FMODB

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

Last updated: 2024-07-23

All entries: 37450

Number of unique PDB entries: 7783

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FMODB ID: N9N4Q

Calculation Name: 2GW1-A-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 2GW1

Chain ID: A

ChEMBL ID:

UniProt ID: P07213

Base Structure: X-ray

Registration Date: 2023-06-22

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 486
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -9214257.29446
FMO2-HF: Nuclear repulsion 9018856.508302
FMO2-HF: Total energy -195400.786158
FMO2-MP2: Total energy -195974.355793


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:94:GLU)


Summations of interaction energy for fragment #1(A:94:GLU)
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.
16.28321.2133.446-3.554-4.8190.017
Interaction energy analysis for fragmet #1(A:94:GLU)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : -1 / q_Mulliken : -0.897 / q_NPA : -0.962
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].
3A96ASP-1-0.821-0.9413.41733.07235.1070.042-0.763-1.3130.002
4A97LYS10.9570.9941.931-60.459-57.9693.397-2.711-3.1750.015
5A98TYR0-0.005-0.0393.837-5.970-5.5650.007-0.080-0.3310.000
6A99ALA00.0670.0346.612-3.936-3.9360.0000.0000.0000.000
7A100LEU0-0.063-0.0237.160-2.853-2.8530.0000.0000.0000.000
8A101ALA0-0.025-0.0017.879-2.471-2.4710.0000.0000.0000.000
9A102LEU0-0.055-0.0039.604-2.403-2.4030.0000.0000.0000.000
10A103LYS11.0161.02011.971-22.413-22.4130.0000.0000.0000.000
11A104ASP-1-0.893-0.95111.66921.43321.4330.0000.0000.0000.000
12A105LYS10.9410.96713.788-21.502-21.5020.0000.0000.0000.000
13A106GLY00.0280.00715.673-1.145-1.1450.0000.0000.0000.000
14A107ASN00.0240.01316.868-1.351-1.3510.0000.0000.0000.000
15A108GLN0-0.055-0.01118.669-0.269-0.2690.0000.0000.0000.000
16A109PHE0-0.051-0.02419.633-0.668-0.6680.0000.0000.0000.000
17A110PHE00.0210.03621.775-0.524-0.5240.0000.0000.0000.000
18A111ARG10.9620.97820.366-14.401-14.4010.0000.0000.0000.000
19A112ASN0-0.072-0.04724.704-0.255-0.2550.0000.0000.0000.000
20A113LYS10.9750.98526.932-10.211-10.2110.0000.0000.0000.000
21A114LYS10.7960.94125.293-12.016-12.0160.0000.0000.0000.000
22A115TYR00.0980.00525.1800.4330.4330.0000.0000.0000.000
23A116ASP-1-0.881-0.93724.78111.18511.1850.0000.0000.0000.000
24A117ASP-1-0.874-0.92522.74012.76012.7600.0000.0000.0000.000
25A118ALA0-0.017-0.02120.2500.6440.6440.0000.0000.0000.000
26A119ILE00.0260.01819.8080.8060.8060.0000.0000.0000.000
27A120LYS11.0141.01719.920-12.479-12.4790.0000.0000.0000.000
28A121TYR0-0.016-0.01715.0141.0261.0260.0000.0000.0000.000
29A122TYR0-0.046-0.04915.3091.0261.0260.0000.0000.0000.000
30A123ASN0-0.013-0.03216.3240.1750.1750.0000.0000.0000.000
31A124TRP00.0240.00214.5140.0980.0980.0000.0000.0000.000
32A125ALA0-0.013-0.00311.7501.2321.2320.0000.0000.0000.000
33A126LEU0-0.047-0.02511.7141.1821.1820.0000.0000.0000.000
34A127GLU-1-0.932-0.94912.74217.03917.0390.0000.0000.0000.000
35A128LEU0-0.154-0.0427.2981.3081.3080.0000.0000.0000.000
36A129LYS10.9390.9518.513-21.240-21.2400.0000.0000.0000.000
