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

tag_button

FMODB ID: 6G2LZ

Calculation Name: 4DJB-A-Xray540

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 4DJB

Chain ID: A

ChEMBL ID:

UniProt ID: P04489

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 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 226
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -980708.883588
FMO2-HF: Nuclear repulsion 933247.31744
FMO2-HF: Total energy -47461.566148
FMO2-MP2: Total energy -47598.751427


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:-1:ASP)


Summations of interaction energy for fragment #1(A:-1:ASP)
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.
-0.4020.8350.012-0.746-0.5030
Interaction energy analysis for fragmet #1(A:-1:ASP)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.099 / q_NPA : 0.031
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].
4A1MET00.1650.0273.4400.1911.4280.012-0.746-0.5030.000
5A1MET0-0.1720.1025.8530.0490.0490.0000.0000.0000.000
6A2ILE00.144-0.0985.980-0.111-0.1110.0000.0000.0000.000
7A2ILE0-0.1150.0886.9280.0290.0290.0000.0000.0000.000
8A3ARG00.004-0.1178.5390.1260.1260.0000.0000.0000.000
9A3ARG10.6750.9377.398-0.372-0.3720.0000.0000.0000.000
10A4CYS00.170-0.04611.759-0.025-0.0250.0000.0000.0000.000
11A4CYS0-0.1550.06915.434-0.004-0.0040.0000.0000.0000.000
12A5LEU00.024-0.11715.4800.0120.0120.0000.0000.0000.000
13A5LEU0-0.0630.09915.443-0.006-0.0060.0000.0000.0000.000
14A6ARG00.186-0.06118.271-0.002-0.0020.0000.0000.0000.000
15A6ARG10.7440.99821.165-0.089-0.0890.0000.0000.0000.000
16A7LEU00.122-0.09321.756-0.002-0.0020.0000.0000.0000.000
17A7LEU0-0.1160.11124.284-0.002-0.0020.0000.0000.0000.000
18A8LYS00.100-0.08425.0550.0030.0030.0000.0000.0000.000
19A8LYS10.7631.00727.549-0.038-0.0380.0000.0000.0000.000
20A9VAL00.038-0.14728.045-0.007-0.0070.0000.0000.0000.000
21A9VAL0-0.0800.13029.576-0.001-0.0010.0000.0000.0000.000
22A10GLU00.049-0.12231.4860.0060.0060.0000.0000.0000.000
23A10GLU-1-0.894-0.80732.9420.0300.0300.0000.0000.0000.000
24A11GLY00.068-0.07734.746-0.003-0.0030.0000.0000.0000.000
25A12ALA00.1860.03637.329-0.002-0.0020.0000.0000.0000.000
26A12ALA0-0.0830.09939.5470.0000.0000.0000.0000.0000.000
27A13LEU00.073-0.10336.568-0.002-0.0020.0000.0000.0000.000
28A13LEU0-0.0940.10534.0640.0000.0000.0000.0000.0000.000
29A14GLU00.137-0.08736.794-0.005-0.0050.0000.0000.0000.000
30A14GLU-1-0.870-0.77235.4950.0260.0260.0000.0000.0000.000
31A15GLN00.098-0.08337.555-0.002-0.0020.0000.0000.0000.000
32A15GLN0-0.1660.06141.271-0.001-0.0010.0000.0000.0000.000
33A16ILE00.091-0.08140.995-0.001-0.0010.0000.0000.0000.000
34A16ILE0-0.1020.08040.6210.0000.0000.0000.0000.0000.000
35A17PHE00.088-0.08238.824-0.002-0.0020.0000.0000.0000.000
36A17PHE0-0.0940.07937.1760.0000.0000.0000.0000.0000.000
