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: 3953L

Calculation Name: 2QG3-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: 2QG3

Chain ID: A

ChEMBL ID:
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UniProt ID: O28220

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 OptHSide
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 195
LigandCharge DAR=1
Software ABINIT-MP - Open Ver. 1 Rev. 22 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -2069194.002746
FMO2-HF: Nuclear repulsion 1992526.678087
FMO2-HF: Total energy -76667.324659
FMO2-MP2: Total energy -76891.905628


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:2:MET)


Summations of interaction energy for fragment #1(A:2:MET)
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.
-7.224-1.2492.958-3.231-5.702-0.026
Interaction energy analysis for fragmet #1(A:2:MET)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.010 / q_NPA : -0.001
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].
3A4GLU-1-0.717-0.8483.806-2.464-0.524-0.011-0.770-1.1600.000
4A5GLN0-0.046-0.0362.597-3.740-1.9500.909-1.132-1.568-0.015
5A6PHE00.0080.0002.6940.3311.5430.186-0.363-1.0350.000
6A7LYS10.9070.9554.6641.4021.553-0.001-0.017-0.1330.000
7A8LYS10.9720.9847.6921.5851.5850.0000.0000.0000.000
8A9GLU-1-0.859-0.8867.972-0.333-0.3330.0000.0000.0000.000
9A10LYS10.9100.9547.8260.5710.5710.0000.0000.0000.000
10A11LEU00.0510.02610.7180.1250.1250.0000.0000.0000.000
11A12ARG10.8380.88712.0230.6360.6360.0000.0000.0000.000
12A13GLY0-0.008-0.00113.7240.0720.0720.0000.0000.0000.000
13A14TYR0-0.039-0.05015.1100.0520.0520.0000.0000.0000.000
14A15LEU00.0290.00016.6660.0420.0420.0000.0000.0000.000
15A16GLU-1-0.824-0.88618.421-0.182-0.1820.0000.0000.0000.000
16A17ALA0-0.019-0.00119.6520.0310.0310.0000.0000.0000.000
17A18LYS10.8540.91621.1080.2660.2660.0000.0000.0000.000
18A19ASN0-0.033-0.02022.4900.0250.0250.0000.0000.0000.000
19A20GLN0-0.075-0.03822.5980.0360.0360.0000.0000.0000.000
20A21ARG10.8860.93626.0740.1510.1510.0000.0000.0000.000
21A22LYS10.8390.91623.9010.1370.1370.0000.0000.0000.000
22A23VAL0-0.002-0.00521.467-0.008-0.0080.0000.0000.0000.000
23A24ASP-1-0.776-0.87224.129-0.107-0.1070.0000.0000.0000.000
24A25PHE00.026-0.01025.964-0.008-0.0080.0000.0000.0000.000
25A26ASP-1-0.751-0.83128.077-0.111-0.1110.0000.0000.0000.000
26A27ILE00.003-0.00122.2340.0010.0010.0000.0000.0000.000
27A28VAL00.0040.00122.996-0.018-0.0180.0000.0000.0000.000
28A29GLU-1-0.857-0.90422.769-0.152-0.1520.0000.0000.0000.000
29A30LEU00.0450.02620.975-0.015-0.0150.0000.0000.0000.000
30A31LEU0-0.018-0.02218.196-0.023-0.0230.0000.0000.0000.000
31A32ASP-1-0.789-0.85418.008-0.295-0.2950.0000.0000.0000.000
32A33LEU00.0320.03318.953-0.030-0.0300.0000.0000.0000.000
33A34ILE0-0.0080.00314.777-0.019-0.0190.0000.0000.0000.000
34A35ASN0-0.017-0.02913.972-0.114-0.1140.0000.0000.0000.000
35A36SER0-0.054-0.02115.015-0.048-0.0480.0000.0000.0000.000
36A37PHE00.0070.01314.7550.0240.0240.0000.0000.0000.000
37A38ASP-1-0.870-0.94811.094-0.460-0.4600.0000.0000.0000.000
38A39ASP-1-0.828-0.9369.899-0.351-0.3510.0000.0000.0000.000
