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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: JPL9X

Calculation Name: 3Q95-B-Xray7

Preferred Name: Estrogen receptor alpha

Target Type: SINGLE PROTEIN

Ligand Name: estriol

ligand 3-letter code: ESL

PDB ID: 3Q95

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 ESL=0
Software MIZUHO/ABINIT-MP 4.0(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -3118934.263586
FMO2-HF: Nuclear repulsion 3020873.966381
FMO2-HF: Total energy -98060.297206
FMO2-MP2: Total energy -98336.564607


3D Structure
Snapshot
 
Ligand structure

ESL

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.
-140.288-118.25090.186-45.576-66.6470.141


Interactive mode: IFIE and PIEDA for fragment #237(B:700:ESL)


Summations of interaction energy for fragment #237(B:700:ESL)
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.
-140.288-118.2590.186-45.576-66.647-0.141
Interaction energy analysis for fragmet #237(B:700:ESL)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : -0.143 / 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].
1B309SER10.85330.713-0.097-0.0970.0000.0000.0000.000
2B310LEU00.09425.615-0.003-0.0030.0000.0000.0000.000
3B311THR00.04729.4250.0090.0090.0000.0000.0000.000
4B312ALA00.05026.9920.0040.0040.0000.0000.0000.000
5B313ASP-1-0.77625.8380.2160.2160.0000.0000.0000.000
6B314GLN0-0.01525.8590.0060.0060.0000.0000.0000.000
7B315MET0-0.00522.418-0.009-0.0090.0000.0000.0000.000
8B316VAL00.00921.2300.0140.0140.0000.0000.0000.000
9B317SER0-0.00320.8310.0180.0180.0000.0000.0000.000
10B318ALA0-0.01021.386-0.008-0.0080.0000.0000.0000.000
11B319LEU0-0.03317.152-0.016-0.0160.0000.0000.0000.000
12B320LEU0-0.01216.4860.0310.0310.0000.0000.0000.000
13B321ASP-1-0.93216.6410.1440.1440.0000.0000.0000.000
14B322ALA0-0.09715.860-0.049-0.0490.0000.0000.0000.000
15B323GLU-1-0.82811.1190.7100.7100.0000.0000.0000.000
16B324PRO0-0.0358.225-0.103-0.1030.0000.0000.0000.000
17B325PRO0-0.0199.9100.1590.1590.0000.0000.0000.000
18B326ILE00.0097.534-0.130-0.1300.0000.0000.0000.000
19B327LEU0-0.0386.1080.0840.0840.0000.0000.0000.000
20B328TYR00.0067.4960.2640.2640.0000.0000.0000.000
21B329SER00.0557.585-0.665-0.6650.0000.0000.0000.000
22B330GLU-1-0.8828.802-0.482-0.4820.0000.0000.0000.000
23B331TYR0-0.04912.0640.0970.0970.0000.0000.0000.000
24B332ASP-1-0.83414.993-0.230-0.2300.0000.0000.0000.000
25B333PRO0-0.06615.3090.0260.0260.0000.0000.0000.000
26B334THR0-0.06716.1550.0710.0710.0000.0000.0000.000
27B335ARG10.94015.437-0.176-0.1760.0000.0000.0000.000
28B336PRO0-0.06216.2430.0090.0090.0000.0000.0000.000
29B337PHE00.06211.2920.0090.0090.0000.0000.0000.000
30B338SER00.02113.3820.0110.0110.0000.0000.0000.000
31B339GLU-1-0.7858.816-1.097-1.0970.0000.0000.0000.000
