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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: XNJQX

Calculation Name: 3OLL-A-Xray11

Preferred Name: Estrogen receptor beta

Target Type: SINGLE PROTEIN

Ligand Name: o-phosphotyrosine

ligand 3-letter code: PTR

PDB ID: 3OLL

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 -3066659.473117
FMO2-HF: Nuclear repulsion 2970263.556486
FMO2-HF: Total energy -96395.916631
FMO2-MP2: Total energy -96666.50871


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.
-87.039-65.96873.413-26.802-67.6850.085


Interactive mode: IFIE and PIEDA for fragment #235(C:600:EST)


Summations of interaction energy for fragment #235(C: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.
-87.039-65.96873.413-26.802-67.685-0.085
Interaction energy analysis for fragmet #235(C:600:EST)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : -0.083 / q_NPA : -0.083
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].
1C264SER10.8180.89830.356-0.067-0.0670.0000.0000.0000.000
2C265PRO00.1480.05726.055-0.006-0.0060.0000.0000.0000.000
3C266GLU-1-0.802-0.87124.9120.1070.1070.0000.0000.0000.000
4C267GLN00.0400.00624.3750.0050.0050.0000.0000.0000.000
5C268LEU0-0.0150.02922.121-0.005-0.0050.0000.0000.0000.000
6C269VAL00.019-0.01320.4300.0060.0060.0000.0000.0000.000
7C270LEU0-0.081-0.02219.9390.0100.0100.0000.0000.0000.000
8C271THR00.0480.00720.250-0.009-0.0090.0000.0000.0000.000
9C272LEU00.008-0.00616.706-0.008-0.0080.0000.0000.0000.000
10C273LEU0-0.034-0.02015.6970.0120.0120.0000.0000.0000.000
11C274GLU-1-0.875-0.94316.2080.0060.0060.0000.0000.0000.000
12C275ALA00.0410.01615.563-0.030-0.0300.0000.0000.0000.000
13C276GLU-1-0.775-0.83610.5690.1430.1430.0000.0000.0000.000
14C277PRO0-0.0220.0038.146-0.007-0.0070.0000.0000.0000.000
15C278PRO0-0.039-0.02410.3000.0590.0590.0000.0000.0000.000
16C279HIS0-0.025-0.0086.340-0.274-0.2740.0000.0000.0000.000
17C280VAL0-0.043-0.0195.5530.4750.4750.0000.0000.0000.000
18C281LEU00.0050.0056.660-0.059-0.0590.0000.0000.0000.000
19C282ILE0-0.006-0.0126.087-0.075-0.0750.0000.0000.0000.000
20C283SER00.009-0.0039.1140.1240.1240.0000.0000.0000.000
21C284ARG10.7790.85410.384-0.262-0.2620.0000.0000.0000.000
22C285PRO0-0.0020.01211.116-0.046-0.0460.0000.0000.0000.000
23C286SER0-0.017-0.00113.9440.0080.0080.0000.0000.0000.000
24C287ALA0-0.017-0.01716.213-0.004-0.0040.0000.0000.0000.000
25C288PRO00.0180.00715.9010.0120.0120.0000.0000.0000.000
26C289PHE00.0050.0109.6680.0040.0040.0000.0000.0000.000
27C290THR0-0.002-0.01611.722-0.022-0.0220.0000.0000.0000.000
28C291GLU-1-0.710-0.8557.839-0.788-0.7880.0000.0000.0000.000
29C292ALA00.0690.0308.0680.0800.0800.0000.0000.0000.000
