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: G8Q81

Calculation Name: 1T3U-A-Xray540

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 1T3U

Chain ID: A

ChEMBL ID:

UniProt ID: Q9HTW3

Base Structure: X-ray

Registration Date: 2025-07-11

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 180
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -543514.896993
FMO2-HF: Nuclear repulsion 506186.851045
FMO2-HF: Total energy -37328.045948
FMO2-MP2: Total energy -37434.697777


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:6:THR)


Summations of interaction energy for fragment #1(A:6:THR)
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.
-6.482-1.3692.254-3.802-3.561-0.007
Interaction energy analysis for fragmet #1(A:6:THR)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.086 / q_NPA : 0.025
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].
4A7LEU0-0.1120.1194.3330.1110.4570.002-0.175-0.1730.000
5A8THR00.030-0.1153.797-1.843-0.166-0.020-0.929-0.7270.003
6A8THR0-0.0100.1105.2860.0480.066-0.001-0.002-0.0140.000
7A9VAL00.026-0.0996.8700.2840.2840.0000.0000.0000.000
8A9VAL0-0.0420.1118.3340.0560.0560.0000.0000.0000.000
9A10GLN00.087-0.12010.143-0.139-0.1390.0000.0000.0000.000
10A10GLN0-0.0840.12613.7890.0510.0510.0000.0000.0000.000
11A11ILE00.101-0.09813.6340.0910.0910.0000.0000.0000.000
12A11ILE0-0.1400.07412.8660.0150.0150.0000.0000.0000.000
13A12LEU00.091-0.11615.851-0.036-0.0360.0000.0000.0000.000
14A12LEU0-0.1550.06419.4470.0090.0090.0000.0000.0000.000
15A13ASP00.039-0.08819.067-0.013-0.0130.0000.0000.0000.000
16A13ASP-1-0.983-0.86620.748-0.184-0.1840.0000.0000.0000.000
17A14LYS00.101-0.09716.307-0.035-0.0350.0000.0000.0000.000
18A14LYS10.8611.05715.8120.3160.3160.0000.0000.0000.000
19A15GLU00.094-0.13312.2590.1170.1170.0000.0000.0000.000
20A15GLU-1-1.019-0.81810.995-1.161-1.1610.0000.0000.0000.000
21A16TYR00.076-0.11310.062-0.080-0.0800.0000.0000.0000.000
22A16TYR0-0.1400.0779.8340.0750.0750.0000.0000.0000.000
23A17CYS00.167-0.0925.9950.2350.2350.0000.0000.0000.000
24A17CYS0-0.1370.1145.003-0.780-0.7500.0000.007-0.0370.000
25A18ILE00.035-0.1314.895-0.215-0.2150.0000.0000.0000.000
26A18ILE0-0.0560.1124.6280.0470.078-0.001-0.008-0.0210.000
27A19ASN00.117-0.0732.480-0.5160.6902.220-1.893-1.532-0.016
28A19ASN0-0.0850.0763.802-0.935-0.5280.002-0.122-0.287-0.001
29A20CYS00.022-0.1483.279-1.794-1.7920.0100.043-0.0550.000
30A20CYS0-0.0770.1175.1040.0830.1360.001-0.017-0.0360.000
31A21PRO00.036-0.0654.9222.5362.637-0.002-0.004-0.0960.000
32A22ASP00.164-0.0186.8650.5300.5300.0000.0000.0000.000
33A22ASP-1-0.985-0.8245.9244.9204.9200.0000.0000.0000.000
34A23ASP00.042-0.1337.663-0.240-0.2400.0000.0000.0000.000
35A23ASP-1-1.016-0.83511.8501.2561.2560.0000.0000.0000.000
36A24GLU00.011-0.1749.357-0.408-0.4080.0000.0000.0000.000
