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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: XQ8YP

Calculation Name: 3ERT-A-Xray7

Preferred Name: Estrogen receptor alpha

Target Type: SINGLE PROTEIN

Ligand Name:

ligand 3-letter code:

PDB ID: 3ERT

Chain ID: A

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 (antagonist templeate: 1YIM)
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 OHT=+1
Software MIZUHO/ABINIT-MP 4.0(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -3146237.9751
FMO2-HF: Nuclear repulsion 3047662.073349
FMO2-HF: Total energy -98575.901751
FMO2-MP2: Total energy -98854.132689


3D Structure
Snapshot
 
Ligand structure

OHT

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.
-318.611-291.885108.771-57.684-77.8190.184


Interactive mode: IFIE and PIEDA for fragment #237(A:600:OHT)


Summations of interaction energy for fragment #237(A:600:OHT)
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.
-318.611-291.885108.771-57.684-77.819-0.184
Interaction energy analysis for fragmet #237(A:600:OHT)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 1 / q_Mulliken : 0.817 / 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].
1A309SER10.83730.5559.1719.1710.0000.0000.0000.000
2A310LEU00.10825.4840.2400.2400.0000.0000.0000.000
3A311THR00.02629.506-0.040-0.0400.0000.0000.0000.000
4A312ALA00.08727.069-0.249-0.2490.0000.0000.0000.000
5A313ASP-1-0.82126.001-8.962-8.9620.0000.0000.0000.000
6A314GLN0-0.00526.228-0.217-0.2170.0000.0000.0000.000
7A315MET0-0.01822.481-0.423-0.4230.0000.0000.0000.000
8A316VAL00.01621.260-0.450-0.4500.0000.0000.0000.000
9A317SER0-0.00121.011-0.311-0.3110.0000.0000.0000.000
10A318ALA00.02021.507-0.272-0.2720.0000.0000.0000.000
11A319LEU0-0.02017.401-0.472-0.4720.0000.0000.0000.000
12A320LEU0-0.03516.709-0.553-0.5530.0000.0000.0000.000
13A321ASP-1-0.93617.031-11.568-11.5680.0000.0000.0000.000
14A322ALA0-0.09516.056-0.305-0.3050.0000.0000.0000.000
15A323GLU-1-0.81111.837-16.956-16.9560.0000.0000.0000.000
16A324PRO0-0.0428.7450.0780.0780.0000.0000.0000.000
17A325PRO0-0.01010.0240.6510.6510.0000.0000.0000.000
18A326ILE00.0077.424-1.401-1.4010.0000.0000.0000.000
19A327LEU0-0.0376.0610.9210.9210.0000.0000.0000.000
20A328TYR00.0227.3090.5740.5740.0000.0000.0000.000
21A329SER00.0107.471-2.349-2.3490.0000.0000.0000.000
22A330GLU-1-0.8728.346-22.978-22.9780.0000.0000.0000.000
23A331TYR0-0.07311.028-0.255-0.2550.0000.0000.0000.000
24A332ASP-1-0.76513.770-13.367-13.3670.0000.0000.0000.000
25A333PRO0-0.01516.1880.2130.2130.0000.0000.0000.000
26A334THR0-0.07417.7850.6450.6450.0000.0000.0000.000
27A335ARG10.85319.01013.53113.5310.0000.0000.0000.000
28A336PRO0-0.00519.406-0.123-0.1230.0000.0000.0000.000
29A337PHE00.04811.810-0.518-0.5180.0000.0000.0000.000
30A338SER0-0.06115.240-0.746-0.7460.0000.0000.0000.000
