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: LZ2M9

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 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 195
LigandCharge DAR=1
Software ABINIT-MP - Open Ver. 1 Rev. 22 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -2072585.821521
FMO2-HF: Nuclear repulsion 1995918.022261
FMO2-HF: Total energy -76667.79926
FMO2-MP2: Total energy -76892.414309


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.
-9.307-3.454.679-3.867-6.67-0.035
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 : 0.009 / q_NPA : -0.002
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-1-0.728-0.8503.704-2.384-0.495-0.011-0.775-1.1030.000
4A5GLN0-0.049-0.0282.268-4.374-3.3582.628-1.468-2.176-0.021
5A6PHE00.0260.0052.8870.5821.6700.104-0.329-0.8640.000
6A7LYS10.8610.9394.8571.3831.518-0.001-0.012-0.1230.000
7A8LYS10.9920.9927.6841.5531.5530.0000.0000.0000.000
8A9GLU-1-0.860-0.8927.812-0.276-0.2760.0000.0000.0000.000
9A10LYS10.9120.9537.8130.5390.5390.0000.0000.0000.000
10A11LEU00.0460.03510.7010.1230.1230.0000.0000.0000.000
11A12ARG10.8410.88912.2070.5940.5940.0000.0000.0000.000
12A13GLY0-0.015-0.00713.5080.0730.0730.0000.0000.0000.000
13A14TYR0-0.020-0.04614.7930.0550.0550.0000.0000.0000.000
14A15LEU00.0190.00216.4820.0420.0420.0000.0000.0000.000
15A16GLU-1-0.814-0.88718.188-0.170-0.1700.0000.0000.0000.000
16A17ALA0-0.036-0.00819.2360.0320.0320.0000.0000.0000.000
17A18LYS10.8450.90320.7080.2640.2640.0000.0000.0000.000
18A19ASN0-0.037-0.02322.2160.0240.0240.0000.0000.0000.000
19A20GLN0-0.059-0.03322.7710.0360.0360.0000.0000.0000.000
20A21ARG10.8920.93725.7200.1470.1470.0000.0000.0000.000
21A22LYS10.8450.92823.4310.1270.1270.0000.0000.0000.000
22A23VAL0-0.001-0.01221.400-0.010-0.0100.0000.0000.0000.000
23A24ASP-1-0.727-0.83424.099-0.101-0.1010.0000.0000.0000.000
24A25PHE00.020-0.00625.980-0.008-0.0080.0000.0000.0000.000
25A26ASP-1-0.759-0.84028.065-0.109-0.1090.0000.0000.0000.000
26A27ILE00.0110.00222.4410.0010.0010.0000.0000.0000.000
27A28VAL0-0.003-0.00323.163-0.017-0.0170.0000.0000.0000.000
28A29GLU-1-0.858-0.90022.866-0.153-0.1530.0000.0000.0000.000
29A30LEU00.0530.02521.282-0.015-0.0150.0000.0000.0000.000
30A31LEU0-0.029-0.02418.407-0.023-0.0230.0000.0000.0000.000
31A32ASP-1-0.801-0.86018.150-0.296-0.2960.0000.0000.0000.000
32A33LEU00.0200.02719.054-0.030-0.0300.0000.0000.0000.000
33A34ILE0-0.0090.00214.887-0.020-0.0200.0000.0000.0000.000
34A35ASN0-0.010-0.03514.010-0.112-0.1120.0000.0000.0000.000
35A36SER0-0.053-0.02014.909-0.048-0.0480.0000.0000.0000.000
36A37PHE00.0240.02215.0440.0150.0150.0000.0000.0000.000
37A38ASP-1-0.822-0.90610.806-0.491-0.4910.0000.0000.0000.000
38A39ASP-1-0.834-0.9459.967-0.406-0.4060.0000.0000.0000.000
39A40PHE0-0.0100.0019.778-0.090-0.0900.0000.0000.0000.000
40A41VAL0-0.022-0.0018.283-0.060-0.0600.0000.0000.0000.000
41A42THR00.0130.02611.1270.0390.0390.0000.0000.0000.000
42A43LEU0-0.060-0.0409.248-0.028-0.0280.0000.0000.0000.000
43A44SER00.005-0.00713.4050.0490.0490.0000.0000.0000.000