30C293SER0-0.034-0.0119.2190.1070.1070.0000.0000.0000.000
31C294MET00.0180.0226.018-0.010-0.0100.0000.0000.0000.000
32C295MET00.0400.0292.463-4.662-2.3701.591-1.271-2.6120.016
33C296MET00.0130.0364.8690.2830.449-0.001-0.003-0.1620.000
34C297SER0-0.009-0.0177.036-0.149-0.1490.0000.0000.0000.000
35C298LEU00.0090.0052.264-3.380-0.9772.845-0.845-4.4030.000
36C299THR0-0.006-0.0312.438-7.089-3.9593.286-1.947-4.469-0.030
37C300LYS10.8380.9093.729-0.552-0.3660.0060.041-0.2340.000
38C301LEU0-0.0120.0162.276-1.436-0.1001.641-0.613-2.3650.003
39C302ALA00.0270.0082.322-2.985-1.0963.040-1.479-3.4490.005
40C303ASP-1-0.793-0.8963.559-0.0640.0440.0720.136-0.3150.001
41C304LYS10.7810.8716.7520.3480.3480.0000.0000.0000.000
42C305GLU-1-0.749-0.8481.654-24.974-30.99414.777-5.315-3.443-0.056
43C306LEU00.0280.0185.7160.5920.5920.0000.0000.0000.000
44C307VAL00.0030.0068.1560.1130.1130.0000.0000.0000.000
45C308HIS0-0.009-0.0108.3470.2560.2560.0000.0000.0000.000
46C309MET0-0.0140.0196.7670.1260.1260.0000.0000.0000.000
47C310ILE00.0380.0119.6570.1010.1010.0000.0000.0000.000
48C311SER0-0.079-0.05312.5790.0550.0550.0000.0000.0000.000
49C312TRP00.0110.02111.3380.0220.0220.0000.0000.0000.000
50C313ALA00.0540.01613.2940.0270.0270.0000.0000.0000.000
51C314LYS10.8690.91815.4480.1060.1060.0000.0000.0000.000
52C315LYS10.7700.90714.7840.0910.0910.0000.0000.0000.000
53C316ILE0-0.0120.00915.6730.0050.0050.0000.0000.0000.000
54C317PRO00.003-0.00420.0250.0020.0020.0000.0000.0000.000
55C318GLY0-0.027-0.02923.0900.0100.0100.0000.0000.0000.000
56C319PHE0-0.003-0.01817.2250.0100.0100.0000.0000.0000.000
57C320VAL0-0.011-0.00320.664-0.001-0.0010.0000.0000.0000.000
58C321GLU-1-0.851-0.91622.7680.0490.0490.0000.0000.0000.000
59C322LEU0-0.0370.00221.761-0.001-0.0010.0000.0000.0000.000
60C323SER0-0.036-0.05125.446-0.006-0.0060.0000.0000.0000.000
61C324LEU00.0100.00622.8980.0050.0050.0000.0000.0000.000
62C325PHE00.0310.01421.1300.0050.0050.0000.0000.0000.000
63C326ASP-1-0.763-0.84621.0030.0950.0950.0000.0000.0000.000
64C327GLN0-0.044-0.02219.6690.0130.0130.0000.0000.0000.000
65C328VAL0-0.0140.00116.5270.0130.0130.0000.0000.0000.000
66C329ARG10.8740.93316.193-0.063-0.0630.0000.0000.0000.000
67C330LEU00.0000.00316.6250.0180.0180.0000.0000.0000.000
68C331LEU00.0130.01412.1360.0420.0420.0000.0000.0000.000
69C332GLU-1-0.913-0.97312.0350.2680.2680.0000.0000.0000.000
70C333SER0-0.056-0.02711.8840.0250.0250.0000.0000.0000.000
71C334CYS0-0.038-0.01110.971-0.002-0.0020.0000.0000.0000.000
72C335TRP00.0550.0104.692-0.0230.241-0.001-0.006-0.2570.000
73C336MET0-0.0030.0132.557-1.330-0.5653.084-0.597-3.2520.000
74C337GLU-1-0.773-0.8894.3630.5770.7500.000-0.020-0.1530.000
75C338VAL0-0.031-0.0166.5860.1910.1910.0000.0000.0000.000
