Manual

About

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: 983Q2

Calculation Name: 2QOP-A-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 2QOP

Chain ID: A

ChEMBL ID:

UniProt ID: P0ACS9

Base Structure: X-ray

Registration Date: 2023-09-24

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 206
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -2370652.481566
FMO2-HF: Nuclear repulsion 2286545.586339
FMO2-HF: Total energy -84106.895227
FMO2-MP2: Total energy -84348.567437


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:7:GLN)


Summations of interaction energy for fragment #1(A:7:GLN)
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.
0.7424.6571.165-2.079-3.002-0.004
Interaction energy analysis for fragmet #1(A:7:GLN)
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 : -0.044
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].
3A9ALA0-0.0060.0143.4430.3222.3750.009-0.941-1.1210.003
4A10GLN00.0410.0012.767-0.5300.9691.157-1.055-1.602-0.007
5A11GLU-1-0.920-0.9454.408-2.573-2.210-0.001-0.083-0.2790.000
6A12THR0-0.057-0.0666.2491.1401.1400.0000.0000.0000.000
7A13ARG10.7160.8377.8830.3700.3700.0000.0000.0000.000
8A14GLN00.0650.0289.1510.3350.3350.0000.0000.0000.000
9A15HIS0-0.030-0.02310.8180.1520.1520.0000.0000.0000.000
10A16ILE0-0.026-0.02012.2300.1180.1180.0000.0000.0000.000
11A17LEU00.0250.02713.8150.0770.0770.0000.0000.0000.000
12A18ASP-1-0.791-0.87014.770-0.544-0.5440.0000.0000.0000.000
13A19VAL0-0.080-0.02717.0160.0290.0290.0000.0000.0000.000
14A20ALA00.011-0.00818.4660.0450.0450.0000.0000.0000.000
15A21LEU00.0150.01220.0090.0310.0310.0000.0000.0000.000
16A22ARG10.8760.94117.5360.5850.5850.0000.0000.0000.000
17A23LEU00.0570.02422.5580.0280.0280.0000.0000.0000.000
18A24PHE0-0.002-0.01022.5590.0230.0230.0000.0000.0000.000
19A25SER00.0190.00126.2660.0230.0230.0000.0000.0000.000
20A26GLN0-0.055-0.02426.167-0.011-0.0110.0000.0000.0000.000
21A27GLN0-0.045-0.03628.3150.0040.0040.0000.0000.0000.000
22A28GLY00.0560.05729.8330.0120.0120.0000.0000.0000.000
23A29VAL0-0.002-0.00326.512-0.015-0.0150.0000.0000.0000.000
24A30SER0-0.011-0.01428.533-0.002-0.0020.0000.0000.0000.000
25A31SER0-0.080-0.04430.7710.0110.0110.0000.0000.0000.000
26A32THR00.0030.01724.782-0.020-0.0200.0000.0000.0000.000
27A33SER0-0.084-0.06825.7870.0070.0070.0000.0000.0000.000
28A34LEU00.0810.01519.422-0.030-0.0300.0000.0000.0000.000
29A35GLY0-0.045-0.03720.901-0.046-0.0460.0000.0000.0000.000
30A36GLU-1-0.807-0.86522.596-0.299-0.2990.0000.0000.0000.000
31A37ILE00.0480.03218.177-0.036-0.0360.0000.0000.0000.000
32A38ALA0-0.0050.00717.780-0.071-0.0710.0000.0000.0000.000