31A339GLU-1-0.93616.194-14.558-14.5580.0000.0000.0000.000
32A340ALA0-0.00612.373-0.781-0.7810.0000.0000.0000.000
33A341SER00.0379.106-0.094-0.0940.0000.0000.0000.000
34A342MET00.0566.104-1.600-1.6000.0000.0000.0000.000
35A343MET00.0242.605-6.853-4.9483.114-0.977-4.0410.005
36A344GLY00.0114.275-5.793-5.6240.000-0.028-0.1410.000
37A345LEU0-0.0216.910-2.106-2.1060.0000.0000.0000.000
38A346LEU0-0.0202.260-6.127-2.2403.112-1.303-5.6950.007
39A347THR00.0052.229-14.563-7.8902.257-3.075-5.856-0.025
40A348ASN00.0333.746-4.750-4.4260.0310.264-0.6190.001
41A349LEU0-0.0402.4640.4972.3100.611-0.545-1.8790.001
42A350ALA00.0122.352-2.394-0.3214.696-1.929-4.8390.001
43A351ASP-1-0.9052.545-87.163-83.0641.466-2.607-2.958-0.027
44A352ARG10.7994.93933.85634.011-0.001-0.006-0.1490.000
45A353GLU-1-0.7401.327-77.248-102.68762.543-32.522-4.583-0.159
46A354LEU00.0184.7103.6613.831-0.001-0.004-0.1660.000
47A355VAL00.0537.9532.9632.9630.0000.0000.0000.000
48A356HIS0-0.0308.5073.1683.1680.0000.0000.0000.000
49A357MET0-0.0386.9351.9921.9920.0000.0000.0000.000
50A358ILE00.0339.8131.9001.9000.0000.0000.0000.000
51A359ASN0-0.01813.2601.7441.7440.0000.0000.0000.000
52A360TRP0-0.02111.6550.7180.7180.0000.0000.0000.000
53A361ALA00.04813.4601.1101.1100.0000.0000.0000.000
54A362LYS10.87715.15919.14919.1490.0000.0000.0000.000
55A363ARG10.87417.17414.55114.5510.0000.0000.0000.000
56A364VAL0-0.01315.8620.7030.7030.0000.0000.0000.000
57A365PRO0-0.02518.7570.1180.1180.0000.0000.0000.000
58A366GLY0-0.00922.568-0.043-0.0430.0000.0000.0000.000
59A367PHE00.03816.306-0.007-0.0070.0000.0000.0000.000
60A368VAL0-0.00121.094-0.268-0.2680.0000.0000.0000.000
61A369ASP-1-0.93922.935-11.098-11.0980.0000.0000.0000.000
62A370LEU0-0.05921.1880.2890.2890.0000.0000.0000.000
63A371THR0-0.09322.573-0.254-0.2540.0000.0000.0000.000
64A372LEU00.05317.319-0.258-0.2580.0000.0000.0000.000
65A373HIS00.00017.992-1.172-1.1720.0000.0000.0000.000
66A374ASP-1-0.81717.627-14.905-14.9050.0000.0000.0000.000
67A375GLN0-0.06117.220-1.326-1.3260.0000.0000.0000.000
68A376VAL00.03212.436-1.173-1.1730.0000.0000.0000.000
69A377HIS0-0.03313.159-2.159-2.1590.0000.0000.0000.000
70A378LEU0-0.04114.156-0.828-0.8280.0000.0000.0000.000
71A379LEU00.02211.257-0.807-0.8070.0000.0000.0000.000
72A380GLU-1-0.9318.953-29.961-29.9610.0000.0000.0000.000
73A381CYS0-0.0979.548-1.344-1.3440.0000.0000.0000.000
74A382ALA00.02311.067-0.288-0.2880.0000.0000.0000.000
75A383TRP00.0231.987-7.653-6.4884.542-1.451-4.256-0.016
76A384LEU00.0072.472-2.919-0.5160.869-0.560-2.7120.001
77A385GLU-1-0.8855.413-17.170-17.1700.0000.0000.0000.000
78A386ILE0-0.0246.8901.8001.8000.0000.0000.0000.000
79A387LEU0-0.0032.577-2.7030.6823.193-1.610-4.9690.008
80A388MET0-0.0472.755-0.2952.9500.976-1.159-3.063-0.012
81A389ILE00.0053.8361.7941.9040.0010.017-0.1270.000
82A390GLY00.0355.5491.1381.1380.0000.0000.0000.000