44A45SER0-0.021-0.00417.144-0.016-0.0160.0000.0000.0000.000
45A46CYS0-0.073-0.00520.2820.0140.0140.0000.0000.0000.000
46A47SER00.000-0.03524.0130.0010.0010.0000.0000.0000.000
47A48GLY00.0190.01126.3610.0050.0050.0000.0000.0000.000
48A49ARG10.8980.92026.6570.0620.0620.0000.0000.0000.000
49A50ILE00.0230.02031.5920.0040.0040.0000.0000.0000.000
50A51ALA0-0.020-0.01334.155-0.003-0.0030.0000.0000.0000.000
51A52VAL00.0190.02036.1510.0030.0030.0000.0000.0000.000
52A53VAL0-0.047-0.02834.733-0.002-0.0020.0000.0000.0000.000
53A54ASP-1-0.706-0.84538.109-0.015-0.0150.0000.0000.0000.000
54A55LEU0-0.051-0.03535.6160.0000.0000.0000.0000.0000.000
55A56GLU-1-0.774-0.87739.713-0.001-0.0010.0000.0000.0000.000
56A57LYS10.8240.89339.038-0.002-0.0020.0000.0000.0000.000
57A58PRO00.0510.03237.581-0.002-0.0020.0000.0000.0000.000
58A59GLY00.002-0.00833.4490.0030.0030.0000.0000.0000.000
59A60ASP-1-0.832-0.90232.9370.0030.0030.0000.0000.0000.000
60A61LYS10.9020.94130.0470.0130.0130.0000.0000.0000.000
61A62ALA00.0050.02732.893-0.003-0.0030.0000.0000.0000.000
62A63SER0-0.082-0.04433.914-0.002-0.0020.0000.0000.0000.000
63A64SER0-0.036-0.02133.751-0.003-0.0030.0000.0000.0000.000
64A65LEU00.0350.01336.164-0.001-0.0010.0000.0000.0000.000
65A66PHE0-0.029-0.02331.3520.0000.0000.0000.0000.0000.000
66A67LEU0-0.0200.02136.777-0.001-0.0010.0000.0000.0000.000
67A68GLY00.0470.01938.713-0.001-0.0010.0000.0000.0000.000
68A69LYS10.8450.92931.5630.0710.0710.0000.0000.0000.000
69A70TRP00.0070.00135.320-0.001-0.0010.0000.0000.0000.000
70A71HIS0-0.020-0.03728.2040.0060.0060.0000.0000.0000.000
71A72GLU-1-0.859-0.93132.581-0.072-0.0720.0000.0000.0000.000
72A73GLY0-0.049-0.02635.4590.0030.0030.0000.0000.0000.000
73A74VAL0-0.014-0.00638.519-0.001-0.0010.0000.0000.0000.000
74A75GLU-1-0.831-0.92440.862-0.032-0.0320.0000.0000.0000.000
75A76VAL0-0.020-0.01744.4600.0000.0000.0000.0000.0000.000
76A77SER00.0380.01046.3880.0010.0010.0000.0000.0000.000
77A78GLU-1-0.830-0.89542.550-0.043-0.0430.0000.0000.0000.000
78A79VAL0-0.013-0.00841.2870.0010.0010.0000.0000.0000.000
79A80ALA00.011-0.00443.7510.0010.0010.0000.0000.0000.000
80A81GLU-1-0.848-0.90445.849-0.031-0.0310.0000.0000.0000.000
81A82ALA00.0280.00142.1050.0010.0010.0000.0000.0000.000
82A83ALA0-0.002-0.01044.2440.0010.0010.0000.0000.0000.000
83A84LEU0-0.0050.00845.4310.0020.0020.0000.0000.0000.000
84A85ARG10.7440.85542.5320.0320.0320.0000.0000.0000.000
85A86SER0-0.056-0.03044.6440.0010.0010.0000.0000.0000.000
86A87ARG10.8330.89844.9460.0180.0180.0000.0000.0000.000
87A88LYS10.7560.87440.3980.0100.0100.0000.0000.0000.000
88A89VAL00.0270.01543.0700.0000.0000.0000.0000.0000.000
89A90ALA00.0500.03842.022-0.001-0.0010.0000.0000.0000.000
90A91TRP0-0.013-0.01438.6500.0020.0020.0000.0000.0000.000
91A92LEU00.0220.02439.065-0.002-0.0020.0000.0000.0000.000
92A93ILE0-0.042-0.04333.2620.0020.0020.0000.0000.0000.000
93A94GLN0-0.021-0.00831.859-0.004-0.0040.0000.0000.0000.000
94A95TYR0-0.056-0.03628.1540.0040.0040.0000.0000.0000.000
95A96PRO00.0250.01826.777-0.003-0.0030.0000.0000.0000.000