33A39LYS10.8880.93318.2060.3530.3530.0000.0000.0000.000
34A40ALA00.0220.02520.1320.0190.0190.0000.0000.0000.000
35A41ALA0-0.0020.01315.092-0.027-0.0270.0000.0000.0000.000
36A42GLY0-0.0170.01215.526-0.130-0.1300.0000.0000.0000.000
37A43VAL0-0.0020.00312.782-0.150-0.1500.0000.0000.0000.000
38A44THR00.0160.00015.0420.1400.1400.0000.0000.0000.000
39A45ARG10.9980.98016.6700.2930.2930.0000.0000.0000.000
40A46GLY00.0050.00217.7830.0460.0460.0000.0000.0000.000
41A47ALA00.0310.00912.3320.0650.0650.0000.0000.0000.000
42A48ILE0-0.0090.00413.6440.0300.0300.0000.0000.0000.000
43A49TYR0-0.024-0.01715.7180.0340.0340.0000.0000.0000.000
44A50TRP0-0.060-0.01210.583-0.016-0.0160.0000.0000.0000.000
45A51HIS0-0.0290.0068.0020.3000.3000.0000.0000.0000.000
46A52PHE00.0350.00813.1990.0640.0640.0000.0000.0000.000
47A53LYS10.7980.88116.640-0.063-0.0630.0000.0000.0000.000
48A54ASP-1-0.793-0.91119.918-0.041-0.0410.0000.0000.0000.000
49A55LYS10.8480.91021.6800.1330.1330.0000.0000.0000.000
50A56SER00.012-0.00823.681-0.016-0.0160.0000.0000.0000.000
51A57ASP-1-0.873-0.90618.3650.0290.0290.0000.0000.0000.000
52A58LEU0-0.003-0.00617.2770.0020.0020.0000.0000.0000.000
53A59PHE00.006-0.00719.058-0.019-0.0190.0000.0000.0000.000
54A60SER0-0.016-0.02420.7420.0090.0090.0000.0000.0000.000
55A61GLU-1-0.772-0.85713.0410.0050.0050.0000.0000.0000.000
56A62ILE0-0.0100.01017.130-0.007-0.0070.0000.0000.0000.000
57A63TRP00.001-0.01119.047-0.009-0.0090.0000.0000.0000.000
58A64GLU-1-0.941-0.94616.6180.1460.1460.0000.0000.0000.000
59A65LEU0-0.048-0.01811.4390.0270.0270.0000.0000.0000.000
60A66SER0-0.084-0.05715.700-0.044-0.0440.0000.0000.0000.000
61A67GLU-1-0.737-0.83217.939-0.091-0.0910.0000.0000.0000.000
62A68SER0-0.040-0.04620.8390.0220.0220.0000.0000.0000.000
63A69ASN00.0380.03220.7720.0150.0150.0000.0000.0000.000
64A70ILE0-0.018-0.03322.4020.0140.0140.0000.0000.0000.000
65A71GLY00.0160.01724.9830.0020.0020.0000.0000.0000.000
66A72GLU-1-0.894-0.94420.1370.2330.2330.0000.0000.0000.000
67A73LEU0-0.0030.00223.382-0.002-0.0020.0000.0000.0000.000
68A74GLU-1-0.923-0.96925.6590.0910.0910.0000.0000.0000.000
69A75LEU00.0050.00825.0270.0000.0000.0000.0000.0000.000
70A76GLU-1-0.898-0.93624.7910.0400.0400.0000.0000.0000.000
71A77TYR00.008-0.03026.653-0.004-0.0040.0000.0000.0000.000
72A78GLN0-0.034-0.02930.1740.0050.0050.0000.0000.0000.000
73A79ALA0-0.037-0.00728.8080.0010.0010.0000.0000.0000.000
74A80LYS10.7910.90028.480-0.039-0.0390.0000.0000.0000.000
75A81PHE0-0.042-0.01332.214-0.010-0.0100.0000.0000.0000.000
76A82PRO00.0210.00634.5290.0020.0020.0000.0000.0000.000
