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

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FMODB ID: QV7ZY

Calculation Name: 2OF7-A-Xray372

Preferred Name:
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Target Type:
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Ligand Name:
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ligand 3-letter code:
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PDB ID: 2OF7

Chain ID: A

ChEMBL ID:
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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 OptAll
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 -2022757.402431
FMO2-HF: Nuclear repulsion 1948067.437896
FMO2-HF: Total energy -74689.964535
FMO2-MP2: Total energy -74907.680831


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.
-7.498-4.260.778-1.764-2.2520.013
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 : 0.042 / q_NPA : 0.013
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].
3A19ARG10.8770.8982.681-5.819-2.9060.771-1.657-2.0280.012
4A20GLU-1-0.699-0.8494.449-0.575-0.2500.007-0.107-0.2240.001
5A21ARG10.9680.9856.7830.0100.0100.0000.0000.0000.000
6A22LYS10.9280.9787.079-0.677-0.6770.0000.0000.0000.000
7A23LYN00.0140.0208.625-0.051-0.0510.0000.0000.0000.000
8A24THR0-0.012-0.00510.543-0.092-0.0920.0000.0000.0000.000
9A25ARG10.8460.89512.299-0.011-0.0110.0000.0000.0000.000
10A26THR0-0.017-0.00212.746-0.011-0.0110.0000.0000.0000.000
11A27ARG10.9130.94811.690-0.449-0.4490.0000.0000.0000.000
12A28GLU-1-0.768-0.85515.2920.0290.0290.0000.0000.0000.000
13A29ALA00.0180.01317.510-0.019-0.0190.0000.0000.0000.000
14A30ILE00.0350.02317.628-0.012-0.0120.0000.0000.0000.000
15A31ARG10.8610.92920.741-0.100-0.1000.0000.0000.0000.000
16A32ALA0-0.023-0.01122.210-0.012-0.0120.0000.0000.0000.000
17A33ALA0-0.001-0.00423.210-0.010-0.0100.0000.0000.0000.000
18A34THR00.0340.00324.418-0.008-0.0080.0000.0000.0000.000
19A35TYR0-0.024-0.02926.295-0.011-0.0110.0000.0000.0000.000
20A36GLY0-0.021-0.01227.790-0.008-0.0080.0000.0000.0000.000
21A37LEU0-0.045-0.01527.919-0.005-0.0050.0000.0000.0000.000
22A38ILE00.0220.01530.102-0.005-0.0050.0000.0000.0000.000
23A39ARG10.9240.95229.266-0.042-0.0420.0000.0000.0000.000
24A40GLN0-0.0320.01732.627-0.005-0.0050.0000.0000.0000.000
25A41GLN0-0.010-0.00833.748-0.004-0.0040.0000.0000.0000.000
26A42GLY00.0550.04436.2530.0000.0000.0000.0000.0000.000
27A43TYR0-0.026-0.06230.8300.0030.0030.0000.0000.0000.000
28A44GLU-1-0.787-0.88933.9790.0760.0760.0000.0000.0000.000
29A45ALA0-0.0200.01335.9590.0010.0010.0000.0000.0000.000
30A46THR0-0.042-0.01729.6950.0010.0010.0000.0000.0000.000
31A47THR0-0.029-0.02930.9820.0040.0040.0000.0000.0000.000
32A48VAL00.0410.00625.0040.0040.0040.0000.0000.0000.000
33A49GLU-1-0.835-0.91625.7630.1090.1090.0000.0000.0000.000
34A50GLN00.0210.01126.656-0.001-0.0010.0000.0000.0000.000
35A51ILE0-0.0060.00123.3090.0000.0000.0000.0000.0000.000
36A52ALA0-0.061-0.03822.1630.0070.0070.0000.0000.0000.000
37A53GLU-1-0.945-0.96622.3180.0820.0820.0000.0000.0000.000
