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About

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: PG41X

Calculation Name: 1U3S-A-Xray11

Preferred Name: Estrogen receptor beta

Target Type: SINGLE PROTEIN

Ligand Name: 3-(6-hydroxy-naphthalen-2-yl)-benzo[d]isooxazol-6-ol

ligand 3-letter code: 797

PDB ID: 1U3S

Chain ID: A

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 -3088959.170885
FMO2-HF: Nuclear repulsion 2992479.596479
FMO2-HF: Total energy -96479.574407
FMO2-MP2: Total energy -96750.373633


3D Structure
Snapshot
 
Ligand structure

797

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.
-98.672-71.73774.584-28.559-72.9630.021


Interactive mode: IFIE and PIEDA for fragment #235(B:201:797)


Summations of interaction energy for fragment #235(B:201:797)
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.
-98.672-71.73774.584-28.559-72.963-0.021
Interaction energy analysis for fragmet #235(B:201:797)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : -0.022 / q_NPA : -0.065
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].
1B264SER10.7520.84728.251-0.116-0.1160.0000.0000.0000.000
2B265PRO00.0780.04425.934-0.015-0.0150.0000.0000.0000.000
3B266GLU-1-0.746-0.84824.7920.1100.1100.0000.0000.0000.000
4B267GLN00.0190.00224.315-0.005-0.0050.0000.0000.0000.000
5B268LEU00.0030.02521.250-0.022-0.0220.0000.0000.0000.000
6B269VAL00.017-0.01719.976-0.007-0.0070.0000.0000.0000.000
7B270LEU0-0.007-0.00419.505-0.013-0.0130.0000.0000.0000.000
8B271THR00.0140.00519.973-0.032-0.0320.0000.0000.0000.000
9B272LEU0-0.020-0.00716.380-0.030-0.0300.0000.0000.0000.000
10B273LEU0-0.012-0.01015.361-0.024-0.0240.0000.0000.0000.000
11B274GLU-1-0.920-0.96115.631-0.246-0.2460.0000.0000.0000.000
12B275ALA0-0.0020.01214.533-0.080-0.0800.0000.0000.0000.000
13B276GLU-1-0.735-0.81610.578-0.320-0.3200.0000.0000.0000.000
14B277PRO00.0260.0226.983-0.037-0.0370.0000.0000.0000.000
15B278PRO0-0.025-0.0089.5800.1900.1900.0000.0000.0000.000
16B279HIS0-0.072-0.0656.796-0.231-0.2310.0000.0000.0000.000
17B280VAL00.0110.0335.5480.3640.3640.0000.0000.0000.000
18B281LEU00.0310.0216.312-0.115-0.1150.0000.0000.0000.000
19B282ILE00.0100.0106.006-0.238-0.2380.0000.0000.0000.000
20B283SER0-0.077-0.0398.385-0.001-0.0010.0000.0000.0000.000
21B284ARG10.8250.91411.3620.0930.0930.0000.0000.0000.000
22B285PRO00.0160.00113.3650.0350.0350.0000.0000.0000.000
23B286SER0-0.029-0.02113.3860.0330.0330.0000.0000.0000.000
24B287ALA0-0.026-0.00614.6290.0230.0230.0000.0000.0000.000
25B288PRO00.0460.02714.6220.0200.0200.0000.0000.0000.000
26B289PHE0-0.042-0.02610.336-0.093-0.0930.0000.0000.0000.000
27B290THR0-0.024-0.01312.1010.0030.0030.0000.0000.0000.000
