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About

FMODB

FMODB: The database of quantum mechanical data based on the FMO method

Last updated: 2024-04-05

All entries: 36946

Number of unique PDB entries: 7781

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FMODB ID: 2XQYX

Calculation Name: 1X7E-B-Xray7

Preferred Name: Estrogen receptor alpha

Target Type: SINGLE PROTEIN

Ligand Name: [5-hydroxy-2-(4-hydroxyphenyl)-1-benzofuran-7-yl]acetonitrile

ligand 3-letter code: 244

PDB ID: 1X7E

Chain ID: B

ChEMBL ID: CHEMBL206

UniProt ID: P03372

Base Structure: X-ray

Registration Date: 2017-02-24

Reference:

DOI:


IFIE MAP

IFIE Diagram


Modeling method
Optimization MOE:Amber10:EHT
Restraint OptH
Protonation MOE:Protonate 3D
Complement BioStationViewer:StructureComplemation (agonist templeate: 1A52)
Water A bridging water among Glu353, Arg394 and ligand.
Procedure Manual calculation
FMO calculation
FMO method FMO2-MP2/6-31G(d)
Fragmentation Auto
Number of fragment 238
LigandCharge 244=0
Software MIZUHO/ABINIT-MP 4.0(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -3161332.476274
FMO2-HF: Nuclear repulsion 3062956.078681
FMO2-HF: Total energy -98376.397593
FMO2-MP2: Total energy -98654.172594


3D Structure
Snapshot
 
Ligand structure

244

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.
-138.176-121.12685.547-39.018-63.5750.108


Interactive mode: IFIE and PIEDA for fragment #237(B:202:244)


