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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: X18ZP

Calculation Name: 1U3Q-C-Xray11

Preferred Name: Estrogen receptor beta

Target Type: SINGLE PROTEIN

Ligand Name: 4-(6-hydroxy-benzo[d]isoxazol-3-yl)benzene-1,3-diol

ligand 3-letter code: 272

PDB ID: 1U3Q

Chain ID: C

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 -3032500.009154
FMO2-HF: Nuclear repulsion 2936100.679154
FMO2-HF: Total energy -96399.33
FMO2-MP2: Total energy -96669.646505


3D Structure
Snapshot
 
Ligand structure

272

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.
-113.931-98.80372.440-35.567-51.9990.095


Interactive mode: IFIE and PIEDA for fragment #235(C:501:272)


Summations of interaction energy for fragment #235(C:501:272)
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.
-113.931-98.80372.44-35.567-51.999-0.095
Interaction energy analysis for fragmet #235(C:501:272)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : -0.093 / q_NPA : -0.122
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].
1C264SER10.8580.91729.6940.0130.0130.0000.0000.0000.000
2C265PRO00.1840.07126.443-0.022-0.0220.0000.0000.0000.000
3C266GLU-1-0.927-0.95025.4260.0180.0180.0000.0000.0000.000
4C267GLN00.035-0.01725.911-0.006-0.0060.0000.0000.0000.000
5C268LEU00.0240.02921.474-0.027-0.0270.0000.0000.0000.000
6C269VAL00.0440.01920.571-0.021-0.0210.0000.0000.0000.000
7C270LEU0-0.048-0.00420.790-0.025-0.0250.0000.0000.0000.000
8C271THR00.009-0.00521.261-0.032-0.0320.0000.0000.0000.000
9C272LEU0-0.052-0.02317.132-0.059-0.0590.0000.0000.0000.000
10C273LEU0-0.028-0.01716.538-0.048-0.0480.0000.0000.0000.000
11C274GLU-1-0.950-0.97817.031-0.333-0.3330.0000.0000.0000.000
12C275ALA0-0.073-0.04416.016-0.086-0.0860.0000.0000.0000.000
13C276GLU-1-0.794-0.87911.293-0.771-0.7710.0000.0000.0000.000
14C277PRO0-0.083-0.0208.861-0.062-0.0620.0000.0000.0000.000
15C278PRO0-0.005-0.00510.3160.0740.0740.0000.0000.0000.000
16C279HIS00.0360.0048.050-0.623-0.6230.0000.0000.0000.000
17C280VAL00.0160.0215.6270.4720.4720.0000.0000.0000.000
18C281LEU0-0.046-0.0237.6310.2250.2250.0000.0000.0000.000
19C282ILE0-0.054-0.0406.615-0.214-0.2140.0000.0000.0000.000
20C283SER00.0450.0279.7700.2060.2060.0000.0000.0000.000
21C284ARG10.8230.89411.792-0.783-0.7830.0000.0000.0000.000
22C285PRO00.0010.01212.394-0.075-0.0750.0000.0000.0000.000
23C286SER00.001-0.00515.2660.0720.0720.0000.0000.0000.000
24C287ALA0-0.005-0.01817.995-0.012-0.0120.0000.0000.0000.000
25C288PRO0-0.034-0.00616.9330.0270.0270.0000.0000.0000.000
26C289PHE00.0370.01410.673-0.026-0.0260.0000.0000.0000.000
27C290THR00.0200.02113.5630.0230.0230.0000.0000.0000.000
