FMODB

FMODB: The database of quantum mechanical data based on the FMO method

Last updated: 2024-05-02

All entries: 37386

Number of unique PDB entries: 7781

tag_button

FMODB ID: ZVRKN

Calculation Name: 2OF7-A-Xray372

Preferred Name:
Warning: Undefined array key "pref_name" in /home/FMODBwui_src/fmodbwui/detail.php on line 446

Target Type:
Warning: Undefined array key "target_type" in /home/FMODBwui_src/fmodbwui/detail.php on line 447

Ligand Name:
Warning: Undefined variable $Ligand in /home/FMODBwui_src/fmodbwui/detail.php on line 448

Warning: Trying to access array offset on value of type null in /home/FMODBwui_src/fmodbwui/detail.php on line 448

Warning: Trying to access array offset on value of type null in /home/FMODBwui_src/fmodbwui/detail.php on line 448

ligand 3-letter code:
Warning: Undefined variable $Ligand in /home/FMODBwui_src/fmodbwui/detail.php on line 449

Warning: Trying to access array offset on value of type null in /home/FMODBwui_src/fmodbwui/detail.php on line 449

Warning: Trying to access array offset on value of type null in /home/FMODBwui_src/fmodbwui/detail.php on line 449

PDB ID: 2OF7

Chain ID: A

ChEMBL ID:
Warning: Undefined array key "chembl_id" in /home/FMODBwui_src/fmodbwui/detail.php on line 452

Warning: Undefined array key "chembl_id" in /home/FMODBwui_src/fmodbwui/detail.php on line 452

UniProt ID: Q9EWH2

Base Structure: X-ray

Registration Date: 2023-09-20

Reference: C. Watanabe, N. Tani, K. Kamisaka, T. Honma et al., Interaction energy analysis of Apo structure dataset on FMODB, To be published.

DOI:


IFIE MAP

IFIE Diagram


Modeling method
Optimization MOE:Amber10:EHT
Restraint OptH
Protonation MOE:Protonate 3D
Complement MOE:Structure Preparation
Water No
Procedure Auto-FMO protocol ver. 2.20220422
FMO calculation
FMO method FMO2-MP2/6-31G(d)
Fragmentation Auto
Number of fragment 191
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 22 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -2018051.299483
FMO2-HF: Nuclear repulsion 1943365.698758
FMO2-HF: Total energy -74685.600725
FMO2-MP2: Total energy -74903.616825


3D Structure
Snapshot
 
Ligand structure

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.
N/AN/AN/AN/AN/AN/A


Interactive mode: IFIE and PIEDA for fragment #1(A:17:GLY)