77A83GLY0-0.016-0.00236.443-0.004-0.0040.0000.0000.0000.000
78A84ASP-1-0.840-0.88738.0090.0400.0400.0000.0000.0000.000
79A85PRO00.0440.01136.887-0.002-0.0020.0000.0000.0000.000
80A86LEU00.0290.00737.463-0.004-0.0040.0000.0000.0000.000
81A87SER0-0.038-0.05436.812-0.009-0.0090.0000.0000.0000.000
82A88VAL0-0.0140.01431.953-0.005-0.0050.0000.0000.0000.000
83A89LEU0-0.004-0.00633.545-0.005-0.0050.0000.0000.0000.000
84A90ARG10.8150.89135.186-0.024-0.0240.0000.0000.0000.000
85A91GLU-1-0.722-0.83632.322-0.003-0.0030.0000.0000.0000.000
86A92ILE0-0.0170.00429.084-0.009-0.0090.0000.0000.0000.000
87A93LEU0-0.020-0.01230.866-0.010-0.0100.0000.0000.0000.000
88A94ILE0-0.0060.00332.872-0.009-0.0090.0000.0000.0000.000
89A95HIS0-0.0020.00624.9600.0030.0030.0000.0000.0000.000
90A96VAL00.0000.02328.758-0.016-0.0160.0000.0000.0000.000
91A97LEU0-0.0020.01029.936-0.013-0.0130.0000.0000.0000.000
92A98GLU-1-0.903-0.96930.488-0.061-0.0610.0000.0000.0000.000
93A99SER0-0.018-0.02525.663-0.017-0.0170.0000.0000.0000.000
94A100THR00.003-0.01727.091-0.019-0.0190.0000.0000.0000.000
95A101VAL0-0.030-0.00729.220-0.012-0.0120.0000.0000.0000.000
96A102THR0-0.059-0.04426.671-0.016-0.0160.0000.0000.0000.000
97A103GLU-1-0.832-0.90722.856-0.127-0.1270.0000.0000.0000.000
98A104GLU-1-0.838-0.89921.179-0.255-0.2550.0000.0000.0000.000
99A105ARG10.8540.89513.8890.4440.4440.0000.0000.0000.000
100A106ARG10.7990.86621.5120.0990.0990.0000.0000.0000.000
101A107ARG10.7650.86724.4900.2190.2190.0000.0000.0000.000
102A108LEU0-0.037-0.02922.5010.0070.0070.0000.0000.0000.000
103A109LEU00.0040.01123.4170.0060.0060.0000.0000.0000.000
104A110MET0-0.012-0.00825.2670.0140.0140.0000.0000.0000.000
105A111GLU-1-0.804-0.88828.519-0.141-0.1410.0000.0000.0000.000
106A112ILE0-0.055-0.02925.5490.0040.0040.0000.0000.0000.000
107A113ILE0-0.064-0.03426.9120.0110.0110.0000.0000.0000.000
108A114PHE0-0.024-0.01830.5110.0110.0110.0000.0000.0000.000
109A115HIS0-0.0070.01032.6940.0050.0050.0000.0000.0000.000
110A116LYS10.7890.88330.1090.1570.1570.0000.0000.0000.000
111A117CYS0-0.0240.00230.369-0.010-0.0100.0000.0000.0000.000
112A118GLU-1-0.836-0.92530.125-0.108-0.1080.0000.0000.0000.000
113A119PHE0-0.016-0.04330.6720.0070.0070.0000.0000.0000.000
114A120VAL00.0020.01433.8870.0080.0080.0000.0000.0000.000
115A121GLY00.0250.02233.7390.0050.0050.0000.0000.0000.000
116A122GLU-1-0.864-0.92728.069-0.029-0.0290.0000.0000.0000.000
117A123MET0-0.0230.01226.5390.0090.0090.0000.0000.0000.000
118A124ALA00.0180.00930.2530.0040.0040.0000.0000.0000.000
119A125VAL0-0.012-0.00728.1350.0110.0110.0000.0000.0000.000
120A126VAL00.0370.01725.2650.0120.0120.0000.0000.0000.000