28C291GLU-1-0.823-0.9349.087-0.496-0.4960.0000.0000.0000.000
29C292ALA00.0330.0189.000-0.036-0.0360.0000.0000.0000.000
30C293SER0-0.0130.0009.506-0.048-0.0480.0000.0000.0000.000
31C294MET00.0020.0176.933-0.111-0.1110.0000.0000.0000.000
32C295MET00.0690.0422.736-2.134-0.4390.509-0.644-1.5600.008
33C296MET0-0.0180.0575.089-0.873-0.736-0.001-0.003-0.1320.000
34C297SER00.006-0.0277.629-0.587-0.5870.0000.0000.0000.000
35C298LEU0-0.010-0.0112.396-3.657-1.0481.040-0.888-2.7610.006
36C299THR00.050-0.0063.210-5.968-4.1930.090-0.748-1.116-0.006
37C300LYS10.9450.9925.1021.3191.459-0.001-0.011-0.1280.000
38C301LEU0-0.055-0.0292.178-1.0600.7041.635-0.896-2.5020.004
39C302ALA00.0440.0092.418-4.368-2.2031.118-1.210-2.073-0.003
40C303ASP-1-0.871-0.9383.209-0.917-1.1020.0760.253-0.1440.000
41C304LYS10.9250.9506.6283.3543.3540.0000.0000.0000.000
42C305GLU-1-0.814-0.8761.452-49.147-65.23937.964-16.678-5.194-0.117
43C306LEU00.0040.0025.6181.4391.4390.0000.0000.0000.000
44C307VAL00.0190.0247.9950.7710.7710.0000.0000.0000.000
45C308HIS0-0.003-0.0087.7560.7620.7620.0000.0000.0000.000
46C309MET0-0.0280.0166.8240.5970.5970.0000.0000.0000.000
47C310ILE00.0540.0389.8750.4590.4590.0000.0000.0000.000
48C311SER0-0.078-0.05512.9570.2650.2650.0000.0000.0000.000
49C312TRP0-0.028-0.01711.5500.1440.1440.0000.0000.0000.000
50C313ALA00.0430.01113.7100.1660.1660.0000.0000.0000.000
51C314LYS10.9340.95815.4240.7490.7490.0000.0000.0000.000
52C315LYS10.9180.97616.6080.7970.7970.0000.0000.0000.000
53C316ILE0-0.0180.00815.4230.0760.0760.0000.0000.0000.000
54C317PRO0-0.011-0.02019.5120.0090.0090.0000.0000.0000.000
55C318GLY00.0760.03723.3460.0340.0340.0000.0000.0000.000
56C319PHE0-0.0010.00117.4180.0060.0060.0000.0000.0000.000
57C320VAL0-0.004-0.01521.287-0.002-0.0020.0000.0000.0000.000
58C321GLU-1-0.989-0.99423.047-0.172-0.1720.0000.0000.0000.000
59C322LEU0-0.072-0.00621.6770.0300.0300.0000.0000.0000.000
60C323SER0-0.017-0.03825.395-0.038-0.0380.0000.0000.0000.000
61C324LEU00.0520.00023.615-0.007-0.0070.0000.0000.0000.000
62C325PHE00.023-0.00622.444-0.031-0.0310.0000.0000.0000.000
63C326ASP-1-0.746-0.80622.518-0.073-0.0730.0000.0000.0000.000
64C327GLN0-0.075-0.03619.525-0.039-0.0390.0000.0000.0000.000
65C328VAL00.0380.01117.600-0.040-0.0400.0000.0000.0000.000
66C329ARG10.9300.98217.5690.0410.0410.0000.0000.0000.000
67C330LEU0-0.033-0.02817.4970.0680.0680.0000.0000.0000.000
68C331LEU0-0.001-0.00112.5240.0520.0520.0000.0000.0000.000
69C332GLU-1-0.906-0.96512.933-0.346-0.3460.0000.0000.0000.000
70C333SER0-0.051-0.01613.4360.1730.1730.0000.0000.0000.000
71C334CYS0-0.050-0.02011.9360.1420.1420.0000.0000.0000.000
72C335TRP00.0680.0194.9300.3870.3870.0000.0000.0000.000
73C336MET00.0430.0304.070-1.5050.6780.324-0.515-1.9930.003
