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: J4LG9

Calculation Name: 2AZE-B-Xray540

Preferred Name: Transcription factor E2F1

Target Type: SINGLE PROTEIN

Ligand Name:

ligand 3-letter code:

PDB ID: 2AZE

Chain ID: B

ChEMBL ID: CHEMBL4382

UniProt ID: Q01094

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 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 194
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -563158.839769
FMO2-HF: Nuclear repulsion 522023.080037
FMO2-HF: Total energy -41135.759732
FMO2-MP2: Total energy -41251.364719


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:201:GLY)


Summations of interaction energy for fragment #1(B:201:GLY)
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.
-11.094-5.4043.959-4.797-4.852-0.019
Interaction energy analysis for fragmet #1(B:201:GLY)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.053 / q_NPA : 0.020
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].
3B202ARG10.8861.0712.435-0.1611.0590.630-0.886-0.9640.007
4B203LEU00.086-0.0953.501-1.4081.1120.000-1.388-1.1320.004
5B203LEU0-0.0910.1044.9300.2470.2470.0000.0000.0000.000
6B204GLU00.031-0.1623.5242.1922.4930.003-0.094-0.2100.000
7B204GLU-1-0.886-0.7922.255-14.290-12.7873.327-2.386-2.445-0.030
8B205GLY0-0.017-0.0944.2041.6131.759-0.001-0.043-0.1010.000
9B206LEU00.1490.0205.8220.7930.7930.0000.0000.0000.000
10B206LEU0-0.0980.0958.0210.0650.0650.0000.0000.0000.000
11B207THR00.028-0.0677.9580.5360.5360.0000.0000.0000.000
12B207THR0-0.0720.0557.9850.1930.1930.0000.0000.0000.000
13B208GLN00.094-0.1058.3030.4610.4610.0000.0000.0000.000
14B208GLN0-0.0890.0977.609-0.449-0.4490.0000.0000.0000.000
15B209ASP00.122-0.1229.8340.3020.3020.0000.0000.0000.000
16B209ASP-1-1.006-0.83510.765-1.530-1.5300.0000.0000.0000.000
17B210LEU00.026-0.11811.9730.2170.2170.0000.0000.0000.000
18B210LEU0-0.0860.09613.0100.0150.0150.0000.0000.0000.000
19B211ARG00.103-0.08213.0600.1520.1520.0000.0000.0000.000
20B211ARG10.8151.05113.0400.7770.7770.0000.0000.0000.000
21B212GLN00.079-0.10414.1830.1140.1140.0000.0000.0000.000
22B212GLN0-0.1020.07612.636-0.134-0.1340.0000.0000.0000.000
23B213LEU00.038-0.11916.0090.0960.0960.0000.0000.0000.000
24B213LEU0-0.0480.12016.0380.0020.0020.0000.0000.0000.000
25B214GLN00.191-0.04117.5640.0670.0670.0000.0000.0000.000
26B214GLN0-0.0910.10118.242-0.054-0.0540.0000.0000.0000.000
27B215GLU00.084-0.10518.8510.0570.0570.0000.0000.0000.000
28B215GLU-1-1.005-0.85119.217-0.388-0.3880.0000.0000.0000.000
29B216SER00.051-0.10420.1320.0510.0510.0000.0000.0000.000
30B216SER0-0.0770.06620.0820.0040.0040.0000.0000.0000.000
31B217GLU00.085-0.13021.9470.0440.0440.0000.0000.0000.000
32B217GLU-1-1.001-0.80922.726-0.395-0.3950.0000.0000.0000.000
33B218GLN00.074-0.09323.4720.0340.0340.0000.0000.0000.000
34B218GLN0-0.1080.07022.731-0.031-0.0310.0000.0000.0000.000
35B219GLN00.064-0.10924.8600.0310.0310.0000.0000.0000.000
36B219GLN0-0.1360.07923.5720.0030.0030.0000.0000.0000.000
37B220LEU00.107-0.13126.2570.0290.0290.0000.0000.0000.000
38B220LEU0-0.0960.13325.9910.0010.0010.0000.0000.0000.000