37A24GLU-1-0.994-0.8188.9241.7241.7240.0000.0000.0000.000
38A25ARG00.143-0.0737.740-0.310-0.3100.0000.0000.0000.000
39A25ARG10.8601.0703.211-8.753-7.5110.043-0.702-0.5830.007
40A26ALA00.161-0.0788.566-0.292-0.2920.0000.0000.0000.000
41A26ALA0-0.0640.11213.016-0.029-0.0290.0000.0000.0000.000
42A27ASN00.027-0.11812.117-0.205-0.2050.0000.0000.0000.000
43A27ASN0-0.0830.09812.798-0.113-0.1130.0000.0000.0000.000
44A28LEU00.110-0.1089.415-0.290-0.2900.0000.0000.0000.000
45A28LEU0-0.0250.1367.449-0.003-0.0030.0000.0000.0000.000
46A29GLU00.066-0.15510.837-0.217-0.2170.0000.0000.0000.000
47A29GLU-1-1.017-0.8399.8160.6100.6100.0000.0000.0000.000
48A30SER0-0.032-0.12211.709-0.175-0.1750.0000.0000.0000.000
49A30SER0-0.0480.07715.133-0.033-0.0330.0000.0000.0000.000
50A31ALA00.066-0.10113.862-0.116-0.1160.0000.0000.0000.000
51A31ALA0-0.0630.13013.0580.0100.0100.0000.0000.0000.000
52A32ALA00.083-0.12312.791-0.073-0.0730.0000.0000.0000.000
53A32ALA0-0.0380.13311.868-0.011-0.0110.0000.0000.0000.000
54A33ARG00.055-0.09513.969-0.090-0.0900.0000.0000.0000.000
55A33ARG10.8911.05814.909-0.373-0.3730.0000.0000.0000.000
56A34TYR00.128-0.06916.920-0.051-0.0510.0000.0000.0000.000
57A34TYR0-0.1700.04918.0400.0000.0000.0000.0000.0000.000
58A35LEU00.058-0.10717.220-0.024-0.0240.0000.0000.0000.000
59A35LEU0-0.0720.10214.776-0.010-0.0100.0000.0000.0000.000
60A36ASP00.068-0.12217.558-0.025-0.0250.0000.0000.0000.000
61A36ASP-1-0.868-0.75617.308-0.075-0.0750.0000.0000.0000.000
62A37GLY0-0.002-0.09419.069-0.023-0.0230.0000.0000.0000.000
63A38LYS00.156-0.00321.798-0.017-0.0170.0000.0000.0000.000
64A38LYS10.8751.09922.268-0.076-0.0760.0000.0000.0000.000
65A39MET00.032-0.11521.808-0.001-0.0010.0000.0000.0000.000
66A39MET0-0.0860.09618.081-0.016-0.0160.0000.0000.0000.000
67A40ARG00.040-0.12723.060-0.015-0.0150.0000.0000.0000.000
68A40ARG10.7831.03720.4640.0900.0900.0000.0000.0000.000
69A41GLU00.112-0.11725.008-0.013-0.0130.0000.0000.0000.000
70A41GLU-1-1.042-0.83726.6510.0600.0600.0000.0000.0000.000
71A42ILE00.084-0.10126.606-0.003-0.0030.0000.0000.0000.000
72A42ILE0-0.0800.09725.0650.0010.0010.0000.0000.0000.000
73A43ARG00.105-0.08626.855-0.001-0.0010.0000.0000.0000.000
74A43ARG10.8271.06824.5690.0920.0920.0000.0000.0000.000
75A44SER0-0.064-0.12528.211-0.008-0.0080.0000.0000.0000.000
76A44SER0-0.0240.09029.7660.0020.0020.0000.0000.0000.000
77A45SER0-0.013-0.08730.8010.0000.0000.0000.0000.0000.000
78A45SER0-0.0640.05231.0840.0030.0030.0000.0000.0000.000
79A46GLY00.001-0.09332.1860.0020.0020.0000.0000.0000.000
80A47LYS00.072-0.00432.975-0.003-0.0030.0000.0000.0000.000
81A47LYS10.8651.06733.521-0.008-0.0080.0000.0000.0000.000
82A48VAL00.010-0.13330.1130.0040.0040.0000.0000.0000.000
83A48VAL0-0.0630.12228.4770.0010.0010.0000.0000.0000.000
84A49ILE00.042-0.11630.410-0.005-0.0050.0000.0000.0000.000