Summations of interaction energy for fragment #237(B:202:244)
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.
-138.176-121.12685.547-39.018-63.575-0.108
Interaction energy analysis for fragmet #237(B:202:244)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : -0.106 / q_NPA : ******
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].
1B309SER10.86030.1430.0400.0400.0000.0000.0000.000
2B310LEU00.10225.3520.0080.0080.0000.0000.0000.000
3B311THR00.04429.5600.0090.0090.0000.0000.0000.000
4B312ALA00.06927.207-0.005-0.0050.0000.0000.0000.000
5B313ASP-1-0.84525.8700.1040.1040.0000.0000.0000.000
6B314GLN00.01225.810-0.006-0.0060.0000.0000.0000.000
7B315MET0-0.00822.506-0.029-0.0290.0000.0000.0000.000
8B316VAL00.02420.930-0.009-0.0090.0000.0000.0000.000
9B317SER0-0.03220.638-0.008-0.0080.0000.0000.0000.000
10B318ALA00.00420.990-0.019-0.0190.0000.0000.0000.000
11B319LEU0-0.02117.332-0.040-0.0400.0000.0000.0000.000
12B320LEU0-0.03916.414-0.013-0.0130.0000.0000.0000.000
13B321ASP-1-0.95816.632-0.233-0.2330.0000.0000.0000.000
14B322ALA0-0.03416.106-0.063-0.0630.0000.0000.0000.000
15B323GLU-1-0.84511.864-0.008-0.0080.0000.0000.0000.000
16B324PRO0-0.0318.593-0.100-0.1000.0000.0000.0000.000
17B325PRO0-0.0179.5910.1900.1900.0000.0000.0000.000
18B326ILE00.0097.150-0.374-0.3740.0000.0000.0000.000
19B327LEU0-0.0315.9400.3770.3770.0000.0000.0000.000
20B328TYR00.0147.3220.3620.3620.0000.0000.0000.000
21B329SER00.0117.567-0.650-0.6500.0000.0000.0000.000
22B330GLU-1-0.8808.391-1.037-1.0370.0000.0000.0000.000
23B331TYR0-0.06111.3800.2390.2390.0000.0000.0000.000
24B332ASP-1-0.80814.603-0.185-0.1850.0000.0000.0000.000
25B333PRO0-0.03013.4920.1190.1190.0000.0000.0000.000
26B334THR0-0.05515.3490.1230.1230.0000.0000.0000.000
27B335ARG10.85813.204-1.309-1.3090.0000.0000.0000.000
28B336PRO0-0.04316.096-0.089-0.0890.0000.0000.0000.000
29B337PHE00.04812.2560.0720.0720.0000.0000.0000.000
30B338SER00.02313.7250.0730.0730.0000.0000.0000.000
31B339GLU-1-0.7888.245-0.126-0.1260.0000.0000.0000.000
32B340ALA00.0248.7390.1310.1310.0000.0000.0000.000
33B341SER0-0.0689.3760.0700.0700.0000.0000.0000.000
34B342MET00.0147.685-0.060-0.0600.0000.0000.0000.000
35B343MET00.0412.314-2.482-1.5172.635-0.898-2.7020.013
36B344GLY00.0275.413-0.936-0.9360.0000.0000.0000.000
37B345LEU0-0.0297.349-0.666-0.6660.0000.0000.0000.000
38B346LEU00.0122.796-4.841-1.6021.354-1.126-3.4670.010
39B347THR0-0.0062.232-13.071-10.4293.097-2.086-3.653-0.031
40B348ASN00.0344.059-0.867-0.7640.000-0.020-0.0840.000
41B349LEU0-0.0612.275-0.8170.9651.433-0.802-2.4130.003
42B350ALA00.0222.110-2.780-1.5443.510-1.657-3.088-0.001
43B351ASP-1-0.8823.493-0.497-0.4680.0910.161-0.2820.001
44B352ARG10.8766.6593.9693.9690.0000.0000.0000.000
45B353GLU-1-0.7801.624-44.237-48.92022.375-11.558-6.134-0.120
46B354LEU00.0285.9721.3991.3990.0000.0000.0000.000
47B355VAL00.0098.4150.6480.6480.0000.0000.0000.000
48B356HIS0-0.0328.3060.6490.6490.0000.0000.0000.000
49B357MET0-0.0157.0620.4990.4990.0000.0000.0000.000
50B358ILE00.0349.9670.3580.3580.0000.0000.0000.000
51B359ASN0-0.11713.0570.3310.3310.0000.0000.0000.000
52B360TRP00.03511.7120.1190.1190.0000.0000.0000.000
53B361ALA00.04713.5550.1300.1300.0000.0000.0000.000
54B362LYS10.90715.2730.6820.6820.0000.0000.0000.000
55B363ARG10.88516.2140.6160.6160.0000.0000.0000.000
