540.3950.3950.0000.0000.0000.000
12A12GLU-1-0.807-0.92427.6460.2770.2770.0000.0000.0000.000
13A13VAL0-0.008-0.00325.345-0.013-0.0130.0000.0000.0000.000
14A14ARG10.7770.87022.511-0.455-0.4550.0000.0000.0000.000
15A15ALA00.0240.02426.100-0.003-0.0030.0000.0000.0000.000
16A16ALA00.0850.04429.726-0.009-0.0090.0000.0000.0000.000
17A17LEU0-0.020-0.02024.988-0.014-0.0140.0000.0000.0000.000
18A18VAL00.0130.01026.450-0.004-0.0040.0000.0000.0000.000
19A19GLU-1-0.908-0.94228.5480.1920.1920.0000.0000.0000.000
20A20ALA0-0.017-0.00529.288-0.019-0.0190.0000.0000.0000.000
21A21GLN0-0.079-0.07323.645-0.013-0.0130.0000.0000.0000.000
22A22THR0-0.056-0.03229.131-0.007-0.0070.0000.0000.0000.000
23A23LYS10.8490.91732.409-0.182-0.1820.0000.0000.0000.000
24A24VAL0-0.006-0.00427.964-0.011-0.0110.0000.0000.0000.000
25A25ARG10.9630.98630.773-0.237-0.2370.0000.0000.0000.000
26A26PRO00.0170.01132.0310.0020.0020.0000.0000.0000.000
27A27PHE0-0.0100.00332.002-0.009-0.0090.0000.0000.0000.000
28A28ARG11.0150.98930.213-0.153-0.1530.0000.0000.0000.000
29A29GLY00.0070.02628.3600.0100.0100.0000.0000.0000.000
30A30TRP0-0.048-0.04725.1890.0080.0080.0000.0000.0000.000
31A31LYS10.8990.95219.888-0.452-0.4520.0000.0000.0000.000
32A32PRO00.0370.01622.8330.0060.0060.0000.0000.0000.000
33A33VAL0-0.015-0.01418.2620.0330.0330.0000.0000.0000.000
34A34PRO00.0180.01218.490-0.046-0.0460.0000.0000.0000.000
35A35PRO00.0970.04320.3910.0340.0340.0000.0000.0000.000
36A36HIS00.0480.01719.0490.0000.0000.0000.0000.0000.000
37A37GLN0-0.063-0.03913.785-0.022-0.0220.0000.0000.0000.000
38A38LEU0-0.0410.00717.128-0.006-0.0060.0000.0000.0000.000
39A39HIS10.8320.90914.119-0.655-0.6550.0000.0000.0000.000
40A40LEU00.0040.01118.272-0.048-0.0480.0000.0000.0000.000
41A41THR0-0.063-0.03513.0270.1040.1040.0000.0000.0000.000
42A42LEU00.0270.02415.078-0.064-0.0640.0000.0000.0000.000
43A43LEU00.0380.02512.384-0.052-0.0520.0000.0000.0000.000
44A44PHE0-0.088-0.0369.0060.1130.1130.0000.0000.0000.000
45A45LEU00.0780.0337.2360.0500.0500.0000.0000.0000.000
46A46GLY00.011-0.0017.765-0.339-0.3390.0000.0000.0000.000
47A47GLU-1-0.877-0.9422.809-6.278-4.5830.207-0.893-1.009-0.009
48A48ARG10.8290.9082.7434.7436.1020.096-0.435-1.0200.000
49A49PRO00.0540.0401.926-13.029-13.0187.108-3.989-3.131-0.051
50A50GLU-1-0.928-0.9952.203-10.603-8.9404.948-2.445-4.166-0.027
51A51GLU-1-0.940-0.9633.813-0.552-0.2990.006-0.035-0.2240.000
52A52GLU-1-0.693-0.8246.204-2.217-2.2170.0000.0000.0000.000
53A53LEU0-0.040-0.0252.9890.1930.3213.071-0.763-2.436-0.003
54A54PRO00.0060.0006.8640.4260.4260.0000.0000.0000.000