85A49ILE0-0.0220.13132.672-0.001-0.0010.0000.0000.0000.000
86A50GLY00.051-0.07628.9450.0020.0020.0000.0000.0000.000
87A51ALA00.158-0.00324.6530.0170.0170.0000.0000.0000.000
88A51ALA0-0.0880.11123.624-0.006-0.0060.0000.0000.0000.000
89A52ASP00.018-0.14323.2330.0030.0030.0000.0000.0000.000
90A52ASP-1-0.872-0.80724.396-0.082-0.0820.0000.0000.0000.000
91A53ARG00.063-0.11424.1970.0140.0140.0000.0000.0000.000
92A53ARG10.8691.09628.2150.0230.0230.0000.0000.0000.000
93A54VAL00.086-0.11725.3790.0210.0210.0000.0000.0000.000
94A54VAL0-0.0640.11323.750-0.001-0.0010.0000.0000.0000.000
95A55ALA00.118-0.09921.0410.0240.0240.0000.0000.0000.000
96A55ALA0-0.0680.11820.042-0.006-0.0060.0000.0000.0000.000
97A56VAL00.049-0.10121.3030.0250.0250.0000.0000.0000.000
98A56VAL0-0.0560.11322.8160.0000.0000.0000.0000.0000.000
99A57MET00.089-0.09623.2300.0240.0240.0000.0000.0000.000
100A57MET0-0.1150.09126.2790.0000.0000.0000.0000.0000.000
101A58ALA00.099-0.10321.7780.0200.0200.0000.0000.0000.000
102A58ALA0-0.0600.10621.146-0.003-0.0030.0000.0000.0000.000
103A59ALA00.081-0.12819.7490.0330.0330.0000.0000.0000.000
104A59ALA0-0.0720.12219.436-0.003-0.0030.0000.0000.0000.000
105A60LEU00.077-0.12720.5780.0370.0370.0000.0000.0000.000
106A60LEU0-0.0870.12524.958-0.003-0.0030.0000.0000.0000.000
107A61ASN00.103-0.07823.7510.0170.0170.0000.0000.0000.000
108A61ASN0-0.1280.07323.749-0.022-0.0220.0000.0000.0000.000
109A62ILE00.101-0.09619.8250.0040.0040.0000.0000.0000.000
110A62ILE0-0.0680.09317.0150.0040.0040.0000.0000.0000.000
111A63THR00.014-0.10420.7790.0440.0440.0000.0000.0000.000
112A63THR0-0.0420.07320.4670.0060.0060.0000.0000.0000.000
113A64HIS00.098-0.08321.6090.0170.0170.0000.0000.0000.000
114A64HIS0-0.0960.09125.832-0.002-0.0020.0000.0000.0000.000
115A65ASP00.100-0.06823.705-0.001-0.0010.0000.0000.0000.000
116A65ASP-1-0.988-0.85422.6640.1900.1900.0000.0000.0000.000
117A66LEU0-0.010-0.16620.3390.0060.0060.0000.0000.0000.000
118A66LEU0-0.0590.12917.3360.0090.0090.0000.0000.0000.000
119A67LEU00.084-0.12721.5950.0330.0330.0000.0000.0000.000
120A67LEU0-0.0460.14823.222-0.001-0.0010.0000.0000.0000.000
121A68HIS00.168-0.05024.3360.0040.0040.0000.0000.0000.000
122A68HIS0-0.1150.09826.6450.0060.0060.0000.0000.0000.000
123A69ARG00.060-0.09323.248-0.010-0.0100.0000.0000.0000.000
124A69ARG10.8681.04621.424-0.292-0.2920.0000.0000.0000.000
125A70LYS00.108-0.08323.4000.0170.0170.0000.0000.0000.000
126A70LYS10.7901.02122.306-0.277-0.2770.0000.0000.0000.000
127A71GLU00.049-0.13323.9720.0110.0110.0000.0000.0000.000
128A71GLU-1-1.023-0.84428.0550.1760.1760.0000.0000.0000.000
129A72ARG00.153-0.07127.447-0.011-0.0110.0000.0000.0000.000
130A72ARG10.7981.01926.446-0.279-0.2790.0000.0000.0000.000
131A73LEU00.069-0.13324.585-0.016-0.0160.0000.0000.0000.000
132A73LEU0-0.1080.12122.0090.0070.0070.0000.0000.0000.000
133A74ASP00.127-0.10126.0730.0070.0070.0000.0000.0000.000
