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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: LPG1P

Calculation Name: 1XP6-A-Xray7

Preferred Name: Estrogen receptor alpha

Target Type: SINGLE PROTEIN

Ligand Name: (2s,3r)-2-(4-{2-[(3s,4s)-3,4-dimethylpyrrolidin-1-yl]ethoxy}phenyl)-3-(4-hydroxyphenyl)-2,3-dihydro-1,4-benzoxathiin-6-ol

ligand 3-letter code: AIU

PDB ID: 1XP6

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 AIU=+1
Software MIZUHO/ABINIT-MP 4.0(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -3181747.35222
FMO2-HF: Nuclear repulsion 3082548.119137
FMO2-HF: Total energy -99199.233084
FMO2-MP2: Total energy -99478.312799


3D Structure
Snapshot
 
Ligand structure

AIU

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.
-341.432-301.698121.574-54.824-106.4810.245


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


Summations of interaction energy for fragment #237(A:600:AIU)
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.
-341.432-301.698121.574-54.824-106.481-0.245
Interaction energy analysis for fragmet #237(A:600:AIU)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 1 / q_Mulliken : 0.754 / 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].
1A309SER10.87529.6459.6049.6040.0000.0000.0000.000
2A310LEU00.11425.0000.2740.2740.0000.0000.0000.000
3A311THR0-0.01629.165-0.027-0.0270.0000.0000.0000.000
4A312ALA00.11126.859-0.305-0.3050.0000.0000.0000.000
5A313ASP-1-0.89425.786-9.238-9.2380.0000.0000.0000.000
6A314GLN0-0.00325.918-0.269-0.2690.0000.0000.0000.000
7A315MET00.00221.985-0.435-0.4350.0000.0000.0000.000
8A316VAL00.03021.322-0.478-0.4780.0000.0000.0000.000
9A317SER00.00220.745-0.439-0.4390.0000.0000.0000.000
10A318ALA00.03521.254-0.263-0.2630.0000.0000.0000.000
11A319LEU0-0.04817.093-0.571-0.5710.0000.0000.0000.000
12A320LEU0-0.03216.403-0.530-0.5300.0000.0000.0000.000
13A321ASP-1-0.93016.892-11.927-11.9270.0000.0000.0000.000
14A322ALA0-0.10015.832-0.335-0.3350.0000.0000.0000.000
15A323GLU-1-0.79611.545-17.842-17.8420.0000.0000.0000.000
16A324PRO0-0.0288.3700.0270.0270.0000.0000.0000.000
17A325PRO0-0.00210.1610.8090.8090.0000.0000.0000.000
18A326ILE0-0.0017.687-1.620-1.6200.0000.0000.0000.000
19A327LEU0-0.0386.3140.9880.9880.0000.0000.0000.000
20A328TYR00.0487.4350.5560.5560.0000.0000.0000.000
21A329SER00.0017.138-2.340-2.3400.0000.0000.0000.000
22A330GLU-1-0.9138.257-21.610-21.6100.0000.0000.0000.000
23A331TYR0-0.06910.337-0.443-0.4430.0000.0000.0000.000
24A332ASP-1-0.79013.017-12.997-12.9970.0000.0000.0000.000
25A333PRO0-0.01816.1620.0960.0960.0000.0000.0000.000
26A334THR0-0.09517.1960.7020.7020.0000.0000.0000.000
27A335ARG10.81618.26713.30513.3050.0000.0000.0000.000
28A336PRO0-0.01718.359-0.114-0.1140.0000.0000.0000.000
29A337PHE00.05711.110-0.530-0.5300.0000.0000.0000.000
30A338SER0-0.03615.087-0.734-0.7340.0000.0000.0000.000