28B291GLU-1-0.769-0.8679.905-0.335-0.3350.0000.0000.0000.000
29B292ALA00.0420.0058.476-0.005-0.0050.0000.0000.0000.000
30B293SER0-0.038-0.0288.821-0.106-0.1060.0000.0000.0000.000
31B294MET00.0320.0296.4080.0300.0300.0000.0000.0000.000
32B295MET0-0.0070.0133.384-2.607-0.3780.494-0.771-1.9530.008
33B296MET00.0030.0274.787-1.182-1.006-0.001-0.006-0.1690.000
34B297SER0-0.025-0.0447.599-0.426-0.4260.0000.0000.0000.000
35B298LEU00.002-0.0072.307-4.625-0.8801.834-1.280-4.2990.010
36B299THR0-0.021-0.0282.726-6.009-3.9240.440-0.988-1.537-0.013
37B300LYS10.8770.9395.1691.1801.303-0.001-0.006-0.1170.000
38B301LEU0-0.080-0.0272.116-1.469-0.1544.580-1.545-4.3500.009
39B302ALA00.0210.0062.154-2.372-0.9661.598-1.077-1.9250.001
40B303ASP-1-0.842-0.9143.499-0.775-0.6600.0420.068-0.2260.000
41B304LYS10.8470.9096.6692.4072.4070.0000.0000.0000.000
42B305GLU-1-0.797-0.8871.648-25.824-32.61715.167-5.161-3.214-0.057
43B306LEU00.0470.0305.8110.9600.9600.0000.0000.0000.000
44B307VAL00.0190.0248.1250.4810.4810.0000.0000.0000.000
45B308HIS0-0.008-0.0128.3570.4450.4450.0000.0000.0000.000
46B309MET0-0.0400.0226.5320.4320.4320.0000.0000.0000.000
47B310ILE00.0300.0049.5440.3280.3280.0000.0000.0000.000
48B311SER0-0.049-0.04012.5760.1850.1850.0000.0000.0000.000
49B312TRP0-0.052-0.03210.7580.1890.1890.0000.0000.0000.000
50B313ALA00.0310.00212.8800.1140.1140.0000.0000.0000.000
51B314LYS10.8290.91815.2010.3240.3240.0000.0000.0000.000
52B315LYS10.8270.92513.8490.5400.5400.0000.0000.0000.000
53B316ILE0-0.037-0.00215.6660.0410.0410.0000.0000.0000.000
54B317PRO0-0.010-0.00819.7010.0110.0110.0000.0000.0000.000
55B318GLY0-0.027-0.02722.9010.0270.0270.0000.0000.0000.000
56B319PHE00.018-0.01417.6190.0230.0230.0000.0000.0000.000
57B320VAL0-0.0040.00321.057-0.007-0.0070.0000.0000.0000.000
58B321GLU-1-0.849-0.91022.988-0.052-0.0520.0000.0000.0000.000
59B322LEU0-0.060-0.01621.6260.0200.0200.0000.0000.0000.000
60B323SER0-0.026-0.04425.284-0.030-0.0300.0000.0000.0000.000
61B324LEU00.0260.01224.324-0.003-0.0030.0000.0000.0000.000
62B325PHE00.0680.02822.187-0.008-0.0080.0000.0000.0000.000
63B326ASP-1-0.746-0.83622.1650.0780.0780.0000.0000.0000.000
64B327GLN0-0.079-0.04820.142-0.027-0.0270.0000.0000.0000.000
65B328VAL0-0.0010.01117.678-0.066-0.0660.0000.0000.0000.000
66B329ARG10.8870.94017.260-0.095-0.0950.0000.0000.0000.000
67B330LEU0-0.061-0.02517.5760.0760.0760.0000.0000.0000.000
68B331LEU00.0150.01412.2270.0960.0960.0000.0000.0000.000
69B332GLU-1-0.880-0.95713.1070.0680.0680.0000.0000.0000.000
70B333SER0-0.097-0.05713.4750.1640.1640.0000.0000.0000.000
71B334CYS0-0.077-0.02211.7770.0650.0650.0000.0000.0000.000
72B335TRP00.0870.0225.3120.5450.5450.0000.0000.0000.000
73B336MET00.0040.0163.269-1.5901.1312.358-0.748-4.3310.006