83A391LEU0-0.0352.568-1.5850.7360.802-0.732-2.3900.005
84A392VAL0-0.0254.5800.5690.6760.000-0.015-0.0930.000
85A393TRP00.0127.6260.8060.8060.0000.0000.0000.000
86A394ARG10.8082.05311.21712.1383.485-1.840-2.5670.026
87A395SER0-0.0397.6780.1710.1710.0000.0000.0000.000
88A396MET00.03810.3620.4220.4220.0000.0000.0000.000
89A397GLU-1-0.97313.184-10.848-10.8480.0000.0000.0000.000
90A398HIS0-0.02312.6490.3370.3370.0000.0000.0000.000
91A399PRO00.00213.004-0.330-0.3300.0000.0000.0000.000
92A400GLY0-0.04313.1830.1020.1020.0000.0000.0000.000
93A401LYS10.91210.63112.04712.0470.0000.0000.0000.000
94A402LEU00.0154.132-0.0130.1450.000-0.012-0.1450.000
95A403LEU00.0177.800-0.353-0.3530.0000.0000.0000.000
96A404PHE00.0282.340-2.080-0.6801.489-0.444-2.4450.001
97A405ALA00.0614.812-1.788-1.649-0.001-0.009-0.1290.000
98A406PRO00.0287.4770.9260.9260.0000.0000.0000.000
99A407ASN0-0.00510.4650.1850.1850.0000.0000.0000.000
100A408LEU0-0.0207.015-0.196-0.1960.0000.0000.0000.000
101A409LEU00.0149.241-0.237-0.2370.0000.0000.0000.000
102A410LEU0-0.0267.8600.2800.2800.0000.0000.0000.000
103A411ASP-1-0.8379.921-12.671-12.6710.0000.0000.0000.000
104A412ARG11.01110.83512.02712.0270.0000.0000.0000.000
105A413ASN0-0.09411.671-0.474-0.4740.0000.0000.0000.000
106A414GLN00.06910.991-0.033-0.0330.0000.0000.0000.000
107A415GLY00.0508.072-0.806-0.8060.0000.0000.0000.000
108A416LYS10.8628.03711.77111.7710.0000.0000.0000.000
109A417CYS0-0.04010.0020.3990.3990.0000.0000.0000.000
110A418VAL0-0.0543.924-0.922-0.6280.001-0.035-0.2610.000
111A419GLU-1-0.8484.559-28.738-28.538-0.001-0.024-0.1760.000
112A420GLY00.0382.876-5.177-3.0340.395-1.066-1.472-0.013
113A421MET0-0.0782.220-2.842-1.2996.161-1.520-6.1840.005
114A422VAL00.0024.1441.2291.3570.002-0.035-0.0950.000
115A423GLU-1-0.9167.345-15.042-15.0420.0000.0000.0000.000
116A424ILE00.0592.504-1.4470.2441.446-0.687-2.4500.008
117A425PHE00.0265.2250.5340.5340.0000.0000.0000.000
118A426ASP-1-0.8266.193-12.735-12.7350.0000.0000.0000.000
119A427MET0-0.0457.8070.2720.2720.0000.0000.0000.000
120A428LEU00.0602.606-0.0890.1411.087-0.159-1.158-0.001
121A429LEU0-0.0376.7750.4810.4810.0000.0000.0000.000
122A430ALA0-0.0349.4020.5210.5210.0000.0000.0000.000
123A431THR00.0029.4720.4250.4250.0000.0000.0000.000
124A432SER00.0129.6700.4730.4730.0000.0000.0000.000
125A433SER0-0.02711.5000.5300.5300.0000.0000.0000.000
126A434ARG10.95714.27410.80910.8090.0000.0000.0000.000
127A435PHE00.03010.5940.4040.4040.0000.0000.0000.000
128A436ARG10.91313.83611.54111.5410.0000.0000.0000.000
129A437MET0-0.10117.4980.4470.4470.0000.0000.0000.000
130A438MET0-0.06618.6190.1990.1990.0000.0000.0000.000
131A439ASN00.02019.6600.0050.0050.0000.0000.0000.000
132A440LEU0-0.04913.9440.1400.1400.0000.0000.0000.000
133A441GLN00.02017.6040.0350.0350.0000.0000.0000.000
134A442GLY00.05415.961-0.354-0.3540.0000.0000.0000.000
