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: KKG13

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 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 205
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -631157.629578
FMO2-HF: Nuclear repulsion 587605.611827
FMO2-HF: Total energy -43552.017751
FMO2-MP2: Total energy -43677.527464


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.
-1.0524.540.241-2.979-2.8540.003
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 : 0.151 / q_NPA : 0.039
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-1-0.906-0.8133.155-3.265-1.2560.212-1.256-0.966-0.008
5B126VAL00.084-0.0773.446-0.4522.6390.004-2.000-1.0960.010
6B126VAL0-0.0480.1063.4640.0360.001-0.0030.140-0.1030.000
7B127ILE00.093-0.0903.7941.2251.573-0.001-0.164-0.1820.000
8B127ILE0-0.1040.0773.2880.1720.1380.0320.327-0.3240.001
9B128ASP00.050-0.1144.1421.3241.483-0.002-0.017-0.1400.000
10B128ASP-1-0.879-0.8024.706-4.345-4.291-0.001-0.009-0.0430.000
11B129ARG00.110-0.0805.8470.8170.8170.0000.0000.0000.000
12B129ARG10.7521.0017.1402.2572.2570.0000.0000.0000.000
13B130LEU00.063-0.0997.8770.4490.4490.0000.0000.0000.000
14B130LEU0-0.0960.0887.6690.0340.0340.0000.0000.0000.000
15B131ARG00.104-0.0848.3580.3040.3040.0000.0000.0000.000
16B131ARG10.7721.0058.5790.5310.5310.0000.0000.0000.000
17B132TYR00.113-0.0789.8740.2450.2450.0000.0000.0000.000
18B132TYR0-0.1440.04810.928-0.045-0.0450.0000.0000.0000.000
19B133LEU00.182-0.04411.8960.1690.1690.0000.0000.0000.000
20B133LEU0-0.0830.09813.036-0.026-0.0260.0000.0000.0000.000
21B134LYS0-0.042-0.12213.0450.1110.1110.0000.0000.0000.000
22B134LYS10.6930.96212.9470.4180.4180.0000.0000.0000.000
23B135ALA00.152-0.08814.7330.0760.0760.0000.0000.0000.000
24B135ALA0-0.0830.08514.6500.0030.0030.0000.0000.0000.000
25B136GLU00.106-0.09816.0370.0760.0760.0000.0000.0000.000
26B136GLU-1-0.974-0.80416.864-0.546-0.5460.0000.0000.0000.000
27B137ILE00.039-0.09617.8080.0530.0530.0000.0000.0000.000
28B137ILE0-0.0720.07717.788-0.007-0.0070.0000.0000.0000.000
29B138GLU00.095-0.08119.4260.0290.0290.0000.0000.0000.000
30B138GLU-1-0.904-0.81219.023-0.364-0.3640.0000.0000.0000.000
31B139ASP00.085-0.10121.2880.0360.0360.0000.0000.0000.000
32B139ASP-1-0.978-0.85222.263-0.252-0.2520.0000.0000.0000.000
33B140LEU00.062-0.10322.5540.0330.0330.0000.0000.0000.000
34B140LEU0-0.0850.09221.563-0.004-0.0040.0000.0000.0000.000
35B141GLU00.171-0.05223.6850.0190.0190.0000.0000.0000.000
36B141GLU-1-1.006-0.84723.943-0.213-0.2130.0000.0000.0000.000
37B142LEU00.070-0.11825.4640.0190.0190.0000.0000.0000.000
38B142LEU0-0.1050.09925.2710.0040.0040.0000.0000.0000.000
39B143LYS00.105-0.10327.0270.0230.0230.0000.0000.0000.000
40B143LYS10.7611.01927.5630.1630.1630.0000.0000.0000.000
41B144GLU00.090-0.11728.1630.0180.0180.0000.0000.0000.000
42B144GLU-1-0.993-0.84028.453-0.229-0.2290.0000.0000.0000.000
43B145ARG00.034-0.12529.6420.0130.0130.0000.0000.0000.000
44B145ARG10.8041.02829.0030.1650.1650.0000.0000.0000.000
45B146GLU00.104-0.08631.3480.0150.0150.0000.0000.0000.000
46B146GLU-1-0.902-0.78131.890-0.149-0.1490.0000.0000.0000.000
47B147LEU00.050-0.12932.7240.0140.0140.0000.0000.0000.000
