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: QKV9Y

Calculation Name: 5TUV-B-Xray540

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 5TUV

Chain ID: B

ChEMBL ID:

UniProt ID: Q15329

Base Structure: X-ray

Registration Date: 2025-07-14

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 OptHSide
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 205
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -630245.365014
FMO2-HF: Nuclear repulsion 586693.811711
FMO2-HF: Total energy -43551.553303
FMO2-MP2: Total energy -43677.049405


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(B:124:LYS)


Summations of interaction energy for fragment #1(B:124:LYS)
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.
-0.3423.1720.163-1.273-2.4060.003
Interaction energy analysis for fragmet #1(B:124:LYS)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.139 / q_NPA : 0.029
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].
4B125GLU-1-0.965-0.8343.385-2.989-1.3430.097-0.925-0.819-0.005
5B126VAL00.093-0.0893.316-0.1561.607-0.006-0.915-0.8410.006
6B126VAL0-0.0610.1093.3690.108-0.0010.0160.222-0.1300.001
7B127ILE00.102-0.0793.2991.4571.558-0.0020.051-0.1510.000
8B127ILE0-0.1050.0693.3180.3490.2710.0610.317-0.3000.001
9B128ASP0-0.012-0.1634.4961.3871.544-0.002-0.013-0.1430.000
10B128ASP-1-0.888-0.8074.822-4.487-4.453-0.001-0.010-0.0220.000
11B129ARG00.119-0.0756.0760.5950.5950.0000.0000.0000.000
12B129ARG10.8311.0596.9162.3412.3410.0000.0000.0000.000
13B130LEU00.028-0.0997.9120.4310.4310.0000.0000.0000.000
14B130LEU0-0.0950.0937.7550.0480.0480.0000.0000.0000.000
15B131ARG00.118-0.0778.5380.2760.2760.0000.0000.0000.000
16B131ARG10.8211.0388.6870.5340.5340.0000.0000.0000.000
17B132TYR00.108-0.0839.9550.2430.2430.0000.0000.0000.000
18B132TYR0-0.1140.07110.750-0.067-0.0670.0000.0000.0000.000
19B133LEU00.178-0.05511.8470.1590.1590.0000.0000.0000.000
20B133LEU0-0.0820.10512.989-0.023-0.0230.0000.0000.0000.000
21B134LYS0-0.028-0.13013.0150.1020.1020.0000.0000.0000.000
22B134LYS10.7070.97013.0960.4040.4040.0000.0000.0000.000
23B135ALA00.092-0.11414.5670.0890.0890.0000.0000.0000.000
24B135ALA0-0.0560.08814.455-0.003-0.0030.0000.0000.0000.000
25B136GLU00.076-0.10415.9520.0710.0710.0000.0000.0000.000
26B136GLU-1-0.961-0.80716.913-0.563-0.5630.0000.0000.0000.000
27B137ILE00.061-0.08518.0660.0460.0460.0000.0000.0000.000
28B137ILE0-0.0880.08418.044-0.003-0.0030.0000.0000.0000.000
29B138GLU00.101-0.09619.8730.0320.0320.0000.0000.0000.000
30B138GLU-1-0.842-0.79919.087-0.360-0.3600.0000.0000.0000.000
31B139ASP00.050-0.09621.4390.0390.0390.0000.0000.0000.000
32B139ASP-1-0.967-0.84122.097-0.273-0.2730.0000.0000.0000.000
33B140LEU00.057-0.12022.4760.0320.0320.0000.0000.0000.000
34B140LEU0-0.0910.09821.152-0.003-0.0030.0000.0000.0000.000
35B141GLU00.097-0.07523.7530.0160.0160.0000.0000.0000.000
36B141GLU-1-1.013-0.84523.963-0.199-0.1990.0000.0000.0000.000
37B142LEU00.079-0.13825.5090.0190.0190.0000.0000.0000.000
38B142LEU0-0.0840.10425.6850.0040.0040.0000.0000.0000.000
39B143LYS00.103-0.09727.0830.0230.0230.0000.0000.0000.000
40B143LYS10.7751.03427.5700.1700.1700.0000.0000.0000.000
41B144GLU00.084-0.12928.4110.0160.0160.0000.0000.0000.000
42B144GLU-1-0.977-0.82428.553-0.217-0.2170.0000.0000.0000.000