74B337GLU-1-0.755-0.8685.0142.7332.986-0.001-0.003-0.2490.000
75B338VAL0-0.027-0.0176.5480.0270.0270.0000.0000.0000.000
76B339LEU0-0.0060.0122.616-4.739-2.3605.989-1.792-6.5760.017
77B340MET0-0.037-0.0022.213-4.752-2.3568.311-2.526-8.182-0.005
78B341MET0-0.032-0.0113.2750.096-0.2080.0240.566-0.2860.000
79B342GLY00.0020.0064.609-0.498-0.404-0.001-0.013-0.0800.000
80B343LEU00.0160.0172.269-2.500-1.3093.554-1.166-3.5790.005
81B344MET0-0.040-0.0123.942-0.811-0.5170.004-0.074-0.2250.000
82B345TRP00.0090.0067.046-0.235-0.2350.0000.0000.0000.000
83B346ARG10.7550.8422.4071.8682.9820.618-0.617-1.1140.004
84B347SER00.011-0.0017.075-0.045-0.0450.0000.0000.0000.000
85B348ILE00.0060.0249.658-0.024-0.0240.0000.0000.0000.000
86B349ASP-1-0.870-0.94212.5160.6520.6520.0000.0000.0000.000
87B350HIS0-0.021-0.00912.055-0.032-0.0320.0000.0000.0000.000
88B351PRO0-0.018-0.00812.7600.2160.2160.0000.0000.0000.000
89B352GLY00.007-0.00513.959-0.077-0.0770.0000.0000.0000.000
90B353LYS10.8380.92611.819-0.948-0.9480.0000.0000.0000.000
91B354LEU0-0.0150.0095.5930.1130.1130.0000.0000.0000.000
92B355ILE0-0.014-0.0087.839-0.157-0.1570.0000.0000.0000.000
93B356PHE00.0230.0112.729-5.776-2.2094.220-1.432-6.3560.020
94B357ALA00.0620.0264.231-1.053-0.8310.001-0.038-0.1850.000
95B358PRO00.0150.0026.8150.2630.2630.0000.0000.0000.000
96B359ASP-1-0.740-0.8659.446-0.894-0.8940.0000.0000.0000.000
97B360LEU0-0.047-0.0214.993-0.162-0.1620.0000.0000.0000.000
98B361VAL00.0100.0148.1350.6850.6850.0000.0000.0000.000
99B362LEU00.0070.0037.904-0.164-0.1640.0000.0000.0000.000
100B363ASP-1-0.818-0.91810.7521.3071.3070.0000.0000.0000.000
101B364ARG10.7970.85711.528-1.193-1.1930.0000.0000.0000.000
102B365ASP-1-0.821-0.88712.0150.8730.8730.0000.0000.0000.000
103B366GLU-1-0.765-0.88812.7730.4160.4160.0000.0000.0000.000
104B367GLY00.0170.0019.283-0.090-0.0900.0000.0000.0000.000
105B368LYS10.8160.8919.298-0.741-0.7410.0000.0000.0000.000
106B369CYS0-0.090-0.02810.757-0.205-0.2050.0000.0000.0000.000
107B370VAL00.0250.0065.116-0.143-0.1430.0000.0000.0000.000
108B371GLU-1-0.775-0.8716.763-1.984-1.9840.0000.0000.0000.000
109B372GLY00.0360.0166.136-0.990-0.9900.0000.0000.0000.000
110B373ILE00.0080.0242.708-1.5110.2271.098-0.710-2.1250.006
111B374LEU0-0.011-0.0075.9641.3631.3630.0000.0000.0000.000
112B375GLU-1-0.839-0.9077.3900.9020.9020.0000.0000.0000.000
113B376ILE00.0420.0072.659-2.296-0.2460.779-0.569-2.2590.003
114B377PHE00.0250.0014.710-0.0410.5930.000-0.037-0.5970.000
115B378ASP-1-0.777-0.8817.2391.2701.2700.0000.0000.0000.000
116B379MET0-0.034-0.0087.000-0.254-0.2540.0000.0000.0000.000
117B380LEU00.0370.0302.408-1.927-0.6480.528-0.387-1.4190.000
118B381LEU00.0030.0316.863-0.650-0.6500.0000.0000.0000.000
