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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: XM4ZP

Calculation Name: 1U9E-B-Xray11

Preferred Name: Estrogen receptor beta

Target Type: SINGLE PROTEIN

Ligand Name: 2-(4-hydroxy-phenyl)benzofuran-5-ol

ligand 3-letter code: 397

PDB ID: 1U9E

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 235
LigandCharge
Software MIZUHO/ABINIT-MP 4.0(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -3068648.539773
FMO2-HF: Nuclear repulsion 2972337.71906
FMO2-HF: Total energy -96310.820714
FMO2-MP2: Total energy -96580.997843


3D Structure
Snapshot
 
Ligand structure

397

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.
-80.747-64.35759.787-26.096-50.0830.056


Interactive mode: IFIE and PIEDA for fragment #235(D:202:397)


Summations of interaction energy for fragment #235(D:202:397)
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.
-80.747-64.35759.787-26.096-50.083-0.056
Interaction energy analysis for fragmet #235(D:202:397)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : -0.057 / q_NPA : -0.086
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].
1D264SER10.8010.86228.9890.0190.0190.0000.0000.0000.000
2D265PRO00.1340.06626.754-0.008-0.0080.0000.0000.0000.000
3D266GLU-1-0.779-0.85123.908-0.021-0.0210.0000.0000.0000.000
4D267GLN00.0280.01323.532-0.004-0.0040.0000.0000.0000.000
5D268LEU00.0390.04321.478-0.014-0.0140.0000.0000.0000.000
6D269VAL00.009-0.00318.711-0.012-0.0120.0000.0000.0000.000
7D270LEU0-0.025-0.02519.036-0.015-0.0150.0000.0000.0000.000
8D271THR00.004-0.00320.043-0.021-0.0210.0000.0000.0000.000
9D272LEU0-0.003-0.00915.748-0.024-0.0240.0000.0000.0000.000
10D273LEU0-0.036-0.01015.229-0.034-0.0340.0000.0000.0000.000
11D274GLU-1-0.937-0.96415.810-0.227-0.2270.0000.0000.0000.000
12D275ALA00.0270.01415.006-0.039-0.0390.0000.0000.0000.000
13D276GLU-1-0.785-0.84010.463-0.582-0.5820.0000.0000.0000.000
14D277PRO0-0.0020.0138.2820.0800.0800.0000.0000.0000.000
15D278PRO0-0.035-0.02210.5110.0500.0500.0000.0000.0000.000
16D279HIS0-0.018-0.0116.917-0.470-0.4700.0000.0000.0000.000
17D280VAL0-0.0010.0035.5970.4620.4620.0000.0000.0000.000
18D281LEU00.0000.0017.1510.0020.0020.0000.0000.0000.000
19D282ILE0-0.067-0.0386.392-0.147-0.1470.0000.0000.0000.000
20D283SER0-0.031-0.0309.5520.0390.0390.0000.0000.0000.000
21D284ARG10.7100.80211.432-0.536-0.5360.0000.0000.0000.000
22D285PRO0-0.0010.01512.949-0.046-0.0460.0000.0000.0000.000
23D286SER0-0.001-0.01516.3940.0540.0540.0000.0000.0000.000
24D287ALA0-0.016-0.00118.008-0.023-0.0230.0000.0000.0000.000
25D288PRO00.0210.01615.8280.0450.0450.0000.0000.0000.000
26D289PHE00.0040.00310.962-0.027-0.0270.0000.0000.0000.000
27D290THR00.007-0.00712.476-0.064-0.0640.0000.0000.0000.000