37A130GLU-1-0.798-0.89810.51714.90914.9090.0000.0000.0000.000
38A131ASP-1-0.938-0.97212.35018.42918.4290.0000.0000.0000.000
39A132PRO00.1200.05314.324-0.331-0.3310.0000.0000.0000.000
40A133VAL0-0.058-0.02915.829-0.748-0.7480.0000.0000.0000.000
41A134PHE0-0.027-0.01011.099-0.276-0.2760.0000.0000.0000.000
42A135TYR00.0340.01717.100-0.585-0.5850.0000.0000.0000.000
43A136SER0-0.036-0.01120.355-0.723-0.7230.0000.0000.0000.000
44A137ASN0-0.005-0.01917.736-1.190-1.1900.0000.0000.0000.000
45A138LEU0-0.0190.01019.907-0.446-0.4460.0000.0000.0000.000
46A139SER00.0140.01122.657-0.523-0.5230.0000.0000.0000.000
47A140ALA0-0.017-0.01524.340-0.426-0.4260.0000.0000.0000.000
48A141CYS0-0.023-0.00924.269-0.292-0.2920.0000.0000.0000.000
49A142TYR00.030-0.01624.616-0.335-0.3350.0000.0000.0000.000
50A143VAL00.0070.01228.606-0.350-0.3500.0000.0000.0000.000
51A144SER0-0.015-0.00629.361-0.182-0.1820.0000.0000.0000.000
52A145VAL0-0.043-0.01229.291-0.151-0.1510.0000.0000.0000.000
53A146GLY00.0340.02832.033-0.266-0.2660.0000.0000.0000.000
54A147ASP-1-0.901-0.94731.0229.4129.4120.0000.0000.0000.000
55A148LEU00.0620.01031.6960.2920.2920.0000.0000.0000.000
56A149LYS10.9860.98632.770-8.123-8.1230.0000.0000.0000.000
57A150LYS10.9320.99125.761-11.028-11.0280.0000.0000.0000.000
58A151VAL0-0.049-0.00628.3900.3870.3870.0000.0000.0000.000
59A152VAL00.0340.00328.7700.2510.2510.0000.0000.0000.000
60A153GLU-1-0.865-0.91026.29811.15911.1590.0000.0000.0000.000
61A154MET0-0.069-0.04223.7690.4990.4990.0000.0000.0000.000
62A155SER00.0320.00324.2420.4310.4310.0000.0000.0000.000
63A156THR0-0.023-0.01925.976-0.002-0.0020.0000.0000.0000.000
64A157LYS10.9230.97822.392-11.985-11.9850.0000.0000.0000.000
65A158ALA0-0.027-0.01821.3920.4030.4030.0000.0000.0000.000
66A159LEU0-0.021-0.01422.3220.2270.2270.0000.0000.0000.000
67A160GLU-1-0.975-0.98824.17710.94110.9410.0000.0000.0000.000
68A161LEU0-0.073-0.02718.0420.1710.1710.0000.0000.0000.000
69A162LYS10.7690.88920.112-12.594-12.5940.0000.0000.0000.000
70A163PRO00.0610.03022.482-0.174-0.1740.0000.0000.0000.000
71A164ASP-1-0.821-0.89924.03011.80811.8080.0000.0000.0000.000
72A165TYR0-0.007-0.04120.1350.5940.5940.0000.0000.0000.000
73A166SER00.1170.06025.895-0.015-0.0150.0000.0000.0000.000
74A167LYS10.9320.97322.550-12.905-12.9050.0000.0000.0000.000
75A168VAL0-0.068-0.01723.968-0.024-0.0240.0000.0000.0000.000
76A169LEU00.0460.02427.304-0.164-0.1640.0000.0000.0000.000
77A170LEU00.0560.01630.205-0.234-0.2340.0000.0000.0000.000
78A171ARG10.8580.93124.838-11.505-11.5050.0000.0000.0000.000
79A172ARG10.8410.90430.320-9.539-9.5390.0000.0000.0000.000
80A173ALA00.0400.02832.146-0.228-0.2280.0000.0000.0000.000
81A174SER0-0.011-0.00334.779-0.310-0.3100.0000.0000.0000.000
82A175ALA00.013-0.00232.900-0.148-0.1480.0000.0000.0000.000
83A176ASN0-0.009-0.02234.999-0.174-0.1740.0000.0000.0000.000
84A177GLU-1-0.750-0.82037.1357.1947.1940.0000.0000.0000.000
85A178GLY00.0380.01938.500-0.199-0.1990.0000.0000.0000.000
86A179LEU0-0.093-0.05935.730-0.150-0.1500.0000.0000.0000.000
87A180GLY00.0350.01839.944-0.136-0.1360.0000.0000.0000.000
88A181LYS10.8830.95238.077-7.863-7.8630.0000.0000.0000.000
