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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: XV61X

Calculation Name: 1L2J-B-Xray11

Preferred Name: Estrogen receptor beta

Target Type: SINGLE PROTEIN

Ligand Name: (r,r)-5,11-cis-diethyl-5,6,11,12-tetrahydrochrysene-2,8-diol

ligand 3-letter code: ETC

PDB ID: 1L2J

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 -3042229.372215
FMO2-HF: Nuclear repulsion 2945684.340649
FMO2-HF: Total energy -96545.031566
FMO2-MP2: Total energy -96816.118846


3D Structure
Snapshot
 
Ligand structure

ETC

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.
-81.796-62.77979.264-30.783-67.5000.091


Interactive mode: IFIE and PIEDA for fragment #235(B:800:ETC)


Summations of interaction energy for fragment #235(B:800:ETC)
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.
-81.796-62.77979.264-30.783-67.5-0.091
Interaction energy analysis for fragmet #235(B:800:ETC)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : -0.090 / 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].
1B264SER10.8430.91928.1260.1120.1120.0000.0000.0000.000
2B265PRO00.1350.06026.645-0.016-0.0160.0000.0000.0000.000
3B266GLU-1-0.857-0.92925.909-0.087-0.0870.0000.0000.0000.000
4B267GLN00.0270.00826.275-0.020-0.0200.0000.0000.0000.000
5B268LEU00.0120.03422.250-0.019-0.0190.0000.0000.0000.000
6B269VAL00.011-0.01421.496-0.020-0.0200.0000.0000.0000.000
7B270LEU0-0.0160.00021.231-0.008-0.0080.0000.0000.0000.000
8B271THR00.033-0.01020.815-0.020-0.0200.0000.0000.0000.000
9B272LEU0-0.030-0.02516.992-0.041-0.0410.0000.0000.0000.000
10B273LEU0-0.081-0.04616.839-0.035-0.0350.0000.0000.0000.000
11B274GLU-1-0.941-0.95617.655-0.282-0.2820.0000.0000.0000.000
12B275ALA0-0.044-0.01816.687-0.044-0.0440.0000.0000.0000.000
13B276GLU-1-0.912-0.96511.527-0.744-0.7440.0000.0000.0000.000
14B277PRO0-0.0310.0069.6620.0450.0450.0000.0000.0000.000
15B278PRO00.002-0.01711.0740.0100.0100.0000.0000.0000.000
16B279HIS0-0.055-0.0307.621-0.110-0.1100.0000.0000.0000.000
17B280VAL0-0.0030.0035.7960.3480.3480.0000.0000.0000.000
18B281LEU00.0070.0167.5420.1140.1140.0000.0000.0000.000
19B282ILE0-0.034-0.0326.369-0.255-0.2550.0000.0000.0000.000
20B283SER00.014-0.00910.7440.1520.1520.0000.0000.0000.000
21B284ARG10.7620.90010.512-0.151-0.1510.0000.0000.0000.000
22B285PRO00.0580.02415.4270.0680.0680.0000.0000.0000.000
23B286SER00.0590.01817.824-0.001-0.0010.0000.0000.0000.000
24B287ALA00.0300.04817.7710.0260.0260.0000.0000.0000.000
25B288PRO0-0.007-0.01815.6560.0020.0020.0000.0000.0000.000
26B289PHE0-0.027-0.01413.482-0.044-0.0440.0000.0000.0000.000
27B290THR00.0090.00212.7080.0880.0880.0000.0000.0000.000
28B291GLU-1-0.901-0.97013.333-0.024-0.0240.0000.0000.0000.000
