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

tag_button

FMODB ID: M982Z

Calculation Name: 1B79-A-Xray540

Preferred Name:

Target Type:

Ligand Name:

Ligand 3-letter code:

Ligand of Interest (LOI):

Structure Source: PDB

PDB ID: 1B79

Chain ID: A

ChEMBL ID:

UniProt ID: P0ACB0

Base Structure: X-ray

Registration Date: 2025-07-07

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 OptH
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 193
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -776064.635358
FMO2-HF: Nuclear repulsion 736497.069217
FMO2-HF: Total energy -39567.566142
FMO2-MP2: Total energy -39683.427509


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(A:26:PRO)


Summations of interaction energy for fragment #1(A:26:PRO)
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.
-2.3690.0890.267-1.107-1.6180.002
Interaction energy analysis for fragmet #1(A:26:PRO)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : -0.034 / q_NPA : -0.026
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].
3A28HIS00.2170.0623.886-1.846-0.162-0.014-0.874-0.7950.003
4A28HIS10.6430.9927.7450.2380.2380.0000.0000.0000.000
5A29SER0-0.056-0.0876.572-0.028-0.0280.0000.0000.0000.000
6A29SER0-0.0160.0487.3230.0430.0430.0000.0000.0000.000
7A30ILE00.133-0.0809.042-0.019-0.0190.0000.0000.0000.000
8A30ILE0-0.0220.12312.8340.0080.0080.0000.0000.0000.000
9A31GLU00.064-0.1029.6960.0100.0100.0000.0000.0000.000
10A31GLU-1-0.934-0.8248.821-0.211-0.2110.0000.0000.0000.000
11A32ALA00.125-0.0977.1400.0640.0640.0000.0000.0000.000
12A32ALA0-0.0280.1286.284-0.042-0.0420.0000.0000.0000.000
13A33GLU00.102-0.1148.2210.0180.0180.0000.0000.0000.000
14A33GLU-1-0.852-0.78710.945-0.155-0.1550.0000.0000.0000.000
15A34GLN00.081-0.09911.5440.0290.0290.0000.0000.0000.000
16A34GLN0-0.1110.07912.776-0.011-0.0110.0000.0000.0000.000
17A35SER00.043-0.10010.8600.0470.0470.0000.0000.0000.000
18A35SER0-0.0730.0749.9920.0010.0010.0000.0000.0000.000
19A36VAL00.054-0.09611.6370.0150.0150.0000.0000.0000.000
20A36VAL0-0.0600.10110.4230.0000.0000.0000.0000.0000.000
21A37LEU00.044-0.10912.8590.0200.0200.0000.0000.0000.000
22A37LEU0-0.0980.10915.2400.0040.0040.0000.0000.0000.000
23A38GLY00.017-0.09415.6860.0160.0160.0000.0000.0000.000
24A39GLY00.031-0.00215.2100.0140.0140.0000.0000.0000.000
25A40LEU00.052-0.01416.1680.0100.0100.0000.0000.0000.000
26A40LEU0-0.0560.10116.3070.0000.0000.0000.0000.0000.000
27A41MET00.084-0.07818.3100.0110.0110.0000.0000.0000.000
28A41MET0-0.1560.05119.8250.0020.0020.0000.0000.0000.000
29A42LEU0-0.012-0.14119.7310.0110.0110.0000.0000.0000.000
30A42LEU0-0.1000.08518.7490.0010.0010.0000.0000.0000.000
31A43ASP00.082-0.09920.0980.0090.0090.0000.0000.0000.000
32A43ASP-1-0.972-0.84619.157-0.088-0.0880.0000.0000.0000.000
33A44ASN00.131-0.14320.380-0.008-0.0080.0000.0000.0000.000
34A44ASN0-0.0590.12322.6060.0070.0070.0000.0000.0000.000
35A45GLU00.112-0.04822.5380.0020.0020.0000.0000.0000.000
36A45GLU-1-1.054-0.86522.583-0.052-0.0520.0000.0000.0000.000
37A46ARG00.008-0.09117.9340.0060.0060.0000.0000.0000.000