56B364VAL00.06015.9310.0600.0600.0000.0000.0000.000
57B365PRO0-0.05218.762-0.010-0.0100.0000.0000.0000.000
58B366GLY00.00722.5040.0190.0190.0000.0000.0000.000
59B367PHE00.07417.960-0.008-0.0080.0000.0000.0000.000
60B368VAL0-0.04821.378-0.013-0.0130.0000.0000.0000.000
61B369ASP-1-0.93623.156-0.162-0.1620.0000.0000.0000.000
62B370LEU0-0.08921.7950.0140.0140.0000.0000.0000.000
63B371THR0-0.04625.452-0.026-0.0260.0000.0000.0000.000
64B372LEU0-0.00622.624-0.013-0.0130.0000.0000.0000.000
65B373HIS0-0.00722.791-0.031-0.0310.0000.0000.0000.000
66B374ASP-1-0.80922.992-0.277-0.2770.0000.0000.0000.000
67B375GLN0-0.05419.6670.0150.0150.0000.0000.0000.000
68B376VAL0-0.01118.402-0.033-0.0330.0000.0000.0000.000
69B377HIS00.05917.853-0.004-0.0040.0000.0000.0000.000
70B378LEU0-0.03317.473-0.015-0.0150.0000.0000.0000.000
71B379LEU0-0.02612.7150.0290.0290.0000.0000.0000.000
72B380GLU-1-0.90113.225-0.667-0.6670.0000.0000.0000.000
73B381CYS0-0.06313.583-0.001-0.0010.0000.0000.0000.000
74B382ALA00.00011.6480.0330.0330.0000.0000.0000.000
75B383TRP00.0175.0380.2360.2360.0000.0000.0000.000
76B384LEU00.0433.661-0.7850.1510.011-0.132-0.8140.000
77B385GLU-1-0.8515.6350.8230.8230.0000.0000.0000.000
78B386ILE0-0.0277.0320.4990.4990.0000.0000.0000.000
79B387LEU00.0002.896-2.9830.0971.459-1.091-3.4480.012
80B388MET0-0.0492.840-1.4211.1430.556-1.070-2.051-0.011
81B389ILE0-0.0273.9440.4740.6340.0000.012-0.1720.000
82B390GLY00.0405.490-0.171-0.1710.0000.0000.0000.000
83B391LEU00.0012.318-2.732-0.8101.714-0.981-2.6540.009
84B392VAL0-0.0054.231-0.797-0.5960.001-0.044-0.1580.000
85B393TRP00.0077.222-0.359-0.3590.0000.0000.0000.000
86B394ARG10.7912.272-11.227-9.2941.499-1.364-2.0680.020
87B395SER0-0.0457.1930.0790.0790.0000.0000.0000.000
88B396MET00.0169.798-0.228-0.2280.0000.0000.0000.000
89B397GLU-1-1.02212.6800.8960.8960.0000.0000.0000.000
90B398HIS00.03812.3040.0070.0070.0000.0000.0000.000
91B399PRO00.00513.4400.3280.3280.0000.0000.0000.000
92B400VAL0-0.05412.747-0.099-0.0990.0000.0000.0000.000
93B401LYS10.90110.805-1.913-1.9130.0000.0000.0000.000
94B402LEU00.0264.339-0.467-0.2650.000-0.022-0.1790.000
95B403LEU0-0.0238.2860.0540.0540.0000.0000.0000.000
96B404PHE00.0192.644-7.058-2.8001.861-1.662-4.4570.024
97B405ALA00.0584.495-2.299-2.157-0.001-0.013-0.1280.000
98B406PRO00.0147.1510.6460.6460.0000.0000.0000.000
99B407ASN0-0.05110.1590.1860.1860.0000.0000.0000.000
100B408LEU0-0.0156.900-0.091-0.0910.0000.0000.0000.000
101B409LEU00.0239.0420.7120.7120.0000.0000.0000.000
102B410LEU0-0.0236.441-0.561-0.5610.0000.0000.0000.000
103B411ASP-1-0.8799.4012.5082.5080.0000.0000.0000.000
104B412ARG10.8899.146-1.637-1.6370.0000.0000.0000.000
105B413ASN0-0.0669.856-0.046-0.0460.0000.0000.0000.000
106B414GLN00.0579.901-0.010-0.0100.0000.0000.0000.000
107B415GLY00.0757.1220.1980.1980.0000.0000.0000.000
108B416LYS10.8817.875-1.796-1.7960.0000.0000.0000.000
109B417CYS0-0.07610.536-0.394-0.3940.0000.0000.0000.000
110B418VAL00.0164.771-0.370-0.233-0.001-0.004-0.1320.000
111B419GLU-1-0.8878.001-0.582-0.5820.0000.0000.0000.000
112B420GLY00.0116.481-0.973-0.9730.0000.0000.0000.000
113B421MET0-0.0423.356-4.113-1.2651.224-0.985-3.0870.008
114B422VAL0-0.0345.1851.9412.030-0.0010.000-0.0880.000
115B423GLU-1-0.8887.7420.5130.5130.0000.0000.0000.000
116B424ILE00.0332.043-0.437-1.2145.400-1.098-3.524-0.010