55A55ASP-1-0.826-0.90410.025-0.505-0.5050.0000.0000.0000.000
56A56TYR0-0.043-0.0536.1910.3420.3420.0000.0000.0000.000
57A57LEU0-0.028-0.0087.9780.2240.2240.0000.0000.0000.000
58A58ALA00.0120.01011.479-0.016-0.0160.0000.0000.0000.000
59A59LEU0-0.031-0.00613.1720.0070.0070.0000.0000.0000.000
60A60GLY00.0260.00213.8080.0030.0030.0000.0000.0000.000
61A61HIS0-0.029-0.03314.444-0.091-0.0910.0000.0000.0000.000
62A62ARG10.7460.84217.0710.1540.1540.0000.0000.0000.000
63A63LEU00.0320.01716.973-0.015-0.0150.0000.0000.0000.000
64A64ALA00.0000.00418.826-0.005-0.0050.0000.0000.0000.000
65A65ARG10.9100.95820.702-0.040-0.0400.0000.0000.0000.000
66A66LEU0-0.039-0.01523.002-0.024-0.0240.0000.0000.0000.000
67A67GLU-1-0.809-0.88923.3560.0590.0590.0000.0000.0000.000
68A68ALA00.0430.03624.9030.0230.0230.0000.0000.0000.000
69A69PRO0-0.006-0.01525.6750.0060.0060.0000.0000.0000.000
70A70PHE0-0.0140.00922.639-0.023-0.0230.0000.0000.0000.000
71A71ARG10.8570.91227.220-0.108-0.1080.0000.0000.0000.000
72A72ALA00.0010.01026.489-0.014-0.0140.0000.0000.0000.000
73A73ARG10.8260.91228.503-0.121-0.1210.0000.0000.0000.000
74A74LEU0-0.0130.00426.7650.0030.0030.0000.0000.0000.000
75A75ARG10.8570.89829.721-0.092-0.0920.0000.0000.0000.000
76A76GLY00.0420.02531.853-0.012-0.0120.0000.0000.0000.000
77A77THR00.0150.01529.1480.0070.0070.0000.0000.0000.000
78A78GLY0-0.010-0.00728.880-0.018-0.0180.0000.0000.0000.000
79A79TYR0-0.010-0.01727.4490.0210.0210.0000.0000.0000.000
80A80PHE00.0340.02723.099-0.009-0.0090.0000.0000.0000.000
81A81PRO00.0800.01625.6450.0160.0160.0000.0000.0000.000
82A82ASN0-0.033-0.01227.8360.0240.0240.0000.0000.0000.000
83A83GLU-1-0.789-0.87030.6980.0200.0200.0000.0000.0000.000
84A84GLY00.0470.02031.768-0.004-0.0040.0000.0000.0000.000
85A85THR0-0.012-0.01628.9890.0130.0130.0000.0000.0000.000
86A86PRO0-0.0110.01827.897-0.007-0.0070.0000.0000.0000.000
87A87ARG10.9430.96418.039-0.020-0.0200.0000.0000.0000.000
88A88VAL0-0.078-0.04420.8680.0300.0300.0000.0000.0000.000
89A89TRP00.0620.03423.685-0.014-0.0140.0000.0000.0000.000
90A90PHE0-0.017-0.02023.4200.0310.0310.0000.0000.0000.000
91A91ALA00.0820.04625.067-0.023-0.0230.0000.0000.0000.000
92A92LYS10.8170.89225.222-0.093-0.0930.0000.0000.0000.000
93A93ALA00.0200.01524.8290.0100.0100.0000.0000.0000.000
94A94GLU-1-0.851-0.91826.9360.0820.0820.0000.0000.0000.000
95A95ALA00.0940.02126.2750.0130.0130.0000.0000.0000.000
96A96GLU-1-0.816-0.90426.7990.0380.0380.0000.0000.0000.000
97A97GLY00.0650.03325.302-0.009-0.0090.0000.0000.0000.000
98A98PHE0-0.052-0.03121.7330.0100.0100.0000.0000.0000.000