74C337GLU-1-0.819-0.9045.4442.8442.968-0.001-0.007-0.1170.000
75C338VAL0-0.036-0.0267.0250.3260.3260.0000.0000.0000.000
76C339LEU0-0.027-0.0042.603-2.881-0.0422.108-1.306-3.6410.007
77C340MET0-0.0270.0012.343-6.020-2.3664.123-1.995-5.7820.001
78C341MET00.0270.0253.850-0.702-0.5410.006-0.001-0.1650.000
79C342GLY0-0.002-0.0015.256-0.297-0.2970.0000.0000.0000.000
80C343LEU0-0.030-0.0161.966-2.321-1.5194.794-1.432-4.1640.011
81C344MET0-0.049-0.0183.935-0.980-0.7050.003-0.077-0.2010.000
82C345TRP00.0030.0067.248-0.335-0.3350.0000.0000.0000.000
83C346ARG10.8080.9022.532-2.754-1.1730.465-0.724-1.3210.009
84C347SER0-0.019-0.0207.144-0.117-0.1170.0000.0000.0000.000
85C348ILE00.0040.0239.8160.0010.0010.0000.0000.0000.000
86C349ASP-1-0.934-0.95312.4950.7050.7050.0000.0000.0000.000
87C350HIS0-0.061-0.02612.298-0.156-0.1560.0000.0000.0000.000
88C351PRO0-0.007-0.02013.7930.2490.2490.0000.0000.0000.000
89C352GLY0-0.0030.00214.433-0.111-0.1110.0000.0000.0000.000
90C353LYS10.9430.98512.263-1.014-1.0140.0000.0000.0000.000
91C354LEU00.0180.0166.0020.1770.1770.0000.0000.0000.000
92C355ILE0-0.021-0.0198.049-0.254-0.2540.0000.0000.0000.000
93C356PHE00.0530.0292.969-5.179-1.1711.401-1.127-4.2820.013
94C357ALA00.0310.0134.726-1.915-1.779-0.001-0.011-0.1250.000
95C358PRO0-0.039-0.0177.4820.4390.4390.0000.0000.0000.000
96C359ASP-1-0.914-0.95810.946-0.047-0.0470.0000.0000.0000.000
97C360LEU0-0.062-0.0186.658-0.039-0.0390.0000.0000.0000.000
98C361VAL0-0.023-0.0238.9730.4530.4530.0000.0000.0000.000
99C362LEU0-0.024-0.0028.186-0.230-0.2300.0000.0000.0000.000
100C363ASP-1-0.867-0.95011.3471.3951.3950.0000.0000.0000.000
101C364ARG10.9560.98611.434-1.304-1.3040.0000.0000.0000.000
102C365ASP-1-0.915-0.97011.8251.1191.1190.0000.0000.0000.000
103C366GLU-1-0.767-0.86412.4150.8770.8770.0000.0000.0000.000
104C367GLY00.0260.0029.495-0.022-0.0220.0000.0000.0000.000
105C368LYS10.8370.9199.605-1.024-1.0240.0000.0000.0000.000
106C369CYS0-0.055-0.02111.354-0.161-0.1610.0000.0000.0000.000
107C370VAL0-0.009-0.0055.185-0.178-0.1780.0000.0000.0000.000
108C371GLU-1-0.913-0.9548.368-0.314-0.3140.0000.0000.0000.000
109C372GLY00.011-0.0067.078-0.607-0.6070.0000.0000.0000.000
110C373ILE0-0.0150.0023.334-1.441-0.0810.216-0.456-1.1190.004
111C374LEU0-0.024-0.0225.8691.5021.5020.0000.0000.0000.000
112C375GLU-1-0.898-0.9508.5831.2261.2260.0000.0000.0000.000
113C376ILE0-0.0050.0042.512-1.750-0.2590.926-0.512-1.9040.006
114C377PHE00.004-0.0014.4030.7901.2420.000-0.041-0.4120.000
115C378ASP-1-0.814-0.9097.1561.8421.8420.0000.0000.0000.000
116C379MET0-0.041-0.0107.5220.0700.0700.0000.0000.0000.000
117C380LEU00.0370.0132.885-2.098-0.7090.222-0.361-1.2490.003
118C381LEU00.0150.0247.545-0.758-0.7580.0000.0000.0000.000