31A339GLU-1-0.83416.039-14.034-14.0340.0000.0000.0000.000
32A340ALA00.01412.144-0.635-0.6350.0000.0000.0000.000
33A341SER0-0.0049.095-1.104-1.1040.0000.0000.0000.000
34A342MET00.0626.270-1.173-1.1730.0000.0000.0000.000
35A343MET00.0293.304-4.033-2.4460.599-0.545-1.6400.001
36A344GLY0-0.0194.447-5.045-4.862-0.001-0.016-0.1660.000
37A345LEU00.0396.801-2.714-2.7140.0000.0000.0000.000
38A346LEU0-0.0142.361-7.678-3.9364.222-1.847-6.1170.012
39A347THR00.0012.090-11.479-7.4415.638-3.334-6.342-0.015
40A348ASN0-0.0623.308-7.652-7.6780.0450.658-0.677-0.002
41A349LEU0-0.0542.354-1.3600.2901.230-0.537-2.3430.003
42A350ALA00.0413.029-4.598-1.0371.957-1.311-4.2070.008
43A351ASP-1-0.8411.582-122.807-127.04624.001-11.996-7.766-0.116
44A352ARG10.8843.93233.34633.7800.001-0.087-0.3480.000
45A353GLU-1-0.7531.663-65.768-67.62517.744-9.856-6.031-0.116
46A354LEU0-0.0042.1163.1531.6805.408-0.665-3.270-0.004
47A355VAL00.0314.9523.3033.408-0.001-0.004-0.1000.000
48A356HIS0-0.0198.2973.4313.4310.0000.0000.0000.000
49A357MET0-0.0355.3292.0752.0750.0000.0000.0000.000
50A358ILE00.0637.2822.0432.0430.0000.0000.0000.000
51A359ASN0-0.0369.9592.0272.0270.0000.0000.0000.000
52A360TRP0-0.00510.9350.8550.8550.0000.0000.0000.000
53A361ALA00.04311.2531.2241.2240.0000.0000.0000.000
54A362LYS10.93113.17218.94718.9470.0000.0000.0000.000
55A363ARG10.88715.78015.17815.1780.0000.0000.0000.000
56A364VAL0-0.02415.4070.8570.8570.0000.0000.0000.000
57A365PRO0-0.02518.0970.1630.1630.0000.0000.0000.000
58A366GLY00.02521.090-0.034-0.0340.0000.0000.0000.000
59A367PHE00.02912.2550.0400.0400.0000.0000.0000.000
60A368VAL00.00116.931-0.248-0.2480.0000.0000.0000.000
61A369ASP-1-0.95918.790-11.483-11.4830.0000.0000.0000.000
62A370LEU0-0.06617.0350.3450.3450.0000.0000.0000.000
63A371THR0-0.08819.080-0.244-0.2440.0000.0000.0000.000
64A372LEU00.04914.738-0.315-0.3150.0000.0000.0000.000
65A373HIS00.01514.509-1.418-1.4180.0000.0000.0000.000
66A374ASP-1-0.81814.394-15.618-15.6180.0000.0000.0000.000
67A375GLN0-0.04113.315-1.482-1.4820.0000.0000.0000.000
68A376VAL00.0169.328-1.556-1.5560.0000.0000.0000.000
69A377HIS0-0.0279.646-2.608-2.6080.0000.0000.0000.000
70A378LEU0-0.04411.114-0.990-0.9900.0000.0000.0000.000
71A379LEU00.0157.151-0.999-0.9990.0000.0000.0000.000
72A380GLU-1-0.9386.383-32.030-32.0300.0000.0000.0000.000
73A381CYS0-0.1047.030-1.390-1.3900.0000.0000.0000.000
74A382ALA00.0368.888-0.151-0.1510.0000.0000.0000.000
75A383TRP00.0302.093-12.582-8.3915.907-2.161-7.938-0.023
76A384LEU00.0002.176-2.787-0.5631.685-0.602-3.307-0.005
77A385GLU-1-0.8085.502-17.234-17.2340.0000.0000.0000.000
78A386ILE0-0.0157.1122.1612.1610.0000.0000.0000.000
79A387LEU0-0.0292.523-2.3651.4731.591-1.342-4.0870.009
80A388MET0-0.0392.7111.9755.3480.797-1.085-3.086-0.004
81A389ILE00.0093.9552.0482.1970.000-0.006-0.1430.000
82A390GLY00.0485.3251.1841.1840.0000.0000.0000.000