119B382ALA0-0.0190.01310.134-0.356-0.3560.0000.0000.0000.000
120B383THR0-0.016-0.0248.649-0.346-0.3460.0000.0000.0000.000
121B384THR0-0.006-0.0388.200-0.223-0.2230.0000.0000.0000.000
122B385SER0-0.065-0.05710.292-0.305-0.3050.0000.0000.0000.000
123B386ARG10.7870.87913.594-0.994-0.9940.0000.0000.0000.000
124B387PHE00.0610.01210.150-0.191-0.1910.0000.0000.0000.000
125B388ARG10.8430.93512.012-1.411-1.4110.0000.0000.0000.000
126B389GLU-1-0.845-0.89915.9520.6470.6470.0000.0000.0000.000
127B390LEU0-0.0010.00616.772-0.093-0.0930.0000.0000.0000.000
128B391LYS10.8330.91717.247-0.669-0.6690.0000.0000.0000.000
129B392LEU00.0160.02912.178-0.081-0.0810.0000.0000.0000.000
130B393GLN0-0.009-0.02015.691-0.046-0.0460.0000.0000.0000.000
131B394HIS00.0270.01312.747-0.019-0.0190.0000.0000.0000.000
132B395LYS10.8550.89615.968-0.147-0.1470.0000.0000.0000.000
133B396GLU-1-0.749-0.83017.1310.4940.4940.0000.0000.0000.000
134B397TYR0-0.044-0.0578.7580.0560.0560.0000.0000.0000.000
135B398LEU0-0.0040.01313.1520.0460.0460.0000.0000.0000.000
136B399CYS0-0.028-0.00814.986-0.032-0.0320.0000.0000.0000.000
137B400VAL00.030-0.00313.0060.0000.0000.0000.0000.0000.000
138B401LYS10.8510.9288.5590.1050.1050.0000.0000.0000.000
139B402ALA00.0280.02212.466-0.022-0.0220.0000.0000.0000.000
140B403MET0-0.049-0.03515.796-0.001-0.0010.0000.0000.0000.000
141B404ILE0-0.032-0.0149.880-0.023-0.0230.0000.0000.0000.000
142B405LEU00.0160.00313.549-0.007-0.0070.0000.0000.0000.000
143B406LEU00.0140.01914.773-0.060-0.0600.0000.0000.0000.000
144B407ASN0-0.040-0.01617.412-0.073-0.0730.0000.0000.0000.000
145B408SER00.007-0.00316.1220.0660.0660.0000.0000.0000.000
146B409SER00.0420.04217.915-0.021-0.0210.0000.0000.0000.000
147B410MET00.007-0.00418.178-0.010-0.0100.0000.0000.0000.000
148B411TYR00.0290.01421.400-0.046-0.0460.0000.0000.0000.000
149B412PRO00.0790.03124.882-0.026-0.0260.0000.0000.0000.000
150B413LEU00.0170.02927.281-0.014-0.0140.0000.0000.0000.000
151B414VAL00.0600.04826.148-0.020-0.0200.0000.0000.0000.000
152B415THR0-0.044-0.03928.878-0.014-0.0140.0000.0000.0000.000
153B416ALA0-0.034-0.02731.553-0.006-0.0060.0000.0000.0000.000
154B417THR0-0.057-0.02430.282-0.009-0.0090.0000.0000.0000.000
155B418GLN0-0.016-0.01527.738-0.024-0.0240.0000.0000.0000.000
156B419ASP-1-0.767-0.88729.830-0.001-0.0010.0000.0000.0000.000
157B420ALA00.0140.01931.0820.0140.0140.0000.0000.0000.000
158B421ASP-1-0.839-0.92532.3430.0520.0520.0000.0000.0000.000
159B422SER0-0.009-0.02026.1380.0050.0050.0000.0000.0000.000
160B423SER0-0.0050.00027.2660.0210.0210.0000.0000.0000.000
161B424ARG10.8340.91728.011-0.040-0.0400.0000.0000.0000.000
162B425LYS10.8090.90027.2750.0000.0000.0000.0000.0000.000