28D291GLU-1-0.736-0.8687.721-0.202-0.2020.0000.0000.0000.000
29D292ALA00.0460.0268.3400.2380.2380.0000.0000.0000.000
30D293SER0-0.008-0.0069.7620.1210.1210.0000.0000.0000.000
31D294MET00.0330.0376.8310.1970.1970.0000.0000.0000.000
32D295MET00.0280.0263.570-1.6740.3240.564-0.782-1.7800.009
33D296MET0-0.0040.0295.707-0.258-0.2580.0000.0000.0000.000
34D297SER0-0.015-0.0218.177-0.365-0.3650.0000.0000.0000.000
35D298LEU00.0180.0022.639-4.412-1.0950.975-1.013-3.2800.011
36D299THR0-0.015-0.0153.614-3.483-2.3650.016-0.440-0.695-0.003
37D300LYS10.8330.9165.524-0.348-0.3480.0000.0000.0000.000
38D301LEU0-0.031-0.0022.270-1.0380.0862.147-0.739-2.5330.005
39D302ALA00.0570.0122.207-2.010-0.9111.297-0.730-1.6660.000
40D303ASP-1-0.827-0.9063.8080.1940.3990.014-0.045-0.1750.000
41D304LYS10.8890.9396.7421.4481.4480.0000.0000.0000.000
42D305GLU-1-0.773-0.8741.595-29.916-38.41219.468-7.152-3.820-0.073
43D306LEU00.0500.0465.7930.5430.5430.0000.0000.0000.000
44D307VAL00.0110.0118.3280.1690.1690.0000.0000.0000.000
45D308HIS0-0.009-0.0217.8310.2310.2310.0000.0000.0000.000
46D309MET00.0030.0267.9270.1890.1890.0000.0000.0000.000
47D310ILE0-0.015-0.0129.6380.1850.1850.0000.0000.0000.000
48D311SER0-0.055-0.04412.2860.1030.1030.0000.0000.0000.000
49D312TRP0-0.0200.00210.6320.0540.0540.0000.0000.0000.000
50D313ALA00.0440.00712.6790.0820.0820.0000.0000.0000.000
51D314LYS10.8710.92214.7430.1630.1630.0000.0000.0000.000
52D315LYS10.8230.92614.5380.4470.4470.0000.0000.0000.000
53D316ILE0-0.0290.00014.9930.0240.0240.0000.0000.0000.000
54D317PRO00.014-0.00119.4290.0170.0170.0000.0000.0000.000
55D318GLY00.0350.01922.4200.0070.0070.0000.0000.0000.000
56D319PHE00.026-0.01417.3610.0070.0070.0000.0000.0000.000
57D320VAL0-0.016-0.01020.7860.0080.0080.0000.0000.0000.000
58D321GLU-1-0.882-0.92722.590-0.032-0.0320.0000.0000.0000.000
59D322LEU0-0.0440.00121.0090.0120.0120.0000.0000.0000.000
60D323SER0-0.019-0.04124.605-0.010-0.0100.0000.0000.0000.000
61D324LEU00.008-0.00523.731-0.001-0.0010.0000.0000.0000.000
62D325PHE00.0490.02223.050-0.004-0.0040.0000.0000.0000.000
63D326ASP-1-0.726-0.78421.6380.0710.0710.0000.0000.0000.000
64D327GLN0-0.099-0.04619.163-0.012-0.0120.0000.0000.0000.000
65D328VAL00.0020.01117.400-0.037-0.0370.0000.0000.0000.000
66D329ARG10.8650.90817.182-0.049-0.0490.0000.0000.0000.000
67D330LEU0-0.036-0.01017.4330.0400.0400.0000.0000.0000.000
68D331LEU0-0.013-0.00813.3100.0230.0230.0000.0000.0000.000
69D332GLU-1-0.848-0.95812.7440.3190.3190.0000.0000.0000.000
70D333SER0-0.094-0.04513.1910.1210.1210.0000.0000.0000.000
71D334CYS0-0.038-0.01111.4680.0100.0100.0000.0000.0000.000
72D335TRP00.029-0.0115.4940.3590.3590.0000.0000.0000.000
73D336MET00.0190.0284.021-1.1380.5880.189-0.375-1.5400.002
