FMODB

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

Last updated: 2025-07-23

All entries: 44592

Number of unique PDB entries: 7794

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FMODB ID: 9MVV2

Calculation Name: 3UTK-A-Xray540

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 3UTK

Chain ID: A

ChEMBL ID:

UniProt ID: Q01567

Base Structure: X-ray

Registration Date: 2025-07-09

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
FMO calculation
FMO method FMO2-MP2/6-31G(d)
Fragmentation Auto
Number of fragment 179
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -661023.401086
FMO2-HF: Nuclear repulsion 623968.438199
FMO2-HF: Total energy -37054.962887
FMO2-MP2: Total energy -37161.29157


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:38:VAL)


Summations of interaction energy for fragment #1(A:38:VAL)
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.
2.5144.2060.019-0.577-1.1330.005
Interaction energy analysis for fragmet #1(A:38:VAL)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.161 / q_NPA : -0.002
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].
4A40ALA00.1950.0253.837-3.572-2.570-0.007-0.650-0.3450.005
5A40ALA0-0.0540.1007.6270.1770.1770.0000.0000.0000.000
6A41ASN00.049-0.0926.570-0.208-0.2080.0000.0000.0000.000
7A41ASN0-0.0980.0717.958-0.048-0.0480.0000.0000.0000.000
8A42GLU00.102-0.1275.1110.2260.264-0.002-0.001-0.0350.000
9A42GLU-1-0.951-0.8164.0390.2130.5920.001-0.104-0.2770.000
10A43GLN00.061-0.1055.2700.0400.051-0.002-0.006-0.0020.000
11A43GLN0-0.1020.0983.1392.6342.6660.0050.250-0.2860.000
12A44ILE00.155-0.0935.8720.3090.358-0.0020.000-0.0470.000
13A44ILE0-0.1060.1049.2200.0210.0210.0000.0000.0000.000
14A45SER00.019-0.1079.2830.1810.1810.0000.0000.0000.000
15A45SER0-0.0440.0919.3980.1270.1270.0000.0000.0000.000
16A46GLN00.038-0.0918.0550.4300.4300.0000.0000.0000.000
17A46GLN0-0.0800.0955.478-0.509-0.5090.0000.0000.0000.000
18A47LEU00.057-0.1169.3920.2090.2090.0000.0000.0000.000
19A47LEU0-0.0540.1139.1770.0340.0340.0000.0000.0000.000
20A48ALA00.094-0.08711.3640.1450.1450.0000.0000.0000.000
21A48ALA0-0.0540.09013.7580.0160.0160.0000.0000.0000.000
22A49SER00.080-0.06113.0020.1450.1450.0000.0000.0000.000
23A49SER0-0.0520.06612.7480.0310.0310.0000.0000.0000.000
24A50LEU00.031-0.11913.5710.1330.1330.0000.0000.0000.000
25A50LEU0-0.0800.11311.836-0.010-0.0100.0000.0000.0000.000
26A51VAL00.107-0.09415.1560.0930.0930.0000.0000.0000.000
27A51VAL0-0.0580.10915.6230.0030.0030.0000.0000.0000.000
28A52ALA00.058-0.13117.3520.0670.0670.0000.0000.0000.000
29A52ALA0-0.0610.13418.0480.0030.0030.0000.0000.0000.000
30A53ALA00.094-0.10718.1590.0740.0740.0000.0000.0000.000
31A53ALA0-0.0380.11918.170-0.006-0.0060.0000.0000.0000.000
32A54SER0-0.005-0.11819.3250.0580.0580.0000.0000.0000.000
33A54SER0-0.0650.06618.713-0.002-0.0020.0000.0000.0000.000