37A18THR00.061-0.07640.331-0.003-0.0030.0000.0000.0000.000
38A18THR0-0.0850.03540.1280.0010.0010.0000.0000.0000.000
39A19MET00.029-0.09842.1090.0000.0000.0000.0000.0000.000
40A19MET0-0.1210.07145.0010.0010.0010.0000.0000.0000.000
41A20ALA00.063-0.10043.7360.0000.0000.0000.0000.0000.000
42A20ALA0-0.0700.11942.7030.0000.0000.0000.0000.0000.000
43A21GLY0-0.038-0.12744.310-0.002-0.0020.0000.0000.0000.000
44A22LEU00.003-0.04039.9770.0000.0000.0000.0000.0000.000
45A22LEU0-0.0660.12138.9230.0000.0000.0000.0000.0000.000
46A23ASN00.184-0.05538.0130.0020.0020.0000.0000.0000.000
47A23ASN0-0.1540.06735.9800.0010.0010.0000.0000.0000.000
48A24ILE00.128-0.09335.145-0.003-0.0030.0000.0000.0000.000
49A24ILE0-0.0480.11533.1520.0000.0000.0000.0000.0000.000
50A25ARG00.084-0.11531.673-0.005-0.0050.0000.0000.0000.000
51A25ARG10.6880.92631.962-0.034-0.0340.0000.0000.0000.000
52A26ASP00.101-0.09831.234-0.001-0.0010.0000.0000.0000.000
53A26ASP-1-0.929-0.80834.7980.0060.0060.0000.0000.0000.000
54A27LEU00.047-0.10032.431-0.004-0.0040.0000.0000.0000.000
55A27LEU0-0.0400.11933.8820.0000.0000.0000.0000.0000.000
56A28LEU00.071-0.09729.463-0.009-0.0090.0000.0000.0000.000
57A28LEU0-0.0670.10428.3100.0010.0010.0000.0000.0000.000
58A29ARG00.152-0.07827.716-0.007-0.0070.0000.0000.0000.000
59A29ARG10.6040.90828.5540.0030.0030.0000.0000.0000.000
60A30ASP00.079-0.10927.971-0.005-0.0050.0000.0000.0000.000
61A30ASP-1-0.861-0.74231.660-0.016-0.0160.0000.0000.0000.000
62A31ILE00.076-0.10128.874-0.008-0.0080.0000.0000.0000.000
63A31ILE0-0.0770.10427.117-0.001-0.0010.0000.0000.0000.000
64A32LEU00.056-0.10724.782-0.015-0.0150.0000.0000.0000.000
65A32LEU0-0.0490.10722.2940.0010.0010.0000.0000.0000.000
66A33ARG00.044-0.11124.388-0.012-0.0120.0000.0000.0000.000
67A33ARG10.7600.99827.1850.0160.0160.0000.0000.0000.000
68A34ARG00.120-0.05126.250-0.008-0.0080.0000.0000.0000.000
69A34ARG10.8501.03228.5110.0540.0540.0000.0000.0000.000
70A35TRP00.127-0.03923.554-0.008-0.0080.0000.0000.0000.000
71A35TRP0-0.0730.07417.3640.0080.0080.0000.0000.0000.000
72A36ARG00.110-0.08321.831-0.024-0.0240.0000.0000.0000.000
73A36ARG10.6890.93722.0630.0630.0630.0000.0000.0000.000
74A37ASP00.087-0.08322.898-0.019-0.0190.0000.0000.0000.000
75A37ASP-1-0.957-0.80426.747-0.067-0.0670.0000.0000.0000.000
76A38GLU0-0.008-0.14224.9360.0000.0000.0000.0000.0000.000
77A38GLU-1-0.954-0.84924.236-0.125-0.1250.0000.0000.0000.000
78A39ASN00.145-0.04121.810-0.016-0.0160.0000.0000.0000.000
79A39ASN0-0.1530.03719.1890.0140.0140.0000.0000.0000.000
80A40TYR00.087-0.06618.735-0.033-0.0330.0000.0000.0000.000
81A40TYR0-0.0860.08918.1550.0090.0090.0000.0000.0000.000
82A41LEU00.034-0.11619.201-0.025-0.0250.0000.0000.0000.000
83A41LEU0-0.0660.11320.989-0.001-0.0010.0000.0000.0000.000
84A42GLY00.012-0.12317.768-0.017-0.0170.0000.0000.0000.000