83A391LEU0-0.0152.873-2.4460.4081.197-0.872-3.1790.006
84A392VAL0-0.0364.9200.2480.353-0.001-0.011-0.0930.000
85A393TRP00.0207.8290.7830.7830.0000.0000.0000.000
86A394ARG10.8042.22815.18317.2931.884-1.637-2.3570.022
87A395SER0-0.0317.7810.2860.2860.0000.0000.0000.000
88A396MET0-0.00410.4870.5640.5640.0000.0000.0000.000
89A397GLU-1-0.96613.426-10.862-10.8620.0000.0000.0000.000
90A398HIS0-0.03012.8050.3860.3860.0000.0000.0000.000
91A399PRO0-0.01014.245-0.295-0.2950.0000.0000.0000.000
92A400GLY0-0.03214.3510.1180.1180.0000.0000.0000.000
93A401LYS10.90211.39811.80211.8020.0000.0000.0000.000
94A402LEU00.0295.3140.1080.1080.0000.0000.0000.000
95A403LEU0-0.0128.702-0.260-0.2600.0000.0000.0000.000
96A404PHE00.0092.305-5.758-1.8024.185-1.458-6.6820.013
97A405ALA00.0544.385-3.278-3.0480.000-0.021-0.2080.000
98A406PRO00.0206.9681.0401.0400.0000.0000.0000.000
99A407ASN0-0.0019.8380.1630.1630.0000.0000.0000.000
100A408LEU0-0.0315.461-0.294-0.2940.0000.0000.0000.000
101A409LEU00.0238.274-0.168-0.1680.0000.0000.0000.000
102A410LEU0-0.0356.6640.1700.1700.0000.0000.0000.000
103A411ASP-1-0.8069.808-12.981-12.9810.0000.0000.0000.000
104A412ARG10.8539.83412.58912.5890.0000.0000.0000.000
105A413ASN0-0.06610.442-0.350-0.3500.0000.0000.0000.000
106A414GLN00.08110.269-0.167-0.1670.0000.0000.0000.000
107A415GLY00.0876.875-0.980-0.9800.0000.0000.0000.000
108A416LYS10.8767.45011.88011.8800.0000.0000.0000.000
109A417CYS0-0.1019.0990.3640.3640.0000.0000.0000.000
110A418VAL0-0.0295.378-0.297-0.2970.0000.0000.0000.000
111A419GLU-1-0.8737.014-18.999-18.9990.0000.0000.0000.000
112A420GLY00.0736.444-2.160-2.1600.0000.0000.0000.000
113A421MET0-0.0542.129-4.270-3.1451.879-0.592-2.4110.000
114A422VAL0-0.0654.4441.4731.583-0.001-0.004-0.1040.000
115A423GLU-1-0.8287.090-16.245-16.2450.0000.0000.0000.000
116A424ILE0-0.0082.662-2.3220.7361.429-1.206-3.2810.015
117A425PHE00.0343.1850.6281.3700.018-0.084-0.6760.000
118A426ASP-1-0.7696.814-13.058-13.0580.0000.0000.0000.000
119A427MET0-0.0517.4060.8170.8170.0000.0000.0000.000
120A428LEU00.0684.088-0.2620.4780.043-0.120-0.6630.000
121A429LEU0-0.0258.4760.5200.5200.0000.0000.0000.000
122A430ALA0-0.02310.9480.5360.5360.0000.0000.0000.000
123A431THR0-0.00310.2180.3790.3790.0000.0000.0000.000
124A432SER00.01010.3820.4370.4370.0000.0000.0000.000
125A433SER0-0.08012.0670.5220.5220.0000.0000.0000.000
126A434ARG10.97015.25111.05411.0540.0000.0000.0000.000
127A435PHE00.04810.8260.3520.3520.0000.0000.0000.000
128A436ARG10.95514.65811.62911.6290.0000.0000.0000.000
129A437MET0-0.08917.5830.3560.3560.0000.0000.0000.000
130A438MET0-0.06818.6120.1930.1930.0000.0000.0000.000
131A439ASN00.01319.912-0.010-0.0100.0000.0000.0000.000
132A440LEU0-0.04614.1560.1380.1380.0000.0000.0000.000
133A441GLN00.00817.869-0.021-0.0210.0000.0000.0000.000
134A442GLY00.05815.721-0.366-0.3660.0000.0000.0000.000
