FMODB

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

Last updated: 2024-07-23

All entries: 37450

Number of unique PDB entries: 7783

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FMODB ID: XM1ZX

Calculation Name: 3OLS-B-Xray11

Preferred Name: Estrogen receptor beta

Target Type: SINGLE PROTEIN

Ligand Name: estradiol

ligand 3-letter code: EST

PDB ID: 3OLS

Chain ID: B

ChEMBL ID: CHEMBL242

UniProt ID: Q92731

Base Structure: X-ray

Registration Date: 2017-06-23

Reference:

DOI:


IFIE MAP

IFIE Diagram


Modeling method
Optimization MOE:Amber10:EHT
Restraint OptH
Protonation MOE:Protonate 3D
Complement MOE:Homology modeling
Water No
Procedure Auto-FMO protocol ver. 1.2017021
FMO calculation
FMO method FMO2-MP2/6-31G(d)
Fragmentation Auto
Number of fragment 233
LigandCharge
Software MIZUHO/ABINIT-MP 4.0(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -3025421.576275
FMO2-HF: Nuclear repulsion 2929685.347786
FMO2-HF: Total energy -95736.228488
FMO2-MP2: Total energy -96004.774688


3D Structure
Snapshot
 
Ligand structure

EST

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.
-77.355-51.20759.540-24.021-61.6670.052


Interactive mode: IFIE and PIEDA for fragment #233(D:600:EST)