29B292ALA0-0.041-0.01710.005-0.044-0.0440.0000.0000.0000.000
30B293SER00.0160.0258.694-0.021-0.0210.0000.0000.0000.000
31B294MET00.0310.0286.5420.1150.1150.0000.0000.0000.000
32B295MET00.0600.0323.208-1.0690.2760.244-0.249-1.3400.000
33B296MET00.0160.0373.442-1.312-0.6560.033-0.282-0.407-0.002
34B297SER00.013-0.0225.799-0.492-0.4920.0000.0000.0000.000
35B298LEU0-0.0050.0012.040-1.887-1.9365.322-1.202-4.0710.004
36B299THR00.0270.0072.249-6.093-3.6173.079-2.006-3.550-0.011
37B300LYS10.9230.9692.9082.7241.0130.0791.979-0.348-0.001
38B301LEU0-0.056-0.0332.700-0.8380.6650.311-0.387-1.4280.002
39B302ALA00.0350.0022.088-2.971-1.3282.643-1.256-3.030-0.002
40B303ASP-1-0.865-0.9313.523-1.591-1.4420.0590.103-0.3110.000
41B304LYS10.8920.9386.6712.1892.1890.0000.0000.0000.000
42B305GLU-1-0.829-0.9051.568-35.312-42.96223.228-10.537-5.040-0.101
43B306LEU00.0230.0185.8370.9140.9140.0000.0000.0000.000
44B307VAL00.0610.0368.0860.4830.4830.0000.0000.0000.000
45B308HIS0-0.039-0.0288.4410.4460.4460.0000.0000.0000.000
46B309MET0-0.0260.0028.2640.3130.3130.0000.0000.0000.000
47B310ILE00.0780.04610.1330.2880.2880.0000.0000.0000.000
48B311SER0-0.059-0.02413.2800.2050.2050.0000.0000.0000.000
49B312TRP0-0.023-0.01712.0880.1130.1130.0000.0000.0000.000
50B313ALA00.013-0.00113.9370.1130.1130.0000.0000.0000.000
51B314LYS10.9480.97315.6930.7530.7530.0000.0000.0000.000
52B315LYS10.8990.96015.8030.7040.7040.0000.0000.0000.000
53B316ILE0-0.0080.00616.1390.0580.0580.0000.0000.0000.000
54B317PRO0-0.037-0.03919.8740.0080.0080.0000.0000.0000.000
55B318GLY00.0480.01323.6600.0180.0180.0000.0000.0000.000
56B319PHE00.0360.02917.5230.0060.0060.0000.0000.0000.000
57B320VAL00.004-0.01021.451-0.002-0.0020.0000.0000.0000.000
58B321GLU-1-0.973-0.97523.401-0.229-0.2290.0000.0000.0000.000
59B322LEU0-0.112-0.04521.7820.0280.0280.0000.0000.0000.000
60B323SER0-0.029-0.05825.499-0.025-0.0250.0000.0000.0000.000
61B324LEU00.0680.01422.390-0.007-0.0070.0000.0000.0000.000
62B325PHE0-0.029-0.00421.476-0.033-0.0330.0000.0000.0000.000
63B326ASP-1-0.771-0.88720.501-0.214-0.2140.0000.0000.0000.000
64B327GLN0-0.075-0.03219.552-0.049-0.0490.0000.0000.0000.000
65B328VAL00.0480.02316.240-0.042-0.0420.0000.0000.0000.000
66B329ARG10.9190.97115.5950.1380.1380.0000.0000.0000.000
67B330LEU0-0.060-0.03315.6490.0280.0280.0000.0000.0000.000
68B331LEU00.0150.01013.1630.0010.0010.0000.0000.0000.000
69B332GLU-1-0.911-0.96811.475-0.585-0.5850.0000.0000.0000.000
70B333SER0-0.063-0.03310.7770.0490.0490.0000.0000.0000.000
71B334CYS0-0.093-0.02610.0390.0900.0900.0000.0000.0000.000
72B335TRP00.0900.0402.551-1.5280.0360.412-0.242-1.7340.001
73B336MET0-0.0320.0233.200-3.629-0.4180.696-0.774-3.1340.007