85A43MET00.072-0.00315.625-0.090-0.0900.0000.0000.0000.000
86A43MET0-0.1230.09316.0970.0140.0140.0000.0000.0000.000
87A44VAL00.031-0.11513.115-0.115-0.1150.0000.0000.0000.000
88A44VAL0-0.0480.11412.8870.0140.0140.0000.0000.0000.000
89A45GLU00.086-0.11013.0190.0400.0400.0000.0000.0000.000
90A45GLU-1-0.880-0.78612.012-0.563-0.5630.0000.0000.0000.000
91A46GLY0-0.046-0.11814.6550.0500.0500.0000.0000.0000.000
92A47ALA00.073-0.02614.965-0.016-0.0160.0000.0000.0000.000
93A47ALA0-0.0540.11716.973-0.003-0.0030.0000.0000.0000.000
94A48GLY0-0.070-0.10617.1760.0020.0020.0000.0000.0000.000
95A49MET00.139-0.00719.276-0.004-0.0040.0000.0000.0000.000
96A49MET0-0.1280.10022.235-0.007-0.0070.0000.0000.0000.000
97A50PHE0-0.017-0.08921.9610.0000.0000.0000.0000.0000.000
98A50PHE0-0.0750.08819.5780.0040.0040.0000.0000.0000.000
99A51ILE00.089-0.11024.331-0.005-0.0050.0000.0000.0000.000
100A51ILE0-0.0770.09127.253-0.002-0.0020.0000.0000.0000.000
101A52GLU00.096-0.10326.9700.0010.0010.0000.0000.0000.000
102A52GLU-1-1.011-0.85725.3640.1110.1110.0000.0000.0000.000
103A53GLU00.086-0.08428.075-0.007-0.0070.0000.0000.0000.000
104A53GLU-1-0.900-0.80332.3770.0490.0490.0000.0000.0000.000
105A54ILE00.079-0.10530.7760.0090.0090.0000.0000.0000.000
106A54ILE0-0.1300.09629.6640.0010.0010.0000.0000.0000.000
107A55HIS00.038-0.09232.688-0.005-0.0050.0000.0000.0000.000
108A55HIS0-0.0940.09933.147-0.003-0.0030.0000.0000.0000.000
109A56PRO0-0.043-0.15135.9460.0020.0020.0000.0000.0000.000
110A57GLU00.110-0.01537.2620.0000.0000.0000.0000.0000.000
111A57GLU-1-0.954-0.81338.5310.0240.0240.0000.0000.0000.000
112A58GLY00.054-0.07134.4450.0000.0000.0000.0000.0000.000
113A59PHE00.0010.01231.0580.0040.0040.0000.0000.0000.000
114A59PHE0-0.0710.07529.146-0.002-0.0020.0000.0000.0000.000
115A60SER00.033-0.10526.486-0.007-0.0070.0000.0000.0000.000
116A60SER0-0.0350.06725.4490.0030.0030.0000.0000.0000.000
117A61LEU00.138-0.07125.6240.0110.0110.0000.0000.0000.000
118A61LEU0-0.0930.10624.230-0.002-0.0020.0000.0000.0000.000
119A62TYR00.025-0.13421.570-0.005-0.0050.0000.0000.0000.000
120A62TYR0-0.0900.10120.3310.0090.0090.0000.0000.0000.000
121A63VAL00.092-0.09719.4370.0040.0040.0000.0000.0000.000
122A63VAL0-0.0470.11418.101-0.005-0.0050.0000.0000.0000.000
123A64HIS00.094-0.06715.467-0.008-0.0080.0000.0000.0000.000
124A64HIS0-0.0940.06515.147-0.008-0.0080.0000.0000.0000.000
125A65LEU00.045-0.09413.3940.0210.0210.0000.0000.0000.000
126A65LEU0-0.0300.09513.416-0.011-0.0110.0000.0000.0000.000
127A66ASP00.099-0.1069.1020.1570.1570.0000.0000.0000.000
128A66ASP-1-0.892-0.7917.425-1.167-1.1670.0000.0000.0000.000
129A67VAL00.014-0.1159.860-0.098-0.0980.0000.0000.0000.000
130A67VAL0-0.0530.1109.7560.0210.0210.0000.0000.0000.000
131A68ARG00.087-0.0766.8940.0510.0510.0000.0000.0000.000
132A68ARG10.6790.9457.8460.7920.7920.0000.0000.0000.000