39A40PHE0-0.032-0.0209.758-0.079-0.0790.0000.0000.0000.000
40A41VAL0-0.026-0.0038.229-0.059-0.0590.0000.0000.0000.000
41A42THR00.0210.02911.0140.0350.0350.0000.0000.0000.000
42A43LEU0-0.091-0.0539.189-0.044-0.0440.0000.0000.0000.000
43A44SER0-0.011-0.01413.3230.0280.0280.0000.0000.0000.000
44A45SER00.0180.00916.978-0.014-0.0140.0000.0000.0000.000
45A46CYS0-0.082-0.00320.0520.0130.0130.0000.0000.0000.000
46A47SER00.005-0.03323.7290.0020.0020.0000.0000.0000.000
47A48GLY00.0090.00126.1380.0060.0060.0000.0000.0000.000
48A49ARG10.9140.93826.7260.0650.0650.0000.0000.0000.000
49A50ILE00.0180.02931.5570.0040.0040.0000.0000.0000.000
50A51ALA0-0.038-0.02433.799-0.003-0.0030.0000.0000.0000.000
51A52VAL00.0470.02635.8390.0030.0030.0000.0000.0000.000
52A53VAL0-0.047-0.01834.392-0.002-0.0020.0000.0000.0000.000
53A54ASP-1-0.699-0.84537.777-0.017-0.0170.0000.0000.0000.000
54A55LEU0-0.054-0.03835.3820.0000.0000.0000.0000.0000.000
55A56GLU-1-0.812-0.89039.496-0.002-0.0020.0000.0000.0000.000
56A57LYS10.8570.91739.1950.0000.0000.0000.0000.0000.000
57A58PRO00.0640.02737.491-0.002-0.0020.0000.0000.0000.000
58A59GLY0-0.019-0.02033.4080.0020.0020.0000.0000.0000.000
59A60ASP-1-0.827-0.90533.1530.0000.0000.0000.0000.0000.000
60A61LYS10.9480.95329.7930.0140.0140.0000.0000.0000.000
61A62ALA00.0120.02432.627-0.004-0.0040.0000.0000.0000.000
62A63SER0-0.065-0.02134.076-0.002-0.0020.0000.0000.0000.000
63A64SER0-0.081-0.03533.321-0.003-0.0030.0000.0000.0000.000
64A65LEU00.0420.02235.553-0.002-0.0020.0000.0000.0000.000
65A66PHE0-0.050-0.02931.0550.0000.0000.0000.0000.0000.000
66A67LEU0-0.0260.00136.510-0.001-0.0010.0000.0000.0000.000
67A68GLY00.0420.01638.2870.0000.0000.0000.0000.0000.000
68A69LYS10.8880.94030.3540.0740.0740.0000.0000.0000.000
69A70TRP00.0310.02435.0520.0000.0000.0000.0000.0000.000
70A71HIS0-0.048-0.04128.5610.0050.0050.0000.0000.0000.000
71A72GLU-1-0.881-0.94532.704-0.073-0.0730.0000.0000.0000.000
72A73GLY0-0.056-0.03335.5180.0030.0030.0000.0000.0000.000
73A74VAL00.002-0.00138.625-0.001-0.0010.0000.0000.0000.000
74A75GLU-1-0.858-0.93040.914-0.033-0.0330.0000.0000.0000.000
75A76VAL0-0.017-0.02444.3790.0000.0000.0000.0000.0000.000
76A77SER00.0380.00746.1900.0010.0010.0000.0000.0000.000
77A78GLU-1-0.813-0.89242.236-0.044-0.0440.0000.0000.0000.000
78A79VAL0-0.026-0.01441.2600.0000.0000.0000.0000.0000.000
79A80ALA00.007-0.00943.6930.0010.0010.0000.0000.0000.000
80A81GLU-1-0.843-0.90845.563-0.034-0.0340.0000.0000.0000.000
81A82ALA00.0360.00741.8530.0010.0010.0000.0000.0000.000
82A83ALA0-0.001-0.00143.9820.0010.0010.0000.0000.0000.000
83A84LEU0-0.0050.01145.1480.0020.0020.0000.0000.0000.000
84A85ARG10.7570.87442.1680.0350.0350.0000.0000.0000.000
85A86SER0-0.060-0.02744.4290.0010.0010.0000.0000.0000.000
86A87ARG10.8830.92044.7050.0200.0200.0000.0000.0000.000
87A88LYS10.7950.88941.0070.0120.0120.0000.0000.0000.000
88A89VAL00.0410.03642.8130.0000.0000.0000.0000.0000.000
89A90ALA00.0290.02441.827-0.001-0.0010.0000.0000.0000.000
90A91TRP0-0.015-0.02038.4090.0020.0020.0000.0000.0000.000
91A92LEU00.0220.02638.841-0.003-0.0030.0000.0000.0000.000