135A443GLU-1-0.88316.351-11.167-11.1670.0000.0000.0000.000
136A444GLU-1-0.75718.431-10.640-10.6400.0000.0000.0000.000
137A445PHE0-0.0118.908-0.425-0.4250.0000.0000.0000.000
138A446VAL00.01313.756-0.659-0.6590.0000.0000.0000.000
139A447CYS0-0.04014.941-0.248-0.2480.0000.0000.0000.000
140A448LEU0-0.00514.244-0.301-0.3010.0000.0000.0000.000
141A449LYS10.8119.03217.96717.9670.0000.0000.0000.000
142A450SER00.04712.695-1.183-1.1830.0000.0000.0000.000
143A451ILE0-0.02015.562-0.131-0.1310.0000.0000.0000.000
144A452ILE0-0.02910.433-0.081-0.0810.0000.0000.0000.000
145A453LEU0-0.02411.162-0.533-0.5330.0000.0000.0000.000
146A454LEU00.01513.336-0.238-0.2380.0000.0000.0000.000
147A455ASN0-0.00116.6260.7430.7430.0000.0000.0000.000
148A456SER0-0.07712.6300.7880.7880.0000.0000.0000.000
149A457GLY00.06213.924-0.181-0.1810.0000.0000.0000.000
150A458VAL00.00314.6330.4680.4680.0000.0000.0000.000
151A459TYR0-0.07118.2060.7540.7540.0000.0000.0000.000
152A460THR0-0.00915.0940.5160.5160.0000.0000.0000.000
153A461PHE0-0.01416.189-0.298-0.2980.0000.0000.0000.000
154A462LEU0-0.00918.3740.6270.6270.0000.0000.0000.000
155A463SER00.05720.8940.6850.6850.0000.0000.0000.000
156A464SER0-0.03323.7180.0630.0630.0000.0000.0000.000
157A465THR0-0.01225.2060.3670.3670.0000.0000.0000.000
158A466LEU00.07127.478-0.099-0.0990.0000.0000.0000.000
159A467LYS11.00623.36611.75911.7590.0000.0000.0000.000
160A468SER00.01122.617-0.086-0.0860.0000.0000.0000.000
161A469LEU0-0.02424.100-0.210-0.2100.0000.0000.0000.000
162A470GLU-1-0.92126.657-9.897-9.8970.0000.0000.0000.000
163A471GLU-1-0.77420.352-13.208-13.2080.0000.0000.0000.000
164A472LYS10.92121.94811.72711.7270.0000.0000.0000.000
165A473ASP-1-0.86023.446-9.938-9.9380.0000.0000.0000.000
166A474HIS0-0.02321.9280.5970.5970.0000.0000.0000.000
167A475ILE00.02718.6590.0080.0080.0000.0000.0000.000
168A476HIS00.00422.1850.0020.0020.0000.0000.0000.000
169A477ARG10.87724.66510.38810.3880.0000.0000.0000.000
170A478VAL0-0.05721.4530.2220.2220.0000.0000.0000.000
171A479LEU0-0.01819.6170.0000.0000.0000.0000.0000.000
172A480ASP-1-0.86323.273-10.010-10.0100.0000.0000.0000.000
173A481LYS10.83225.3989.9299.9290.0000.0000.0000.000
174A482ILE0-0.00119.2650.1670.1670.0000.0000.0000.000
175A483THR0-0.02723.1230.0750.0750.0000.0000.0000.000
176A484ASP-1-0.90424.757-9.162-9.1620.0000.0000.0000.000
177A485THR0-0.08123.0670.2790.2790.0000.0000.0000.000
178A486LEU00.01919.7440.1860.1860.0000.0000.0000.000
179A487ILE00.00823.7840.2260.2260.0000.0000.0000.000
180A488HIS0-0.00226.8910.3490.3490.0000.0000.0000.000
181A489LEU0-0.02221.7540.2410.2410.0000.0000.0000.000
182A490MET0-0.05422.8860.2910.2910.0000.0000.0000.000
183A491ALA0-0.00527.1220.2310.2310.0000.0000.0000.000
184A492LYS10.93725.9189.3609.3600.0000.0000.0000.000
185A493ALA0-0.04427.0970.1300.1300.0000.0000.0000.000
186A494GLY0-0.02429.2400.1180.1180.0000.0000.0000.000