Summations of interaction energy for fragment #233(D:600:EST)
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.
-77.355-51.20759.54-24.021-61.667-0.052
Interaction energy analysis for fragmet #233(D:600:EST)
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 : -0.058
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].
1D264SER10.7490.85326.135-0.090-0.0900.0000.0000.0000.000
2D265PRO00.1070.02625.7700.0100.0100.0000.0000.0000.000
3D266GLU-1-0.777-0.88824.7020.1220.1220.0000.0000.0000.000
4D267GLN00.0660.06024.5920.0070.0070.0000.0000.0000.000
5D268LEU00.0120.02121.648-0.001-0.0010.0000.0000.0000.000
6D269VAL00.0140.00919.9140.0130.0130.0000.0000.0000.000
7D270LEU00.0010.00219.9110.0160.0160.0000.0000.0000.000
8D271THR0-0.002-0.01420.655-0.002-0.0020.0000.0000.0000.000
9D272LEU0-0.004-0.01416.357-0.002-0.0020.0000.0000.0000.000
10D273LEU0-0.051-0.02215.9860.0260.0260.0000.0000.0000.000
11D274GLU-1-0.912-0.96016.4610.0620.0620.0000.0000.0000.000
12D275ALA00.0240.01215.670-0.023-0.0230.0000.0000.0000.000
13D276GLU-1-0.780-0.83311.0350.4430.4430.0000.0000.0000.000
14D277PRO0-0.0120.0108.577-0.032-0.0320.0000.0000.0000.000
15D278PRO0-0.041-0.02410.7870.0630.0630.0000.0000.0000.000
16D279HIS0-0.011-0.0077.008-0.126-0.1260.0000.0000.0000.000
17D280VAL0-0.026-0.0035.3530.2560.2560.0000.0000.0000.000
18D281LEU00.0210.0096.8700.0480.0480.0000.0000.0000.000
19D282ILE0-0.060-0.0406.674-0.138-0.1380.0000.0000.0000.000
20D283SER00.0140.0089.5610.0690.0690.0000.0000.0000.000
21D284ARG10.8020.85611.022-0.297-0.2970.0000.0000.0000.000
22D285PRO0-0.0090.00211.714-0.051-0.0510.0000.0000.0000.000
23D286SER0-0.010-0.00114.5610.0090.0090.0000.0000.0000.000
24D287ALA0-0.013-0.01515.939-0.012-0.0120.0000.0000.0000.000
25D288PRO00.0190.01115.4520.0200.0200.0000.0000.0000.000
26D289PHE00.0010.0189.9310.0240.0240.0000.0000.0000.000
27D290THR0-0.020-0.02211.167-0.041-0.0410.0000.0000.0000.000
28D291GLU-1-0.727-0.8598.235-0.187-0.1870.0000.0000.0000.000
29D292ALA00.0780.0447.9580.2250.2250.0000.0000.0000.000
30D293SER0-0.038-0.0289.3300.1130.1130.0000.0000.0000.000
31D294MET00.0310.0185.807-0.035-0.0350.0000.0000.0000.000
32D295MET00.0640.0432.473-3.803-2.1512.701-0.944-3.4080.007
33D296MET00.0270.0595.454-0.075-0.0750.0000.0000.0000.000
34D297SER0-0.038-0.0487.308-0.233-0.2330.0000.0000.0000.000
35D298LEU00.0220.0012.277-3.473-0.9872.889-0.850-4.5250.002
36D299THR00.019-0.0152.920-5.154-2.3360.468-1.244-2.043-0.016
37D300LYS10.8330.9144.567-0.448-0.327-0.001-0.006-0.1130.000
38D301LEU0-0.020-0.0092.262-1.1420.4171.831-0.751-2.6390.004
39D302ALA00.0600.0132.206-2.553-1.1842.824-1.234-2.9590.003
40D303ASP-1-0.834-0.8993.7270.1240.3210.0360.001-0.2350.000
41D304LYS10.8720.9386.4871.0471.0470.0000.0000.0000.000
42D305GLU-1-0.783-0.8751.611-23.870-31.91818.843-6.898-3.897-0.060
43D306LEU00.0400.0365.5330.7100.7100.0000.0000.0000.000
44D307VAL00.0180.0088.2000.0930.0930.0000.0000.0000.000
45D308HIS00.006-0.0147.6080.1970.1970.0000.0000.0000.000
46D309MET0-0.0080.0388.3390.1510.1510.0000.0000.0000.000
47D310ILE00.0090.0029.7600.0340.0340.0000.0000.0000.000
48D311SER0-0.051-0.04212.2330.0230.0230.0000.0000.0000.000
49D312TRP0-0.023-0.00311.0420.0520.0520.0000.0000.0000.000