39B221ASP00.113-0.13527.8150.0250.0250.0000.0000.0000.000
40B221ASP-1-0.986-0.81028.005-0.278-0.2780.0000.0000.0000.000
41B222HIS00.103-0.07929.4000.0200.0200.0000.0000.0000.000
42B222HIS0-0.1010.08030.050-0.002-0.0020.0000.0000.0000.000
43B223LEU00.035-0.15230.9340.0180.0180.0000.0000.0000.000
44B223LEU0-0.0800.12630.2540.0020.0020.0000.0000.0000.000
45B224MET00.095-0.07832.2520.0170.0170.0000.0000.0000.000
46B224MET0-0.0710.11930.5890.0040.0040.0000.0000.0000.000
47B225ASN00.113-0.09133.6840.0140.0140.0000.0000.0000.000
48B225ASN0-0.1140.07733.9030.0090.0090.0000.0000.0000.000
49B226ILE00.088-0.07635.4490.0110.0110.0000.0000.0000.000
50B226ILE0-0.0900.09434.6440.0010.0010.0000.0000.0000.000
51B227CYS00.080-0.11836.6600.0120.0120.0000.0000.0000.000
52B227CYS0-0.1370.10736.8520.0020.0020.0000.0000.0000.000
53B228THR00.026-0.12038.0380.0090.0090.0000.0000.0000.000
54B228THR0-0.0260.07137.2820.0010.0010.0000.0000.0000.000
55B229THR0-0.006-0.09139.7800.0070.0070.0000.0000.0000.000
56B229THR0-0.0410.05539.3250.0010.0010.0000.0000.0000.000
57B230GLN00.035-0.09741.4150.0070.0070.0000.0000.0000.000
58B230GLN0-0.0680.09341.4960.0040.0040.0000.0000.0000.000
59B231LEU00.088-0.08842.6600.0070.0070.0000.0000.0000.000
60B231LEU0-0.0670.10641.3470.0000.0000.0000.0000.0000.000
61B232ARG00.109-0.08443.9630.0060.0060.0000.0000.0000.000
62B232ARG10.8511.06640.7560.1250.1250.0000.0000.0000.000
63B233LEU00.117-0.09945.7860.0040.0040.0000.0000.0000.000
64B233LEU0-0.1170.09445.2230.0000.0000.0000.0000.0000.000
65B234LEU00.149-0.11847.3990.0050.0050.0000.0000.0000.000
66B234LEU0-0.1590.12146.8130.0000.0000.0000.0000.0000.000
67B235SER0-0.007-0.09048.5800.0050.0050.0000.0000.0000.000
68B235SER0-0.0680.06448.557-0.001-0.0010.0000.0000.0000.000
69B236GLU00.039-0.12750.0940.0030.0030.0000.0000.0000.000
70B236GLU-1-1.012-0.85748.819-0.096-0.0960.0000.0000.0000.000
71B237ASP00.064-0.10751.9350.0030.0030.0000.0000.0000.000
72B237ASP-1-0.925-0.77852.400-0.074-0.0740.0000.0000.0000.000
73B238THR00.067-0.07353.7880.0000.0000.0000.0000.0000.000
74B238THR0-0.0650.05357.4050.0010.0010.0000.0000.0000.000
75B239ASP00.081-0.11657.3220.0010.0010.0000.0000.0000.000
76B239ASP-1-0.938-0.83357.464-0.060-0.0600.0000.0000.0000.000
77B240SER00.024-0.10453.7410.0030.0030.0000.0000.0000.000
78B240SER0-0.0760.03553.140-0.001-0.0010.0000.0000.0000.000
79B241GLN00.062-0.10355.1890.0000.0000.0000.0000.0000.000
80B241GLN0-0.1180.08751.7380.0010.0010.0000.0000.0000.000
81B242ARG00.095-0.07455.9210.0010.0010.0000.0000.0000.000
82B242ARG10.7711.02359.9140.0570.0570.0000.0000.0000.000
83B243LEU0-0.017-0.14857.9150.0020.0020.0000.0000.0000.000
84B243LEU0-0.1200.08357.3990.0010.0010.0000.0000.0000.000
85B244ALA00.137-0.08354.6430.0010.0010.0000.0000.0000.000
86B244ALA0-0.1160.12253.900-0.001-0.0010.0000.0000.0000.000
87B245TYR00.032-0.10755.692-0.001-0.0010.0000.0000.0000.000
88B245TYR0-0.1030.06359.2560.0010.0010.0000.0000.0000.000
89B246VAL00.017-0.10957.5140.0000.0000.0000.0000.0000.000
90B246VAL0-0.0300.11455.4450.0000.0000.0000.0000.0000.000
91B247THR00.001-0.07358.4440.0010.0010.0000.0000.0000.000