38A46ARG10.8171.02414.9310.1320.1320.0000.0000.0000.000
39A47TRP00.095-0.11417.957-0.014-0.0140.0000.0000.0000.000
40A47TRP0-0.0700.10919.662-0.005-0.0050.0000.0000.0000.000
41A48ASP00.133-0.09719.209-0.006-0.0060.0000.0000.0000.000
42A48ASP-1-0.982-0.82521.819-0.046-0.0460.0000.0000.0000.000
43A49ASP00.149-0.09816.9270.0080.0080.0000.0000.0000.000
44A49ASP-1-1.047-0.86915.860-0.090-0.0900.0000.0000.0000.000
45A50VAL00.030-0.08914.810-0.002-0.0020.0000.0000.0000.000
46A50VAL0-0.0890.07114.235-0.006-0.0060.0000.0000.0000.000
47A51ALA00.114-0.10515.841-0.005-0.0050.0000.0000.0000.000
48A51ALA0-0.0680.12620.0900.0020.0020.0000.0000.0000.000
49A52GLU0-0.023-0.16418.0740.0080.0080.0000.0000.0000.000
50A52GLU-1-1.041-0.85617.642-0.040-0.0400.0000.0000.0000.000
51A53ARG00.000-0.13613.4310.0210.0210.0000.0000.0000.000
52A53ARG10.7981.05011.7150.0940.0940.0000.0000.0000.000
53A54VAL00.023-0.07813.7990.0210.0210.0000.0000.0000.000
54A54VAL0-0.1210.06912.815-0.006-0.0060.0000.0000.0000.000
55A55VAL00.109-0.09714.9660.0000.0000.0000.0000.0000.000
56A55VAL0-0.0880.10118.2250.0020.0020.0000.0000.0000.000
57A56ALA00.186-0.08316.908-0.010-0.0100.0000.0000.0000.000
58A56ALA0-0.0880.10920.7360.0010.0010.0000.0000.0000.000
59A57ASP0-0.029-0.14418.113-0.013-0.0130.0000.0000.0000.000
60A57ASP-1-1.016-0.88220.087-0.024-0.0240.0000.0000.0000.000
61A58ASP00.139-0.11514.7290.0120.0120.0000.0000.0000.000
62A58ASP-1-0.890-0.79613.684-0.021-0.0210.0000.0000.0000.000
63A59PHE00.056-0.11013.763-0.015-0.0150.0000.0000.0000.000
64A59PHE0-0.1750.08813.606-0.008-0.0080.0000.0000.0000.000
65A60TYR00.084-0.12314.0900.0270.0270.0000.0000.0000.000
66A60TYR0-0.0890.09210.821-0.028-0.0280.0000.0000.0000.000
67A61THR00.029-0.06915.5830.0200.0200.0000.0000.0000.000
68A61THR0-0.0090.07716.2120.0040.0040.0000.0000.0000.000
69A62ARG00.106-0.10118.271-0.002-0.0020.0000.0000.0000.000
70A62ARG10.8621.08122.4990.0330.0330.0000.0000.0000.000
71A63PRO00.039-0.06120.3330.0010.0010.0000.0000.0000.000
72A64HIS00.1680.03217.1390.0070.0070.0000.0000.0000.000
73A64HIS0-0.0880.11914.7720.0090.0090.0000.0000.0000.000
74A65ARG00.076-0.07618.581-0.005-0.0050.0000.0000.0000.000
75A65ARG10.7661.00918.6490.0510.0510.0000.0000.0000.000
76A66HIS00.145-0.05620.0230.0020.0020.0000.0000.0000.000
77A66HIS0-0.1450.06423.6500.0000.0000.0000.0000.0000.000
78A67ILE00.090-0.09921.1220.0070.0070.0000.0000.0000.000
79A67ILE0-0.0640.09119.703-0.001-0.0010.0000.0000.0000.000
80A68PHE00.121-0.07119.1800.0030.0030.0000.0000.0000.000
81A68PHE0-0.0730.11416.780-0.001-0.0010.0000.0000.0000.000
82A69THR00.044-0.09020.3460.0020.0020.0000.0000.0000.000
83A69THR0-0.0930.02422.8130.0030.0030.0000.0000.0000.000
84A70GLU00.023-0.07623.5150.0050.0050.0000.0000.0000.000
85A70GLU-1-0.873-0.81424.688-0.040-0.0400.0000.0000.0000.000
86A71MET00.045-0.13122.3370.0060.0060.0000.0000.0000.000
87A71MET0-0.0780.10618.396-0.004-0.0040.0000.0000.0000.000
88A72ALA00.172-0.04623.4240.0000.0000.0000.0000.0000.000
89A72ALA0-0.1020.08322.9010.0010.0010.0000.0000.0000.000
90A73ARG00.132-0.06524.2630.0030.0030.0000.0000.0000.000