92A93ILE0-0.026-0.03032.9230.0020.0020.0000.0000.0000.000
93A94GLN0-0.005-0.00431.649-0.005-0.0050.0000.0000.0000.000
94A95TYR0-0.070-0.04228.1730.0030.0030.0000.0000.0000.000
95A96PRO00.0360.02427.004-0.004-0.0040.0000.0000.0000.000
96A97PRO0-0.009-0.00525.161-0.002-0.0020.0000.0000.0000.000
97A98ILE0-0.069-0.02420.1610.0050.0050.0000.0000.0000.000
98A99ILE00.0460.02117.097-0.011-0.0110.0000.0000.0000.000
99A100HIS10.7630.87513.9460.1530.1530.0000.0000.0000.000
100A101VAL00.0800.03112.054-0.019-0.0190.0000.0000.0000.000
101A102ALA0-0.0220.0126.9860.0440.0440.0000.0000.0000.000
102A103CYS0-0.020-0.0078.2580.0420.0420.0000.0000.0000.000
103A104ARG10.8330.9245.994-0.388-0.3880.0000.0000.0000.000
104A105ASN0-0.017-0.0156.1600.0280.0280.0000.0000.0000.000
105A106ILE00.0530.0178.706-0.029-0.0290.0000.0000.0000.000
106A107GLY00.0040.00111.4810.0020.0020.0000.0000.0000.000
107A108ALA00.0300.02310.948-0.001-0.0010.0000.0000.0000.000
108A109ALA00.0380.01011.266-0.002-0.0020.0000.0000.0000.000
109A110LYS10.8940.94213.1500.0360.0360.0000.0000.0000.000
110A111LEU00.0380.02916.2230.0130.0130.0000.0000.0000.000
111A112LEU00.0400.02414.4350.0130.0130.0000.0000.0000.000
112A113MET0-0.0190.00116.2810.0140.0140.0000.0000.0000.000
113A114ASN0-0.031-0.00118.6240.0130.0130.0000.0000.0000.000
114A115ALA00.0770.05420.5110.0100.0100.0000.0000.0000.000
115A116ALA00.0240.01320.2820.0080.0080.0000.0000.0000.000
116A117ASN0-0.060-0.06021.9170.0180.0180.0000.0000.0000.000
117A118THR00.0270.00824.6650.0110.0110.0000.0000.0000.000
118A119ALA00.0080.02625.2840.0050.0050.0000.0000.0000.000
119A120GLY00.0180.01027.0550.0040.0040.0000.0000.0000.000
120A121PHE0-0.040-0.01423.7640.0070.0070.0000.0000.0000.000
121A122ARG10.8560.93124.4180.0470.0470.0000.0000.0000.000
122A123ARG10.9280.94823.8510.0300.0300.0000.0000.0000.000
123A124SER00.0510.04019.799-0.007-0.0070.0000.0000.0000.000
124A125GLY00.002-0.02017.8770.0140.0140.0000.0000.0000.000
125A126VAL0-0.0130.00311.432-0.022-0.0220.0000.0000.0000.000
126A127ILE0-0.0160.00313.3880.0350.0350.0000.0000.0000.000
127A128SER0-0.005-0.0089.6160.0470.0470.0000.0000.0000.000
128A129LEU00.0370.0059.494-0.090-0.0900.0000.0000.0000.000
129A130SER0-0.0260.0085.373-0.126-0.1260.0000.0000.0000.000
130A131ASN00.002-0.0082.562-4.058-3.2181.876-0.949-1.767-0.011
131A132TYR00.0390.0065.1750.1230.165-0.0010.000-0.0390.000
132A133VAL00.003-0.0018.559-0.008-0.0080.0000.0000.0000.000
133A134VAL0-0.009-0.00610.5830.0920.0920.0000.0000.0000.000
134A135GLU-1-0.851-0.92013.948-0.091-0.0910.0000.0000.0000.000
135A136ILE00.0200.00317.0670.0170.0170.0000.0000.0000.000
136A137ALA00.0640.02319.909-0.001-0.0010.0000.0000.0000.000
137A138SER00.011-0.01223.0620.0060.0060.0000.0000.0000.000
138A139LEU0-0.037-0.02526.6230.0000.0000.0000.0000.0000.000
139A140GLU-1-0.868-0.91826.451-0.040-0.0400.0000.0000.0000.000
140A141DAR10.8290.91227.9670.0300.0300.0000.0000.0000.000
141A142ILE0-0.0020.02733.3970.0020.0020.0000.0000.0000.000
142A143GLU-1-0.882-0.98233.964-0.021-0.0210.0000.0000.0000.000
143A144LEU0-0.055-0.01636.9430.0030.0030.0000.0000.0000.000
144A145PRO00.0010.01540.626-0.002-0.0020.0000.0000.0000.000