38A54ARG10.8510.91824.020-0.063-0.0630.0000.0000.0000.000
39A55ALA0-0.050-0.02419.741-0.007-0.0070.0000.0000.0000.000
40A56GLU-1-0.974-0.97518.9190.0970.0970.0000.0000.0000.000
41A57VAL0-0.084-0.03316.2090.0340.0340.0000.0000.0000.000
42A58SER00.0300.00818.312-0.006-0.0060.0000.0000.0000.000
43A59PRO00.1220.03720.1190.0200.0200.0000.0000.0000.000
44A60SER00.0100.01119.9880.0100.0100.0000.0000.0000.000
45A61THR0-0.075-0.04915.2750.0650.0650.0000.0000.0000.000
46A62VAL00.0270.02317.7900.0250.0250.0000.0000.0000.000
47A63LEU00.0600.02120.3340.0090.0090.0000.0000.0000.000
48A64ARG10.8070.92313.234-0.508-0.5080.0000.0000.0000.000
49A65TYR0-0.079-0.04811.4210.0690.0690.0000.0000.0000.000
50A66PHE00.0210.00417.788-0.004-0.0040.0000.0000.0000.000
51A67PRO00.0160.01721.404-0.008-0.0080.0000.0000.0000.000
52A68THR0-0.022-0.01824.031-0.015-0.0150.0000.0000.0000.000
53A69ARG10.7890.85825.662-0.076-0.0760.0000.0000.0000.000
54A70GLU-1-0.746-0.85627.3850.0970.0970.0000.0000.0000.000
55A71ASP-1-0.754-0.84723.6360.1420.1420.0000.0000.0000.000
56A72ILE0-0.067-0.01222.8400.0030.0030.0000.0000.0000.000
57A73VAL0-0.022-0.00324.444-0.007-0.0070.0000.0000.0000.000
58A74LEU00.0200.01426.716-0.009-0.0090.0000.0000.0000.000
59A75THR0-0.040-0.02620.0530.0130.0130.0000.0000.0000.000
60A76ASP-1-0.811-0.91722.6590.0510.0510.0000.0000.0000.000
61A77GLU-1-0.904-0.93121.0550.0990.0990.0000.0000.0000.000
62A78TYR00.026-0.00425.5370.0010.0010.0000.0000.0000.000
63A79ASP-1-0.758-0.86426.9170.0480.0480.0000.0000.0000.000
64A80PRO00.0380.00922.397-0.009-0.0090.0000.0000.0000.000
65A81VAL0-0.0090.00023.695-0.010-0.0100.0000.0000.0000.000
66A82MET00.0110.00325.602-0.007-0.0070.0000.0000.0000.000
67A83ALA0-0.0030.00525.665-0.006-0.0060.0000.0000.0000.000
68A84ALA0-0.033-0.01123.613-0.008-0.0080.0000.0000.0000.000
69A85GLU-1-0.845-0.91625.560-0.008-0.0080.0000.0000.0000.000
70A86LEU0-0.011-0.00328.719-0.004-0.0040.0000.0000.0000.000
71A87ALA00.013-0.00426.794-0.003-0.0030.0000.0000.0000.000
72A88ALA0-0.075-0.04526.413-0.006-0.0060.0000.0000.0000.000
73A89ARG10.8280.91028.4870.0060.0060.0000.0000.0000.000
74A90PRO0-0.027-0.00830.055-0.002-0.0020.0000.0000.0000.000
75A91ALA0-0.010-0.00932.0630.0010.0010.0000.0000.0000.000
76A92GLY00.0210.01935.7320.0020.0020.0000.0000.0000.000
77A93GLU-1-0.787-0.84336.901-0.006-0.0060.0000.0000.0000.000
78A94PRO00.0090.00839.3800.0000.0000.0000.0000.0000.000
79A95TRP00.024-0.00236.1870.0000.0000.0000.0000.0000.000
80A96SER00.030-0.01739.5740.0000.0000.0000.0000.0000.000
81A97ASP-1-0.926-0.96440.8390.0010.0010.0000.0000.0000.000
82A98SER0-0.078-0.06435.7490.0000.0000.0000.0000.0000.000
83A99LEU0-0.011-0.00335.9830.0020.0020.0000.0000.0000.000
84A100ARG10.8280.87737.451-0.003-0.0030.0000.0000.0000.000
85A101HIS0-0.100-0.06532.1040.0010.0010.0000.0000.0000.000
86A102VAL00.0180.00032.1300.0020.0020.0000.0000.0000.000
87A103LEU0-0.0060.00933.6650.0040.0040.0000.0000.0000.000
88A104ARG10.8720.93036.206-0.006-0.0060.0000.0000.0000.000
89A105LYS10.8140.90729.146-0.003-0.0030.0000.0000.0000.000