121A127GLN00.0360.04428.0640.0140.0140.0000.0000.0000.000
122A128GLN00.0170.00931.3820.0020.0020.0000.0000.0000.000
123A129ALA00.0170.01727.0060.0090.0090.0000.0000.0000.000
124A130GLN00.0390.00427.9220.0030.0030.0000.0000.0000.000
125A131ARG10.8210.90829.7930.0030.0030.0000.0000.0000.000
126A132ASN00.0240.00330.956-0.002-0.0020.0000.0000.0000.000
127A133LEU00.0150.02526.0170.0060.0060.0000.0000.0000.000
128A134CYS0-0.050-0.03630.165-0.001-0.0010.0000.0000.0000.000
129A135LEU0-0.034-0.02233.3090.0000.0000.0000.0000.0000.000
130A136GLU-1-0.836-0.90630.8660.0940.0940.0000.0000.0000.000
131A137SER0-0.058-0.01431.9910.0010.0010.0000.0000.0000.000
132A138TYR0-0.030-0.01133.317-0.004-0.0040.0000.0000.0000.000
133A139ASP-1-0.766-0.86136.3680.0560.0560.0000.0000.0000.000
134A140ARG10.9310.95427.613-0.089-0.0890.0000.0000.0000.000
135A141ILE00.0390.03434.1330.0020.0020.0000.0000.0000.000
136A142GLU-1-0.804-0.87036.7820.0440.0440.0000.0000.0000.000
137A143GLN0-0.008-0.00336.7430.0010.0010.0000.0000.0000.000
138A144THR00.0220.01135.3180.0020.0020.0000.0000.0000.000
139A145LEU0-0.001-0.01137.572-0.002-0.0020.0000.0000.0000.000
140A146LYS10.8800.93441.115-0.052-0.0520.0000.0000.0000.000
141A147HIS00.0290.01337.9350.0010.0010.0000.0000.0000.000
142A148CYS0-0.008-0.00540.254-0.001-0.0010.0000.0000.0000.000
143A149ILE0-0.066-0.02442.864-0.003-0.0030.0000.0000.0000.000
144A150GLU-1-0.914-0.95442.2270.0770.0770.0000.0000.0000.000
145A151ALA0-0.013-0.00842.851-0.001-0.0010.0000.0000.0000.000
146A152LYS10.8300.91345.009-0.052-0.0520.0000.0000.0000.000
147A153MET00.0090.01942.399-0.003-0.0030.0000.0000.0000.000
148A154LEU00.0080.01043.333-0.005-0.0050.0000.0000.0000.000
149A155PRO0-0.028-0.00647.2710.0030.0030.0000.0000.0000.000
150A156ALA00.018-0.00349.7580.0010.0010.0000.0000.0000.000
151A157ASP-1-0.854-0.90351.0910.0280.0280.0000.0000.0000.000
152A158LEU00.0050.01545.678-0.003-0.0030.0000.0000.0000.000
153A159MET00.0210.01948.4070.0020.0020.0000.0000.0000.000
154A160THR0-0.014-0.03243.204-0.002-0.0020.0000.0000.0000.000
155A161ARG10.7770.86039.801-0.046-0.0460.0000.0000.0000.000
156A162ARG10.8410.88743.567-0.017-0.0170.0000.0000.0000.000
157A163ALA00.0450.02643.710-0.004-0.0040.0000.0000.0000.000
158A164ALA00.0510.03139.330-0.003-0.0030.0000.0000.0000.000
159A165ILE0-0.048-0.02539.655-0.003-0.0030.0000.0000.0000.000
160A166ILE0-0.019-0.00941.279-0.005-0.0050.0000.0000.0000.000
161A167MET00.0090.02235.109-0.003-0.0030.0000.0000.0000.000
162A168ARG10.9600.96331.222-0.008-0.0080.0000.0000.0000.000
163A169GLY00.0140.01637.446-0.007-0.0070.0000.0000.0000.000