32B340ALA00.0508.898-0.116-0.1160.0000.0000.0000.000
33B341SER0-0.0579.840-0.024-0.0240.0000.0000.0000.000
34B342MET00.0136.135-0.008-0.0080.0000.0000.0000.000
35B343MET00.0372.638-4.478-1.9360.770-1.093-2.2190.014
36B344GLY00.0425.310-0.253-0.2530.0000.0000.0000.000
37B345LEU0-0.0347.256-0.316-0.3160.0000.0000.0000.000
38B346LEU0-0.0232.180-3.527-1.2192.491-0.839-3.9590.001
39B347THR0-0.0062.578-8.310-4.5991.337-1.798-3.250-0.026
40B348ASN00.0244.144-0.314-0.1810.001-0.015-0.1190.000
41B349LEU0-0.0342.432-0.6101.0200.966-0.598-1.9970.003
42B350ALA00.0462.628-3.058-0.8791.026-0.876-2.3280.002
43B351ASP-1-0.8653.732-0.655-0.4550.038-0.004-0.2340.001
44B352ARG10.8496.6982.6982.6980.0000.0000.0000.000
45B353GLU-1-0.7861.458-41.423-56.31940.967-19.974-6.098-0.142
46B354LEU00.0265.6361.1011.1010.0000.0000.0000.000
47B355VAL00.0038.0670.4270.4270.0000.0000.0000.000
48B356HIS0-0.0208.3700.4240.4240.0000.0000.0000.000
49B357MET0-0.0286.9600.2850.2850.0000.0000.0000.000
50B358ILE00.0399.6060.2100.2100.0000.0000.0000.000
51B359ASN0-0.04013.0620.1200.1200.0000.0000.0000.000
52B360TRP0-0.01011.5430.0940.0940.0000.0000.0000.000
53B361ALA00.06313.4300.0600.0600.0000.0000.0000.000
54B362LYS10.88215.0680.1680.1680.0000.0000.0000.000
55B363ARG10.91516.8790.0750.0750.0000.0000.0000.000
56B364VAL00.01115.8950.0350.0350.0000.0000.0000.000
57B365PRO0-0.03318.741-0.029-0.0290.0000.0000.0000.000
58B366GLY00.01522.4980.0200.0200.0000.0000.0000.000
59B367PHE00.06717.535-0.013-0.0130.0000.0000.0000.000
60B368VAL0-0.04821.364-0.028-0.0280.0000.0000.0000.000
61B369ASP-1-0.93023.4050.0190.0190.0000.0000.0000.000
62B370LEU0-0.06221.7180.0010.0010.0000.0000.0000.000
63B371THR00.02225.146-0.015-0.0150.0000.0000.0000.000
64B372LEU00.03421.7140.0050.0050.0000.0000.0000.000
65B373HIS00.02321.920-0.013-0.0130.0000.0000.0000.000
66B374ASP-1-0.78621.264-0.019-0.0190.0000.0000.0000.000
67B375GLN0-0.06519.358-0.012-0.0120.0000.0000.0000.000
68B376VAL00.01117.1350.0050.0050.0000.0000.0000.000
69B377HIS00.02816.387-0.028-0.0280.0000.0000.0000.000
70B378LEU0-0.03316.3270.0170.0170.0000.0000.0000.000
71B379LEU0-0.03712.4960.0570.0570.0000.0000.0000.000
72B380GLU-1-0.88811.980-0.229-0.2290.0000.0000.0000.000
73B381CYS0-0.10211.4540.0010.0010.0000.0000.0000.000
74B382ALA0-0.01210.7720.0470.0470.0000.0000.0000.000
75B383TRP00.0484.049-0.2930.1500.001-0.030-0.4140.000
76B384LEU00.0222.247-2.066-0.1992.024-0.548-3.344-0.004
77B385GLU-1-0.8424.2440.9461.1610.000-0.032-0.1820.000
78B386ILE0-0.0126.6490.4440.4440.0000.0000.0000.000
79B387LEU0-0.0112.411-3.122-0.1323.174-1.501-4.6630.010
80B388MET0-0.0372.523-2.2661.3312.928-1.501-5.024-0.014
81B389ILE0-0.0263.7460.1900.3140.0100.069-0.2040.000