74D337GLU-1-0.791-0.8825.0750.4590.572-0.001-0.002-0.1110.000
75D338VAL0-0.018-0.0176.567-0.066-0.0660.0000.0000.0000.000
76D339LEU00.0050.0072.889-2.711-0.4651.146-0.795-2.5970.005
77D340MET0-0.0160.0032.580-2.3630.0351.759-1.259-2.898-0.012
78D341MET0-0.028-0.0083.3820.2690.2360.0020.241-0.2100.000
79D342GLY00.0010.0014.723-0.303-0.211-0.001-0.010-0.0810.000
80D343LEU00.0010.0082.425-2.485-0.7712.028-1.039-2.7020.005
81D344MET0-0.0130.0054.026-0.772-0.5040.004-0.074-0.1980.000
82D345TRP0-0.045-0.0277.028-0.126-0.1260.0000.0000.0000.000
83D346ARG10.7710.8432.2872.5053.2971.991-1.045-1.7380.009
84D347SER00.007-0.0047.2670.0310.0310.0000.0000.0000.000
85D348ILE0-0.0110.0069.854-0.059-0.0590.0000.0000.0000.000
86D349ASP-1-0.867-0.93612.7390.3020.3020.0000.0000.0000.000
87D350HIS00.0560.02512.6910.0300.0300.0000.0000.0000.000
88D351PRO0-0.0130.00414.7810.0220.0220.0000.0000.0000.000
89D352GLY0-0.010-0.00915.008-0.020-0.0200.0000.0000.0000.000
90D353LYS10.8090.89912.299-0.480-0.4800.0000.0000.0000.000
91D354LEU0-0.028-0.0046.694-0.054-0.0540.0000.0000.0000.000
92D355ILE0-0.009-0.0037.8190.1590.1590.0000.0000.0000.000
93D356PHE00.0490.0082.720-6.004-1.5263.146-1.570-6.0550.016
94D357ALA00.0220.0133.193-1.797-0.6660.333-0.521-0.941-0.001
95D358PRO0-0.033-0.0285.6480.5470.5470.0000.0000.0000.000
96D359ASP-1-0.797-0.8729.1000.2600.2600.0000.0000.0000.000
97D360LEU0-0.026-0.0125.312-0.157-0.1570.0000.0000.0000.000
98D361VAL00.0120.0178.3050.5580.5580.0000.0000.0000.000
99D362LEU0-0.0190.0027.092-0.104-0.1040.0000.0000.0000.000
100D363ASP-1-0.790-0.88610.9720.4880.4880.0000.0000.0000.000
101D364ARG10.8080.84812.051-0.145-0.1450.0000.0000.0000.000
102D365ASP-1-0.914-0.96512.9110.3000.3000.0000.0000.0000.000
103D366GLU-1-0.659-0.79911.4900.7540.7540.0000.0000.0000.000
104D367GLY00.0570.0428.837-0.006-0.0060.0000.0000.0000.000
105D368LYS10.8660.9189.588-0.138-0.1380.0000.0000.0000.000
106D369CYS0-0.105-0.02710.532-0.016-0.0160.0000.0000.0000.000
107D370VAL00.009-0.0055.2380.0580.0580.0000.0000.0000.000
108D371GLU-1-0.857-0.9208.016-0.690-0.6900.0000.0000.0000.000
109D372GLY00.0210.0126.562-0.655-0.6550.0000.0000.0000.000
110D373ILE0-0.0090.0003.054-1.588-0.0620.727-0.577-1.6760.007
111D374LEU00.0260.0075.8210.5950.5950.0000.0000.0000.000
112D375GLU-1-0.871-0.9207.628-0.688-0.6880.0000.0000.0000.000
113D376ILE00.0270.0042.466-1.0750.0120.694-0.280-1.501-0.001
114D377PHE00.016-0.0105.3250.4590.4590.0000.0000.0000.000
115D378ASP-1-0.740-0.8377.7550.2890.2890.0000.0000.0000.000
116D379MET0-0.0390.0047.8460.0960.0960.0000.0000.0000.000
117D380LEU00.0460.0324.672-0.1150.036-0.001-0.006-0.1440.000
118D381LEU00.0200.0338.893-0.005-0.0050.0000.0000.0000.000
119D382ALA0-0.0130.01011.642-0.062-0.0620.0000.0000.0000.000