119C382ALA00.0010.00310.494-0.469-0.4690.0000.0000.0000.000
120C383THR00.002-0.0149.804-0.452-0.4520.0000.0000.0000.000
121C384THR00.006-0.0138.888-0.308-0.3080.0000.0000.0000.000
122C385SER0-0.051-0.03511.366-0.412-0.4120.0000.0000.0000.000
123C386ARG10.9220.97114.443-1.242-1.2420.0000.0000.0000.000
124C387PHE00.0350.00111.138-0.238-0.2380.0000.0000.0000.000
125C388ARG10.9150.95813.795-1.603-1.6030.0000.0000.0000.000
126C389GLU-1-0.961-0.97116.3890.6630.6630.0000.0000.0000.000
127C390LEU0-0.087-0.03617.957-0.114-0.1140.0000.0000.0000.000
128C391LYS10.9520.96518.873-0.627-0.6270.0000.0000.0000.000
129C392LEU0-0.050-0.00912.820-0.081-0.0810.0000.0000.0000.000
130C393GLN00.000-0.00416.982-0.076-0.0760.0000.0000.0000.000
131C394HIS00.0600.01714.8390.1000.1000.0000.0000.0000.000
132C395LYS10.9710.97116.153-0.101-0.1010.0000.0000.0000.000
133C396GLU-1-0.745-0.84817.6090.4600.4600.0000.0000.0000.000
134C397TYR00.0380.0268.9170.0400.0400.0000.0000.0000.000
135C398LEU00.0080.01413.3700.0090.0090.0000.0000.0000.000
136C399CYS0-0.061-0.01915.062-0.066-0.0660.0000.0000.0000.000
137C400VAL00.012-0.01012.736-0.011-0.0110.0000.0000.0000.000
138C401LYS10.8540.9018.9190.6550.6550.0000.0000.0000.000
139C402ALA00.0100.00812.397-0.043-0.0430.0000.0000.0000.000
140C403MET0-0.031-0.01615.344-0.025-0.0250.0000.0000.0000.000
141C404ILE0-0.0150.00010.463-0.009-0.0090.0000.0000.0000.000
142C405LEU00.0150.00313.4570.0030.0030.0000.0000.0000.000
143C406LEU0-0.024-0.01414.769-0.005-0.0050.0000.0000.0000.000
144C407ASN00.009-0.00617.412-0.079-0.0790.0000.0000.0000.000
145C408SER0-0.054-0.01114.6020.0340.0340.0000.0000.0000.000
146C409SER0-0.0320.00116.4890.0500.0500.0000.0000.0000.000
147C410MET00.0150.00719.3570.0110.0110.0000.0000.0000.000
148C411TYR0-0.024-0.01720.743-0.028-0.0280.0000.0000.0000.000
149C412PRO00.0080.02022.844-0.017-0.0170.0000.0000.0000.000
150C413LEU00.0330.01225.104-0.004-0.0040.0000.0000.0000.000
151C414VAL0-0.002-0.00426.8550.0220.0220.0000.0000.0000.000
152C415THR0-0.015-0.02529.540-0.009-0.0090.0000.0000.0000.000
153C416ALA00.0210.03228.971-0.008-0.0080.0000.0000.0000.000
154C417THR0-0.035-0.01831.0770.0210.0210.0000.0000.0000.000
155C418GLN00.0430.01533.883-0.010-0.0100.0000.0000.0000.000
156C419ASP-1-0.842-0.92635.901-0.037-0.0370.0000.0000.0000.000
157C420ALA0-0.0120.01833.250-0.009-0.0090.0000.0000.0000.000
158C421ASP-1-0.846-0.92731.866-0.076-0.0760.0000.0000.0000.000
159C422SER0-0.023-0.04426.6190.0080.0080.0000.0000.0000.000
160C423SER00.0200.01127.4840.0120.0120.0000.0000.0000.000
161C424ARG10.8610.90228.1110.0330.0330.0000.0000.0000.000
162C425LYS10.8980.96127.6900.1050.1050.0000.0000.0000.000