74B337GLU-1-0.850-0.9583.931-0.2810.1020.003-0.093-0.2930.000
75B338VAL0-0.024-0.0146.617-0.028-0.0280.0000.0000.0000.000
76B339LEU0-0.021-0.0072.336-5.000-1.4756.114-2.077-7.5620.012
77B340MET0-0.066-0.0152.586-4.012-0.0681.117-1.260-3.801-0.010
78B341MET0-0.008-0.0013.7450.4010.5870.0080.023-0.2160.000
79B342GLY00.0160.0105.6920.0960.0960.0000.0000.0000.000
80B343LEU0-0.028-0.0022.213-1.376-0.3982.865-0.775-3.0680.001
81B344MET0-0.020-0.0174.622-0.387-0.241-0.001-0.017-0.1280.000
82B345TRP00.0120.0107.743-0.038-0.0380.0000.0000.0000.000
83B346ARG10.8720.9572.405-5.303-3.7450.797-0.879-1.4750.011
84B347SER0-0.121-0.0537.931-0.027-0.0270.0000.0000.0000.000
85B348ILE00.0270.03210.4280.0140.0140.0000.0000.0000.000
86B349ASP-1-0.903-0.95812.6300.3070.3070.0000.0000.0000.000
87B350HIS0-0.047-0.02612.821-0.020-0.0200.0000.0000.0000.000
88B351PRO00.015-0.00912.5950.1170.1170.0000.0000.0000.000
89B352GLY0-0.015-0.00211.963-0.025-0.0250.0000.0000.0000.000
90B353LYS10.9140.9559.806-0.667-0.6670.0000.0000.0000.000
91B354LEU0-0.0120.0063.250-0.352-0.0180.023-0.059-0.2980.000
92B355ILE00.013-0.0227.0500.2020.2020.0000.0000.0000.000
93B356PHE00.0250.0131.972-3.711-0.9083.819-1.374-5.2480.006
94B357ALA00.019-0.0024.977-1.039-0.942-0.001-0.003-0.0940.000
95B358PRO0-0.012-0.0097.7390.1530.1530.0000.0000.0000.000
96B359ASP-1-0.802-0.88511.4600.0830.0830.0000.0000.0000.000
97B360LEU00.0020.0036.1870.0670.0670.0000.0000.0000.000
98B361VAL0-0.0040.0068.7920.3000.3000.0000.0000.0000.000
99B362LEU0-0.008-0.0075.615-0.021-0.0210.0000.0000.0000.000
100B363ASP-1-0.820-0.9289.2380.8190.8190.0000.0000.0000.000
101B364ARG10.8130.8659.749-0.948-0.9480.0000.0000.0000.000
102B365ASP-1-0.832-0.90210.3700.8750.8750.0000.0000.0000.000
103B366GLU-1-0.885-0.94110.2360.9400.9400.0000.0000.0000.000
104B367GLY00.0070.0067.9760.0980.0980.0000.0000.0000.000
105B368LYS10.7200.8318.664-0.607-0.6070.0000.0000.0000.000
106B369CYS0-0.0500.01010.278-0.092-0.0920.0000.0000.0000.000
107B370VAL00.0330.0015.583-0.183-0.1830.0000.0000.0000.000
108B371GLU-1-0.789-0.9067.9150.9260.9260.0000.0000.0000.000
109B372GLY00.0330.0116.9700.5300.5300.0000.0000.0000.000
110B373ILE00.0170.0153.068-1.6370.2220.191-0.487-1.5620.004
111B374LEU00.010-0.0065.357-0.224-0.114-0.001-0.001-0.1080.000
112B375GLU-1-0.829-0.9007.2221.4151.4150.0000.0000.0000.000
113B376ILE0-0.018-0.0012.541-2.056-0.4120.979-0.381-2.242-0.001
114B377PHE00.029-0.0063.388-1.164-0.2200.035-0.198-0.781-0.001
115B378ASP-1-0.802-0.8475.3861.0161.047-0.001-0.001-0.0300.000
116B379MET0-0.011-0.0027.136-0.194-0.1940.0000.0000.0000.000
117B380LEU00.0680.0312.672-0.971-0.3790.744-0.186-1.150-0.001
118B381LEU00.0250.0486.492-0.255-0.2550.0000.0000.0000.000