48B147LEU0-0.0890.11631.227-0.001-0.0010.0000.0000.0000.000
49B148ASP00.100-0.10334.0160.0090.0090.0000.0000.0000.000
50B148ASP-1-0.901-0.78834.220-0.137-0.1370.0000.0000.0000.000
51B149GLN00.047-0.11235.8070.0080.0080.0000.0000.0000.000
52B149GLN0-0.1460.05835.1260.0070.0070.0000.0000.0000.000
53B150GLN00.075-0.11937.3190.0100.0100.0000.0000.0000.000
54B150GLN0-0.0970.08035.640-0.003-0.0030.0000.0000.0000.000
55B151LYS00.120-0.07838.4140.0080.0080.0000.0000.0000.000
56B151LYS10.7631.03737.6830.1260.1260.0000.0000.0000.000
57B152LEU00.091-0.12139.8720.0050.0050.0000.0000.0000.000
58B152LEU0-0.1010.11340.2770.0000.0000.0000.0000.0000.000
59B153TRP00.067-0.10041.7960.0050.0050.0000.0000.0000.000
60B153TRP0-0.0920.09841.5380.0030.0030.0000.0000.0000.000
61B154LEU00.148-0.10943.0180.0070.0070.0000.0000.0000.000
62B154LEU0-0.0970.12042.475-0.001-0.0010.0000.0000.0000.000
63B155GLN00.063-0.09244.1270.0050.0050.0000.0000.0000.000
64B155GLN0-0.0820.07842.282-0.005-0.0050.0000.0000.0000.000
65B156GLN00.083-0.08345.9710.0030.0030.0000.0000.0000.000
66B156GLN0-0.0600.10947.096-0.002-0.0020.0000.0000.0000.000
67B157SER0-0.004-0.09947.5670.0040.0040.0000.0000.0000.000
68B157SER0-0.0630.04947.5010.0000.0000.0000.0000.0000.000
69B158ILE00.122-0.07848.7390.0040.0040.0000.0000.0000.000
70B158ILE0-0.1010.09346.8550.0000.0000.0000.0000.0000.000
71B159LYS00.081-0.08150.2650.0030.0030.0000.0000.0000.000
72B159LYS10.7850.99449.1950.0730.0730.0000.0000.0000.000
73B160ASN00.078-0.06752.0430.0020.0020.0000.0000.0000.000
74B160ASN0-0.0980.05452.307-0.001-0.0010.0000.0000.0000.000
75B161VAL00.069-0.07553.4780.0030.0030.0000.0000.0000.000
76B161VAL0-0.1030.09053.3310.0000.0000.0000.0000.0000.000
77B162MET00.101-0.08554.7730.0030.0030.0000.0000.0000.000
78B162MET0-0.1130.07152.472-0.001-0.0010.0000.0000.0000.000
79B163ASP00.056-0.06556.5620.0010.0010.0000.0000.0000.000
80B163ASP-1-0.983-0.85257.977-0.052-0.0520.0000.0000.0000.000
81B164ASP00.147-0.09258.8980.0010.0010.0000.0000.0000.000
82B164ASP-1-0.878-0.81160.172-0.047-0.0470.0000.0000.0000.000
83B165SER00.037-0.07660.880-0.001-0.0010.0000.0000.0000.000
84B165SER0-0.0940.05064.7690.0010.0010.0000.0000.0000.000
85B166ILE00.065-0.10464.1420.0000.0000.0000.0000.0000.000
86B166ILE0-0.1020.07864.3010.0000.0000.0000.0000.0000.000
87B167ASN00.100-0.08360.3320.0010.0010.0000.0000.0000.000
88B167ASN0-0.1590.04358.6150.0010.0010.0000.0000.0000.000
89B168ASN00.175-0.03661.749-0.001-0.0010.0000.0000.0000.000
90B168ASN0-0.1770.04261.7260.0010.0010.0000.0000.0000.000
91B169ARG00.044-0.08762.5500.0000.0000.0000.0000.0000.000
92B169ARG10.7751.01966.6080.0420.0420.0000.0000.0000.000
93B170PHE00.006-0.11464.0690.0020.0020.0000.0000.0000.000
94B170PHE0-0.1040.07163.9930.0010.0010.0000.0000.0000.000
95B171SER00.124-0.05260.5380.0000.0000.0000.0000.0000.000
96B171SER0-0.0400.08859.6780.0000.0000.0000.0000.0000.000
97B172TYR00.021-0.10261.497-0.001-0.0010.0000.0000.0000.000
98B172TYR0-0.1220.05764.6570.0010.0010.0000.0000.0000.000
99B173VAL00.030-0.10862.6010.0000.0000.0000.0000.0000.000
100B173VAL0-0.0350.10660.5450.0000.0000.0000.0000.0000.000