117B425PHE00.0322.791-0.5210.7800.914-0.518-1.6970.006
118B426ASP-1-0.8045.3571.7761.812-0.001-0.001-0.0340.000
119B427MET0-0.0636.475-0.331-0.3310.0000.0000.0000.000
120B428LEU00.0752.901-1.236-0.6871.552-0.443-1.6570.007
121B429LEU00.0006.992-0.886-0.8860.0000.0000.0000.000
122B430ALA0-0.0319.440-0.536-0.5360.0000.0000.0000.000
123B431THR0-0.00510.281-0.508-0.5080.0000.0000.0000.000
124B432SER00.01710.106-0.411-0.4110.0000.0000.0000.000
125B433SER0-0.03211.658-0.396-0.3960.0000.0000.0000.000
126B434ARG10.86214.604-1.075-1.0750.0000.0000.0000.000
127B435PHE00.08010.608-0.198-0.1980.0000.0000.0000.000
128B436ARG10.96415.148-1.640-1.6400.0000.0000.0000.000
129B437MET0-0.10817.024-0.173-0.1730.0000.0000.0000.000
130B438MET0-0.06718.183-0.096-0.0960.0000.0000.0000.000
131B439ASN0-0.03819.236-0.081-0.0810.0000.0000.0000.000
132B440LEU0-0.03013.518-0.070-0.0700.0000.0000.0000.000
133B441GLN00.05617.0650.0790.0790.0000.0000.0000.000
134B442GLY00.06815.6600.0230.0230.0000.0000.0000.000
135B443GLU-1-0.89816.4410.2990.2990.0000.0000.0000.000
136B444GLU-1-0.74217.8500.4890.4890.0000.0000.0000.000
137B445PHE0-0.0348.9690.0220.0220.0000.0000.0000.000
138B446VAL00.04613.5600.0090.0090.0000.0000.0000.000
139B447CYS0-0.05315.203-0.091-0.0910.0000.0000.0000.000
140B448LEU00.00313.902-0.044-0.0440.0000.0000.0000.000
141B449LYS10.8459.349-0.148-0.1480.0000.0000.0000.000
142B450SER00.02612.626-0.115-0.1150.0000.0000.0000.000
143B451ILE0-0.02815.735-0.055-0.0550.0000.0000.0000.000
144B452ILE0-0.02310.965-0.035-0.0350.0000.0000.0000.000
145B453LEU00.00113.923-0.064-0.0640.0000.0000.0000.000
146B454LEU0-0.00714.857-0.057-0.0570.0000.0000.0000.000
147B455ASN0-0.00717.756-0.047-0.0470.0000.0000.0000.000
148B456SER0-0.07613.7540.0170.0170.0000.0000.0000.000
149B457GLY00.06416.890-0.028-0.0280.0000.0000.0000.000
150B458VAL00.02918.902-0.013-0.0130.0000.0000.0000.000
151B459TYR0-0.07221.5070.0120.0120.0000.0000.0000.000
152B460THR0-0.01219.0020.0100.0100.0000.0000.0000.000
153B461PHE00.05722.170-0.017-0.0170.0000.0000.0000.000
154B462LEU00.04924.7860.0120.0120.0000.0000.0000.000
155B463SER0-0.02027.7670.0080.0080.0000.0000.0000.000
156B464SER0-0.03329.8820.0130.0130.0000.0000.0000.000
157B465THR0-0.00833.1000.0070.0070.0000.0000.0000.000
158B466LEU00.05133.986-0.003-0.0030.0000.0000.0000.000
159B467LYS11.00731.8280.1840.1840.0000.0000.0000.000
160B468SER00.01529.568-0.003-0.0030.0000.0000.0000.000
161B469LEU0-0.05629.5440.0020.0020.0000.0000.0000.000
162B470GLU-1-0.92331.172-0.110-0.1100.0000.0000.0000.000
163B471GLU-1-0.77126.326-0.198-0.1980.0000.0000.0000.000
164B472LYS10.81525.9440.1040.1040.0000.0000.0000.000
165B473ASP-1-0.91327.252-0.060-0.0600.0000.0000.0000.000
166B474HIS0-0.10225.7000.0370.0370.0000.0000.0000.000
167B475ILE00.03321.8960.0170.0170.0000.0000.0000.000
168B476HIS0-0.00724.1440.0110.0110.0000.0000.0000.000
169B477ARG10.95126.4590.0580.0580.0000.0000.0000.000
170B478VAL0-0.02422.7730.0190.0190.0000.0000.0000.000
171B479LEU0-0.01819.8430.0280.0280.0000.0000.0000.000
172B480ASP-1-0.87123.3930.0690.0690.0000.0000.0000.000
173B481LYS10.84226.1090.0040.0040.0000.0000.0000.000
174B482ILE0-0.03919.5010.0180.0180.0000.0000.0000.000
175B483THR00.02322.5890.0500.0500.0000.0000.0000.000
176B484ASP-1-0.91724.3870.0980.0980.0000.0000.0000.000