133A69ALA00.161-0.1056.478-0.352-0.3520.0000.0000.0000.000
134A69ALA0-0.0930.0968.5060.0130.0130.0000.0000.0000.000
135A70VAL00.073-0.0928.9530.0750.0750.0000.0000.0000.000
136A70VAL0-0.0720.10610.3600.0020.0020.0000.0000.0000.000
137A71SER00.136-0.02111.9570.0460.0460.0000.0000.0000.000
138A71SER0-0.0700.03913.605-0.026-0.0260.0000.0000.0000.000
139A72LEU00.057-0.10012.6970.0680.0680.0000.0000.0000.000
140A72LEU0-0.1060.10511.452-0.014-0.0140.0000.0000.0000.000
141A73LEU00.139-0.09612.8180.0260.0260.0000.0000.0000.000
142A73LEU0-0.1140.08912.5650.0060.0060.0000.0000.0000.000
143A74GLU00.072-0.11014.2160.0420.0420.0000.0000.0000.000
144A74GLU-1-0.986-0.85116.194-0.170-0.1700.0000.0000.0000.000
145A75ALA00.126-0.09916.8990.0390.0390.0000.0000.0000.000
146A75ALA0-0.1080.10116.999-0.008-0.0080.0000.0000.0000.000
147A76ILE00.058-0.08616.8940.0230.0230.0000.0000.0000.000
148A76ILE0-0.0940.08314.2340.0030.0030.0000.0000.0000.000
149A77VAL00.081-0.10318.1790.0210.0210.0000.0000.0000.000
150A77VAL0-0.0940.10417.6400.0050.0050.0000.0000.0000.000
151A78GLN00.118-0.07020.0440.0250.0250.0000.0000.0000.000
152A78GLN0-0.1390.05821.859-0.013-0.0130.0000.0000.0000.000
153A79HIS00.075-0.08321.6420.0190.0190.0000.0000.0000.000
154A79HIS0-0.0750.08021.228-0.006-0.0060.0000.0000.0000.000
155A80LEU00.066-0.11122.0700.0080.0080.0000.0000.0000.000
156A80LEU0-0.0850.09620.0230.0030.0030.0000.0000.0000.000
157A81THR00.041-0.08523.6220.0130.0130.0000.0000.0000.000
158A81THR0-0.0730.04123.6350.0060.0060.0000.0000.0000.000
159A82GLU00.079-0.10925.8300.0130.0130.0000.0000.0000.000
160A82GLU-1-0.935-0.80426.789-0.097-0.0970.0000.0000.0000.000
161A83ALA00.089-0.08226.7850.0080.0080.0000.0000.0000.000
162A83ALA0-0.0550.11126.371-0.002-0.0020.0000.0000.0000.000
163A84ILE00.049-0.09327.6690.0030.0030.0000.0000.0000.000
164A84ILE0-0.1020.08825.7600.0020.0020.0000.0000.0000.000
165A85ILE00.111-0.09729.2960.0060.0060.0000.0000.0000.000
166A85ILE0-0.1150.09329.7830.0000.0000.0000.0000.0000.000
167A86SER00.012-0.11031.4920.0060.0060.0000.0000.0000.000
168A86SER0-0.0820.04330.912-0.002-0.0020.0000.0000.0000.000
169A87SER00.037-0.05632.1310.0020.0020.0000.0000.0000.000
170A87SER00.0070.07131.918-0.001-0.0010.0000.0000.0000.000
171A88LEU0-0.006-0.12133.2550.0020.0020.0000.0000.0000.000
172A88LEU0-0.0640.10131.9920.0010.0010.0000.0000.0000.000
173A89ALA00.181-0.06035.0400.0050.0050.0000.0000.0000.000
174A89ALA0-0.1050.08636.703-0.001-0.0010.0000.0000.0000.000
175A90VAL00.042-0.10737.0570.0040.0040.0000.0000.0000.000
176A90VAL0-0.1020.09037.226-0.001-0.0010.0000.0000.0000.000
177A91GLU00.053-0.08637.6020.0010.0010.0000.0000.0000.000
178A91GLU-1-1.000-0.88735.927-0.028-0.0280.0000.0000.0000.000
179A92PHE00.174-0.05139.0660.0020.0020.0000.0000.0000.000