120D383THR0-0.027-0.03710.374-0.057-0.0570.0000.0000.0000.000
121D384THR0-0.022-0.0269.350-0.010-0.0100.0000.0000.0000.000
122D385SER0-0.049-0.04011.377-0.078-0.0780.0000.0000.0000.000
123D386ARG10.7970.87314.815-0.217-0.2170.0000.0000.0000.000
124D387PHE00.0640.00810.301-0.053-0.0530.0000.0000.0000.000
125D388ARG10.7870.88813.248-0.456-0.4560.0000.0000.0000.000
126D389GLU-1-0.885-0.90616.3870.1310.1310.0000.0000.0000.000
127D390LEU0-0.039-0.02417.432-0.026-0.0260.0000.0000.0000.000
128D391LYS10.9100.96318.706-0.125-0.1250.0000.0000.0000.000
129D392LEU00.0140.03012.849-0.027-0.0270.0000.0000.0000.000
130D393GLN0-0.047-0.03516.911-0.013-0.0130.0000.0000.0000.000
131D394HIS00.1030.05412.6520.0540.0540.0000.0000.0000.000
132D395LYS10.8450.90515.7640.0050.0050.0000.0000.0000.000
133D396GLU-1-0.739-0.87117.0470.0980.0980.0000.0000.0000.000
134D397TYR0-0.011-0.0268.6190.0100.0100.0000.0000.0000.000
135D398LEU0-0.0260.00312.7740.0090.0090.0000.0000.0000.000
136D399CYS0-0.031-0.01114.532-0.010-0.0100.0000.0000.0000.000
137D400VAL00.0360.00812.2960.0020.0020.0000.0000.0000.000
138D401LYS10.8460.9208.2300.4500.4500.0000.0000.0000.000
139D402ALA00.0250.01211.7410.0010.0010.0000.0000.0000.000
140D403MET0-0.047-0.03315.0080.0040.0040.0000.0000.0000.000
141D404ILE0-0.017-0.0109.8090.0000.0000.0000.0000.0000.000
142D405LEU0-0.0030.00013.4170.0140.0140.0000.0000.0000.000
143D406LEU0-0.0230.00614.354-0.008-0.0080.0000.0000.0000.000
144D407ASN0-0.035-0.00216.322-0.023-0.0230.0000.0000.0000.000
145D408SER00.023-0.01215.9090.0230.0230.0000.0000.0000.000
146D409SER0-0.019-0.00517.5660.0040.0040.0000.0000.0000.000
147D410MET0-0.0030.01117.826-0.016-0.0160.0000.0000.0000.000
148D411TYR0-0.005-0.02020.503-0.010-0.0100.0000.0000.0000.000
149D412PRO00.0720.06519.401-0.006-0.0060.0000.0000.0000.000
150D413LEU00.0050.00421.090-0.015-0.0150.0000.0000.0000.000
151D414VAL0-0.001-0.01424.802-0.001-0.0010.0000.0000.0000.000
152D415THR0-0.044-0.02626.242-0.009-0.0090.0000.0000.0000.000
153D416ALA0-0.028-0.01328.370-0.002-0.0020.0000.0000.0000.000
154D417THR0-0.041-0.03631.389-0.004-0.0040.0000.0000.0000.000
155D418GLN00.0660.00927.1040.0080.0080.0000.0000.0000.000
156D419ASP-1-0.820-0.83129.8800.0380.0380.0000.0000.0000.000
157D420ALA00.0150.01931.783-0.002-0.0020.0000.0000.0000.000
158D421ASP-1-0.797-0.88729.477-0.004-0.0040.0000.0000.0000.000
159D422SER0-0.024-0.04625.4040.0050.0050.0000.0000.0000.000
160D423SER00.012-0.01325.702-0.002-0.0020.0000.0000.0000.000
161D424ARG10.8420.89126.336-0.020-0.0200.0000.0000.0000.000
162D425LYS10.8300.91126.0660.0140.0140.0000.0000.0000.000
163D426LEU00.0330.02019.896-0.006-0.0060.0000.0000.0000.000
164D427ALA00.0540.02722.9300.0030.0030.0000.0000.0000.000
165D428HIS0-0.0120.00625.0000.0050.0050.0000.0000.0000.000