Summations of interaction energy for fragment #1(A:17:GLY)
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.
-6.154-4.7113.254-1.641-3.0560.017
Interaction energy analysis for fragmet #1(A:17:GLY)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.049 / q_NPA : 0.009
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].
3A19ARG10.9050.9312.469-2.581-1.5753.234-1.504-2.7360.016
4A20GLU-1-0.864-0.9524.113-1.195-0.7580.020-0.137-0.3200.001
5A21ARG10.9660.9846.194-0.299-0.2990.0000.0000.0000.000
6A22LYS10.9560.9906.950-1.411-1.4110.0000.0000.0000.000
7A23LYN0-0.0230.0107.976-0.158-0.1580.0000.0000.0000.000
8A24THR00.0430.0239.864-0.150-0.1500.0000.0000.0000.000
9A25ARG10.9910.99611.786-0.228-0.2280.0000.0000.0000.000
10A26THR0-0.0250.00511.709-0.013-0.0130.0000.0000.0000.000
11A27ARG11.0080.98812.024-0.551-0.5510.0000.0000.0000.000
12A28GLU-1-0.918-0.97416.0290.1470.1470.0000.0000.0000.000
13A29ALA00.0080.02117.249-0.037-0.0370.0000.0000.0000.000
14A30ILE00.0320.01417.064-0.023-0.0230.0000.0000.0000.000
15A31ARG10.9630.98920.150-0.180-0.1800.0000.0000.0000.000
16A32ALA0-0.014-0.00121.725-0.022-0.0220.0000.0000.0000.000
17A33ALA0-0.0030.00822.937-0.020-0.0200.0000.0000.0000.000
18A34THR00.037-0.01023.970-0.017-0.0170.0000.0000.0000.000
19A35TYR0-0.026-0.01125.485-0.017-0.0170.0000.0000.0000.000
20A36GLY0-0.031-0.03227.464-0.012-0.0120.0000.0000.0000.000
21A37LEU0-0.037-0.03727.779-0.009-0.0090.0000.0000.0000.000
22A38ILE00.0150.02929.656-0.008-0.0080.0000.0000.0000.000
23A39ARG10.9420.98429.809-0.095-0.0950.0000.0000.0000.000
24A40GLN0-0.045-0.00532.403-0.002-0.0020.0000.0000.0000.000
25A41GLN0-0.038-0.02233.938-0.005-0.0050.0000.0000.0000.000
26A42GLY00.0630.05135.954-0.001-0.0010.0000.0000.0000.000
27A43TYR00.053-0.00130.3810.0070.0070.0000.0000.0000.000
28A44GLU-1-0.873-0.94433.5180.1110.1110.0000.0000.0000.000
29A45ALA0-0.0010.02135.2600.0020.0020.0000.0000.0000.000
30A46THR0-0.071-0.04529.3510.0060.0060.0000.0000.0000.000
31A47THR00.0670.04230.4140.0050.0050.0000.0000.0000.000
32A48VAL00.0650.01524.3600.0070.0070.0000.0000.0000.000
33A49GLU-1-0.931-0.97825.5410.1640.1640.0000.0000.0000.000
34A50GLN00.0270.01426.7470.0000.0000.0000.0000.0000.000
35A51ILE0-0.044-0.02323.0320.0020.0020.0000.0000.0000.000
36A52ALA0-0.027-0.03021.9150.0150.0150.0000.0000.0000.000
37A53GLU-1-0.917-0.94322.3540.1570.1570.0000.0000.0000.000
38A54ARG10.8710.93124.199-0.124-0.1240.0000.0000.0000.000
39A55ALA0-0.044-0.01919.814-0.003-0.0030.0000.0000.0000.000
40A56GLU-1-0.992-0.97619.5420.2300.2300.0000.0000.0000.000
41A57VAL0-0.067-0.03516.2310.0620.0620.0000.0000.0000.000
42A58SER00.0380.01417.755-0.022-0.0220.0000.0000.0000.000
43A59PRO00.1100.02919.7100.0300.0300.0000.0000.0000.000
44A60SER00.0010.00719.8530.0070.0070.0000.0000.0000.000
45A61THR0-0.072-0.04315.0880.0690.0690.0000.0000.0000.000
46A62VAL00.0340.02017.2860.0310.0310.0000.0000.0000.000