76C339LEU0-0.019-0.0012.691-4.133-0.9932.450-1.358-4.2310.012
77C340MET0-0.0280.0092.220-2.1280.4154.902-1.556-5.889-0.009
78C341MET00.0120.0033.539-0.0840.0150.0070.105-0.2110.000
79C342GLY0-0.0060.0024.997-0.485-0.420-0.001-0.006-0.0590.000
80C343LEU00.0060.0132.348-3.976-2.1423.926-1.312-4.4480.006
81C344MET0-0.0210.0024.288-1.273-1.0570.001-0.049-0.1680.000
82C345TRP0-0.036-0.0177.159-0.301-0.3010.0000.0000.0000.000
83C346ARG10.7380.8252.3522.9084.0510.386-0.570-0.9600.001
84C347SER00.009-0.0097.448-0.129-0.1290.0000.0000.0000.000
85C348ILE00.0060.01610.072-0.125-0.1250.0000.0000.0000.000
86C349ASP-1-0.871-0.94312.8400.3330.3330.0000.0000.0000.000
87C350HIS0-0.052-0.02412.583-0.067-0.0670.0000.0000.0000.000
88C351PRO0-0.029-0.01813.6700.0410.0410.0000.0000.0000.000
89C352GLY0-0.0020.00013.412-0.009-0.0090.0000.0000.0000.000
90C353LYS10.8170.88711.135-0.358-0.3580.0000.0000.0000.000
91C354LEU0-0.0180.0024.9240.0030.0030.0000.0000.0000.000
92C355ILE00.0070.0028.239-0.034-0.0340.0000.0000.0000.000
93C356PHE00.0230.0002.171-4.877-1.2983.348-1.311-5.6160.012
94C357ALA00.0420.0275.016-1.424-1.309-0.001-0.008-0.1060.000
95C358PRO0-0.019-0.0147.8360.1990.1990.0000.0000.0000.000
96C359ASP-1-0.880-0.93811.402-0.064-0.0640.0000.0000.0000.000
97C360LEU0-0.057-0.0256.074-0.010-0.0100.0000.0000.0000.000
98C361VAL00.0290.0268.6820.3510.3510.0000.0000.0000.000
99C362LEU0-0.018-0.0056.332-0.175-0.1750.0000.0000.0000.000
100C363ASP-1-0.800-0.8919.9980.3900.3900.0000.0000.0000.000
101C364ARG10.8070.85110.006-0.018-0.0180.0000.0000.0000.000
102C365ASP-1-0.801-0.88810.534-0.145-0.1450.0000.0000.0000.000
103C366GLU-1-0.754-0.84210.5740.2020.2020.0000.0000.0000.000
104C367GLY00.0270.0137.829-0.073-0.0730.0000.0000.0000.000
105C368LYS10.8150.8798.434-0.099-0.0990.0000.0000.0000.000
106C369CYS0-0.102-0.0389.8330.0020.0020.0000.0000.0000.000
107C370VAL0-0.012-0.0054.577-0.0900.032-0.001-0.004-0.1170.000
108C371GLU-1-0.763-0.8667.330-1.356-1.3560.0000.0000.0000.000
109C372GLY00.0200.0056.058-0.767-0.7670.0000.0000.0000.000
110C373ILE0-0.0090.0042.249-1.539-0.5832.833-0.486-3.3040.002
111C374LEU0-0.0050.0024.5510.3900.502-0.001-0.006-0.1060.000
112C375GLU-1-0.838-0.9067.617-0.353-0.3530.0000.0000.0000.000
113C376ILE00.0160.0032.354-1.311-0.3362.225-0.455-2.7440.001
114C377PHE0-0.001-0.0103.926-0.0530.4820.002-0.052-0.4840.000
115C378ASP-1-0.746-0.8366.5940.1990.1990.0000.0000.0000.000
116C379MET0-0.014-0.0048.4580.0870.0870.0000.0000.0000.000
117C380LEU00.0400.0283.060-0.7310.0760.132-0.158-0.781-0.001
118C381LEU00.0200.0267.2990.0470.0470.0000.0000.0000.000
119C382ALA0-0.0130.00810.055-0.030-0.0300.0000.0000.0000.000