50D313ALA00.0480.01012.9650.0060.0060.0000.0000.0000.000
51D314LYS10.8690.92315.008-0.049-0.0490.0000.0000.0000.000
52D315LYS10.8130.92614.823-0.046-0.0460.0000.0000.0000.000
53D316ILE0-0.036-0.00515.2890.0000.0000.0000.0000.0000.000
54D317PRO00.0250.00619.710-0.006-0.0060.0000.0000.0000.000
55D318GLY00.0140.00022.7370.0110.0110.0000.0000.0000.000
56D319PHE00.011-0.01817.506-0.004-0.0040.0000.0000.0000.000
57D320VAL0-0.010-0.00420.783-0.007-0.0070.0000.0000.0000.000
58D321GLU-1-0.882-0.91022.7930.0430.0430.0000.0000.0000.000
59D322LEU0-0.0240.00222.195-0.004-0.0040.0000.0000.0000.000
60D323SER00.004-0.02325.573-0.003-0.0030.0000.0000.0000.000
61D324LEU0-0.002-0.01923.8780.0050.0050.0000.0000.0000.000
62D325PHE00.0550.02122.9290.0010.0010.0000.0000.0000.000
63D326ASP-1-0.755-0.85321.2450.0450.0450.0000.0000.0000.000
64D327GLN0-0.090-0.05219.6580.0130.0130.0000.0000.0000.000
65D328VAL00.0090.00817.0710.0040.0040.0000.0000.0000.000
66D329ARG10.8240.89416.4330.0260.0260.0000.0000.0000.000
67D330LEU0-0.027-0.02616.868-0.002-0.0020.0000.0000.0000.000
68D331LEU00.0000.00213.0580.0300.0300.0000.0000.0000.000
69D332GLU-1-0.818-0.89811.9830.0510.0510.0000.0000.0000.000
70D333SER0-0.049-0.02711.808-0.050-0.0500.0000.0000.0000.000
71D334CYS0-0.0220.01810.6440.0050.0050.0000.0000.0000.000
72D335TRP00.1010.0244.456-0.0460.2490.000-0.011-0.2840.000
73D336MET00.0170.0232.533-1.874-0.5172.551-0.630-3.278-0.002
74D337GLU-1-0.789-0.8584.4590.3680.532-0.001-0.015-0.1490.000
75D338VAL0-0.023-0.0136.8340.2140.2140.0000.0000.0000.000
76D339LEU0-0.0130.0102.836-3.627-0.5741.769-1.125-3.6960.010
77D340MET0-0.026-0.0052.413-1.3630.9332.032-1.018-3.310-0.002
78D341MET0-0.011-0.0033.460-0.043-0.0080.0060.153-0.1940.000
79D342GLY00.0060.0085.134-0.543-0.477-0.001-0.006-0.0590.000
80D343LEU00.0060.0142.322-4.049-2.4414.404-1.403-4.6090.008
81D344MET0-0.025-0.0034.311-1.316-1.1100.001-0.048-0.1590.000
82D345TRP0-0.041-0.0147.117-0.326-0.3260.0000.0000.0000.000
83D346ARG10.7420.8282.4471.7962.7730.273-0.446-0.8040.001
84D347SER00.006-0.0097.336-0.151-0.1510.0000.0000.0000.000
85D348ILE00.0040.0139.977-0.142-0.1420.0000.0000.0000.000
86D349ASP-1-0.869-0.94112.7170.3690.3690.0000.0000.0000.000
87D350HIS0-0.032-0.00212.369-0.074-0.0740.0000.0000.0000.000
88D351PRO0-0.005-0.00613.9280.0160.0160.0000.0000.0000.000
89D352GLY0-0.0030.00612.868-0.040-0.0400.0000.0000.0000.000
90D353LYS10.8130.88911.089-0.367-0.3670.0000.0000.0000.000
91D354LEU0-0.0040.0054.992-0.026-0.0260.0000.0000.0000.000
92D355ILE00.0230.0078.184-0.027-0.0270.0000.0000.0000.000
93D356PHE00.0330.0072.212-4.870-1.3013.497-1.361-5.7040.012
94D357ALA00.0130.0064.649-1.652-1.531-0.001-0.012-0.1080.000
95D358PRO0-0.034-0.0307.4020.2090.2090.0000.0000.0000.000
96D359ASP-1-0.850-0.89510.9500.1340.1340.0000.0000.0000.000
97D360LEU0-0.020-0.0016.4740.0600.0600.0000.0000.0000.000
98D361VAL00.0190.0098.7580.3070.3070.0000.0000.0000.000
99D362LEU0-0.024-0.0086.154-0.133-0.1330.0000.0000.0000.000
100D363ASP-1-0.843-0.9289.8670.3690.3690.0000.0000.0000.000
101D364ARG10.8100.8589.9620.0510.0510.0000.0000.0000.000
102D365ASP-1-0.793-0.89110.709-0.106-0.1060.0000.0000.0000.000
103D366GLU-1-0.747-0.83410.7330.3050.3050.0000.0000.0000.000