135A443GLU-1-0.86316.663-10.889-10.8890.0000.0000.0000.000
136A444GLU-1-0.74318.116-10.442-10.4420.0000.0000.0000.000
137A445PHE0-0.0209.104-0.421-0.4210.0000.0000.0000.000
138A446VAL00.03313.723-0.620-0.6200.0000.0000.0000.000
139A447CYS0-0.03315.228-0.240-0.2400.0000.0000.0000.000
140A448LEU0-0.01713.914-0.247-0.2470.0000.0000.0000.000
141A449LYS10.8309.20117.11217.1120.0000.0000.0000.000
142A450SER00.02812.509-0.828-0.8280.0000.0000.0000.000
143A451ILE0-0.01615.659-0.138-0.1380.0000.0000.0000.000
144A452ILE0-0.02210.364-0.040-0.0400.0000.0000.0000.000
145A453LEU00.02113.706-0.457-0.4570.0000.0000.0000.000
146A454LEU00.00314.680-0.152-0.1520.0000.0000.0000.000
147A455ASN0-0.01217.3790.6830.6830.0000.0000.0000.000
148A456SER0-0.02714.2230.2550.2550.0000.0000.0000.000
149A457GLY00.03816.0100.1260.1260.0000.0000.0000.000
150A458VAL00.06517.4890.3150.3150.0000.0000.0000.000
151A459TYR0-0.09820.8420.6070.6070.0000.0000.0000.000
152A460THR0-0.06116.9940.0420.0420.0000.0000.0000.000
153A461PHE0-0.00819.638-0.251-0.2510.0000.0000.0000.000
154A462LEU00.00421.3820.5220.5220.0000.0000.0000.000
155A463SER00.02922.7110.4420.4420.0000.0000.0000.000
156A464SER0-0.00326.523-0.138-0.1380.0000.0000.0000.000
157A465THR0-0.00428.1970.3420.3420.0000.0000.0000.000
158A466LEU00.07230.668-0.098-0.0980.0000.0000.0000.000
159A467LYS11.01526.00111.61211.6120.0000.0000.0000.000
160A468SER0-0.02326.672-0.274-0.2740.0000.0000.0000.000
161A469LEU0-0.02827.586-0.165-0.1650.0000.0000.0000.000
162A470GLU-1-0.91930.288-9.597-9.5970.0000.0000.0000.000
163A471GLU-1-0.76524.241-12.589-12.5890.0000.0000.0000.000
164A472LYS10.88024.26112.08612.0860.0000.0000.0000.000
165A473ASP-1-0.89026.807-9.593-9.5930.0000.0000.0000.000
166A474HIS00.00425.9950.4440.4440.0000.0000.0000.000
167A475ILE00.03221.9640.0090.0090.0000.0000.0000.000
168A476HIS00.01324.349-0.242-0.2420.0000.0000.0000.000
169A477ARG10.88626.2369.4369.4360.0000.0000.0000.000
170A478VAL00.00322.5340.2750.2750.0000.0000.0000.000
171A479LEU0-0.00719.7600.0400.0400.0000.0000.0000.000
172A480ASP-1-0.87923.243-9.707-9.7070.0000.0000.0000.000
173A481LYS10.74125.9889.7599.7590.0000.0000.0000.000
174A482ILE00.02719.3780.1680.1680.0000.0000.0000.000
175A483THR0-0.01823.0550.0440.0440.0000.0000.0000.000
176A484ASP-1-0.85824.409-8.930-8.9300.0000.0000.0000.000
177A485THR0-0.03623.1110.2740.2740.0000.0000.0000.000
178A486LEU00.00619.4210.1500.1500.0000.0000.0000.000
179A487ILE00.01023.5230.2010.2010.0000.0000.0000.000
180A488HIS0-0.06726.9830.3980.3980.0000.0000.0000.000
181A489LEU0-0.00221.9230.2300.2300.0000.0000.0000.000
182A490MET0-0.01922.6150.2280.2280.0000.0000.0000.000
183A491ALA0-0.01526.8290.2220.2220.0000.0000.0000.000
184A492LYS10.89328.5878.4068.4060.0000.0000.0000.000
185A493ALA0-0.03926.7500.1420.1420.0000.0000.0000.000
186A494GLY0-0.01428.8920.1030.1030.0000.0000.0000.000