92B247THR0-0.0520.03361.2150.0010.0010.0000.0000.0000.000
93B248CYS00.113-0.12160.864-0.002-0.0020.0000.0000.0000.000
94B248CYS0-0.0810.11064.4650.0010.0010.0000.0000.0000.000
95B249GLN00.114-0.05462.6780.0000.0000.0000.0000.0000.000
96B249GLN0-0.0720.07763.0150.0020.0020.0000.0000.0000.000
97B250ASP00.063-0.10958.5880.0010.0010.0000.0000.0000.000
98B250ASP-1-0.917-0.81257.509-0.059-0.0590.0000.0000.0000.000
99B251LEU00.045-0.12357.788-0.001-0.0010.0000.0000.0000.000
100B251LEU0-0.0270.10956.7960.0000.0000.0000.0000.0000.000
101B252ARG00.167-0.03658.870-0.001-0.0010.0000.0000.0000.000
102B252ARG10.7621.03762.0720.0450.0450.0000.0000.0000.000
103B253SER0-0.012-0.06157.9330.0010.0010.0000.0000.0000.000
104B253SER0-0.0520.05257.165-0.001-0.0010.0000.0000.0000.000
105B254ILE0-0.035-0.12555.0190.0000.0000.0000.0000.0000.000
106B254ILE0-0.1010.07153.647-0.001-0.0010.0000.0000.0000.000
107B255ALA00.140-0.10256.001-0.001-0.0010.0000.0000.0000.000
108B255ALA0-0.0920.09357.5460.0000.0000.0000.0000.0000.000
109B256ASP0-0.023-0.09758.880-0.001-0.0010.0000.0000.0000.000
110B256ASP-1-0.917-0.85162.485-0.045-0.0450.0000.0000.0000.000
111B257PRO0-0.057-0.13062.5510.0000.0000.0000.0000.0000.000
112B258ALA00.075-0.02265.2990.0010.0010.0000.0000.0000.000
113B258ALA0-0.0450.13466.6310.0000.0000.0000.0000.0000.000
114B259GLU00.067-0.10865.3490.0010.0010.0000.0000.0000.000
115B259GLU-1-1.049-0.86464.569-0.038-0.0380.0000.0000.0000.000
116B260GLN00.076-0.11461.9770.0010.0010.0000.0000.0000.000
117B260GLN0-0.1100.08858.565-0.001-0.0010.0000.0000.0000.000
118B261MET00.196-0.08163.3190.0000.0000.0000.0000.0000.000
119B261MET0-0.1470.10862.2680.0000.0000.0000.0000.0000.000
120B262VAL00.021-0.13760.736-0.001-0.0010.0000.0000.0000.000
121B262VAL0-0.0590.13059.2460.0000.0000.0000.0000.0000.000
122B263MET00.129-0.13260.1320.0020.0020.0000.0000.0000.000
123B263MET0-0.1280.10659.4700.0010.0010.0000.0000.0000.000
124B264VAL00.013-0.12158.708-0.002-0.0020.0000.0000.0000.000
125B264VAL0-0.0460.11958.2940.0000.0000.0000.0000.0000.000
126B265ILE00.141-0.10557.4470.0020.0020.0000.0000.0000.000
127B265ILE0-0.0980.11256.1800.0000.0000.0000.0000.0000.000
128B266LYS0-0.018-0.12656.767-0.003-0.0030.0000.0000.0000.000
129B266LYS10.8841.08857.3860.0640.0640.0000.0000.0000.000
130B267ALA00.168-0.11355.6860.0030.0030.0000.0000.0000.000
131B267ALA0-0.0650.12754.6120.0000.0000.0000.0000.0000.000
132B268PRO0-0.050-0.10054.902-0.002-0.0020.0000.0000.0000.000
133B269PRO00.057-0.00250.086-0.001-0.0010.0000.0000.0000.000
134B270GLU00.048-0.01949.1690.0020.0020.0000.0000.0000.000
135B270GLU-1-0.993-0.85048.061-0.098-0.0980.0000.0000.0000.000
136B271THR0-0.097-0.12350.235-0.001-0.0010.0000.0000.0000.000
137B271THR0-0.0430.07752.9150.0010.0010.0000.0000.0000.000
138B272GLN00.097-0.07050.458-0.003-0.0030.0000.0000.0000.000
139B272GLN0-0.1080.07747.6680.0030.0030.0000.0000.0000.000
140B273LEU00.158-0.10750.3390.0040.0040.0000.0000.0000.000
141B273LEU0-0.0890.12950.3980.0000.0000.0000.0000.0000.000
142B274GLN00.076-0.11150.065-0.004-0.0040.0000.0000.0000.000
143B274GLN0-0.1550.07150.6270.0010.0010.0000.0000.0000.000