82B390GLY00.0225.524-0.282-0.2820.0000.0000.0000.000
83B391LEU0-0.0182.427-3.152-0.8311.460-0.859-2.9220.005
84B392VAL0-0.0024.414-1.270-1.1310.000-0.026-0.1130.000
85B393TRP00.0037.478-0.422-0.4220.0000.0000.0000.000
86B394ARG10.8492.151-14.755-13.1272.323-1.634-2.3170.024
87B395SER0-0.0307.560-0.285-0.2850.0000.0000.0000.000
88B396MET0-0.00310.169-0.248-0.2480.0000.0000.0000.000
89B397GLU-1-0.96413.1430.9660.9660.0000.0000.0000.000
90B398HIS0-0.04812.696-0.194-0.1940.0000.0000.0000.000
91B399PRO00.01813.6670.1350.1350.0000.0000.0000.000
92B400GLY0-0.04814.205-0.083-0.0830.0000.0000.0000.000
93B401LYS10.88111.651-0.887-0.8870.0000.0000.0000.000
94B402LEU00.0475.0940.0710.0710.0000.0000.0000.000
95B403LEU0-0.0248.583-0.283-0.2830.0000.0000.0000.000
96B404PHE00.0232.424-4.766-0.8532.635-1.308-5.2400.015
97B405ALA00.0434.777-0.874-0.731-0.001-0.006-0.1370.000
98B406PRO0-0.0017.4920.2220.2220.0000.0000.0000.000
99B407ASN0-0.04510.4120.0170.0170.0000.0000.0000.000
100B408LEU0-0.0146.465-0.147-0.1470.0000.0000.0000.000
101B409LEU00.0138.8500.4470.4470.0000.0000.0000.000
102B410LEU0-0.0326.836-0.273-0.2730.0000.0000.0000.000
103B411ASP-1-0.86310.2760.9900.9900.0000.0000.0000.000
104B412ARG10.89511.162-0.857-0.8570.0000.0000.0000.000
105B413ASN0-0.07811.6950.0810.0810.0000.0000.0000.000
106B414GLN00.05710.967-0.036-0.0360.0000.0000.0000.000
107B415GLY00.0658.101-0.075-0.0750.0000.0000.0000.000
108B416LYS10.8738.166-0.708-0.7080.0000.0000.0000.000
109B417CYS0-0.0769.758-0.093-0.0930.0000.0000.0000.000
110B418VAL0-0.0035.125-0.152-0.1520.0000.0000.0000.000
111B419GLU-1-0.9147.273-0.497-0.4970.0000.0000.0000.000
112B420GLY0-0.0106.362-1.012-1.0120.0000.0000.0000.000
113B421MET0-0.0142.887-2.998-0.5870.378-0.940-1.8490.008
114B422VAL0-0.0484.8091.5031.565-0.001-0.001-0.0610.000
115B423GLU-1-0.8547.4960.4770.4770.0000.0000.0000.000
116B424ILE00.0122.493-3.402-1.0781.102-1.066-2.3600.013
117B425PHE00.0395.032-0.213-0.2130.0000.0000.0000.000
118B426ASP-1-0.7956.8431.0061.0060.0000.0000.0000.000
119B427MET0-0.0456.872-0.353-0.3530.0000.0000.0000.000
120B428LEU00.0583.064-1.121-0.2920.082-0.151-0.7600.000
121B429LEU0-0.0017.490-0.283-0.2830.0000.0000.0000.000
122B430ALA0-0.04910.352-0.211-0.2110.0000.0000.0000.000
123B431THR0-0.0069.104-0.233-0.2330.0000.0000.0000.000
124B432SER0-0.0079.501-0.209-0.2090.0000.0000.0000.000
125B433SER0-0.01611.192-0.209-0.2090.0000.0000.0000.000
126B434ARG10.96114.231-0.799-0.7990.0000.0000.0000.000
127B435PHE00.07510.686-0.125-0.1250.0000.0000.0000.000
128B436ARG10.98315.050-0.913-0.9130.0000.0000.0000.000
129B437MET0-0.12716.862-0.115-0.1150.0000.0000.0000.000
130B438MET0-0.04818.294-0.052-0.0520.0000.0000.0000.000
131B439ASN0-0.02019.588-0.034-0.0340.0000.0000.0000.000