145A146VAL00.000-0.01743.0370.0000.0000.0000.0000.0000.000
146A147ALA00.0390.01545.3730.0000.0000.0000.0000.0000.000
147A148GLU-1-0.831-0.90945.979-0.008-0.0080.0000.0000.0000.000
148A149LYS10.7800.87847.5350.0090.0090.0000.0000.0000.000
149A150GLY00.0060.00948.3600.0000.0000.0000.0000.0000.000
150A151LEU0-0.029-0.00349.9770.0000.0000.0000.0000.0000.000
151A152MET0-0.0090.00947.6340.0000.0000.0000.0000.0000.000
152A153LEU0-0.023-0.01146.7310.0010.0010.0000.0000.0000.000
153A154VAL0-0.042-0.00947.4860.0010.0010.0000.0000.0000.000
154A155ASP-1-0.844-0.91850.673-0.015-0.0150.0000.0000.0000.000
155A156ASP-1-0.867-0.95251.167-0.022-0.0220.0000.0000.0000.000
156A157ALA00.0200.01950.974-0.001-0.0010.0000.0000.0000.000
157A158TYR00.008-0.00745.208-0.001-0.0010.0000.0000.0000.000
158A159LEU00.0310.01045.199-0.001-0.0010.0000.0000.0000.000
159A160SER00.0620.01145.996-0.002-0.0020.0000.0000.0000.000
160A161TYR0-0.109-0.02945.369-0.002-0.0020.0000.0000.0000.000
161A162VAL00.017-0.00142.516-0.001-0.0010.0000.0000.0000.000
162A163VAL00.0230.01941.636-0.002-0.0020.0000.0000.0000.000
163A164ARG10.9160.94041.4330.0220.0220.0000.0000.0000.000
164A165TRP0-0.0010.01438.323-0.002-0.0020.0000.0000.0000.000
165A166ALA0-0.009-0.01437.660-0.002-0.0020.0000.0000.0000.000
166A167ASN00.025-0.00436.813-0.006-0.0060.0000.0000.0000.000
167A168GLU-1-0.845-0.89937.490-0.037-0.0370.0000.0000.0000.000
168A169LYS10.8590.93333.7940.0340.0340.0000.0000.0000.000
169A170LEU00.0380.03131.574-0.004-0.0040.0000.0000.0000.000
170A171LEU00.0110.00532.647-0.006-0.0060.0000.0000.0000.000
171A172LYS10.8860.92933.5170.0340.0340.0000.0000.0000.000
172A173GLY0-0.051-0.02529.574-0.003-0.0030.0000.0000.0000.000
173A174LYS10.8260.88828.7390.0800.0800.0000.0000.0000.000
174A175GLU-1-0.863-0.92030.066-0.059-0.0590.0000.0000.0000.000
175A176LYS10.7790.90227.3310.0570.0570.0000.0000.0000.000
176A177LEU0-0.020-0.01124.146-0.007-0.0070.0000.0000.0000.000
177A178GLY00.0430.02726.017-0.009-0.0090.0000.0000.0000.000
178A179ARG10.9010.93928.2300.0600.0600.0000.0000.0000.000
179A180LEU0-0.050-0.02220.6380.0000.0000.0000.0000.0000.000
180A181GLN0-0.031-0.03223.596-0.015-0.0150.0000.0000.0000.000
181A182GLU-1-0.846-0.92724.859-0.085-0.0850.0000.0000.0000.000
182A183ALA0-0.0390.00024.4850.0000.0000.0000.0000.0000.000
183A184LEU0-0.025-0.02519.041-0.002-0.0020.0000.0000.0000.000
184A185GLU-1-0.797-0.87322.553-0.134-0.1340.0000.0000.0000.000
185A186SER0-0.066-0.04125.1180.0060.0060.0000.0000.0000.000
186A187LEU0-0.053-0.02520.3190.0030.0030.0000.0000.0000.000
187A188GLN0-0.053-0.04419.7380.0120.0120.0000.0000.0000.000
188A189ARG10.8060.87322.9760.1170.1170.0000.0000.0000.000
189A190GLU-1-0.939-0.95325.665-0.059-0.0590.0000.0000.0000.000
190A191ASN0-0.023-0.01726.5720.0120.0120.0000.0000.0000.000
191A192ALA0-0.036-0.01028.366-0.002-0.0020.0000.0000.0000.000
192A193TYR0-0.055-0.03629.223-0.002-0.0020.0000.0000.0000.000
193A194CYS0-0.053-0.02630.5540.0070.0070.0000.0000.0000.000
194A195SER00.0010.00928.727-0.006-0.0060.0000.0000.0000.000
195A196ASP-1-0.944-0.96127.804-0.050-0.0500.0000.0000.0000.000