43B145ARG00.057-0.10029.9030.0120.0120.0000.0000.0000.000
44B145ARG10.7921.01529.1000.1560.1560.0000.0000.0000.000
45B146GLU00.083-0.10831.6160.0150.0150.0000.0000.0000.000
46B146GLU-1-0.901-0.78032.211-0.155-0.1550.0000.0000.0000.000
47B147LEU00.040-0.13532.8180.0140.0140.0000.0000.0000.000
48B147LEU0-0.0780.11531.327-0.001-0.0010.0000.0000.0000.000
49B148ASP00.082-0.12734.1880.0070.0070.0000.0000.0000.000
50B148ASP-1-0.999-0.82334.171-0.140-0.1400.0000.0000.0000.000
51B149GLN00.007-0.14235.9290.0080.0080.0000.0000.0000.000
52B149GLN0-0.1390.07135.6080.0070.0070.0000.0000.0000.000
53B150GLN00.047-0.13837.4700.0100.0100.0000.0000.0000.000
54B150GLN0-0.0890.09235.882-0.004-0.0040.0000.0000.0000.000
55B151LYS00.115-0.09038.6270.0070.0070.0000.0000.0000.000
56B151LYS10.8501.07438.3850.1160.1160.0000.0000.0000.000
57B152LEU00.051-0.13440.2890.0050.0050.0000.0000.0000.000
58B152LEU0-0.0770.12740.5770.0000.0000.0000.0000.0000.000
59B153TRP00.019-0.11742.1440.0050.0050.0000.0000.0000.000
60B153TRP0-0.0590.10541.9890.0030.0030.0000.0000.0000.000
61B154LEU00.163-0.10643.4100.0050.0050.0000.0000.0000.000
62B154LEU0-0.0680.13542.837-0.001-0.0010.0000.0000.0000.000
63B155GLN00.066-0.09944.4630.0040.0040.0000.0000.0000.000
64B155GLN0-0.0450.11342.961-0.004-0.0040.0000.0000.0000.000
65B156GLN00.061-0.08846.3130.0030.0030.0000.0000.0000.000
66B156GLN0-0.0390.12847.220-0.002-0.0020.0000.0000.0000.000
67B157SER0-0.028-0.11647.8800.0040.0040.0000.0000.0000.000
68B157SER0-0.0240.06947.8480.0000.0000.0000.0000.0000.000
69B158ILE00.114-0.07449.0640.0040.0040.0000.0000.0000.000
70B158ILE0-0.0990.09647.0810.0000.0000.0000.0000.0000.000
71B159LYS00.060-0.10650.6020.0020.0020.0000.0000.0000.000
72B159LYS10.7921.00149.3600.0690.0690.0000.0000.0000.000
73B160ASN00.074-0.05652.4750.0020.0020.0000.0000.0000.000
74B160ASN0-0.0860.05852.879-0.001-0.0010.0000.0000.0000.000
75B161VAL00.068-0.06953.9150.0030.0030.0000.0000.0000.000
76B161VAL0-0.0900.09553.6450.0000.0000.0000.0000.0000.000
77B162MET00.101-0.08255.2150.0030.0030.0000.0000.0000.000
78B162MET0-0.1060.06652.782-0.001-0.0010.0000.0000.0000.000
79B163ASP00.047-0.06957.0130.0010.0010.0000.0000.0000.000
80B163ASP-1-1.031-0.88357.873-0.049-0.0490.0000.0000.0000.000
81B164ASP00.205-0.04959.0240.0000.0000.0000.0000.0000.000
82B164ASP-1-0.893-0.81560.201-0.046-0.0460.0000.0000.0000.000
83B165SER0-0.059-0.14461.063-0.001-0.0010.0000.0000.0000.000
84B165SER0-0.0360.07965.3000.0010.0010.0000.0000.0000.000
85B166ILE00.054-0.11864.3420.0010.0010.0000.0000.0000.000
86B166ILE0-0.0880.09464.4910.0000.0000.0000.0000.0000.000
87B167ASN00.070-0.11460.7040.0010.0010.0000.0000.0000.000
88B167ASN0-0.1440.06058.8460.0000.0000.0000.0000.0000.000
89B168ASN00.128-0.04562.086-0.001-0.0010.0000.0000.0000.000
90B168ASN0-0.0950.07862.0590.0000.0000.0000.0000.0000.000
91B169ARG00.045-0.08662.8970.0000.0000.0000.0000.0000.000
92B169ARG10.8061.03866.8590.0410.0410.0000.0000.0000.000
93B170PHE00.004-0.11464.4080.0010.0010.0000.0000.0000.000
94B170PHE0-0.0990.07464.2680.0010.0010.0000.0000.0000.000
95B171SER00.114-0.06060.972-0.001-0.0010.0000.0000.0000.000
96B171SER0-0.0430.09560.1050.0000.0000.0000.0000.0000.000
97B172TYR00.032-0.10661.926-0.001-0.0010.0000.0000.0000.000