163C426LEU00.0550.03921.513-0.001-0.0010.0000.0000.0000.000
164C427ALA0-0.002-0.00224.8990.0210.0210.0000.0000.0000.000
165C428HIS0-0.033-0.02326.8810.0280.0280.0000.0000.0000.000
166C429LEU0-0.004-0.01022.2290.0090.0090.0000.0000.0000.000
167C430LEU0-0.0040.00319.8070.0050.0050.0000.0000.0000.000
168C431ASN0-0.0400.00123.0160.0280.0280.0000.0000.0000.000
169C432ALA00.0690.03425.2250.0130.0130.0000.0000.0000.000
170C433VAL0-0.019-0.00918.9390.0010.0010.0000.0000.0000.000
171C434THR0-0.028-0.02722.1300.0460.0460.0000.0000.0000.000
172C435ASP-1-0.901-0.96023.3560.1490.1490.0000.0000.0000.000
173C436ALA0-0.080-0.03622.322-0.004-0.0040.0000.0000.0000.000
174C437LEU00.0120.01119.2480.0070.0070.0000.0000.0000.000
175C438VAL00.0250.01822.2610.0130.0130.0000.0000.0000.000
176C439TRP00.0160.00925.1710.0030.0030.0000.0000.0000.000
177C440VAL0-0.020-0.01521.258-0.007-0.0070.0000.0000.0000.000
178C441ILE0-0.0030.00122.2480.0090.0090.0000.0000.0000.000
179C442ALA00.0090.01724.9790.0010.0010.0000.0000.0000.000
180C443LYS10.8210.91926.600-0.131-0.1310.0000.0000.0000.000
181C444SER0-0.067-0.04325.763-0.007-0.0070.0000.0000.0000.000
182C445GLY00.0020.00627.7680.0000.0000.0000.0000.0000.000
183C446ILE0-0.0330.00126.850-0.001-0.0010.0000.0000.0000.000
184C447SER00.0330.00031.004-0.013-0.0130.0000.0000.0000.000
185C448SER00.0480.02231.5580.0140.0140.0000.0000.0000.000
186C449GLN00.028-0.00232.0390.0310.0310.0000.0000.0000.000
187C450GLN00.017-0.00728.9830.0050.0050.0000.0000.0000.000
188C451GLN00.0180.01627.6290.0310.0310.0000.0000.0000.000
189C452SER00.0260.01426.7730.0170.0170.0000.0000.0000.000
190C453MET0-0.0170.00226.6660.0370.0370.0000.0000.0000.000
191C454ARG10.7700.87120.289-0.480-0.4800.0000.0000.0000.000
192C455LEU00.0400.02622.0990.0550.0550.0000.0000.0000.000
193C456ALA00.0120.00321.9810.0470.0470.0000.0000.0000.000
194C457ASN0-0.037-0.03221.0480.0750.0750.0000.0000.0000.000
195C458LEU0-0.016-0.00717.2550.1060.1060.0000.0000.0000.000
196C459LEU00.0340.00717.0500.1120.1120.0000.0000.0000.000
197C460MET0-0.0110.00018.2960.0530.0530.0000.0000.0000.000
198C461LEU0-0.045-0.01714.5010.0760.0760.0000.0000.0000.000
199C462LEU00.0340.01813.6570.2750.2750.0000.0000.0000.000
200C463SER00.0140.01213.7300.1150.1150.0000.0000.0000.000
201C464HIS0-0.025-0.00612.5630.1670.1670.0000.0000.0000.000
202C465VAL00.0260.0118.3700.3840.3840.0000.0000.0000.000
203C466ARG10.8840.9308.915-0.461-0.4610.0000.0000.0000.000
204C467HIS0-0.059-0.03510.271-0.086-0.0860.0000.0000.0000.000
205C468ALA00.0270.0045.984-0.128-0.1280.0000.0000.0000.000
206C469SER00.031-0.0025.6611.0291.0290.0000.0000.0000.000
207C470ASN00.0220.0106.849-0.215-0.2150.0000.0000.0000.000
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