90A106ALA0-0.009-0.01131.4160.0030.0030.0000.0000.0000.000
91A107LEU00.0050.00632.4170.0050.0050.0000.0000.0000.000
92A108GLY00.0480.03234.1270.0010.0010.0000.0000.0000.000
93A109LEU0-0.079-0.02435.050-0.003-0.0030.0000.0000.0000.000
94A110GLY00.017-0.00135.907-0.002-0.0020.0000.0000.0000.000
95A111ALA0-0.026-0.01236.7570.0020.0020.0000.0000.0000.000
96A112GLY00.0410.02933.262-0.001-0.0010.0000.0000.0000.000
97A113GLU-1-0.901-0.97631.6810.0050.0050.0000.0000.0000.000
98A114GLU-1-0.885-0.92427.2620.0110.0110.0000.0000.0000.000
99A115ALA00.0630.02629.7370.0060.0060.0000.0000.0000.000
100A116GLU-1-0.830-0.89532.7830.0220.0220.0000.0000.0000.000
101A117LEU0-0.070-0.02527.0860.0040.0040.0000.0000.0000.000
102A118ILE0-0.022-0.00429.1130.0060.0060.0000.0000.0000.000
103A119ARG10.8230.90231.805-0.014-0.0140.0000.0000.0000.000
104A120LEU0-0.030-0.01132.2760.0020.0020.0000.0000.0000.000
105A121ARG10.8390.91628.156-0.053-0.0530.0000.0000.0000.000
106A122THR0-0.023-0.02632.7510.0030.0030.0000.0000.0000.000
107A123ARG10.8170.90035.961-0.029-0.0290.0000.0000.0000.000
108A124LEU0-0.028-0.01031.9870.0010.0010.0000.0000.0000.000
109A125LEU0-0.0040.00133.9440.0030.0030.0000.0000.0000.000
110A126ALA00.0200.02435.9650.0000.0000.0000.0000.0000.000
111A127GLU-1-0.850-0.93938.8450.0360.0360.0000.0000.0000.000
112A128VAL0-0.063-0.01735.3620.0010.0010.0000.0000.0000.000
113A129PRO00.003-0.00936.8340.0030.0030.0000.0000.0000.000
114A130ALA00.0210.01934.3490.0020.0020.0000.0000.0000.000
115A131VAL00.0330.00731.6010.0050.0050.0000.0000.0000.000
116A132ARG10.8530.90732.837-0.044-0.0440.0000.0000.0000.000
117A133ALA0-0.0090.00435.1940.0000.0000.0000.0000.0000.000
118A134ARG10.7720.84726.042-0.122-0.1220.0000.0000.0000.000
119A135MET0-0.036-0.01230.5670.0030.0030.0000.0000.0000.000
120A136LEU00.0480.00531.735-0.001-0.0010.0000.0000.0000.000
121A137GLU-1-0.856-0.88930.3990.1000.1000.0000.0000.0000.000
122A138ASN0-0.009-0.01626.9010.0050.0050.0000.0000.0000.000
123A139MET0-0.034-0.00129.123-0.001-0.0010.0000.0000.0000.000
124A140SER0-0.026-0.00331.676-0.008-0.0080.0000.0000.0000.000
125A141ASP-1-0.954-0.99527.0300.1070.1070.0000.0000.0000.000
126A142THR0-0.088-0.02425.3660.0030.0030.0000.0000.0000.000
127A143GLY00.0330.02325.871-0.002-0.0020.0000.0000.0000.000
128A144ARG10.8240.89326.216-0.060-0.0600.0000.0000.0000.000
129A145MET00.0020.01021.334-0.001-0.0010.0000.0000.0000.000
130A146LEU0-0.0180.00226.518-0.008-0.0080.0000.0000.0000.000
131A147ALA00.0250.00029.581-0.005-0.0050.0000.0000.0000.000
132A148ARG10.8590.91526.907-0.028-0.0280.0000.0000.0000.000
133A149ALA00.0570.03428.227-0.004-0.0040.0000.0000.0000.000
134A150ILE0-0.011-0.01230.004-0.004-0.0040.0000.0000.0000.000
135A151ALA0-0.0290.02232.573-0.003-0.0030.0000.0000.0000.000
136A152ASP-1-0.904-0.95028.831-0.001-0.0010.0000.0000.0000.000
137A153ARG10.7630.87932.3960.0030.0030.0000.0000.0000.000
138A154THR0-0.055-0.05835.1520.0010.0010.0000.0000.0000.000
139A155GLY0-0.032-0.00536.5320.0000.0000.0000.0000.0000.000
140A156LEU0-0.039-0.01937.4350.0000.0000.0000.0000.0000.000