120C383THR0-0.010-0.0239.363-0.044-0.0440.0000.0000.0000.000
121C384THR0-0.015-0.0268.6630.0460.0460.0000.0000.0000.000
122C385SER0-0.051-0.02611.120-0.065-0.0650.0000.0000.0000.000
123C386ARG10.8820.93414.376-0.234-0.2340.0000.0000.0000.000
124C387PHE00.039-0.0059.881-0.061-0.0610.0000.0000.0000.000
125C388ARG10.8430.92813.595-0.486-0.4860.0000.0000.0000.000
126C389GLU-1-0.897-0.94616.9800.1870.1870.0000.0000.0000.000
127C390LEU0-0.026-0.01717.567-0.033-0.0330.0000.0000.0000.000
128C391LYS10.8670.95319.257-0.203-0.2030.0000.0000.0000.000
129C392LEU0-0.0140.02113.434-0.030-0.0300.0000.0000.0000.000
130C393GLN0-0.013-0.02117.349-0.003-0.0030.0000.0000.0000.000
131C394HIS00.0820.04113.1880.0500.0500.0000.0000.0000.000
132C395LYS10.8820.91816.160-0.105-0.1050.0000.0000.0000.000
133C396GLU-1-0.741-0.83317.6990.2160.2160.0000.0000.0000.000
134C397TYR00.003-0.0189.1620.0520.0520.0000.0000.0000.000
135C398LEU0-0.0110.01213.1560.0370.0370.0000.0000.0000.000
136C399CYS0-0.045-0.01514.850-0.010-0.0100.0000.0000.0000.000
137C400VAL00.0230.00112.681-0.007-0.0070.0000.0000.0000.000
138C401LYS10.8190.8928.252-0.362-0.3620.0000.0000.0000.000
139C402ALA00.0080.00512.233-0.005-0.0050.0000.0000.0000.000
140C403MET0-0.028-0.01815.455-0.019-0.0190.0000.0000.0000.000
141C404ILE0-0.013-0.0049.932-0.019-0.0190.0000.0000.0000.000
142C405LEU0-0.027-0.00813.638-0.009-0.0090.0000.0000.0000.000
143C406LEU0-0.018-0.01314.831-0.039-0.0390.0000.0000.0000.000
144C407ASN0-0.0110.00016.616-0.040-0.0400.0000.0000.0000.000
145C408SER00.019-0.00316.1030.0260.0260.0000.0000.0000.000
146C409SER0-0.032-0.01118.407-0.018-0.0180.0000.0000.0000.000
147C410MET00.0160.03320.542-0.001-0.0010.0000.0000.0000.000
148C411TYR00.0130.03423.180-0.007-0.0070.0000.0000.0000.000
149C412PRO00.0320.00425.9880.0030.0030.0000.0000.0000.000
150C413LEU00.0320.01923.666-0.003-0.0030.0000.0000.0000.000
151C414VAL0-0.0100.00027.960-0.001-0.0010.0000.0000.0000.000
152C415THR00.0220.01325.9190.0020.0020.0000.0000.0000.000
153C416ALA00.0240.01228.773-0.004-0.0040.0000.0000.0000.000
154C417THR0-0.032-0.01130.7370.0000.0000.0000.0000.0000.000
155C418GLN0-0.016-0.01927.0530.0060.0060.0000.0000.0000.000
156C419ASP-1-0.706-0.85328.7970.0500.0500.0000.0000.0000.000
157C420ALA00.0220.00530.5140.0040.0040.0000.0000.0000.000
158C421ASP-1-0.849-0.93531.5940.0490.0490.0000.0000.0000.000
159C422SER0-0.023-0.01026.0360.0050.0050.0000.0000.0000.000
160C423SER00.021-0.03126.3570.0020.0020.0000.0000.0000.000
161C424ARG10.7620.88727.442-0.045-0.0450.0000.0000.0000.000
162C425LYS10.8390.91126.838-0.052-0.0520.0000.0000.0000.000
163C426LEU00.0300.03121.1240.0030.0030.0000.0000.0000.000
164C427ALA0-0.004-0.00224.3990.0080.0080.0000.0000.0000.000