99A99LEU0-0.023-0.00821.635-0.003-0.0030.0000.0000.0000.000
100A100ARG10.8760.91222.729-0.055-0.0550.0000.0000.0000.000
101A101LEU00.0260.01618.888-0.014-0.0140.0000.0000.0000.000
102A102ALA0-0.060-0.02718.211-0.017-0.0170.0000.0000.0000.000
103A103GLU-1-0.917-0.95418.716-0.096-0.0960.0000.0000.0000.000
104A104GLY00.0220.01019.962-0.039-0.0390.0000.0000.0000.000
105A105LEU0-0.035-0.03513.856-0.017-0.0170.0000.0000.0000.000
106A106ARG10.8310.90415.3190.0630.0630.0000.0000.0000.000
107A107ALA00.0880.04616.887-0.065-0.0650.0000.0000.0000.000
108A108GLY00.006-0.00116.712-0.031-0.0310.0000.0000.0000.000
109A109VAL0-0.011-0.01611.694-0.048-0.0480.0000.0000.0000.000
110A110GLU-1-0.888-0.95414.126-0.452-0.4520.0000.0000.0000.000
111A111GLU-1-0.883-0.89917.096-0.289-0.2890.0000.0000.0000.000
112A112LEU0-0.031-0.00210.531-0.005-0.0050.0000.0000.0000.000
113A113LEU00.000-0.00710.289-0.092-0.0920.0000.0000.0000.000
114A114GLY00.0160.01714.4860.0030.0030.0000.0000.0000.000
115A115GLU-1-0.845-0.90617.442-0.711-0.7110.0000.0000.0000.000
116A116GLU-1-0.798-0.88412.959-1.205-1.2050.0000.0000.0000.000
117A117ALA00.0100.01313.454-0.133-0.1330.0000.0000.0000.000
118A118VAL0-0.035-0.02714.5120.0020.0020.0000.0000.0000.000
119A119ARG10.7030.81013.1380.9850.9850.0000.0000.0000.000
120A120ILE0-0.0320.01610.231-0.127-0.1270.0000.0000.0000.000
121A121PRO0-0.043-0.05310.4000.2170.2170.0000.0000.0000.000
122A122GLY0-0.050-0.01713.4050.1350.1350.0000.0000.0000.000
123A123TRP00.0040.01813.1050.0460.0460.0000.0000.0000.000
124A124ASP-1-0.829-0.92416.831-0.291-0.2910.0000.0000.0000.000
125A125LYS10.7930.90416.4640.3190.3190.0000.0000.0000.000
126A126PRO00.0310.01320.8340.0180.0180.0000.0000.0000.000
127A127PHE00.0400.00919.3360.0250.0250.0000.0000.0000.000
128A128LYS10.8760.93921.9090.0330.0330.0000.0000.0000.000
129A129PRO00.0430.04022.0360.0180.0180.0000.0000.0000.000
130A130HIS10.8630.93421.545-0.113-0.1130.0000.0000.0000.000
131A131ILE00.0750.05220.5930.0240.0240.0000.0000.0000.000
132A132THR0-0.086-0.03719.550-0.028-0.0280.0000.0000.0000.000
133A133LEU00.0390.03921.4160.0360.0360.0000.0000.0000.000
134A134ALA00.0290.01023.1150.0290.0290.0000.0000.0000.000
135A135ARG10.9170.94117.937-0.281-0.2810.0000.0000.0000.000
136A136ARG10.9260.98322.609-0.083-0.0830.0000.0000.0000.000
137A137LYS10.9600.98519.624-0.342-0.3420.0000.0000.0000.000
138A138ALA00.0000.01324.339-0.015-0.0150.0000.0000.0000.000
139A139PRO00.008-0.01428.1030.0040.0040.0000.0000.0000.000
140A140ALA00.0150.00930.1610.0090.0090.0000.0000.0000.000
141A141PRO00.0190.02932.190-0.007-0.0070.0000.0000.0000.000