34A55LYS00.143-0.05821.1590.0360.0360.0000.0000.0000.000
35A55LYS10.7320.99722.7920.3180.3180.0000.0000.0000.000
36A56TYR00.056-0.09022.8050.0360.0360.0000.0000.0000.000
37A56TYR0-0.0380.09123.1520.0040.0040.0000.0000.0000.000
38A57LEU00.030-0.11523.8080.0350.0350.0000.0000.0000.000
39A57LEU0-0.0990.08622.5520.0000.0000.0000.0000.0000.000
40A58ARG00.128-0.06025.4760.0250.0250.0000.0000.0000.000
41A58ARG10.7490.99325.2920.3150.3150.0000.0000.0000.000
42A59VAL0-0.006-0.10227.2950.0180.0180.0000.0000.0000.000
43A59VAL0-0.1170.06327.632-0.001-0.0010.0000.0000.0000.000
44A60GLN00.095-0.08828.1870.0180.0180.0000.0000.0000.000
45A60GLN0-0.1150.06827.9040.0160.0160.0000.0000.0000.000
46A61CYS00.033-0.07928.6630.0210.0210.0000.0000.0000.000
47A61CYS0-0.2630.16327.739-0.002-0.0020.0000.0000.0000.000
48A62GLU00.111-0.07829.907-0.002-0.0020.0000.0000.0000.000
49A62GLU-1-0.995-0.86533.306-0.179-0.1790.0000.0000.0000.000
50A63ARG00.097-0.07728.1200.0150.0150.0000.0000.0000.000
51A63ARG10.6820.96325.8900.2810.2810.0000.0000.0000.000
52A64SER00.090-0.10528.864-0.026-0.0260.0000.0000.0000.000
53A64SER0-0.0350.09032.9820.0020.0020.0000.0000.0000.000
54A65ASP00.039-0.09630.1840.0050.0050.0000.0000.0000.000
55A65ASP-1-0.851-0.78828.621-0.272-0.2720.0000.0000.0000.000
56A66LEU0-0.024-0.12326.027-0.008-0.0080.0000.0000.0000.000
57A66LEU0-0.0790.09223.768-0.007-0.0070.0000.0000.0000.000
58A67PRO00.005-0.08424.2190.0160.0160.0000.0000.0000.000
59A68ASP00.1130.02225.995-0.011-0.0110.0000.0000.0000.000
60A68ASP-1-0.873-0.82126.395-0.329-0.3290.0000.0000.0000.000
61A69ASP00.124-0.13523.333-0.030-0.0300.0000.0000.0000.000
62A69ASP-1-0.874-0.78023.384-0.347-0.3470.0000.0000.0000.000
63A70GLY0-0.023-0.09122.083-0.045-0.0450.0000.0000.0000.000
64A71THR00.013-0.01422.128-0.048-0.0480.0000.0000.0000.000
65A71THR00.0130.09623.2820.0070.0070.0000.0000.0000.000
66A72ILE00.082-0.09420.525-0.041-0.0410.0000.0000.0000.000
67A72ILE0-0.0870.11818.924-0.004-0.0040.0000.0000.0000.000
68A73LEU00.118-0.11417.888-0.089-0.0890.0000.0000.0000.000
69A73LEU0-0.1100.11517.4740.0040.0040.0000.0000.0000.000
70A74LYS00.110-0.09517.165-0.107-0.1070.0000.0000.0000.000
71A74LYS10.8541.07620.2280.4290.4290.0000.0000.0000.000
72A75THR0-0.014-0.11717.786-0.047-0.0470.0000.0000.0000.000
73A75THR0-0.0140.09517.0110.0190.0190.0000.0000.0000.000
74A76ALA00.065-0.07014.091-0.064-0.0640.0000.0000.0000.000
75A76ALA0-0.0320.09213.521-0.002-0.0020.0000.0000.0000.000
76A77VAL00.030-0.09612.816-0.242-0.2420.0000.0000.0000.000
77A77VAL0-0.0700.09014.6470.0150.0150.0000.0000.0000.000
78A78ASN00.119-0.07613.593-0.127-0.1270.0000.0000.0000.000
79A78ASN0-0.0950.07716.8320.0060.0060.0000.0000.0000.000
80A79VAL00.122-0.08412.6930.0220.0220.0000.0000.0000.000
81A79VAL0-0.0980.09410.564-0.016-0.0160.0000.0000.0000.000
82A80ALA00.061-0.1099.302-0.210-0.2100.0000.0000.0000.000
83A80ALA0-0.0660.1019.642-0.007-0.0070.0000.0000.0000.000