177B485THR0-0.06823.1510.0070.0070.0000.0000.0000.000
178B486LEU00.03019.2650.0200.0200.0000.0000.0000.000
179B487ILE0-0.00623.2430.0260.0260.0000.0000.0000.000
180B488HIS0-0.03926.5220.0130.0130.0000.0000.0000.000
181B489LEU0-0.03421.3500.0020.0020.0000.0000.0000.000
182B490MET0-0.04522.2660.0120.0120.0000.0000.0000.000
183B491ALA0-0.01326.3530.0020.0020.0000.0000.0000.000
184B492LYS10.92927.605-0.165-0.1650.0000.0000.0000.000
185B493ALA0-0.03126.428-0.001-0.0010.0000.0000.0000.000
186B494GLY0-0.02128.5500.0130.0130.0000.0000.0000.000
187B495LEU0-0.04125.876-0.001-0.0010.0000.0000.0000.000
188B496THR00.04330.484-0.021-0.0210.0000.0000.0000.000
189B497LEU00.07031.2930.0110.0110.0000.0000.0000.000
190B498GLN00.00831.2560.0080.0080.0000.0000.0000.000
191B499GLN00.03928.923-0.002-0.0020.0000.0000.0000.000
192B500GLN00.00327.2470.0220.0220.0000.0000.0000.000
193B501HIS00.07126.3270.0080.0080.0000.0000.0000.000
194B502GLN0-0.06326.812-0.007-0.0070.0000.0000.0000.000
195B503ARG10.80120.232-0.512-0.5120.0000.0000.0000.000
196B504LEU0-0.01522.0200.0450.0450.0000.0000.0000.000
197B505ALA00.01722.0560.0080.0080.0000.0000.0000.000
198B506GLN0-0.04821.0850.0280.0280.0000.0000.0000.000
199B507LEU00.01917.0380.0620.0620.0000.0000.0000.000
200B508LEU00.04516.8370.0570.0570.0000.0000.0000.000
201B509LEU0-0.03217.973-0.005-0.0050.0000.0000.0000.000
202B510ILE0-0.01113.2470.0110.0110.0000.0000.0000.000
203B511LEU0-0.00913.4920.1030.1030.0000.0000.0000.000
204B512SER0-0.00813.875-0.100-0.1000.0000.0000.0000.000
205B513HIS00.02111.744-0.068-0.0680.0000.0000.0000.000
206B514ILE00.0138.711-0.019-0.0190.0000.0000.0000.000
207B515ARG10.9658.919-0.020-0.0200.0000.0000.0000.000
208B516HIS0-0.0619.584-0.304-0.3040.0000.0000.0000.000
209B517MET0-0.0125.6840.0010.0010.0000.0000.0000.000
210B518SER00.0225.231-1.167-1.1670.0000.0000.0000.000
211B519ASN00.0426.483-0.551-0.5510.0000.0000.0000.000
212B520LYS10.9206.5090.8430.8430.0000.0000.0000.000
213B521GLY00.0343.278-2.006-1.5420.072-0.244-0.2910.000
214B522MET00.0173.954-1.462-0.8730.013-0.074-0.5280.000
215B523GLU-1-0.9376.480-1.295-1.2950.0000.0000.0000.000
216B524HIS0-0.0201.703-26.384-36.10726.401-9.630-7.049-0.066
217B525LEU00.0362.308-3.224-0.8804.504-2.263-4.5850.006
218B526TYR00.0363.1692.0090.2700.2142.079-0.5530.003
219B527SER0-0.0335.6790.7990.7990.0000.0000.0000.000
220B528MET00.0133.236-0.4080.4270.084-0.267-0.6520.001
221B529LYS10.9905.8650.9670.9670.0000.0000.0000.000
222B530CYS0-0.1008.2600.0670.0670.0000.0000.0000.000
223B531LYS10.8898.5241.2311.2310.0000.0000.0000.000
224B532ASN0-0.06010.1930.0570.0570.0000.0000.0000.000
225B533VAL00.0097.5870.0240.0240.0000.0000.0000.000
226B534VAL0-0.0485.1240.1490.1490.0000.0000.0000.000
227B535PRO0-0.0217.298-0.038-0.0380.0000.0000.0000.000
228B536LEU00.0129.322-0.081-0.0810.0000.0000.0000.000
229B537TYR0-0.0057.529-0.071-0.0710.0000.0000.0000.000
230B538ASP-1-0.85610.308-1.075-1.0750.0000.0000.0000.000
231B539LEU00.02210.9660.0720.0720.0000.0000.0000.000
232B540LEU00.0014.629-0.266-0.104-0.001-0.010-0.1520.000
233B541LEU0-0.1148.3750.2360.2360.0000.0000.0000.000
234B542GLU-1-0.98210.201-0.788-0.7880.0000.0000.0000.000
235B543MET0-0.0729.1850.0900.0900.0000.0000.0000.000
236B544LEU-1-0.9457.037-0.755-0.7550.0000.0000.0000.000
238B33HOH0-0.0132.2270.167-0.6093.578-1.207-1.5940.008