47A63LEU00.0640.03119.6460.0120.0120.0000.0000.0000.000
48A64ARG10.8780.96312.193-0.705-0.7050.0000.0000.0000.000
49A65TYR0-0.102-0.06910.7320.1460.1460.0000.0000.0000.000
50A66PHE0-0.029-0.01317.2580.0000.0000.0000.0000.0000.000
51A67PRO00.0180.02220.925-0.008-0.0080.0000.0000.0000.000
52A68THR00.005-0.01023.362-0.013-0.0130.0000.0000.0000.000
53A69ARG10.8630.90425.273-0.115-0.1150.0000.0000.0000.000
54A70GLU-1-0.880-0.94627.1240.1330.1330.0000.0000.0000.000
55A71ASP-1-0.797-0.87623.0000.1830.1830.0000.0000.0000.000
56A72ILE0-0.063-0.00422.5830.0070.0070.0000.0000.0000.000
57A73VAL0-0.0320.02623.858-0.004-0.0040.0000.0000.0000.000
58A74LEU0-0.042-0.01125.842-0.010-0.0100.0000.0000.0000.000
59A75THR0-0.024-0.05919.6920.0180.0180.0000.0000.0000.000
60A76ASP-1-0.940-0.98421.5480.0940.0940.0000.0000.0000.000
61A77GLU-1-0.929-0.98020.4890.1510.1510.0000.0000.0000.000
62A78TYR00.0250.00824.521-0.002-0.0020.0000.0000.0000.000
63A79ASP-1-0.696-0.87925.9420.0560.0560.0000.0000.0000.000
64A80PRO00.0590.01521.647-0.012-0.0120.0000.0000.0000.000
65A81VAL0-0.0190.02723.100-0.010-0.0100.0000.0000.0000.000
66A82MET0-0.042-0.03025.078-0.007-0.0070.0000.0000.0000.000
67A83ALA0-0.0020.01125.276-0.008-0.0080.0000.0000.0000.000
68A84ALA0-0.0210.00023.102-0.009-0.0090.0000.0000.0000.000
69A85GLU-1-0.821-0.90525.2060.0100.0100.0000.0000.0000.000
70A86LEU0-0.017-0.00328.160-0.006-0.0060.0000.0000.0000.000
71A87ALA00.020-0.01226.268-0.005-0.0050.0000.0000.0000.000
72A88ALA0-0.056-0.03026.041-0.007-0.0070.0000.0000.0000.000
73A89ARG10.9160.99428.130-0.002-0.0020.0000.0000.0000.000
74A90PRO0-0.059-0.02330.0060.0000.0000.0000.0000.0000.000
75A91ALA0-0.053-0.06931.911-0.001-0.0010.0000.0000.0000.000
76A92GLY00.0620.02435.5520.0030.0030.0000.0000.0000.000
77A93GLU-1-0.908-0.92736.5490.0010.0010.0000.0000.0000.000
78A94PRO00.011-0.00839.0160.0000.0000.0000.0000.0000.000
79A95TRP00.0460.01535.4950.0000.0000.0000.0000.0000.000
80A96SER00.0740.02339.3230.0010.0010.0000.0000.0000.000
81A97ASP-1-0.900-0.94940.3060.0070.0070.0000.0000.0000.000
82A98SER0-0.040-0.02435.1800.0000.0000.0000.0000.0000.000
83A99LEU0-0.0150.00335.5180.0030.0030.0000.0000.0000.000
84A100ARG10.9070.96237.356-0.013-0.0130.0000.0000.0000.000
85A101HIS0-0.153-0.08531.9110.0020.0020.0000.0000.0000.000
86A102VAL00.0490.00431.7010.0030.0030.0000.0000.0000.000
87A103LEU00.0030.01332.9500.0060.0060.0000.0000.0000.000
88A104ARG10.9610.97735.569-0.019-0.0190.0000.0000.0000.000
89A105LYS10.9240.96930.654-0.018-0.0180.0000.0000.0000.000
90A106ALA00.0140.01730.7770.0050.0050.0000.0000.0000.000
91A107LEU00.0230.01331.8300.0070.0070.0000.0000.0000.000
92A108GLY00.0380.04933.4800.0030.0030.0000.0000.0000.000
93A109LEU0-0.047-0.01734.417-0.003-0.0030.0000.0000.0000.000
94A110GLY0-0.043-0.03035.541-0.002-0.0020.0000.0000.0000.000
95A111ALA0-0.003-0.00536.3800.0030.0030.0000.0000.0000.000