187A495LEU0-0.01826.4710.1230.1230.0000.0000.0000.000
188A496THR00.02831.2050.0260.0260.0000.0000.0000.000
189A497LEU00.06132.154-0.176-0.1760.0000.0000.0000.000
190A498GLN00.00832.191-0.145-0.1450.0000.0000.0000.000
191A499GLN00.03729.377-0.192-0.1920.0000.0000.0000.000
192A500GLN00.00728.013-0.366-0.3660.0000.0000.0000.000
193A501HIS00.04027.031-0.129-0.1290.0000.0000.0000.000
194A502GLN0-0.05227.042-0.302-0.3020.0000.0000.0000.000
195A503ARG10.76720.8799.7859.7850.0000.0000.0000.000
196A504LEU00.03422.537-0.380-0.3800.0000.0000.0000.000
197A505ALA00.02622.154-0.413-0.4130.0000.0000.0000.000
198A506GLN0-0.05421.330-0.443-0.4430.0000.0000.0000.000
199A507LEU0-0.00717.857-0.386-0.3860.0000.0000.0000.000
200A508LEU00.05017.357-0.575-0.5750.0000.0000.0000.000
201A509LEU0-0.01918.278-0.442-0.4420.0000.0000.0000.000
202A510ILE0-0.06513.553-0.317-0.3170.0000.0000.0000.000
203A511LEU00.05113.329-0.608-0.6080.0000.0000.0000.000
204A512SER0-0.01614.205-0.724-0.7240.0000.0000.0000.000
205A513HIS0-0.01413.421-0.663-0.6630.0000.0000.0000.000
206A514ILE00.0078.595-0.516-0.5160.0000.0000.0000.000
207A515ARG10.9529.21816.69216.6920.0000.0000.0000.000
208A516HIS0-0.0479.549-1.157-1.1570.0000.0000.0000.000
209A517MET0-0.0086.737-0.421-0.4210.0000.0000.0000.000
210A518SER00.0615.181-1.954-1.9540.0000.0000.0000.000
211A519ASN00.0145.351-2.821-2.8210.0000.0000.0000.000
212A520LYS10.9346.61216.38616.3860.0000.0000.0000.000
213A521GLY00.0342.336-1.293-0.6802.802-1.662-1.7530.009
214A522MET0-0.0212.990-2.883-3.6680.2331.709-1.158-0.004
215A523GLU-1-0.9595.120-20.053-19.991-0.001-0.005-0.0560.000
216A524HIS0-0.0381.829-25.655-30.36817.243-6.431-6.098-0.059
217A525LEU00.0302.843-8.683-2.9831.853-1.589-5.9630.013
218A526TYR00.0014.684-2.971-2.7020.000-0.018-0.2500.000
219A527SER0-0.0636.6383.1083.1080.0000.0000.0000.000
220A528MET0-0.0805.1771.8511.8510.0000.0000.0000.000
221A529LYS10.9466.74629.15929.1590.0000.0000.0000.000
222A530CYS0-0.0731.849-3.424-4.0804.394-1.338-2.4010.003
223A531LYS10.9531.94259.51957.85710.594-2.763-6.1680.000
224A532ASN00.0282.958-8.584-7.0660.220-0.603-1.136-0.007
225A533VAL0-0.0155.4104.3024.3020.0000.0000.0000.000
226A534VAL0-0.0165.344-2.600-2.6000.0000.0000.0000.000
227A535PRO00.0065.650-4.192-4.1920.0000.0000.0000.000
228A536LEU00.0222.654-3.570-2.0800.729-0.351-1.868-0.005
229A537TYR00.0225.4430.9340.9340.0000.0000.0000.000
230A538ASP-1-0.8288.719-22.531-22.5310.0000.0000.0000.000
231A539LEU0-0.0412.456-0.747-0.4810.960-0.155-1.071-0.003
232A540LEU0-0.0324.4400.0160.162-0.001-0.006-0.1400.000
233A541LEU0-0.0357.2031.9861.9860.0000.0000.0000.000
234A542GLU-1-0.9889.224-19.128-19.1280.0000.0000.0000.000
235A543MET0-0.1194.2700.0540.154-0.001-0.008-0.0920.000
236A544LEU-1-0.9459.971-17.330-17.3300.0000.0000.0000.000
238A1008HOH0-0.0162.415-0.0910.7851.093-0.863-1.1050.004