84A81VAL00.065-0.1039.884-0.286-0.2860.0000.0000.0000.000
85A81VAL0-0.0860.10413.9520.0320.0320.0000.0000.0000.000
86A82GLN00.048-0.10612.4180.0280.0280.0000.0000.0000.000
87A82GLN0-0.0910.09713.022-0.018-0.0180.0000.0000.0000.000
88A83LYS0-0.007-0.1188.1010.2930.2930.0000.0000.0000.000
89A83LYS10.8231.0516.2502.6392.6390.0000.0000.0000.000
90A84GLY00.007-0.0917.902-0.262-0.2620.0000.0000.0000.000
91A85TRP00.043-0.0197.1760.0800.0800.0000.0000.0000.000
92A85TRP0-0.0870.0813.847-0.793-0.6120.026-0.066-0.1410.000
93A86ASP00.135-0.0978.0500.3210.3210.0000.0000.0000.000
94A86ASP-1-0.960-0.8139.550-0.796-0.7960.0000.0000.0000.000
95A87THR0-0.048-0.11610.248-0.142-0.1420.0000.0000.0000.000
96A87THR0-0.0100.08211.9140.0110.0110.0000.0000.0000.000
97A88GLY00.009-0.09112.6660.1240.1240.0000.0000.0000.000
98A89ARG00.012-0.00711.9470.1410.1410.0000.0000.0000.000
99A89ARG10.8841.0659.4720.5160.5160.0000.0000.0000.000
100A90TYR00.038-0.11312.662-0.033-0.0330.0000.0000.0000.000
101A90TYR00.0020.1187.5120.0900.0900.0000.0000.0000.000
102A91GLN00.082-0.10213.391-0.001-0.0010.0000.0000.0000.000
103A91GLN0-0.0310.11616.076-0.027-0.0270.0000.0000.0000.000
104A92SER00.001-0.09215.5070.0580.0580.0000.0000.0000.000
105A92SER0-0.0340.08414.4980.0030.0030.0000.0000.0000.000
106A93LEU00.063-0.08215.0820.0090.0090.0000.0000.0000.000
107A93LEU0-0.0720.10913.070-0.005-0.0050.0000.0000.0000.000
108A94PRO00.075-0.08615.8060.0120.0120.0000.0000.0000.000
109A95GLN00.1550.01419.3230.0090.0090.0000.0000.0000.000
110A95GLN0-0.0990.09620.4880.0060.0060.0000.0000.0000.000
111A96LEU00.034-0.13616.5260.0620.0620.0000.0000.0000.000
112A96LEU0-0.0560.13813.809-0.007-0.0070.0000.0000.0000.000
113A97SER00.047-0.09217.5850.0160.0160.0000.0000.0000.000
114A97SER0-0.0370.05016.941-0.028-0.0280.0000.0000.0000.000
115A98GLU00.110-0.08818.3080.0070.0070.0000.0000.0000.000
116A98GLU-1-0.896-0.77822.753-0.308-0.3080.0000.0000.0000.000
117A99ASN00.065-0.08821.0650.0300.0300.0000.0000.0000.000
118A99ASN0-0.0940.07320.1410.0160.0160.0000.0000.0000.000
119A100LEU00.054-0.10618.2840.0550.0550.0000.0000.0000.000
120A100LEU0-0.0520.12515.018-0.008-0.0080.0000.0000.0000.000
121A101TYR00.143-0.06119.7280.0160.0160.0000.0000.0000.000
122A101TYR0-0.0720.09721.9680.0040.0040.0000.0000.0000.000
123A102GLN00.047-0.13522.2910.0190.0190.0000.0000.0000.000
124A102GLN0-0.1230.09224.6820.0190.0190.0000.0000.0000.000
125A103GLY0-0.033-0.11722.5820.0270.0270.0000.0000.0000.000
126A104LEU00.0710.02522.7300.0290.0290.0000.0000.0000.000
127A104LEU0-0.0800.07120.288-0.006-0.0060.0000.0000.0000.000
128A105LEU00.042-0.11723.6670.0160.0160.0000.0000.0000.000
129A105LEU0-0.1230.08626.4860.0020.0020.0000.0000.0000.000
130A106LYS00.000-0.09226.5900.0150.0150.0000.0000.0000.000
131A106LYS10.8551.04027.3670.1530.1530.0000.0000.0000.000