96A97PRO00.0010.00225.306-0.002-0.0020.0000.0000.0000.000
97A98ILE0-0.072-0.02420.3720.0050.0050.0000.0000.0000.000
98A99ILE00.0370.01517.112-0.008-0.0080.0000.0000.0000.000
99A100HIS10.7740.86714.0330.1420.1420.0000.0000.0000.000
100A101VAL00.0660.02212.004-0.016-0.0160.0000.0000.0000.000
101A102ALA0-0.0090.0116.8370.0390.0390.0000.0000.0000.000
102A103CYS0-0.038-0.0137.8480.0590.0590.0000.0000.0000.000
103A104ARG10.7930.8735.867-0.302-0.3020.0000.0000.0000.000
104A105ASN0-0.023-0.0176.4430.1140.1140.0000.0000.0000.000
105A106ILE00.0500.0178.737-0.002-0.0020.0000.0000.0000.000
106A107GLY0-0.0120.00311.3580.0260.0260.0000.0000.0000.000
107A108ALA00.0670.03211.0450.0100.0100.0000.0000.0000.000
108A109ALA00.0260.00711.0890.0090.0090.0000.0000.0000.000
109A110LYS10.9090.94612.9880.0830.0830.0000.0000.0000.000
110A111LEU00.0270.02616.0570.0180.0180.0000.0000.0000.000
111A112LEU00.0380.02314.2950.0160.0160.0000.0000.0000.000
112A113MET0-0.034-0.00716.4030.0190.0190.0000.0000.0000.000
113A114ASN0-0.0230.00018.6030.0150.0150.0000.0000.0000.000
114A115ALA00.0800.05320.2790.0120.0120.0000.0000.0000.000
115A116ALA00.0260.01420.1200.0100.0100.0000.0000.0000.000
116A117ASN0-0.061-0.04921.8030.0210.0210.0000.0000.0000.000
117A118THR00.0280.00924.4840.0130.0130.0000.0000.0000.000
118A119ALA00.0190.03125.1350.0060.0060.0000.0000.0000.000
119A120GLY00.0520.02126.4410.0060.0060.0000.0000.0000.000
120A121PHE0-0.055-0.01023.3770.0090.0090.0000.0000.0000.000
121A122ARG10.8510.92423.9610.0530.0530.0000.0000.0000.000
122A123ARG10.9090.93423.4860.0420.0420.0000.0000.0000.000
123A124SER0-0.006-0.00319.566-0.004-0.0040.0000.0000.0000.000
124A125GLY00.015-0.00817.8320.0140.0140.0000.0000.0000.000
125A126VAL0-0.026-0.01111.326-0.019-0.0190.0000.0000.0000.000
126A127ILE00.0030.01713.2790.0270.0270.0000.0000.0000.000
127A128SER0-0.003-0.0079.5050.0490.0490.0000.0000.0000.000
128A129LEU00.0390.0088.983-0.105-0.1050.0000.0000.0000.000
129A130SER0-0.0340.0094.722-0.152-0.087-0.001-0.005-0.0590.000
130A131ASN00.014-0.0072.501-6.095-4.4861.961-1.276-2.293-0.014
131A132TYR00.0250.0044.9610.1870.242-0.001-0.002-0.0520.000
132A133VAL00.0130.0018.4030.0240.0240.0000.0000.0000.000
133A134VAL00.0020.00910.4630.0930.0930.0000.0000.0000.000
134A135GLU-1-0.860-0.92013.828-0.088-0.0880.0000.0000.0000.000
135A136ILE00.0260.01516.8350.0110.0110.0000.0000.0000.000
136A137ALA00.0590.02619.7060.0020.0020.0000.0000.0000.000
137A138SER00.019-0.00422.9200.0040.0040.0000.0000.0000.000
138A139LEU0-0.0080.00126.5470.0010.0010.0000.0000.0000.000
139A140GLU-1-0.836-0.89926.754-0.040-0.0400.0000.0000.0000.000
140A141DAR10.7630.87228.1500.0330.0330.0000.0000.0000.000
141A142ILE00.0070.03233.1300.0020.0020.0000.0000.0000.000
142A143GLU-1-0.814-0.93333.472-0.020-0.0200.0000.0000.0000.000
143A144LEU0-0.0040.00436.9070.0030.0030.0000.0000.0000.000
144A145PRO0-0.0130.01140.655-0.002-0.0020.0000.0000.0000.000
145A146VAL0-0.003-0.01643.1700.0000.0000.0000.0000.0000.000