132B440LEU0-0.02713.666-0.049-0.0490.0000.0000.0000.000
133B441GLN00.00417.3660.0050.0050.0000.0000.0000.000
134B442GLY00.08115.7580.0460.0460.0000.0000.0000.000
135B443GLU-1-0.88316.3780.4610.4610.0000.0000.0000.000
136B444GLU-1-0.77617.9660.5290.5290.0000.0000.0000.000
137B445PHE00.0119.1330.0310.0310.0000.0000.0000.000
138B446VAL00.04613.5840.0420.0420.0000.0000.0000.000
139B447CYS0-0.04414.997-0.066-0.0660.0000.0000.0000.000
140B448LEU0-0.01713.824-0.030-0.0300.0000.0000.0000.000
141B449LYS10.8389.058-0.931-0.9310.0000.0000.0000.000
142B450SER00.01712.344-0.075-0.0750.0000.0000.0000.000
143B451ILE0-0.02215.347-0.058-0.0580.0000.0000.0000.000
144B452ILE00.00610.096-0.045-0.0450.0000.0000.0000.000
145B453LEU0-0.01213.602-0.065-0.0650.0000.0000.0000.000
146B454LEU0-0.01914.441-0.070-0.0700.0000.0000.0000.000
147B455ASN0-0.00816.762-0.068-0.0680.0000.0000.0000.000
148B456SER0-0.05612.531-0.020-0.0200.0000.0000.0000.000
149B457GLY00.06715.445-0.025-0.0250.0000.0000.0000.000
150B458VAL00.00117.476-0.034-0.0340.0000.0000.0000.000
151B459TYR0-0.04920.364-0.010-0.0100.0000.0000.0000.000
152B460THR0-0.01618.072-0.005-0.0050.0000.0000.0000.000
153B461PHE00.02821.282-0.020-0.0200.0000.0000.0000.000
154B462LEU0-0.00623.2840.0080.0080.0000.0000.0000.000
155B463SER00.05025.995-0.014-0.0140.0000.0000.0000.000
156B464SER00.07127.898-0.007-0.0070.0000.0000.0000.000
157B465THR0-0.06528.976-0.010-0.0100.0000.0000.0000.000
158B466LEU0-0.02231.362-0.002-0.0020.0000.0000.0000.000
159B467LYS10.89326.0940.0690.0690.0000.0000.0000.000
160B468SER0-0.00228.2230.0050.0050.0000.0000.0000.000
161B469LEU0-0.01825.459-0.006-0.0060.0000.0000.0000.000
162B470GLU-1-0.93627.169-0.018-0.0180.0000.0000.0000.000
163B471GLU-1-0.88327.6780.0700.0700.0000.0000.0000.000
164B472LYS10.86924.748-0.018-0.0180.0000.0000.0000.000
165B473ASP-1-0.80926.9270.0950.0950.0000.0000.0000.000
166B474HIS0-0.08525.4420.0140.0140.0000.0000.0000.000
167B475ILE00.04321.7870.0110.0110.0000.0000.0000.000
168B476HIS00.02924.1170.0340.0340.0000.0000.0000.000
169B477ARG10.88725.890-0.064-0.0640.0000.0000.0000.000
170B478VAL0-0.05222.3710.0110.0110.0000.0000.0000.000
171B479LEU00.02019.3770.0250.0250.0000.0000.0000.000
172B480ASP-1-0.88423.1010.2070.2070.0000.0000.0000.000
173B481LYS10.89825.843-0.175-0.1750.0000.0000.0000.000
174B482ILE0-0.04219.1950.0100.0100.0000.0000.0000.000
175B483THR00.00522.7450.0370.0370.0000.0000.0000.000
176B484ASP-1-0.89724.1290.2060.2060.0000.0000.0000.000
177B485THR0-0.11722.910-0.010-0.0100.0000.0000.0000.000
178B486LEU00.02519.1620.0080.0080.0000.0000.0000.000
179B487ILE0-0.01223.1250.0070.0070.0000.0000.0000.000
180B488HIS0-0.04926.583-0.018-0.0180.0000.0000.0000.000
181B489LEU0-0.00821.454-0.010-0.0100.0000.0000.0000.000