91A73ARG10.7331.00427.9390.0330.0330.0000.0000.0000.000
92A74LEU00.030-0.13727.3140.0040.0040.0000.0000.0000.000
93A74LEU0-0.1130.08226.4980.0000.0000.0000.0000.0000.000
94A75GLN00.195-0.05125.4660.0040.0040.0000.0000.0000.000
95A75GLN0-0.0500.12424.3360.0000.0000.0000.0000.0000.000
96A76GLU00.008-0.09926.9310.0010.0010.0000.0000.0000.000
97A76GLU-1-1.005-0.86725.793-0.038-0.0380.0000.0000.0000.000
98A77SER0-0.075-0.13628.7570.0040.0040.0000.0000.0000.000
99A77SER0-0.1140.03630.7180.0010.0010.0000.0000.0000.000
100A78GLY0-0.050-0.12930.5430.0020.0020.0000.0000.0000.000
101A79SER0-0.030-0.01430.6400.0000.0000.0000.0000.0000.000
102A79SER0-0.0630.06530.3970.0010.0010.0000.0000.0000.000
103A80PRO00.017-0.07127.709-0.002-0.0020.0000.0000.0000.000
104A81ILE00.054-0.01224.0990.0040.0040.0000.0000.0000.000
105A81ILE0-0.0660.11521.515-0.001-0.0010.0000.0000.0000.000
106A82ASP00.048-0.08223.652-0.008-0.0080.0000.0000.0000.000
107A82ASP-1-0.826-0.80626.053-0.049-0.0490.0000.0000.0000.000
108A83LEU00.095-0.08824.7990.0020.0020.0000.0000.0000.000
109A83LEU0-0.1450.06624.3590.0000.0000.0000.0000.0000.000
110A84ILE00.032-0.09025.6290.0010.0010.0000.0000.0000.000
111A84ILE0-0.0580.08829.1320.0000.0000.0000.0000.0000.000
112A85THR00.069-0.09529.0980.0030.0030.0000.0000.0000.000
113A85THR0-0.0180.06128.5300.0020.0020.0000.0000.0000.000
114A86LEU00.135-0.06425.8630.0040.0040.0000.0000.0000.000
115A86LEU0-0.1040.09823.045-0.001-0.0010.0000.0000.0000.000
116A87ALA00.073-0.11727.3770.0020.0020.0000.0000.0000.000
117A87ALA0-0.1030.08827.6930.0000.0000.0000.0000.0000.000
118A88GLU00.093-0.10528.6920.0020.0020.0000.0000.0000.000
119A88GLU-1-1.075-0.86032.276-0.032-0.0320.0000.0000.0000.000
120A89SER00.005-0.11230.7840.0040.0040.0000.0000.0000.000
121A89SER0-0.0170.07529.301-0.001-0.0010.0000.0000.0000.000
122A90LEU00.002-0.12028.8340.0040.0040.0000.0000.0000.000
123A90LEU0-0.0460.11225.477-0.001-0.0010.0000.0000.0000.000
124A91GLU00.089-0.13730.1980.0010.0010.0000.0000.0000.000
125A91GLU-1-0.998-0.83632.671-0.030-0.0300.0000.0000.0000.000
126A92ARG00.014-0.09633.0940.0020.0020.0000.0000.0000.000
127A92ARG10.8521.04934.0240.0300.0300.0000.0000.0000.000
128A93GLN00.014-0.12133.3300.0030.0030.0000.0000.0000.000
129A93GLN0-0.1340.07930.5350.0020.0020.0000.0000.0000.000
130A94GLY0-0.034-0.12034.0790.0010.0010.0000.0000.0000.000
131A95GLN00.080-0.01030.1540.0010.0010.0000.0000.0000.000
132A95GLN0-0.0470.12729.187-0.003-0.0030.0000.0000.0000.000
133A96LEU00.121-0.09328.810-0.004-0.0040.0000.0000.0000.000
134A96LEU0-0.0640.13527.9920.0000.0000.0000.0000.0000.000
135A97ASP00.072-0.11328.339-0.005-0.0050.0000.0000.0000.000
136A97ASP-1-0.967-0.84531.519-0.030-0.0300.0000.0000.0000.000
137A98SER0-0.038-0.08928.255-0.002-0.0020.0000.0000.0000.000
138A98SER0-0.0600.04128.1360.0010.0010.0000.0000.0000.000
139A99VAL00.012-0.12524.429-0.001-0.0010.0000.0000.0000.000
140A99VAL0-0.0730.13323.074-0.001-0.0010.0000.0000.0000.000
141A100GLY00.011-0.11423.468-0.007-0.0070.0000.0000.0000.000
142A101GLY00.006-0.00725.4120.0010.0010.0000.0000.0000.000