144B275ALA00.145-0.09950.6850.0040.0040.0000.0000.0000.000
145B275ALA0-0.0830.13050.4670.0000.0000.0000.0000.0000.000
146B276VAL0-0.041-0.13251.080-0.003-0.0030.0000.0000.0000.000
147B276VAL0-0.0860.06852.6120.0000.0000.0000.0000.0000.000
148B277ASP00.176-0.10352.3680.0020.0020.0000.0000.0000.000
149B277ASP-1-0.981-0.82651.945-0.058-0.0580.0000.0000.0000.000
150B278SER0-0.028-0.07653.741-0.001-0.0010.0000.0000.0000.000
151B278SER0-0.0980.02557.8900.0000.0000.0000.0000.0000.000
152B279SER00.111-0.06856.296-0.001-0.0010.0000.0000.0000.000
153B279SER0-0.0800.06358.3550.0000.0000.0000.0000.0000.000
154B280GLU00.006-0.11957.8440.0010.0010.0000.0000.0000.000
155B280GLU-1-1.011-0.86360.666-0.041-0.0410.0000.0000.0000.000
156B281ASN00.037-0.04259.2140.0020.0020.0000.0000.0000.000
157B281ASN0-0.0750.02960.348-0.001-0.0010.0000.0000.0000.000
158B282PHE00.186-0.09156.873-0.001-0.0010.0000.0000.0000.000
159B282PHE0-0.0860.13054.7350.0000.0000.0000.0000.0000.000
160B283GLN00.022-0.09056.3400.0020.0020.0000.0000.0000.000
161B283GLN0-0.0990.09856.7280.0010.0010.0000.0000.0000.000
162B284ILE00.134-0.10855.280-0.002-0.0020.0000.0000.0000.000
163B284ILE0-0.0480.12254.6320.0000.0000.0000.0000.0000.000
164B285SER00.037-0.07455.1430.0030.0030.0000.0000.0000.000
165B285SER0-0.1010.04155.3710.0000.0000.0000.0000.0000.000
166B286LEU00.061-0.11154.739-0.003-0.0030.0000.0000.0000.000
167B286LEU0-0.0380.13555.1120.0000.0000.0000.0000.0000.000
168B287LYS00.145-0.07254.9260.0030.0030.0000.0000.0000.000
169B287LYS10.8111.04954.7430.0640.0640.0000.0000.0000.000
170B288SER00.086-0.09354.577-0.004-0.0040.0000.0000.0000.000
171B288SER0-0.0180.09257.059-0.001-0.0010.0000.0000.0000.000
172B289LYS0-0.018-0.11354.8370.0030.0030.0000.0000.0000.000
173B289LYS10.8791.06953.6440.0710.0710.0000.0000.0000.000
174B290GLN00.071-0.10456.1070.0020.0020.0000.0000.0000.000
175B290GLN0-0.0590.10355.4770.0000.0000.0000.0000.0000.000
176B291GLY00.044-0.06957.518-0.001-0.0010.0000.0000.0000.000
177B292PRO00.001-0.00359.919-0.001-0.0010.0000.0000.0000.000
178B293ILE00.0260.04559.485-0.001-0.0010.0000.0000.0000.000
179B293ILE0-0.0580.05058.159-0.001-0.0010.0000.0000.0000.000
180B294ASP00.110-0.12060.4420.0020.0020.0000.0000.0000.000
181B294ASP-1-0.973-0.83261.521-0.054-0.0540.0000.0000.0000.000
182B295VAL00.059-0.10460.828-0.003-0.0030.0000.0000.0000.000
183B295VAL0-0.0770.08360.7840.0000.0000.0000.0000.0000.000
184B296PHE00.033-0.06662.7920.0020.0020.0000.0000.0000.000
185B296PHE0-0.1040.06762.1120.0000.0000.0000.0000.0000.000
186B297LEU00.062-0.09163.403-0.002-0.0020.0000.0000.0000.000
187B297LEU0-0.0580.09664.5550.0000.0000.0000.0000.0000.000
188B298CYS00.087-0.13264.6350.0000.0000.0000.0000.0000.000
189B298CYS0-0.0640.13163.037-0.001-0.0010.0000.0000.0000.000
190B299PRO0-0.012-0.12665.7960.0010.0010.0000.0000.0000.000
191B300GLU00.001-0.06168.6840.0000.0000.0000.0000.0000.000
192B300GLU-1-0.934-0.83467.370-0.042-0.0420.0000.0000.0000.000
193B301GLU0-0.075-0.12769.3760.0020.0020.0000.0000.0000.000
194B301GLU-1-0.889-0.91867.523-0.042-0.0420.0000.0000.0000.000