166D429LEU0-0.0020.00322.028-0.003-0.0030.0000.0000.0000.000
167D430LEU00.0230.02119.043-0.003-0.0030.0000.0000.0000.000
168D431ASN0-0.044-0.02021.8220.0040.0040.0000.0000.0000.000
169D432ALA00.0180.01524.575-0.001-0.0010.0000.0000.0000.000
170D433VAL0-0.009-0.00918.090-0.006-0.0060.0000.0000.0000.000
171D434THR0-0.001-0.01621.3780.0100.0100.0000.0000.0000.000
172D435ASP-1-0.935-0.96522.5540.0170.0170.0000.0000.0000.000
173D436ALA0-0.015-0.01822.4290.0000.0000.0000.0000.0000.000
174D437LEU00.0080.00418.313-0.002-0.0020.0000.0000.0000.000
175D438VAL00.0250.01121.8690.0030.0030.0000.0000.0000.000
176D439TRP00.0340.01325.162-0.002-0.0020.0000.0000.0000.000
177D440VAL0-0.044-0.02621.278-0.005-0.0050.0000.0000.0000.000
178D441ILE00.0270.01720.8090.0020.0020.0000.0000.0000.000
179D442ALA0-0.0220.00324.5320.0020.0020.0000.0000.0000.000
180D443LYS10.8180.90826.961-0.017-0.0170.0000.0000.0000.000
181D444SER0-0.021-0.01223.8130.0000.0000.0000.0000.0000.000
182D445GLY0-0.0100.00625.5860.0080.0080.0000.0000.0000.000
183D446ILE0-0.030-0.01024.956-0.003-0.0030.0000.0000.0000.000
184D447SER00.0400.00828.778-0.002-0.0020.0000.0000.0000.000
185D448SER00.0460.01831.1290.0040.0040.0000.0000.0000.000
186D449GLN00.0310.02230.4800.0040.0040.0000.0000.0000.000
187D450GLN00.0570.01927.9540.0090.0090.0000.0000.0000.000
188D451GLN0-0.052-0.01326.2690.0060.0060.0000.0000.0000.000
189D452SER00.015-0.00925.6870.0040.0040.0000.0000.0000.000
190D453MET0-0.0040.01525.0370.0070.0070.0000.0000.0000.000
191D454ARG10.8340.90819.941-0.095-0.0950.0000.0000.0000.000
192D455LEU00.0180.00521.2730.0120.0120.0000.0000.0000.000
193D456ALA00.0250.01021.7060.0090.0090.0000.0000.0000.000
194D457ASN0-0.022-0.02920.2350.0130.0130.0000.0000.0000.000
195D458LEU00.0230.01015.9740.0210.0210.0000.0000.0000.000
196D459LEU0-0.019-0.00616.9650.0160.0160.0000.0000.0000.000
197D460MET0-0.025-0.01218.5230.0080.0080.0000.0000.0000.000
198D461LEU00.0150.01313.8900.0060.0060.0000.0000.0000.000
199D462LEU0-0.0070.00613.8600.0450.0450.0000.0000.0000.000
200D463SER0-0.028-0.02014.1210.0260.0260.0000.0000.0000.000
201D464HIS0-0.0050.00012.544-0.003-0.0030.0000.0000.0000.000
202D465VAL0-0.0050.0038.1980.0300.0300.0000.0000.0000.000
203D466ARG10.8220.8789.882-0.233-0.2330.0000.0000.0000.000
204D467HIS0-0.022-0.01710.5170.0140.0140.0000.0000.0000.000
205D468ALA00.0550.0086.566-0.054-0.0540.0000.0000.0000.000
206D469SER0-0.030-0.0086.1410.1520.1520.0000.0000.0000.000
207D470ASN0-0.017-0.0037.2940.2630.2630.0000.0000.0000.000
208D471LYS10.8010.8976.1940.8210.8210.0000.0000.0000.000
209D472GLY00.0360.0052.741-2.227-1.5510.767-0.676-0.7670.002
210D473MET00.0080.0073.4390.1360.9470.2240.094-1.129-0.002
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