180A92PHE0-0.1030.07539.4710.0010.0010.0000.0000.0000.000
181A93ASP00.044-0.08241.0070.0030.0030.0000.0000.0000.000
182A93ASP-1-0.937-0.84541.922-0.027-0.0270.0000.0000.0000.000
183A94HIS00.066-0.09542.4820.0020.0020.0000.0000.0000.000
184A94HIS0-0.1700.02842.278-0.003-0.0030.0000.0000.0000.000
185A95ALA00.051-0.11443.2250.0000.0000.0000.0000.0000.000
186A95ALA0-0.0660.11542.8760.0000.0000.0000.0000.0000.000
187A96THR0-0.065-0.13544.7610.0020.0020.0000.0000.0000.000
188A96THR0-0.0330.07644.7650.0000.0000.0000.0000.0000.000
189A97GLY0-0.056-0.10646.9650.0010.0010.0000.0000.0000.000
190A98GLY0-0.027-0.01146.3540.0000.0000.0000.0000.0000.000
191A99GLU00.006-0.04946.489-0.001-0.0010.0000.0000.0000.000
192A99GLU-1-0.998-0.84046.109-0.007-0.0070.0000.0000.0000.000
193A100ARG00.064-0.09042.711-0.002-0.0020.0000.0000.0000.000
194A100ARG10.8471.02842.7560.0210.0210.0000.0000.0000.000
195A101VAL00.076-0.12340.3730.0020.0020.0000.0000.0000.000
196A101VAL0-0.0610.14438.6050.0000.0000.0000.0000.0000.000
197A102HIS00.095-0.10038.530-0.004-0.0040.0000.0000.0000.000
198A102HIS0-0.1590.05336.332-0.002-0.0020.0000.0000.0000.000
199A103LEU00.029-0.12634.6100.0050.0050.0000.0000.0000.000
200A103LEU0-0.0300.11533.9270.0000.0000.0000.0000.0000.000
201A104ILE00.069-0.08432.630-0.001-0.0010.0000.0000.0000.000
202A104ILE0-0.0860.08433.4980.0000.0000.0000.0000.0000.000
203A105ASP00.163-0.08431.438-0.005-0.0050.0000.0000.0000.000
204A105ASP-1-0.955-0.81732.385-0.002-0.0020.0000.0000.0000.000
205A106LEU00.014-0.10529.4560.0070.0070.0000.0000.0000.000
206A106LEU0-0.0530.11029.1390.0000.0000.0000.0000.0000.000
207A107HIS00.080-0.05625.717-0.009-0.0090.0000.0000.0000.000
208A107HIS10.7360.93124.381-0.010-0.0100.0000.0000.0000.000
209A108PHE00.095-0.09621.3560.0110.0110.0000.0000.0000.000
210A108PHE0-0.0910.11020.473-0.002-0.0020.0000.0000.0000.000
211A109GLU00.090-0.10121.105-0.015-0.0150.0000.0000.0000.000
212A109GLU-1-0.882-0.77321.1900.0580.0580.0000.0000.0000.000
213A110VAL00.007-0.12716.491-0.003-0.0030.0000.0000.0000.000
214A110VAL0-0.0230.13014.507-0.004-0.0040.0000.0000.0000.000
215A111LEU00.032-0.11215.8780.0010.0010.0000.0000.0000.000
216A111LEU0-0.0970.08916.2140.0050.0050.0000.0000.0000.000
217A112ASP00.131-0.10711.959-0.009-0.0090.0000.0000.0000.000
218A112ASP-1-0.919-0.81311.7800.2090.2090.0000.0000.0000.000
219A113ASN00.094-0.0859.426-0.047-0.0470.0000.0000.0000.000
220A113ASN0-0.1300.0606.997-0.112-0.1120.0000.0000.0000.000
221A114LEU00.029-0.1119.7800.1400.1400.0000.0000.0000.000
222A114LEU0-0.0760.08613.774-0.016-0.0160.0000.0000.0000.000
223A115LEU00.038-0.1059.871-0.124-0.1240.0000.0000.0000.000
224A115LEU0-0.0700.0889.0780.0230.0230.0000.0000.0000.000
225A116GLU0-0.137-0.1606.8250.1900.1900.0000.0000.0000.000
226A116GLU-1-0.706-0.7964.9550.7770.7770.0000.0000.0000.000