165C428HIS0-0.019-0.00726.6410.0030.0030.0000.0000.0000.000
166C429LEU00.0020.00920.6030.0030.0030.0000.0000.0000.000
167C430LEU00.0100.00520.4380.0110.0110.0000.0000.0000.000
168C431ASN0-0.0180.00922.7810.0130.0130.0000.0000.0000.000
169C432ALA00.0550.03325.0200.0070.0070.0000.0000.0000.000
170C433VAL00.002-0.01418.5900.0000.0000.0000.0000.0000.000
171C434THR00.001-0.01121.3980.0200.0200.0000.0000.0000.000
172C435ASP-1-0.917-0.96822.7370.0970.0970.0000.0000.0000.000
173C436ALA0-0.084-0.04522.418-0.004-0.0040.0000.0000.0000.000
174C437LEU00.0220.01518.4540.0010.0010.0000.0000.0000.000
175C438VAL00.0140.00821.7910.0000.0000.0000.0000.0000.000
176C439TRP00.030-0.00125.152-0.006-0.0060.0000.0000.0000.000
177C440VAL0-0.010-0.00921.191-0.009-0.0090.0000.0000.0000.000
178C441ILE00.0120.01721.452-0.004-0.0040.0000.0000.0000.000
179C442ALA0-0.0110.00324.578-0.005-0.0050.0000.0000.0000.000
180C443LYS10.7800.90225.203-0.113-0.1130.0000.0000.0000.000
181C444SER0-0.049-0.03225.621-0.003-0.0030.0000.0000.0000.000
182C445GLY0-0.0100.00027.682-0.003-0.0030.0000.0000.0000.000
183C446ILE0-0.0210.00226.863-0.007-0.0070.0000.0000.0000.000
184C447SER00.0310.00931.1510.0000.0000.0000.0000.0000.000
185C448SER00.0730.03431.3140.0070.0070.0000.0000.0000.000
186C449GLN00.0730.03030.9000.0040.0040.0000.0000.0000.000
187C450GLN00.0220.01229.1100.0090.0090.0000.0000.0000.000
188C451GLN0-0.033-0.02126.9350.0120.0120.0000.0000.0000.000
189C452SER00.004-0.00825.9300.0100.0100.0000.0000.0000.000
190C453MET00.0020.01025.6170.0090.0090.0000.0000.0000.000
191C454ARG10.7410.83320.596-0.193-0.1930.0000.0000.0000.000
192C455LEU00.0410.01521.4530.0200.0200.0000.0000.0000.000
193C456ALA00.0230.01121.1540.0140.0140.0000.0000.0000.000
194C457ASN0-0.027-0.02119.9520.0100.0100.0000.0000.0000.000
195C458LEU00.0180.00716.1800.0200.0200.0000.0000.0000.000
196C459LEU00.006-0.00316.3800.0300.0300.0000.0000.0000.000
197C460MET0-0.019-0.00917.484-0.005-0.0050.0000.0000.0000.000
198C461LEU00.0010.00913.502-0.012-0.0120.0000.0000.0000.000
199C462LEU00.0180.02012.8570.0390.0390.0000.0000.0000.000
200C463SER0-0.022-0.01812.7860.0000.0000.0000.0000.0000.000
201C464HIS0-0.017-0.00111.496-0.049-0.0490.0000.0000.0000.000
202C465VAL0-0.007-0.0017.6350.0020.0020.0000.0000.0000.000
203C466ARG10.8210.9008.162-0.288-0.2880.0000.0000.0000.000
204C467HIS0-0.041-0.0239.564-0.015-0.0150.0000.0000.0000.000
205C468ALA00.0380.0105.554-0.153-0.1530.0000.0000.0000.000
206C469SER0-0.028-0.0394.913-0.428-0.273-0.001-0.012-0.1420.000
207C470ASN0-0.002-0.0026.000-0.023-0.0230.0000.0000.0000.000
208C471LYS10.8370.9135.6890.4360.4360.0000.0000.0000.000
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