143A102PHE00.1460.00926.302-0.005-0.0050.0000.0000.0000.000
144A102PHE0-0.0410.09828.7480.0000.0000.0000.0000.0000.000
145A103ALA00.083-0.10526.362-0.004-0.0040.0000.0000.0000.000
146A103ALA0-0.0950.11026.8470.0010.0010.0000.0000.0000.000
147A104TYR00.055-0.08622.912-0.002-0.0020.0000.0000.0000.000
148A104TYR0-0.0420.05317.543-0.002-0.0020.0000.0000.0000.000
149A105LEU00.078-0.09221.667-0.010-0.0100.0000.0000.0000.000
150A105LEU0-0.0470.11322.4770.0010.0010.0000.0000.0000.000
151A106ALA00.147-0.09122.413-0.007-0.0070.0000.0000.0000.000
152A106ALA0-0.1590.07425.5280.0010.0010.0000.0000.0000.000
153A107GLU00.063-0.14221.376-0.001-0.0010.0000.0000.0000.000
154A107GLU-1-1.009-0.84718.959-0.084-0.0840.0000.0000.0000.000
155A108LEU00.024-0.13917.967-0.006-0.0060.0000.0000.0000.000
156A108LEU0-0.0790.11816.608-0.001-0.0010.0000.0000.0000.000
157A109SER00.126-0.03318.116-0.013-0.0130.0000.0000.0000.000
158A109SER0-0.0980.03722.2930.0010.0010.0000.0000.0000.000
159A110LYS0-0.002-0.08920.441-0.002-0.0020.0000.0000.0000.000
160A110LYS10.8241.03121.4840.0570.0570.0000.0000.0000.000
161A111ASN00.065-0.07916.9110.0040.0040.0000.0000.0000.000
162A111ASN0-0.0860.06915.8570.0080.0080.0000.0000.0000.000
163A112THR0-0.032-0.10914.432-0.004-0.0040.0000.0000.0000.000
164A112THR0-0.0370.12413.768-0.002-0.0020.0000.0000.0000.000
165A113PRO00.004-0.09013.1100.0140.0140.0000.0000.0000.000
166A114SER00.1380.04915.031-0.020-0.0200.0000.0000.0000.000
167A114SER0-0.0320.06918.6720.0020.0020.0000.0000.0000.000
168A115ALA00.021-0.11014.900-0.005-0.0050.0000.0000.0000.000
169A115ALA0-0.1180.09114.7160.0040.0040.0000.0000.0000.000
170A116ALA00.081-0.13411.1080.0010.0010.0000.0000.0000.000
171A116ALA0-0.0420.14411.026-0.006-0.0060.0000.0000.0000.000
172A117ASN00.117-0.0949.7000.0430.0430.0000.0000.0000.000
173A117ASN0-0.1090.0788.6530.0110.0110.0000.0000.0000.000
174A118ILE00.037-0.1409.536-0.100-0.1000.0000.0000.0000.000
175A118ILE00.0110.16213.0930.0000.0000.0000.0000.0000.000
176A119SER00.136-0.03010.906-0.032-0.0320.0000.0000.0000.000
177A119SER0-0.0440.05211.8080.0070.0070.0000.0000.0000.000
178A120ALA00.166-0.0477.2400.0630.0630.0000.0000.0000.000
179A120ALA0-0.1360.0696.186-0.012-0.0120.0000.0000.0000.000
180A121TYR00.055-0.1106.371-0.141-0.1410.0000.0000.0000.000
181A121TYR0-0.1090.0785.7230.0100.0100.0000.0000.0000.000
182A122ALA00.120-0.0877.412-0.029-0.0290.0000.0000.0000.000
183A122ALA0-0.0620.11811.4980.0110.0110.0000.0000.0000.000
184A123ASP00.148-0.1048.1840.0370.0370.0000.0000.0000.000
185A123ASP-1-1.007-0.8437.565-0.096-0.0960.0000.0000.0000.000
186A124ILE00.073-0.1054.8870.2900.329-0.002-0.007-0.0310.000
187A124ILE0-0.1620.0632.579-0.934-0.1990.283-0.226-0.792-0.001
188A125VAL00.013-0.1795.9330.1120.1120.0000.0000.0000.000
189A125VAL0-0.0930.1188.449-0.005-0.0050.0000.0000.0000.000
190A126ARG00.129-0.0609.0440.0420.0420.0000.0000.0000.000
191A126ARG10.8351.09010.575-0.026-0.0260.0000.0000.0000.000
192A127GLU0-0.217-0.1956.8900.0080.0080.0000.0000.0000.000
193A127GLU-1-0.859-0.9238.6520.3290.3290.0000.0000.0000.000