96A112GLY00.0560.02832.5690.0000.0000.0000.0000.0000.000
97A113GLU-1-0.903-0.97132.1260.0350.0350.0000.0000.0000.000
98A114GLU-1-1.011-1.00726.7160.0530.0530.0000.0000.0000.000
99A115ALA00.0560.02029.7270.0050.0050.0000.0000.0000.000
100A116GLU-1-0.995-0.98632.6120.0530.0530.0000.0000.0000.000
101A117LEU0-0.029-0.00326.4790.0060.0060.0000.0000.0000.000
102A118ILE00.0070.01228.3040.0060.0060.0000.0000.0000.000
103A119ARG10.9470.96831.135-0.042-0.0420.0000.0000.0000.000
104A120LEU0-0.054-0.00531.7320.0000.0000.0000.0000.0000.000
105A121ARG10.9120.96027.113-0.088-0.0880.0000.0000.0000.000
106A122THR0-0.068-0.07132.0640.0020.0020.0000.0000.0000.000
107A123ARG10.8430.90635.109-0.049-0.0490.0000.0000.0000.000
108A124LEU0-0.015-0.01131.7640.0010.0010.0000.0000.0000.000
109A125LEU00.0110.01032.8600.0010.0010.0000.0000.0000.000
110A126ALA00.0010.00635.392-0.002-0.0020.0000.0000.0000.000
111A127GLU-1-0.902-0.96138.4220.0580.0580.0000.0000.0000.000
112A128VAL0-0.075-0.01534.5520.0010.0010.0000.0000.0000.000
113A129PRO0-0.036-0.00536.1790.0020.0020.0000.0000.0000.000
114A130ALA00.0820.02434.0510.0010.0010.0000.0000.0000.000
115A131VAL00.0590.02831.1000.0060.0060.0000.0000.0000.000
116A132ARG10.8780.93332.262-0.063-0.0630.0000.0000.0000.000
117A133ALA0-0.034-0.02534.506-0.001-0.0010.0000.0000.0000.000
118A134ARG10.9290.96424.754-0.161-0.1610.0000.0000.0000.000
119A135MET0-0.048-0.01329.8830.0010.0010.0000.0000.0000.000
120A136LEU00.010-0.01630.925-0.003-0.0030.0000.0000.0000.000
121A137GLU-1-0.954-0.98029.2880.1160.1160.0000.0000.0000.000
122A138ASN0-0.014-0.00925.4570.0040.0040.0000.0000.0000.000
123A139MET0-0.054-0.01328.460-0.002-0.0020.0000.0000.0000.000
124A140SER0-0.012-0.02330.880-0.009-0.0090.0000.0000.0000.000
125A141ASP-1-0.989-0.97926.9060.1040.1040.0000.0000.0000.000
126A142THR0-0.0580.12824.1120.0020.0020.0000.0000.0000.000
127A143GLY0-0.006-0.10825.072-0.001-0.0010.0000.0000.0000.000
128A144ARG10.8830.91125.510-0.055-0.0550.0000.0000.0000.000
129A145MET00.0160.01920.474-0.003-0.0030.0000.0000.0000.000
130A146LEU0-0.0030.01125.689-0.009-0.0090.0000.0000.0000.000
131A147ALA00.015-0.01328.779-0.005-0.0050.0000.0000.0000.000
132A148ARG10.9110.95526.075-0.015-0.0150.0000.0000.0000.000
133A149ALA00.0480.03327.779-0.005-0.0050.0000.0000.0000.000
134A150ILE0-0.023-0.01729.547-0.003-0.0030.0000.0000.0000.000
135A151ALA00.0090.02931.956-0.002-0.0020.0000.0000.0000.000
136A152ASP-1-0.872-0.92528.732-0.009-0.0090.0000.0000.0000.000
137A153ARG10.8060.90432.0120.0030.0030.0000.0000.0000.000
138A154THR0-0.062-0.03134.8900.0010.0010.0000.0000.0000.000
139A155GLY0-0.074-0.03335.898-0.001-0.0010.0000.0000.0000.000
140A156LEU0-0.049-0.02836.837-0.001-0.0010.0000.0000.0000.000
141A157ASP-1-0.875-0.94234.6370.0070.0070.0000.0000.0000.000
142A158PRO0-0.008-0.01830.2700.0030.0030.0000.0000.0000.000
143A159ASP-1-0.972-0.97629.8140.0230.0230.0000.0000.0000.000