187A495LEU0-0.03926.4620.1160.1160.0000.0000.0000.000
188A496THR00.04330.8150.0210.0210.0000.0000.0000.000
189A497LEU00.06931.758-0.160-0.1600.0000.0000.0000.000
190A498GLN0-0.02131.764-0.117-0.1170.0000.0000.0000.000
191A499GLN00.03329.391-0.169-0.1690.0000.0000.0000.000
192A500GLN0-0.00627.792-0.314-0.3140.0000.0000.0000.000
193A501HIS00.04926.800-0.442-0.4420.0000.0000.0000.000
194A502GLN0-0.05626.798-0.283-0.2830.0000.0000.0000.000
195A503ARG10.76420.6199.6149.6140.0000.0000.0000.000
196A504LEU00.04722.190-0.363-0.3630.0000.0000.0000.000
197A505ALA00.01421.901-0.396-0.3960.0000.0000.0000.000
198A506GLN0-0.04421.225-0.436-0.4360.0000.0000.0000.000
199A507LEU0-0.00217.363-0.360-0.3600.0000.0000.0000.000
200A508LEU00.02917.096-0.561-0.5610.0000.0000.0000.000
201A509LEU0-0.02418.113-0.405-0.4050.0000.0000.0000.000
202A510ILE0-0.03913.235-0.297-0.2970.0000.0000.0000.000
203A511LEU00.04913.189-0.631-0.6310.0000.0000.0000.000
204A512SER0-0.00413.643-0.701-0.7010.0000.0000.0000.000
205A513HIS0-0.03412.336-0.647-0.6470.0000.0000.0000.000
206A514ILE00.0168.434-0.485-0.4850.0000.0000.0000.000
207A515ARG10.9739.01816.07316.0730.0000.0000.0000.000
208A516HIS0-0.06010.172-1.164-1.1640.0000.0000.0000.000
209A517MET00.0046.149-0.507-0.5070.0000.0000.0000.000
210A518SER00.0695.932-1.837-1.8370.0000.0000.0000.000
211A519ASN0-0.0095.681-2.915-2.9150.0000.0000.0000.000
212A520LYS10.9156.75215.75415.7540.0000.0000.0000.000
213A521GLY00.0252.691-0.990-0.3681.170-0.679-1.1130.004
214A522MET0-0.0042.705-7.876-6.9790.6480.139-1.685-0.017
215A523GLU-1-0.9514.816-20.404-20.328-0.001-0.006-0.0710.000
216A524HIS0-0.0032.531-0.3021.1980.697-0.652-1.545-0.001
217A525LEU00.0332.367-6.224-1.5982.897-1.503-6.0190.008
218A526TYR00.0755.144-1.309-1.186-0.001-0.005-0.1170.000
219A527SER0-0.1366.9492.3112.3110.0000.0000.0000.000
220A528MET0-0.0193.7742.1482.5300.003-0.053-0.3320.000
221A529LYS10.8135.44522.68222.6820.0000.0000.0000.000
222A530CYS00.0034.8874.0364.0360.0000.0000.0000.000
223A531LYS10.9516.83823.61923.6190.0000.0000.0000.000
224A532ASN0-0.0079.366-1.173-1.1730.0000.0000.0000.000
225A533VAL0-0.0145.1120.1590.1590.0000.0000.0000.000
226A534VAL00.0087.7500.3150.3150.0000.0000.0000.000
227A535PRO00.0177.004-4.586-4.5860.0000.0000.0000.000
228A536LEU00.0274.394-0.493-0.361-0.001-0.005-0.1260.000
229A537TYR0-0.0066.6091.5321.5320.0000.0000.0000.000
230A538ASP-1-0.83210.346-21.495-21.4950.0000.0000.0000.000
231A539LEU0-0.0485.3150.4560.4560.0000.0000.0000.000
232A540LEU0-0.0148.0440.7730.7730.0000.0000.0000.000
233A541LEU0-0.04710.4451.8471.8470.0000.0000.0000.000
234A542GLU-1-0.97212.197-18.673-18.6730.0000.0000.0000.000
235A543MET0-0.0988.3550.3340.3340.0000.0000.0000.000
236A544LEU-1-0.95713.338-16.233-16.2330.0000.0000.0000.000
238A2HOH0-0.0142.533-0.6110.3451.084-0.847-1.1930.006