146A147ALA00.0460.01445.5520.0000.0000.0000.0000.0000.000
147A148GLU-1-0.843-0.90946.097-0.007-0.0070.0000.0000.0000.000
148A149LYS10.7970.88747.7260.0080.0080.0000.0000.0000.000
149A150GLY00.0430.03949.0680.0000.0000.0000.0000.0000.000
150A151LEU0-0.041-0.01350.534-0.001-0.0010.0000.0000.0000.000
151A152MET0-0.0070.00448.2210.0000.0000.0000.0000.0000.000
152A153LEU0-0.025-0.01146.7920.0010.0010.0000.0000.0000.000
153A154VAL0-0.048-0.01347.5700.0010.0010.0000.0000.0000.000
154A155ASP-1-0.818-0.90750.682-0.016-0.0160.0000.0000.0000.000
155A156ASP-1-0.863-0.94950.931-0.022-0.0220.0000.0000.0000.000
156A157ALA00.0160.02450.805-0.001-0.0010.0000.0000.0000.000
157A158TYR00.000-0.01444.986-0.001-0.0010.0000.0000.0000.000
158A159LEU00.0180.00445.367-0.001-0.0010.0000.0000.0000.000
159A160SER00.0720.01645.890-0.002-0.0020.0000.0000.0000.000
160A161TYR0-0.100-0.02044.935-0.002-0.0020.0000.0000.0000.000
161A162VAL00.013-0.00342.298-0.002-0.0020.0000.0000.0000.000
162A163VAL00.0220.01941.477-0.002-0.0020.0000.0000.0000.000
163A164ARG10.8950.93141.4200.0220.0220.0000.0000.0000.000
164A165TRP0-0.0010.00338.453-0.002-0.0020.0000.0000.0000.000
165A166ALA0-0.004-0.00937.449-0.002-0.0020.0000.0000.0000.000
166A167ASN00.0410.00636.701-0.006-0.0060.0000.0000.0000.000
167A168GLU-1-0.852-0.90537.514-0.039-0.0390.0000.0000.0000.000
168A169LYS10.8680.93534.0000.0330.0330.0000.0000.0000.000
169A170LEU00.0220.02131.585-0.004-0.0040.0000.0000.0000.000
170A171LEU0-0.0010.00532.721-0.006-0.0060.0000.0000.0000.000
171A172LYS10.8750.91933.5420.0350.0350.0000.0000.0000.000
172A173GLY0-0.037-0.02229.606-0.003-0.0030.0000.0000.0000.000
173A174LYS10.7940.86928.9390.0780.0780.0000.0000.0000.000
174A175GLU-1-0.848-0.90730.184-0.061-0.0610.0000.0000.0000.000
175A176LYS10.7740.89327.0100.0610.0610.0000.0000.0000.000
176A177LEU0-0.026-0.01324.234-0.009-0.0090.0000.0000.0000.000
177A178GLY00.0480.03726.134-0.009-0.0090.0000.0000.0000.000
178A179ARG10.9050.92927.9960.0610.0610.0000.0000.0000.000
179A180LEU0-0.053-0.02920.579-0.001-0.0010.0000.0000.0000.000
180A181GLN0-0.026-0.02823.777-0.015-0.0150.0000.0000.0000.000
181A182GLU-1-0.868-0.93925.109-0.087-0.0870.0000.0000.0000.000
182A183ALA0-0.032-0.00124.5480.0010.0010.0000.0000.0000.000
183A184LEU0-0.041-0.02919.163-0.003-0.0030.0000.0000.0000.000
184A185GLU-1-0.787-0.87622.659-0.136-0.1360.0000.0000.0000.000
185A186SER0-0.050-0.03125.1780.0060.0060.0000.0000.0000.000
186A187LEU0-0.044-0.02320.4240.0020.0020.0000.0000.0000.000
187A188GLN0-0.064-0.04119.9850.0100.0100.0000.0000.0000.000
188A189ARG10.8100.86523.2630.1210.1210.0000.0000.0000.000
189A190GLU-1-0.941-0.95025.895-0.066-0.0660.0000.0000.0000.000
190A191ASN0-0.006-0.00526.6370.0120.0120.0000.0000.0000.000
191A192ALA0-0.044-0.02028.187-0.002-0.0020.0000.0000.0000.000
192A193TYR0-0.061-0.03329.069-0.001-0.0010.0000.0000.0000.000
193A194CYS0-0.056-0.03230.3090.0080.0080.0000.0000.0000.000
194A195SER0-0.0120.00828.476-0.007-0.0070.0000.0000.0000.000
195A196ASP-1-0.926-0.95427.736-0.052-0.0520.0000.0000.0000.000