101B174THR0-0.034-0.09463.8020.0010.0010.0000.0000.0000.000
102B174THR0-0.0740.01066.3150.0010.0010.0000.0000.0000.000
103B175HIS00.141-0.08665.478-0.002-0.0020.0000.0000.0000.000
104B175HIS0-0.0550.09569.080-0.001-0.0010.0000.0000.0000.000
105B176GLU00.158-0.06466.223-0.001-0.0010.0000.0000.0000.000
106B176GLU-1-0.957-0.84067.571-0.045-0.0450.0000.0000.0000.000
107B177ASP00.039-0.09263.134-0.001-0.0010.0000.0000.0000.000
108B177ASP-1-0.850-0.78362.060-0.052-0.0520.0000.0000.0000.000
109B178ILE00.080-0.07961.700-0.002-0.0020.0000.0000.0000.000
110B178ILE0-0.0890.08660.8350.0000.0000.0000.0000.0000.000
111B179CYS00.084-0.10962.437-0.002-0.0020.0000.0000.0000.000
112B179CYS0-0.1130.07666.4430.0000.0000.0000.0000.0000.000
113B180ASN00.075-0.04862.9800.0000.0000.0000.0000.0000.000
114B180ASN0-0.1580.02662.2210.0000.0000.0000.0000.0000.000
115B181CYS00.102-0.11258.968-0.001-0.0010.0000.0000.0000.000
116B181CYS0-0.1680.06858.026-0.001-0.0010.0000.0000.0000.000
117B182PHE0-0.018-0.11058.505-0.003-0.0030.0000.0000.0000.000
118B182PHE0-0.1250.07556.6260.0000.0000.0000.0000.0000.000
119B183ASN00.171-0.07260.7550.0020.0020.0000.0000.0000.000
120B183ASN0-0.1290.07561.1060.0010.0010.0000.0000.0000.000
121B184GLY0-0.001-0.10962.6970.0000.0000.0000.0000.0000.000
122B185ASP00.0920.03863.7910.0000.0000.0000.0000.0000.000
123B185ASP-1-1.049-0.88662.062-0.056-0.0560.0000.0000.0000.000
124B186THR00.078-0.09464.2850.0020.0020.0000.0000.0000.000
125B186THR0-0.0620.03965.9240.0010.0010.0000.0000.0000.000
126B187LEU00.000-0.10463.180-0.002-0.0020.0000.0000.0000.000
127B187LEU0-0.0600.13861.6050.0000.0000.0000.0000.0000.000
128B188LEU00.149-0.09462.7720.0020.0020.0000.0000.0000.000
129B188LEU0-0.1270.09663.0100.0000.0000.0000.0000.0000.000
130B189ALA00.143-0.07262.024-0.002-0.0020.0000.0000.0000.000
131B189ALA0-0.0670.10863.3420.0000.0000.0000.0000.0000.000
132B190ILE00.032-0.12161.4400.0020.0020.0000.0000.0000.000
133B190ILE0-0.0900.09060.6360.0000.0000.0000.0000.0000.000
134B191GLN00.106-0.09660.769-0.003-0.0030.0000.0000.0000.000
135B191GLN0-0.0770.10862.1980.0010.0010.0000.0000.0000.000
136B192ALA00.051-0.11560.4270.0020.0020.0000.0000.0000.000
137B192ALA0-0.0360.10859.4020.0000.0000.0000.0000.0000.000
138B193PRO00.017-0.07160.015-0.001-0.0010.0000.0000.0000.000
139B194SER00.0500.02156.189-0.002-0.0020.0000.0000.0000.000
140B194SER0-0.0080.09155.3910.0000.0000.0000.0000.0000.000
141B195GLY00.003-0.10553.5900.0010.0010.0000.0000.0000.000
142B196THR00.0230.00054.673-0.001-0.0010.0000.0000.0000.000
143B196THR0-0.0660.05557.3060.0010.0010.0000.0000.0000.000
144B197GLN00.103-0.06753.397-0.002-0.0020.0000.0000.0000.000
145B197GLN0-0.0710.11150.9060.0020.0020.0000.0000.0000.000
146B198LEU00.098-0.10752.9420.0040.0040.0000.0000.0000.000
147B198LEU0-0.0590.12052.4660.0000.0000.0000.0000.0000.000
148B199GLU00.075-0.12651.948-0.004-0.0040.0000.0000.0000.000
149B199GLU-1-0.945-0.80251.659-0.070-0.0700.0000.0000.0000.000
150B200VAL00.022-0.13951.8200.0040.0040.0000.0000.0000.000
151B200VAL0-0.0720.13451.7940.0000.0000.0000.0000.0000.000
152B201PRO0-0.010-0.09351.433-0.003-0.0030.0000.0000.0000.000