132A107ASP00.045-0.10324.7250.0240.0240.0000.0000.0000.000
133A107ASP-1-0.859-0.78523.402-0.224-0.2240.0000.0000.0000.000
134A108GLY0-0.015-0.11226.2290.0120.0120.0000.0000.0000.000
135A109THR0-0.008-0.02926.6370.0190.0190.0000.0000.0000.000
136A109THR0-0.0570.07825.4140.0020.0020.0000.0000.0000.000
137A110PRO0-0.025-0.09228.039-0.008-0.0080.0000.0000.0000.000
138A111LYS00.2280.03829.427-0.011-0.0110.0000.0000.0000.000
139A111LYS10.8511.08130.0900.1660.1660.0000.0000.0000.000
140A112ALA00.072-0.11429.453-0.017-0.0170.0000.0000.0000.000
141A112ALA0-0.0620.11532.9990.0030.0030.0000.0000.0000.000
142A113THR00.011-0.09229.188-0.008-0.0080.0000.0000.0000.000
143A113THR0-0.0280.08027.2670.0050.0050.0000.0000.0000.000
144A114GLN00.142-0.10625.342-0.006-0.0060.0000.0000.0000.000
145A114GLN0-0.0610.14622.0780.0130.0130.0000.0000.0000.000
146A115CYS00.038-0.14625.053-0.029-0.0290.0000.0000.0000.000
147A116SER00.068-0.05326.602-0.019-0.0190.0000.0000.0000.000
148A116SER0-0.0420.06828.5520.0000.0000.0000.0000.0000.000
149A117SER00.022-0.06223.988-0.003-0.0030.0000.0000.0000.000
150A117SER0-0.0440.05822.539-0.005-0.0050.0000.0000.0000.000
151A118PHE00.048-0.11021.589-0.017-0.0170.0000.0000.0000.000
152A118PHE0-0.0210.10019.115-0.004-0.0040.0000.0000.0000.000
153A119ASN00.103-0.06822.396-0.034-0.0340.0000.0000.0000.000
154A119ASN0-0.0870.08026.630-0.013-0.0130.0000.0000.0000.000
155A120ARG00.111-0.06824.357-0.006-0.0060.0000.0000.0000.000
156A120ARG10.8461.05322.6510.2260.2260.0000.0000.0000.000
157A121THR0-0.043-0.13019.7840.0110.0110.0000.0000.0000.000
158A121THR0-0.0510.06318.786-0.018-0.0180.0000.0000.0000.000
159A122MET00.067-0.06018.568-0.047-0.0470.0000.0000.0000.000
160A122MET0-0.1000.10717.606-0.021-0.0210.0000.0000.0000.000
161A123THR00.034-0.07719.596-0.045-0.0450.0000.0000.0000.000
162A123THR00.0090.07221.5740.0060.0060.0000.0000.0000.000
163A124PRO00.052-0.06816.413-0.001-0.0010.0000.0000.0000.000
164A125PHE00.1210.03816.838-0.022-0.0220.0000.0000.0000.000
165A125PHE0-0.0600.08614.685-0.025-0.0250.0000.0000.0000.000
166A126LEU00.056-0.11817.472-0.018-0.0180.0000.0000.0000.000
167A126LEU0-0.0980.08420.7320.0090.0090.0000.0000.0000.000
168A127ASP00.078-0.12620.9600.0230.0230.0000.0000.0000.000
169A127ASP-1-1.000-0.83820.599-0.380-0.3800.0000.0000.0000.000
170A128ALA00.105-0.10718.0280.0540.0540.0000.0000.0000.000
171A128ALA0-0.0680.11817.539-0.022-0.0220.0000.0000.0000.000
172A129MET00.088-0.13219.527-0.004-0.0040.0000.0000.0000.000
173A129MET0-0.1370.12619.8850.0200.0200.0000.0000.0000.000
174A130ARG00.104-0.09421.5720.0180.0180.0000.0000.0000.000
175A130ARG10.8701.07124.6270.3050.3050.0000.0000.0000.000
176A131THR0-0.079-0.10422.5740.0350.0350.0000.0000.0000.000
177A131THR0-0.0680.05421.155-0.012-0.0120.0000.0000.0000.000
178A132VAL0-0.084-0.12722.2460.0350.0350.0000.0000.0000.000
179A132VAL00.0060.02520.098-0.005-0.0050.0000.0000.0000.000