104D367GLY00.0290.0127.951-0.010-0.0100.0000.0000.0000.000
105D368LYS10.8150.8818.487-0.124-0.1240.0000.0000.0000.000
106D369CYS0-0.111-0.0299.779-0.007-0.0070.0000.0000.0000.000
107D370VAL00.019-0.0045.3350.1160.1160.0000.0000.0000.000
108D371GLU-1-0.787-0.8837.565-0.769-0.7690.0000.0000.0000.000
109D372GLY00.0220.0046.437-0.416-0.4160.0000.0000.0000.000
110D373ILE00.002-0.0052.198-1.679-0.6372.302-0.447-2.8960.002
111D374LEU0-0.012-0.0024.5630.2070.303-0.001-0.006-0.0900.000
112D375GLU-1-0.838-0.9207.530-0.888-0.8880.0000.0000.0000.000
113D376ILE00.0350.0102.403-1.285-0.2621.878-0.422-2.4780.001
114D377PHE0-0.010-0.0123.664-0.0780.5320.005-0.068-0.5470.000
115D378ASP-1-0.753-0.8356.6570.1180.1180.0000.0000.0000.000
116D379MET0-0.037-0.0057.7560.0700.0700.0000.0000.0000.000
117D380LEU00.0280.0242.713-0.8920.0850.416-0.212-1.181-0.001
118D381LEU00.0170.0256.9630.1100.1100.0000.0000.0000.000
119D382ALA0-0.0100.0169.8970.0010.0010.0000.0000.0000.000
120D383THR00.001-0.0229.101-0.015-0.0150.0000.0000.0000.000
121D384THR0-0.018-0.0298.4930.0850.0850.0000.0000.0000.000
122D385SER0-0.060-0.04210.977-0.034-0.0340.0000.0000.0000.000
123D386ARG10.8140.90314.079-0.147-0.1470.0000.0000.0000.000
124D387PHE00.0500.00110.308-0.038-0.0380.0000.0000.0000.000
125D388ARG10.8560.92813.393-0.445-0.4450.0000.0000.0000.000
126D389GLU-1-0.870-0.92316.6610.0990.0990.0000.0000.0000.000
127D390LEU0-0.017-0.01817.363-0.025-0.0250.0000.0000.0000.000
128D391LYS10.8490.93519.123-0.183-0.1830.0000.0000.0000.000
129D392LEU0-0.0320.00913.466-0.020-0.0200.0000.0000.0000.000
130D393GLN0-0.013-0.02217.1820.0070.0070.0000.0000.0000.000
131D394HIS00.0850.03813.5930.0470.0470.0000.0000.0000.000
132D395LYS10.8390.89116.577-0.129-0.1290.0000.0000.0000.000
133D396GLU-1-0.781-0.87317.4840.2110.2110.0000.0000.0000.000
134D397TYR0-0.005-0.0289.3110.0530.0530.0000.0000.0000.000
135D398LEU0-0.0020.01613.4350.0380.0380.0000.0000.0000.000
136D399CYS0-0.054-0.02415.135-0.011-0.0110.0000.0000.0000.000
137D400VAL00.022-0.00212.628-0.018-0.0180.0000.0000.0000.000
138D401LYS10.8630.9268.603-0.702-0.7020.0000.0000.0000.000
139D402ALA00.0160.00812.410-0.016-0.0160.0000.0000.0000.000
140D403MET0-0.058-0.03815.628-0.032-0.0320.0000.0000.0000.000
141D404ILE0-0.002-0.0039.921-0.039-0.0390.0000.0000.0000.000
142D405LEU0-0.012-0.00713.649-0.036-0.0360.0000.0000.0000.000
143D406LEU00.000-0.00214.661-0.044-0.0440.0000.0000.0000.000
144D407ASN0-0.0390.00215.419-0.045-0.0450.0000.0000.0000.000
145D408SER00.0350.01015.804-0.015-0.0150.0000.0000.0000.000
146D409SER00.003-0.00716.817-0.006-0.0060.0000.0000.0000.000
147D410MET0-0.009-0.00618.580-0.006-0.0060.0000.0000.0000.000
148D411TYR00.0010.00418.903-0.002-0.0020.0000.0000.0000.000
149D412PRO00.0050.01423.7030.0000.0000.0000.0000.0000.000
150D413LEU0-0.029-0.01022.195-0.008-0.0080.0000.0000.0000.000
151D414VAL00.0260.01326.7190.0050.0050.0000.0000.0000.000
152D415THR0-0.001-0.00426.0080.0010.0010.0000.0000.0000.000
153D416ALA0-0.027-0.01929.2980.0000.0000.0000.0000.0000.000
154D417THR0-0.024-0.01827.5150.0020.0020.0000.0000.0000.000
155D418GLN0-0.086-0.04130.7320.0010.0010.0000.0000.0000.000
156D419ASP-1-0.783-0.85225.8110.0100.0100.0000.0000.0000.000
157D420ALA0-0.019-0.01229.164-0.005-0.0050.0000.0000.0000.000