163B426LEU00.0420.02421.1100.0020.0020.0000.0000.0000.000
164B427ALA00.0060.00624.0840.0250.0250.0000.0000.0000.000
165B428HIS0-0.016-0.01026.2660.0250.0250.0000.0000.0000.000
166B429LEU00.0140.01720.6370.0130.0130.0000.0000.0000.000
167B430LEU00.0190.01519.9580.0150.0150.0000.0000.0000.000
168B431ASN0-0.0010.00722.7070.0350.0350.0000.0000.0000.000
169B432ALA0-0.012-0.01024.9930.0070.0070.0000.0000.0000.000
170B433VAL00.017-0.00118.801-0.001-0.0010.0000.0000.0000.000
171B434THR0-0.021-0.00821.8390.0420.0420.0000.0000.0000.000
172B435ASP-1-0.813-0.90723.6820.1570.1570.0000.0000.0000.000
173B436ALA0-0.001-0.00222.381-0.001-0.0010.0000.0000.0000.000
174B437LEU00.0130.00618.8880.0020.0020.0000.0000.0000.000
175B438VAL00.0130.00422.0730.0100.0100.0000.0000.0000.000
176B439TRP0-0.0030.00025.396-0.005-0.0050.0000.0000.0000.000
177B440VAL0-0.012-0.01420.745-0.011-0.0110.0000.0000.0000.000
178B441ILE0-0.0060.01221.5000.0010.0010.0000.0000.0000.000
179B442ALA00.0030.02024.566-0.005-0.0050.0000.0000.0000.000
180B443LYS10.8340.91026.372-0.197-0.1970.0000.0000.0000.000
181B444SER0-0.033-0.02324.823-0.010-0.0100.0000.0000.0000.000
182B445GLY0-0.0050.00126.773-0.002-0.0020.0000.0000.0000.000
183B446ILE0-0.0270.00325.944-0.007-0.0070.0000.0000.0000.000
184B447SER00.0460.01430.080-0.009-0.0090.0000.0000.0000.000
185B448SER00.0710.02530.9310.0240.0240.0000.0000.0000.000
186B449GLN00.0240.01530.0880.0230.0230.0000.0000.0000.000
187B450GLN00.0610.02027.0330.0170.0170.0000.0000.0000.000
188B451GLN0-0.036-0.01726.4830.0270.0270.0000.0000.0000.000
189B452SER00.0220.00625.9150.0220.0220.0000.0000.0000.000
190B453MET0-0.0050.00925.0020.0410.0410.0000.0000.0000.000
191B454ARG10.7430.83319.772-0.460-0.4600.0000.0000.0000.000
192B455LEU00.0340.01321.2220.0510.0510.0000.0000.0000.000
193B456ALA00.0290.01121.3410.0430.0430.0000.0000.0000.000
194B457ASN0-0.032-0.03419.5930.0860.0860.0000.0000.0000.000
195B458LEU00.0140.00716.2440.0920.0920.0000.0000.0000.000
196B459LEU0-0.012-0.00616.6080.0660.0660.0000.0000.0000.000
197B460MET0-0.025-0.01317.9300.0430.0430.0000.0000.0000.000
198B461LEU00.0060.00812.8170.0720.0720.0000.0000.0000.000
199B462LEU00.0010.01212.9500.2090.2090.0000.0000.0000.000
200B463SER0-0.028-0.02213.1590.1120.1120.0000.0000.0000.000
201B464HIS0-0.006-0.00311.5080.1020.1020.0000.0000.0000.000
202B465VAL00.0080.0097.2610.4520.4520.0000.0000.0000.000
203B466ARG10.8220.8818.498-0.540-0.5400.0000.0000.0000.000
204B467HIS0-0.040-0.01910.243-0.154-0.1540.0000.0000.0000.000
205B468ALA00.008-0.0025.7760.0490.0490.0000.0000.0000.000
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207B470ASN00.0240.0056.1740.4660.4660.0000.0000.0000.000
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