98B172TYR0-0.1070.07064.9440.0010.0010.0000.0000.0000.000
99B173VAL00.034-0.12362.3480.0000.0000.0000.0000.0000.000
100B173VAL0-0.0400.12360.2950.0000.0000.0000.0000.0000.000
101B174THR0-0.026-0.08963.6130.0010.0010.0000.0000.0000.000
102B174THR0-0.0780.00666.2360.0010.0010.0000.0000.0000.000
103B175HIS00.134-0.08665.306-0.002-0.0020.0000.0000.0000.000
104B175HIS0-0.0530.08768.961-0.001-0.0010.0000.0000.0000.000
105B176GLU00.148-0.06866.276-0.001-0.0010.0000.0000.0000.000
106B176GLU-1-1.000-0.85367.458-0.044-0.0440.0000.0000.0000.000
107B177ASP00.027-0.12063.160-0.001-0.0010.0000.0000.0000.000
108B177ASP-1-0.872-0.79462.110-0.051-0.0510.0000.0000.0000.000
109B178ILE00.070-0.08161.560-0.002-0.0020.0000.0000.0000.000
110B178ILE0-0.0860.08660.8680.0000.0000.0000.0000.0000.000
111B179CYS00.132-0.10762.078-0.002-0.0020.0000.0000.0000.000
112B179CYS0-0.1020.09566.1510.0000.0000.0000.0000.0000.000
113B180ASN00.044-0.06162.9650.0000.0000.0000.0000.0000.000
114B180ASN0-0.1260.06062.4240.0010.0010.0000.0000.0000.000
115B181CYS00.067-0.12458.763-0.001-0.0010.0000.0000.0000.000
116B181CYS0-0.1490.07957.697-0.001-0.0010.0000.0000.0000.000
117B182PHE0-0.027-0.12058.207-0.003-0.0030.0000.0000.0000.000
118B182PHE0-0.1190.08056.3060.0000.0000.0000.0000.0000.000
119B183ASN00.210-0.06360.4150.0020.0020.0000.0000.0000.000
120B183ASN0-0.1310.07360.9570.0010.0010.0000.0000.0000.000
121B184GLY0-0.023-0.10462.310-0.001-0.0010.0000.0000.0000.000
122B185ASP00.0780.01863.5270.0000.0000.0000.0000.0000.000
123B185ASP-1-1.006-0.86361.981-0.053-0.0530.0000.0000.0000.000
124B186THR00.081-0.09664.7300.0010.0010.0000.0000.0000.000
125B186THR0-0.0760.05365.5450.0010.0010.0000.0000.0000.000
126B187LEU00.045-0.09663.017-0.001-0.0010.0000.0000.0000.000
127B187LEU0-0.0710.14161.2110.0000.0000.0000.0000.0000.000
128B188LEU00.130-0.11862.5720.0020.0020.0000.0000.0000.000
129B188LEU0-0.1310.09862.6380.0000.0000.0000.0000.0000.000
130B189ALA00.113-0.09261.774-0.002-0.0020.0000.0000.0000.000
131B189ALA0-0.0910.11163.2630.0000.0000.0000.0000.0000.000
132B190ILE00.073-0.11161.1900.0020.0020.0000.0000.0000.000
133B190ILE0-0.0990.09360.3180.0000.0000.0000.0000.0000.000
134B191GLN00.106-0.10360.498-0.003-0.0030.0000.0000.0000.000
135B191GLN0-0.0770.10662.0530.0010.0010.0000.0000.0000.000
136B192ALA00.050-0.10860.3320.0030.0030.0000.0000.0000.000
137B192ALA0-0.0290.11059.3040.0000.0000.0000.0000.0000.000
138B193PRO00.022-0.07359.731-0.001-0.0010.0000.0000.0000.000
139B194SER00.0480.03356.073-0.001-0.0010.0000.0000.0000.000
140B194SER00.0080.08655.0650.0000.0000.0000.0000.0000.000
141B195GLY0-0.020-0.10153.3300.0010.0010.0000.0000.0000.000
142B196THR00.0400.00254.4180.0000.0000.0000.0000.0000.000
143B196THR0-0.0740.05056.9590.0010.0010.0000.0000.0000.000
144B197GLN00.095-0.07653.274-0.003-0.0030.0000.0000.0000.000
145B197GLN0-0.0780.10950.5340.0020.0020.0000.0000.0000.000
146B198LEU00.110-0.09952.9140.0030.0030.0000.0000.0000.000
147B198LEU0-0.0960.10852.7380.0000.0000.0000.0000.0000.000
148B199GLU00.088-0.12452.061-0.004-0.0040.0000.0000.0000.000
149B199GLU-1-0.989-0.81251.679-0.062-0.0620.0000.0000.0000.000
150B200VAL00.048-0.14251.7510.0030.0030.0000.0000.0000.000
151B200VAL0-0.0830.13251.7880.0000.0000.0000.0000.0000.000