144A160GLY00.0000.00532.5250.0020.0020.0000.0000.0000.000
145A161LEU0-0.029-0.02435.5650.0030.0030.0000.0000.0000.000
146A162GLU-1-0.877-0.95237.9330.0180.0180.0000.0000.0000.000
147A163VAL00.0520.02233.3360.0020.0020.0000.0000.0000.000
148A164ARG10.9230.95931.296-0.030-0.0300.0000.0000.0000.000
149A165ILE0-0.023-0.00235.0650.0030.0030.0000.0000.0000.000
150A166VAL00.0470.02836.7120.0020.0020.0000.0000.0000.000
151A167SER00.020-0.00331.6110.0020.0020.0000.0000.0000.000
152A168MET0-0.0220.00133.8690.0030.0030.0000.0000.0000.000
153A169SER0-0.040-0.01435.6510.0020.0020.0000.0000.0000.000
154A170LEU00.0220.00934.9250.0000.0000.0000.0000.0000.000
155A171VAL00.006-0.00731.5770.0010.0010.0000.0000.0000.000
156A172GLY00.0120.00534.4970.0030.0030.0000.0000.0000.000
157A173GLY00.0470.02837.609-0.001-0.0010.0000.0000.0000.000
158A174LEU0-0.030-0.01632.7110.0000.0000.0000.0000.0000.000
159A175MET0-0.029-0.01236.1190.0030.0030.0000.0000.0000.000
160A176GLU-1-0.879-0.95737.5340.0460.0460.0000.0000.0000.000
161A177VAL0-0.0080.01239.752-0.001-0.0010.0000.0000.0000.000
162A178SER0-0.064-0.02637.6170.0000.0000.0000.0000.0000.000
163A179ARG10.9420.95339.662-0.050-0.0500.0000.0000.0000.000
164A180TYR00.0330.02841.904-0.001-0.0010.0000.0000.0000.000
165A181TRP00.002-0.02639.0530.0000.0000.0000.0000.0000.000
166A182ALA0-0.029-0.02741.994-0.001-0.0010.0000.0000.0000.000
167A183GLU-1-0.993-0.98643.9270.0400.0400.0000.0000.0000.000
168A184HIS10.8090.88747.012-0.034-0.0340.0000.0000.0000.000
169A185ASP-1-0.773-0.85445.3830.0380.0380.0000.0000.0000.000
170A186HIS0-0.079-0.01847.4660.0000.0000.0000.0000.0000.000
171A187GLU-1-0.910-0.94850.7320.0260.0260.0000.0000.0000.000
172A188GLU-1-0.795-0.85548.2650.0250.0250.0000.0000.0000.000
173A189SER0-0.082-0.03845.3130.0020.0020.0000.0000.0000.000
174A190LEU00.002-0.01438.029-0.001-0.0010.0000.0000.0000.000
175A191ALA0-0.039-0.05842.4260.0000.0000.0000.0000.0000.000
176A192GLU-1-0.797-0.87543.3640.0220.0220.0000.0000.0000.000
177A193LEU00.0480.04844.114-0.001-0.0010.0000.0000.0000.000
178A194VAL0-0.038-0.04439.4400.0000.0000.0000.0000.0000.000
179A195ASP-1-0.866-0.92242.4570.0190.0190.0000.0000.0000.000
180A196ARG10.8430.88345.248-0.027-0.0270.0000.0000.0000.000
181A197ALA0-0.036-0.01842.2030.0000.0000.0000.0000.0000.000
182A198LEU0-0.051-0.03139.6340.0000.0000.0000.0000.0000.000
183A199ASP-1-0.820-0.91343.3640.0140.0140.0000.0000.0000.000
184A200ALA0-0.043-0.01046.209-0.001-0.0010.0000.0000.0000.000
185A201LEU0-0.090-0.05840.1440.0000.0000.0000.0000.0000.000
186A202GLU-1-0.907-0.94942.9400.0130.0130.0000.0000.0000.000
187A203ASN0-0.064-0.03145.467-0.002-0.0020.0000.0000.0000.000
188A204GLY0-0.032-0.00548.266-0.001-0.0010.0000.0000.0000.000
189A205LEU0-0.033-0.02546.8370.0000.0000.0000.0000.0000.000
190A206PRO0-0.063-0.02950.010-0.001-0.0010.0000.0000.0000.000
191A207ALA00.0180.02953.7650.0000.0000.0000.0000.0000.000