142A142ARG10.7970.88230.832-0.048-0.0480.0000.0000.0000.000
143A143VAL00.0280.02532.847-0.005-0.0050.0000.0000.0000.000
144A144PRO00.0460.02334.428-0.003-0.0030.0000.0000.0000.000
145A145PRO0-0.008-0.00634.2760.0100.0100.0000.0000.0000.000
146A146VAL0-0.0040.00032.5150.0000.0000.0000.0000.0000.000
147A147LEU00.003-0.00533.1210.0050.0050.0000.0000.0000.000
148A148PHE0-0.011-0.01629.7740.0090.0090.0000.0000.0000.000
149A149GLY00.0170.01933.797-0.002-0.0020.0000.0000.0000.000
150A150LEU00.0380.02330.218-0.006-0.0060.0000.0000.0000.000
151A151GLU-1-0.785-0.87731.1890.1300.1300.0000.0000.0000.000
152A152TRP00.004-0.00323.568-0.004-0.0040.0000.0000.0000.000
153A153PRO00.0760.03227.838-0.011-0.0110.0000.0000.0000.000
154A154VAL0-0.080-0.03222.0030.0380.0380.0000.0000.0000.000
155A155GLU-1-0.815-0.93023.8160.2360.2360.0000.0000.0000.000
156A156GLY00.0060.00220.366-0.002-0.0020.0000.0000.0000.000
157A157PHE0-0.068-0.02414.7620.0110.0110.0000.0000.0000.000
158A158ALA0-0.029-0.00712.7090.0350.0350.0000.0000.0000.000
159A159LEU00.0610.0487.189-0.116-0.1160.0000.0000.0000.000
160A160VAL0-0.067-0.0448.0540.3690.3690.0000.0000.0000.000
161A161ARG10.9670.9692.500-20.004-24.42113.474-3.075-5.9810.039
162A162SER0-0.091-0.0645.126-1.483-1.4830.0000.0000.0000.000
163A163GLU-1-0.757-0.8625.0334.5004.619-0.001-0.006-0.1110.000
164A164LEU0-0.049-0.0187.271-0.347-0.3470.0000.0000.0000.000
165A165LYS10.9450.9639.611-2.216-2.2160.0000.0000.0000.000
166A166PRO00.0530.01612.962-0.080-0.0800.0000.0000.0000.000
167A167LYS10.9480.97216.703-0.673-0.6730.0000.0000.0000.000
168A168GLY0-0.049-0.02115.449-0.084-0.0840.0000.0000.0000.000
169A169PRO0-0.0180.00011.3180.0570.0570.0000.0000.0000.000
170A170VAL00.0400.03010.412-0.139-0.1390.0000.0000.0000.000
171A171TYR0-0.016-0.0249.4550.0660.0660.0000.0000.0000.000
172A172THR0-0.002-0.0067.266-0.119-0.1190.0000.0000.0000.000
173A173VAL0-0.033-0.0137.9580.7070.7070.0000.0000.0000.000
174A174LEU00.0030.0094.068-0.2710.2670.043-0.148-0.4330.001
175A175GLU-1-0.800-0.8918.2560.2950.2950.0000.0000.0000.000
176A176LYS10.8880.93211.693-0.849-0.8490.0000.0000.0000.000
177A177PHE00.0450.02811.850-0.032-0.0320.0000.0000.0000.000
178A178SER0-0.005-0.00417.533-0.005-0.0050.0000.0000.0000.000
179A179LEU0-0.069-0.02721.217-0.018-0.0180.0000.0000.0000.000
180A180ARG10.7800.85323.071-0.131-0.1310.0000.0000.0000.000
181A181GLY00.0090.02525.422-0.017-0.0170.0000.0000.0000.000
182A182GLU-1-0.806-0.89027.0570.1050.1050.0000.0000.0000.000
183A183HIS0-0.068-0.01328.648-0.007-0.0070.0000.0000.0000.000