182B490MET0-0.00222.481-0.008-0.0080.0000.0000.0000.000
183B491ALA0-0.02026.454-0.009-0.0090.0000.0000.0000.000
184B492LYS10.85627.796-0.233-0.2330.0000.0000.0000.000
185B493ALA0-0.03426.197-0.008-0.0080.0000.0000.0000.000
186B494GLY00.00628.3440.0020.0020.0000.0000.0000.000
187B495LEU0-0.04126.247-0.006-0.0060.0000.0000.0000.000
188B496THR00.04630.622-0.010-0.0100.0000.0000.0000.000
189B497LEU00.08831.6520.0140.0140.0000.0000.0000.000
190B498GLN0-0.00231.5110.0140.0140.0000.0000.0000.000
191B499GLN00.03329.1970.0130.0130.0000.0000.0000.000
192B500GLN0-0.03627.6060.0220.0220.0000.0000.0000.000
193B501HIS00.05826.7030.0090.0090.0000.0000.0000.000
194B502GLN0-0.07026.5050.0250.0250.0000.0000.0000.000
195B503ARG10.77020.523-0.502-0.5020.0000.0000.0000.000
196B504LEU00.02822.0950.0450.0450.0000.0000.0000.000
197B505ALA00.01621.6780.0290.0290.0000.0000.0000.000
198B506GLN0-0.03820.5040.0540.0540.0000.0000.0000.000
199B507LEU00.00017.1430.0600.0600.0000.0000.0000.000
200B508LEU00.03816.7380.0630.0630.0000.0000.0000.000
201B509LEU0-0.02117.6940.0100.0100.0000.0000.0000.000
202B510ILE0-0.03912.6850.0210.0210.0000.0000.0000.000
203B511LEU00.03512.8250.1230.1230.0000.0000.0000.000
204B512SER00.00313.110-0.026-0.0260.0000.0000.0000.000
205B513HIS0-0.03312.451-0.007-0.0070.0000.0000.0000.000
206B514ILE00.0107.7420.1190.1190.0000.0000.0000.000
207B515ARG10.9498.751-0.277-0.2770.0000.0000.0000.000
208B516HIS0-0.0609.870-0.197-0.1970.0000.0000.0000.000
209B517MET0-0.0106.1500.0360.0360.0000.0000.0000.000
210B518SER00.0605.3130.2010.2010.0000.0000.0000.000
211B519ASN00.0196.018-0.430-0.4300.0000.0000.0000.000
212B520LYS10.9136.752-0.554-0.5540.0000.0000.0000.000
213B521GLY00.0272.607-1.185-0.2670.678-0.664-0.9320.003
214B522MET00.0272.731-4.564-2.7650.535-0.637-1.698-0.016
215B523GLU-1-0.9095.237-0.841-0.777-0.001-0.002-0.0610.000
216B524HIS0-0.0511.959-25.532-28.62016.589-6.277-7.225-0.062
217B525LEU00.0272.141-4.147-1.2882.954-1.415-4.3970.009
218B526TYR00.0603.480-0.1730.1300.0630.017-0.3820.001
219B527SER0-0.0286.0610.5090.5090.0000.0000.0000.000
220B528MET0-0.0213.9480.5190.7360.000-0.019-0.1970.000
221B529LYS10.9656.4860.9530.9530.0000.0000.0000.000
222B530CYS0-0.0978.8260.1400.1400.0000.0000.0000.000
223B531LYS10.9119.5931.2841.2840.0000.0000.0000.000
224B532ASN0-0.03511.2680.0370.0370.0000.0000.0000.000
225B533VAL0-0.0128.1110.0780.0780.0000.0000.0000.000
226B534VAL0-0.0166.1190.0570.0570.0000.0000.0000.000
227B535PRO0-0.0379.5510.0260.0260.0000.0000.0000.000
228B536LEU0-0.0165.669-0.087-0.0870.0000.0000.0000.000
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230B538ASP-1-0.84410.858-0.588-0.5880.0000.0000.0000.000
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