164A170TYR0-0.046-0.04339.973-0.007-0.0070.0000.0000.0000.000
165A171ILE00.0130.01434.486-0.006-0.0060.0000.0000.0000.000
166A172SER0-0.018-0.03535.101-0.007-0.0070.0000.0000.0000.000
167A173GLY00.0150.01936.102-0.008-0.0080.0000.0000.0000.000
168A174LEU00.0120.00837.960-0.007-0.0070.0000.0000.0000.000
169A175MET0-0.030-0.01430.821-0.004-0.0040.0000.0000.0000.000
170A176GLU-1-0.909-0.95034.926-0.072-0.0720.0000.0000.0000.000
171A177ASN0-0.009-0.02636.151-0.008-0.0080.0000.0000.0000.000
172A178TRP0-0.030-0.00431.625-0.008-0.0080.0000.0000.0000.000
173A179LEU0-0.039-0.03330.835-0.008-0.0080.0000.0000.0000.000
174A180PHE0-0.0370.00234.786-0.007-0.0070.0000.0000.0000.000
175A181ALA0-0.017-0.00937.978-0.003-0.0030.0000.0000.0000.000
176A182PRO00.0420.04435.1380.0050.0050.0000.0000.0000.000
177A183GLN0-0.037-0.03237.3120.0040.0040.0000.0000.0000.000
178A184SER0-0.086-0.04540.3030.0070.0070.0000.0000.0000.000
179A185PHE00.0330.00838.8920.0060.0060.0000.0000.0000.000
180A186ASP-1-0.775-0.86036.450-0.098-0.0980.0000.0000.0000.000
181A187LEU00.0260.01033.8800.0060.0060.0000.0000.0000.000
182A188LYS10.8820.93132.0870.1050.1050.0000.0000.0000.000
183A189LYS10.7980.88434.8960.0870.0870.0000.0000.0000.000
184A190GLU-1-0.885-0.93838.021-0.044-0.0440.0000.0000.0000.000
185A191ALA0-0.0040.01635.2050.0060.0060.0000.0000.0000.000
186A192ARG10.8650.88934.3890.0200.0200.0000.0000.0000.000
187A193ASP-1-0.877-0.92838.559-0.020-0.0200.0000.0000.0000.000
188A194TYR0-0.005-0.01239.0120.0030.0030.0000.0000.0000.000
189A195VAL00.0030.00836.2970.0040.0040.0000.0000.0000.000
190A196ALA0-0.0060.00739.7600.0060.0060.0000.0000.0000.000
191A197ILE00.0660.02842.6910.0040.0040.0000.0000.0000.000
192A198LEU0-0.074-0.02939.8110.0030.0030.0000.0000.0000.000
193A199LEU00.008-0.00639.5280.0040.0040.0000.0000.0000.000
194A200GLU-1-0.932-0.96943.4840.0020.0020.0000.0000.0000.000
195A201MET0-0.029-0.02844.9550.0010.0010.0000.0000.0000.000
196A202TYR0-0.029-0.03141.5220.0010.0010.0000.0000.0000.000
197A203LEU00.0300.00846.6330.0030.0030.0000.0000.0000.000
198A204LEU0-0.0120.00549.5240.0010.0010.0000.0000.0000.000
199A205CYS0-0.0340.00950.583-0.001-0.0010.0000.0000.0000.000
200A206PRO00.0530.02152.8160.0020.0020.0000.0000.0000.000
201A207THR0-0.056-0.02253.832-0.002-0.0020.0000.0000.0000.000
202A208LEU00.0240.01847.9710.0010.0010.0000.0000.0000.000
203A209ARG10.8270.90550.941-0.018-0.0180.0000.0000.0000.000
204A210ASN0-0.063-0.04452.433-0.002-0.0020.0000.0000.0000.000
205A211PRO00.0090.00855.2860.0010.0010.0000.0000.0000.000
206A212ALA00.0240.01956.9610.0020.0020.0000.0000.0000.000