158D421ASP-1-0.852-0.93729.6800.0030.0030.0000.0000.0000.000
159D422SER0-0.055-0.03131.1630.0040.0040.0000.0000.0000.000
160D423SER0-0.002-0.00627.6690.0030.0030.0000.0000.0000.000
161D424ARG10.8550.90928.052-0.029-0.0290.0000.0000.0000.000
162D425LYS10.8140.90726.720-0.043-0.0430.0000.0000.0000.000
163D426LEU00.1060.04522.1410.0100.0100.0000.0000.0000.000
164D427ALA00.0290.02424.5390.0090.0090.0000.0000.0000.000
165D428HIS0-0.045-0.03425.993-0.009-0.0090.0000.0000.0000.000
166D429LEU0-0.0020.01121.8160.0030.0030.0000.0000.0000.000
167D430LEU00.0700.04719.4830.0120.0120.0000.0000.0000.000
168D431ASN0-0.011-0.00122.2930.0070.0070.0000.0000.0000.000
169D432ALA00.0180.01025.3160.0040.0040.0000.0000.0000.000
170D433VAL00.0170.00018.6840.0020.0020.0000.0000.0000.000
171D434THR00.004-0.02022.0570.0100.0100.0000.0000.0000.000
172D435ASP-1-0.848-0.90723.2340.0810.0810.0000.0000.0000.000
173D436ALA0-0.059-0.02122.205-0.003-0.0030.0000.0000.0000.000
174D437LEU00.0460.02618.5100.0020.0020.0000.0000.0000.000
175D438VAL00.0170.00421.894-0.001-0.0010.0000.0000.0000.000
176D439TRP00.0450.02425.327-0.002-0.0020.0000.0000.0000.000
177D440VAL0-0.034-0.01521.519-0.006-0.0060.0000.0000.0000.000
178D441ILE00.0230.00821.606-0.003-0.0030.0000.0000.0000.000
179D442ALA0-0.0170.00124.818-0.004-0.0040.0000.0000.0000.000
180D443LYS10.8280.92127.286-0.114-0.1140.0000.0000.0000.000
181D444SER0-0.029-0.01224.3170.0010.0010.0000.0000.0000.000
182D445GLY0-0.0030.00326.1410.0040.0040.0000.0000.0000.000
183D446ILE0-0.041-0.01425.519-0.009-0.0090.0000.0000.0000.000
184D447SER00.0580.02429.5130.0000.0000.0000.0000.0000.000
185D448SER00.0580.02130.8510.0030.0030.0000.0000.0000.000
186D449GLN00.0500.02830.2720.0010.0010.0000.0000.0000.000
187D450GLN00.024-0.00328.2240.0050.0050.0000.0000.0000.000
188D451GLN0-0.046-0.01326.5340.0050.0050.0000.0000.0000.000
189D452SER00.022-0.00125.8210.0070.0070.0000.0000.0000.000
190D453MET0-0.0040.01324.797-0.001-0.0010.0000.0000.0000.000
191D454ARG10.8310.90520.484-0.179-0.1790.0000.0000.0000.000
192D455LEU00.0130.00621.3520.0130.0130.0000.0000.0000.000
193D456ALA00.0330.01321.6770.0040.0040.0000.0000.0000.000
194D457ASN0-0.010-0.01719.313-0.009-0.0090.0000.0000.0000.000
195D458LEU00.0200.00916.5400.0110.0110.0000.0000.0000.000
196D459LEU0-0.013-0.00816.9180.0110.0110.0000.0000.0000.000
197D460MET0-0.002-0.00317.772-0.020-0.0200.0000.0000.0000.000
198D461LEU0-0.0160.00813.261-0.030-0.0300.0000.0000.0000.000
199D462LEU00.0100.01212.7310.0210.0210.0000.0000.0000.000
200D463SER00.0130.00713.092-0.020-0.0200.0000.0000.0000.000
201D464HIS0-0.067-0.03211.606-0.071-0.0710.0000.0000.0000.000
202D465VAL00.0000.0008.256-0.088-0.0880.0000.0000.0000.000
203D466ARG10.8160.8668.694-0.127-0.1270.0000.0000.0000.000
204D467HIS00.0130.00310.665-0.086-0.0860.0000.0000.0000.000
205D468ALA00.022-0.0076.030-0.217-0.2170.0000.0000.0000.000
206D469SER0-0.047-0.0385.370-0.588-0.5880.0000.0000.0000.000
207D470ASN0-0.016-0.0106.396-0.286-0.2860.0000.0000.0000.000
208D471LYS10.7940.9005.9861.1641.1640.0000.0000.0000.000
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210D473MET0-0.025-0.0043.422-1.841-0.7490.042-0.336-0.798-0.004
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