134A74ASP-1-0.952-0.80525.9890.2840.2840.0000.0000.0000.000
135A75GLN00.016-0.11227.942-0.011-0.0110.0000.0000.0000.000
136A75GLN0-0.0930.08931.1390.0020.0020.0000.0000.0000.000
137A76GLU00.105-0.12929.647-0.016-0.0160.0000.0000.0000.000
138A76GLU-1-0.937-0.78828.2510.2820.2820.0000.0000.0000.000
139A77SER00.059-0.07927.992-0.008-0.0080.0000.0000.0000.000
140A77SER0-0.0510.08027.0650.0000.0000.0000.0000.0000.000
141A78SER00.022-0.08929.195-0.001-0.0010.0000.0000.0000.000
142A78SER0-0.0410.06532.051-0.004-0.0040.0000.0000.0000.000
143A79SER00.042-0.08232.433-0.012-0.0120.0000.0000.0000.000
144A79SER0-0.0500.08233.583-0.004-0.0040.0000.0000.0000.000
145A80THR00.004-0.11731.894-0.015-0.0150.0000.0000.0000.000
146A80THR0-0.0540.08931.0400.0020.0020.0000.0000.0000.000
147A81ARG00.111-0.07632.427-0.007-0.0070.0000.0000.0000.000
148A81ARG10.8811.07331.894-0.191-0.1910.0000.0000.0000.000
149A82GLU00.007-0.14533.613-0.004-0.0040.0000.0000.0000.000
150A82GLU-1-0.950-0.81136.4980.1550.1550.0000.0000.0000.000
151A83ARG00.186-0.04636.617-0.011-0.0110.0000.0000.0000.000
152A83ARG10.8661.06436.681-0.160-0.1600.0000.0000.0000.000
153A84VAL00.033-0.15435.546-0.011-0.0110.0000.0000.0000.000
154A84VAL0-0.0840.12933.7060.0020.0020.0000.0000.0000.000
155A85ARG00.109-0.08636.977-0.004-0.0040.0000.0000.0000.000
156A85ARG10.8331.06037.590-0.151-0.1510.0000.0000.0000.000
157A86GLU00.111-0.10538.838-0.007-0.0070.0000.0000.0000.000
158A86GLU-1-0.995-0.81741.0910.1330.1330.0000.0000.0000.000
159A87LEU00.012-0.12840.503-0.010-0.0100.0000.0000.0000.000
160A87LEU0-0.1010.08238.8060.0000.0000.0000.0000.0000.000
161A88LEU00.066-0.11839.986-0.007-0.0070.0000.0000.0000.000
162A88LEU0-0.0690.10536.6810.0010.0010.0000.0000.0000.000
163A89ASP00.113-0.09841.195-0.003-0.0030.0000.0000.0000.000
164A89ASP-1-0.989-0.83843.4530.1160.1160.0000.0000.0000.000
165A90ARG00.047-0.09844.122-0.007-0.0070.0000.0000.0000.000
166A90ARG10.7880.99044.356-0.125-0.1250.0000.0000.0000.000
167A91VAL00.064-0.10643.993-0.007-0.0070.0000.0000.0000.000
168A91VAL0-0.1020.09542.3040.0010.0010.0000.0000.0000.000
169A92ASP00.075-0.11845.015-0.004-0.0040.0000.0000.0000.000
170A92ASP-1-0.975-0.83144.9900.1110.1110.0000.0000.0000.000
171A93ARG00.074-0.07846.534-0.004-0.0040.0000.0000.0000.000
172A93ARG10.8271.03348.921-0.098-0.0980.0000.0000.0000.000
173A94ALA00.072-0.08749.004-0.006-0.0060.0000.0000.0000.000
174A94ALA0-0.0720.08748.6620.0010.0010.0000.0000.0000.000
175A95LEU00.002-0.14748.968-0.004-0.0040.0000.0000.0000.000
176A95LEU0-0.1000.11345.9780.0010.0010.0000.0000.0000.000
177A96ALA00.081-0.09750.241-0.003-0.0030.0000.0000.0000.000
178A96ALA0-0.0890.11051.3880.0000.0000.0000.0000.0000.000
179A97ASN0-0.104-0.11452.568-0.004-0.0040.0000.0000.0000.000
180A97ASN00.005-0.01054.665-0.002-0.0020.0000.0000.0000.000