119B382ALA0-0.040-0.0218.709-0.180-0.1800.0000.0000.0000.000
120B383THR0-0.021-0.0359.573-0.149-0.1490.0000.0000.0000.000
121B384THR00.002-0.0168.464-0.090-0.0900.0000.0000.0000.000
122B385SER0-0.043-0.02410.757-0.120-0.1200.0000.0000.0000.000
123B386ARG10.9040.97314.032-0.638-0.6380.0000.0000.0000.000
124B387PHE00.0610.02011.606-0.070-0.0700.0000.0000.0000.000
125B388ARG10.8880.94613.511-0.632-0.6320.0000.0000.0000.000
126B389GLU-1-0.986-0.98916.4960.2380.2380.0000.0000.0000.000
127B390LEU00.003-0.00118.382-0.038-0.0380.0000.0000.0000.000
128B391LYS10.9490.97619.448-0.229-0.2290.0000.0000.0000.000
129B392LEU0-0.050-0.00513.984-0.035-0.0350.0000.0000.0000.000
130B393GLN0-0.016-0.01617.761-0.024-0.0240.0000.0000.0000.000
131B394HIS00.0860.03014.7160.0390.0390.0000.0000.0000.000
132B395LYS10.9740.97516.8230.0220.0220.0000.0000.0000.000
133B396GLU-1-0.761-0.84718.5940.0920.0920.0000.0000.0000.000
134B397TYR00.0330.0129.4100.0210.0210.0000.0000.0000.000
135B398LEU00.0010.00214.027-0.030-0.0300.0000.0000.0000.000
136B399CYS0-0.040-0.00315.698-0.039-0.0390.0000.0000.0000.000
137B400VAL00.0360.00713.524-0.015-0.0150.0000.0000.0000.000
138B401LYS10.9040.9739.5130.7030.7030.0000.0000.0000.000
139B402ALA00.0260.00613.076-0.043-0.0430.0000.0000.0000.000
140B403MET0-0.052-0.01015.8300.0110.0110.0000.0000.0000.000
141B404ILE0-0.014-0.00210.332-0.001-0.0010.0000.0000.0000.000
142B405LEU0-0.016-0.01713.301-0.003-0.0030.0000.0000.0000.000
143B406LEU0-0.017-0.02114.1190.0050.0050.0000.0000.0000.000
144B407ASN0-0.039-0.01516.6200.0130.0130.0000.0000.0000.000
145B408SER00.0460.01012.830-0.002-0.0020.0000.0000.0000.000
146B409SER00.0190.00415.1350.0290.0290.0000.0000.0000.000
147B410MET0-0.087-0.03517.2570.0110.0110.0000.0000.0000.000
148B411TYR00.0490.02820.176-0.006-0.0060.0000.0000.0000.000
149B412PRO00.0300.01321.945-0.014-0.0140.0000.0000.0000.000
150B413LEU0-0.046-0.01522.6640.0010.0010.0000.0000.0000.000
151B414VAL0-0.013-0.00123.1660.0080.0080.0000.0000.0000.000
152B415THR0-0.0210.00325.175-0.017-0.0170.0000.0000.0000.000
153B416ALA00.0680.03727.6960.0090.0090.0000.0000.0000.000
154B417THR00.0450.00229.685-0.003-0.0030.0000.0000.0000.000
155B418GLN0-0.032-0.01630.913-0.003-0.0030.0000.0000.0000.000
156B419ASP-1-0.786-0.87425.816-0.187-0.1870.0000.0000.0000.000
157B420ALA0-0.0030.00629.0570.0000.0000.0000.0000.0000.000
158B421ASP-1-0.834-0.92130.794-0.110-0.1100.0000.0000.0000.000
159B422SER00.0010.01525.478-0.006-0.0060.0000.0000.0000.000
160B423SER00.0400.01826.0600.0040.0040.0000.0000.0000.000
161B424ARG10.8010.87926.9700.1050.1050.0000.0000.0000.000
162B425LYS10.9050.96327.3960.1830.1830.0000.0000.0000.000