153B202ILE00.116-0.00750.4750.0010.0010.0000.0000.0000.000
154B202ILE0-0.0610.13748.3130.0000.0000.0000.0000.0000.000
155B203PRO00.033-0.09951.1550.0030.0030.0000.0000.0000.000
156B204GLU00.085-0.00353.957-0.001-0.0010.0000.0000.0000.000
157B204GLU-1-0.962-0.82853.215-0.068-0.0680.0000.0000.0000.000
158B205MET00.090-0.12754.9890.0010.0010.0000.0000.0000.000
159B205MET0-0.0990.10057.699-0.001-0.0010.0000.0000.0000.000
160B206GLY0-0.010-0.09458.335-0.001-0.0010.0000.0000.0000.000
161B207GLN00.0970.03861.0370.0010.0010.0000.0000.0000.000
162B207GLN0-0.0430.08963.383-0.001-0.0010.0000.0000.0000.000
163B208ASN00.071-0.05564.102-0.002-0.0020.0000.0000.0000.000
164B208ASN0-0.0780.07468.1100.0000.0000.0000.0000.0000.000
165B209GLY0-0.025-0.14065.2160.0010.0010.0000.0000.0000.000
166B210GLN00.0500.01863.123-0.001-0.0010.0000.0000.0000.000
167B210GLN0-0.0960.07963.0790.0020.0020.0000.0000.0000.000
168B211LYS00.143-0.09959.0310.0000.0000.0000.0000.0000.000
169B211LYS10.7951.04054.3950.0690.0690.0000.0000.0000.000
170B212LYS0-0.002-0.08158.2480.0020.0020.0000.0000.0000.000
171B212LYS10.8131.02254.9380.0660.0660.0000.0000.0000.000
172B213TYR00.033-0.12757.212-0.003-0.0030.0000.0000.0000.000
173B213TYR0-0.0070.11655.227-0.001-0.0010.0000.0000.0000.000
174B214GLN00.079-0.05957.3400.0020.0020.0000.0000.0000.000
175B214GLN0-0.0560.08557.7970.0000.0000.0000.0000.0000.000
176B215ILE00.108-0.07956.729-0.003-0.0030.0000.0000.0000.000
177B215ILE0-0.0610.09855.9930.0000.0000.0000.0000.0000.000
178B216ASN00.123-0.04256.5470.0030.0030.0000.0000.0000.000
179B216ASN0-0.1190.05256.145-0.001-0.0010.0000.0000.0000.000
180B217LEU00.092-0.13156.862-0.002-0.0020.0000.0000.0000.000
181B217LEU0-0.0630.10457.0860.0000.0000.0000.0000.0000.000
182B218LYS00.035-0.09657.6620.0020.0020.0000.0000.0000.000
183B218LYS10.6980.96754.5960.0660.0660.0000.0000.0000.000
184B219SER00.089-0.07557.854-0.003-0.0030.0000.0000.0000.000
185B219SER0-0.0310.06661.0480.0000.0000.0000.0000.0000.000
186B220HIS00.010-0.09759.6010.0020.0020.0000.0000.0000.000
187B220HIS0-0.0270.10656.3880.0010.0010.0000.0000.0000.000
188B221SER00.009-0.09360.8490.0020.0020.0000.0000.0000.000
189B221SER0-0.0220.09559.4880.0000.0000.0000.0000.0000.000
190B222GLY0-0.004-0.09762.0510.0010.0010.0000.0000.0000.000
191B223PRO0-0.0130.00564.363-0.001-0.0010.0000.0000.0000.000
192B224ILE00.0560.02364.025-0.001-0.0010.0000.0000.0000.000
193B224ILE0-0.0440.09562.0780.0000.0000.0000.0000.0000.000
194B225HIS00.063-0.09464.9670.0020.0020.0000.0000.0000.000
195B225HIS0-0.0560.09666.3270.0000.0000.0000.0000.0000.000
196B226VAL00.036-0.11865.077-0.002-0.0020.0000.0000.0000.000
197B226VAL0-0.0730.09465.0600.0000.0000.0000.0000.0000.000
198B227LEU00.120-0.10266.2760.0020.0020.0000.0000.0000.000
199B227LEU0-0.1090.10866.8430.0000.0000.0000.0000.0000.000
200B228LEU00.116-0.08966.581-0.002-0.0020.0000.0000.0000.000
201B228LEU0-0.1120.09267.8490.0000.0000.0000.0000.0000.000
202B229ILE00.009-0.12766.4240.0020.0020.0000.0000.0000.000
203B229ILE0-0.0830.10564.7000.0000.0000.0000.0000.0000.000
204B230ASN0-0.009-0.09267.8440.0000.0000.0000.0000.0000.000
205B230ASN00.013-0.00471.2730.0000.0000.0000.0000.0000.000