141A157ASP-1-0.839-0.92235.2680.0180.0180.0000.0000.0000.000
142A158PRO0-0.018-0.02330.7400.0020.0020.0000.0000.0000.000
143A159ASP-1-0.860-0.91330.0270.0390.0390.0000.0000.0000.000
144A160GLY00.0210.02533.0910.0020.0020.0000.0000.0000.000
145A161LEU0-0.036-0.01936.3670.0030.0030.0000.0000.0000.000
146A162GLU-1-0.861-0.94338.6540.0220.0220.0000.0000.0000.000
147A163VAL00.0520.02434.1990.0010.0010.0000.0000.0000.000
148A164ARG10.8300.90331.177-0.036-0.0360.0000.0000.0000.000
149A165ILE0-0.0080.00435.5800.0030.0030.0000.0000.0000.000
150A166VAL00.0230.01637.6330.0010.0010.0000.0000.0000.000
151A167SER00.0300.00132.6010.0000.0000.0000.0000.0000.000
152A168MET0-0.037-0.01334.7790.0020.0020.0000.0000.0000.000
153A169SER00.0150.00036.4280.0010.0010.0000.0000.0000.000
154A170LEU0-0.0160.00435.824-0.001-0.0010.0000.0000.0000.000
155A171VAL0-0.010-0.01232.1420.0000.0000.0000.0000.0000.000
156A172GLY00.0440.01235.1700.0020.0020.0000.0000.0000.000
157A173GLY00.0060.00238.4800.0000.0000.0000.0000.0000.000
158A174LEU0-0.006-0.00533.318-0.001-0.0010.0000.0000.0000.000
159A175MET0-0.0040.01636.9590.0020.0020.0000.0000.0000.000
160A176GLU-1-0.776-0.84938.3630.0340.0340.0000.0000.0000.000
161A177VAL0-0.0010.00240.572-0.001-0.0010.0000.0000.0000.000
162A178SER0-0.073-0.04638.2520.0000.0000.0000.0000.0000.000
163A179ARG10.7890.85840.356-0.034-0.0340.0000.0000.0000.000
164A180TYR0-0.010-0.01442.946-0.001-0.0010.0000.0000.0000.000
165A181TRP00.025-0.01239.898-0.001-0.0010.0000.0000.0000.000
166A182ALA0-0.007-0.01742.463-0.001-0.0010.0000.0000.0000.000
167A183GLU-1-0.942-0.96044.5310.0270.0270.0000.0000.0000.000
168A184HIS10.7670.87347.752-0.023-0.0230.0000.0000.0000.000
169A185ASP-1-0.803-0.87346.1140.0220.0220.0000.0000.0000.000
170A186HIS0-0.095-0.03748.161-0.001-0.0010.0000.0000.0000.000
171A187GLU-1-0.907-0.94851.4490.0160.0160.0000.0000.0000.000
172A188GLU-1-0.793-0.85649.4330.0150.0150.0000.0000.0000.000
173A189SER0-0.039-0.05646.1700.0010.0010.0000.0000.0000.000
174A190LEU00.038-0.00238.8550.0000.0000.0000.0000.0000.000
175A191ALA0-0.018-0.01943.0440.0000.0000.0000.0000.0000.000
176A192GLU-1-0.805-0.85644.0340.0110.0110.0000.0000.0000.000
177A193LEU0-0.0010.01344.7730.0000.0000.0000.0000.0000.000
178A194VAL00.006-0.00339.9410.0010.0010.0000.0000.0000.000
179A195ASP-1-0.773-0.85442.8990.0080.0080.0000.0000.0000.000
180A196ARG10.8360.88345.444-0.016-0.0160.0000.0000.0000.000
181A197ALA0-0.0100.00343.1030.0000.0000.0000.0000.0000.000
182A198LEU0-0.018-0.01240.1510.0000.0000.0000.0000.0000.000
183A199ASP-1-0.868-0.91443.9400.0090.0090.0000.0000.0000.000
184A200ALA0-0.009-0.01446.7490.0000.0000.0000.0000.0000.000
185A201LEU0-0.072-0.04440.8520.0010.0010.0000.0000.0000.000
186A202GLU-1-0.834-0.87842.7530.0090.0090.0000.0000.0000.000
187A203ASN0-0.057-0.04546.280-0.001-0.0010.0000.0000.0000.000
188A204GLY0-0.018-0.00348.9340.0000.0000.0000.0000.0000.000
189A205LEU0-0.058-0.03648.4750.0010.0010.0000.0000.0000.000
190A206PRO0-0.028-0.01251.0240.0000.0000.0000.0000.0000.000
191A207ALA0-0.0130.01754.4280.0000.0000.0000.0000.0000.000