163B426LEU00.0530.03320.6250.0020.0020.0000.0000.0000.000
164B427ALA00.0190.00224.1650.0060.0060.0000.0000.0000.000
165B428HIS0-0.019-0.01126.1150.0110.0110.0000.0000.0000.000
166B429LEU0-0.0220.00822.4900.0080.0080.0000.0000.0000.000
167B430LEU00.0320.02319.8710.0010.0010.0000.0000.0000.000
168B431ASN00.0120.02022.8230.0250.0250.0000.0000.0000.000
169B432ALA00.0180.01625.4040.0070.0070.0000.0000.0000.000
170B433VAL00.004-0.00719.1650.0080.0080.0000.0000.0000.000
171B434THR0-0.050-0.05022.3740.0210.0210.0000.0000.0000.000
172B435ASP-1-0.891-0.94523.401-0.013-0.0130.0000.0000.0000.000
173B436ALA0-0.084-0.04623.0740.0080.0080.0000.0000.0000.000
174B437LEU00.0270.01919.7000.0080.0080.0000.0000.0000.000
175B438VAL00.0260.01222.7110.0160.0160.0000.0000.0000.000
176B439TRP0-0.007-0.01826.0900.0070.0070.0000.0000.0000.000
177B440VAL0-0.047-0.03921.9940.0040.0040.0000.0000.0000.000
178B441ILE0-0.0030.00322.6410.0110.0110.0000.0000.0000.000
179B442ALA00.0200.02525.8390.0080.0080.0000.0000.0000.000
180B443LYS10.8250.91528.1710.0240.0240.0000.0000.0000.000
181B444SER0-0.037-0.01526.4920.0030.0030.0000.0000.0000.000
182B445GLY0-0.017-0.01028.2350.0060.0060.0000.0000.0000.000
183B446ILE0-0.030-0.00227.4900.0020.0020.0000.0000.0000.000
184B447SER00.0710.02531.685-0.006-0.0060.0000.0000.0000.000
185B448SER00.0470.01132.2730.0050.0050.0000.0000.0000.000
186B449GLN00.018-0.00532.1550.0080.0080.0000.0000.0000.000
187B450GLN00.0060.00929.0780.0140.0140.0000.0000.0000.000
188B451GLN00.0270.01927.9650.0050.0050.0000.0000.0000.000
189B452SER0-0.0090.00327.1160.0050.0050.0000.0000.0000.000
190B453MET00.0040.00526.0880.0040.0040.0000.0000.0000.000
191B454ARG10.7390.84221.162-0.136-0.1360.0000.0000.0000.000
192B455LEU00.0430.01922.3440.0160.0160.0000.0000.0000.000
193B456ALA00.0170.00622.1010.0100.0100.0000.0000.0000.000
194B457ASN00.015-0.00320.8970.0310.0310.0000.0000.0000.000
195B458LEU0-0.022-0.01317.6590.0330.0330.0000.0000.0000.000
196B459LEU00.008-0.00217.1660.0200.0200.0000.0000.0000.000
197B460MET0-0.0220.00717.8700.0270.0270.0000.0000.0000.000
198B461LEU0-0.007-0.01614.2700.0520.0520.0000.0000.0000.000
199B462LEU00.0400.03112.9120.0670.0670.0000.0000.0000.000
200B463SER00.002-0.00112.9980.0450.0450.0000.0000.0000.000
201B464HIS0-0.084-0.03811.8570.0620.0620.0000.0000.0000.000
202B465VAL00.0380.0207.6330.1280.1280.0000.0000.0000.000
203B466ARG10.9951.0058.900-0.278-0.2780.0000.0000.0000.000
204B467HIS00.0160.01010.6420.0770.0770.0000.0000.0000.000
205B468ALA0-0.026-0.0196.2930.1820.1820.0000.0000.0000.000
206B469SER00.012-0.0255.6440.4430.4430.0000.0000.0000.000
207B470ASN0-0.020-0.0196.7100.3110.3110.0000.0000.0000.000
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