152B201PRO0-0.002-0.09151.223-0.003-0.0030.0000.0000.0000.000
153B202ILE00.111-0.01250.5710.0000.0000.0000.0000.0000.000
154B202ILE0-0.0600.13948.4170.0000.0000.0000.0000.0000.000
155B203PRO00.004-0.10851.4370.0030.0030.0000.0000.0000.000
156B204GLU00.051-0.03054.201-0.001-0.0010.0000.0000.0000.000
157B204GLU-1-0.977-0.83352.991-0.059-0.0590.0000.0000.0000.000
158B205MET00.116-0.10654.9780.0010.0010.0000.0000.0000.000
159B205MET0-0.1060.10557.563-0.001-0.0010.0000.0000.0000.000
160B206GLY0-0.008-0.10358.3150.0000.0000.0000.0000.0000.000
161B207GLN00.0800.02761.1580.0010.0010.0000.0000.0000.000
162B207GLN0-0.1060.06063.662-0.001-0.0010.0000.0000.0000.000
163B208ASN00.107-0.04464.242-0.001-0.0010.0000.0000.0000.000
164B208ASN0-0.0510.05768.3270.0000.0000.0000.0000.0000.000
165B209GLY0-0.024-0.11165.7650.0000.0000.0000.0000.0000.000
166B210GLN00.1700.04562.656-0.001-0.0010.0000.0000.0000.000
167B210GLN0-0.1190.06962.8930.0020.0020.0000.0000.0000.000
168B211LYS00.070-0.10358.6500.0000.0000.0000.0000.0000.000
169B211LYS10.8391.06154.2030.0610.0610.0000.0000.0000.000
170B212LYS00.012-0.07658.1080.0020.0020.0000.0000.0000.000
171B212LYS10.8061.02155.6150.0560.0560.0000.0000.0000.000
172B213TYR00.074-0.09657.197-0.002-0.0020.0000.0000.0000.000
173B213TYR0-0.0450.11555.246-0.001-0.0010.0000.0000.0000.000
174B214GLN00.079-0.06857.2810.0020.0020.0000.0000.0000.000
175B214GLN0-0.0750.07757.7760.0000.0000.0000.0000.0000.000
176B215ILE00.116-0.10256.703-0.002-0.0020.0000.0000.0000.000
177B215ILE0-0.0530.10556.1880.0000.0000.0000.0000.0000.000
178B216ASN00.118-0.05756.5740.0030.0030.0000.0000.0000.000
179B216ASN0-0.1330.05456.387-0.001-0.0010.0000.0000.0000.000
180B217LEU00.072-0.12256.603-0.003-0.0030.0000.0000.0000.000
181B217LEU0-0.0590.11957.2740.0000.0000.0000.0000.0000.000
182B218LYS00.066-0.10357.6370.0030.0030.0000.0000.0000.000
183B218LYS10.7370.98654.2550.0590.0590.0000.0000.0000.000
184B219SER00.090-0.08157.951-0.002-0.0020.0000.0000.0000.000
185B219SER0-0.0420.07360.7860.0000.0000.0000.0000.0000.000
186B220HIS00.049-0.09559.6010.0020.0020.0000.0000.0000.000
187B220HIS0-0.0350.10056.7430.0000.0000.0000.0000.0000.000
188B221SER00.024-0.09760.7610.0020.0020.0000.0000.0000.000
189B221SER0-0.0260.10059.4730.0000.0000.0000.0000.0000.000
190B222GLY0-0.023-0.09661.9960.0010.0010.0000.0000.0000.000
191B223PRO0-0.0230.00964.410-0.001-0.0010.0000.0000.0000.000
192B224ILE00.0750.02064.025-0.001-0.0010.0000.0000.0000.000
193B224ILE0-0.0670.09162.1130.0000.0000.0000.0000.0000.000
194B225HIS00.091-0.09764.9050.0020.0020.0000.0000.0000.000
195B225HIS0-0.0770.10366.2080.0000.0000.0000.0000.0000.000
196B226VAL00.051-0.11265.095-0.002-0.0020.0000.0000.0000.000
197B226VAL0-0.0980.09264.7220.0000.0000.0000.0000.0000.000
198B227LEU00.143-0.08766.0610.0020.0020.0000.0000.0000.000
199B227LEU0-0.1030.10266.6020.0000.0000.0000.0000.0000.000
200B228LEU00.099-0.10266.486-0.002-0.0020.0000.0000.0000.000
201B228LEU0-0.1210.09367.7700.0000.0000.0000.0000.0000.000
202B229ILE0-0.003-0.12866.4990.0020.0020.0000.0000.0000.000
203B229ILE0-0.0730.10664.7190.0000.0000.0000.0000.0000.000
204B230ASN00.027-0.07467.9120.0000.0000.0000.0000.0000.000
205B230ASN00.009-0.00671.5610.0000.0000.0000.0000.0000.000