89A182PHE00.0480.00840.7360.1300.1300.0000.0000.0000.000
90A183ALA00.0190.01442.5100.0550.0550.0000.0000.0000.000
91A184ASP-1-0.889-0.95237.4967.8317.8310.0000.0000.0000.000
92A185ALA0-0.0070.00638.1900.1720.1720.0000.0000.0000.000
93A186MET0-0.0060.01639.1120.0250.0250.0000.0000.0000.000
94A187PHE00.0060.03434.9680.0220.0220.0000.0000.0000.000
95A188ASP-1-0.784-0.89934.0948.8988.8980.0000.0000.0000.000
96A189LEU0-0.010-0.01435.6320.1610.1610.0000.0000.0000.000
97A190SER00.010-0.00837.882-0.055-0.0550.0000.0000.0000.000
98A191VAL0-0.071-0.02033.7650.0120.0120.0000.0000.0000.000
99A192LEU0-0.071-0.05832.3200.1900.1900.0000.0000.0000.000
100A193SER0-0.069-0.04035.234-0.022-0.0220.0000.0000.0000.000
101A194LEU0-0.063-0.01837.113-0.113-0.1130.0000.0000.0000.000
102A195ASN00.0190.00631.9380.0480.0480.0000.0000.0000.000
103A196GLY0-0.052-0.01332.0990.0610.0610.0000.0000.0000.000
104A197ASP-1-0.862-0.92732.6858.4858.4850.0000.0000.0000.000
105A198PHE0-0.114-0.06331.0530.1120.1120.0000.0000.0000.000
106A199ASN00.0600.01035.788-0.125-0.1250.0000.0000.0000.000
107A200ASP-1-0.819-0.87639.3587.7227.7220.0000.0000.0000.000
108A201ALA0-0.007-0.01042.0160.0230.0230.0000.0000.0000.000
109A202SER0-0.093-0.06839.0890.0090.0090.0000.0000.0000.000
110A203ILE00.006-0.00837.3810.0580.0580.0000.0000.0000.000
111A204GLU-1-0.881-0.93440.4397.1217.1210.0000.0000.0000.000
112A205PRO00.0350.02443.239-0.093-0.0930.0000.0000.0000.000
113A206MET0-0.054-0.02137.285-0.010-0.0100.0000.0000.0000.000
114A207LEU00.0200.02441.514-0.040-0.0400.0000.0000.0000.000
115A208GLU-1-0.884-0.92943.9316.2946.2940.0000.0000.0000.000
116A209ARG10.8210.87241.250-7.371-7.3710.0000.0000.0000.000
117A210ASN0-0.045-0.04441.429-0.069-0.0690.0000.0000.0000.000
118A211LEU00.0760.00345.265-0.090-0.0900.0000.0000.0000.000
119A212ASN0-0.050-0.01647.776-0.099-0.0990.0000.0000.0000.000
120A213LYS10.9170.96044.854-6.955-6.9550.0000.0000.0000.000
121A214GLN0-0.023-0.01846.4670.0630.0630.0000.0000.0000.000
122A215ALA0-0.008-0.01248.791-0.084-0.0840.0000.0000.0000.000
123A216MET00.0020.00652.309-0.115-0.1150.0000.0000.0000.000
124A217SER0-0.039-0.02049.572-0.119-0.1190.0000.0000.0000.000
125A218LYS10.9540.96049.638-6.183-6.1830.0000.0000.0000.000
126A219LEU00.0220.02053.407-0.084-0.0840.0000.0000.0000.000
127A220LYS10.9390.96454.958-5.722-5.7220.0000.0000.0000.000
128A221GLU-1-0.985-0.97252.5175.8555.8550.0000.0000.0000.000
129A222LYS10.8630.94356.807-5.206-5.2060.0000.0000.0000.000
130A250ASN0-0.006-0.02170.499-0.032-0.0320.0000.0000.0000.000
131A251LEU00.0150.00569.8940.0460.0460.0000.0000.0000.000
132A252PRO0-0.0100.00565.8970.0490.0490.0000.0000.0000.000
133A253SER00.0060.01662.6150.0070.0070.0000.0000.0000.000
134A254VAL00.0860.04864.592-0.051-0.0510.0000.0000.0000.000
135A255THR0-0.034-0.03760.3770.0020.0020.0000.0000.0000.000
136A256SER0-0.103-0.05463.2900.0030.0030.0000.0000.0000.000
137A257MET00.0370.03464.335-0.045-0.0450.0000.0000.0000.000
138A258ALA00.0070.00765.212-0.044-0.0440.0000.0000.0000.000
139A259SER0-0.095-0.05863.044-0.001-0.0010.0000.0000.0000.000
140A260PHE0-0.014-0.00265.095-0.014-0.0140.0000.0000.0000.000
141A261PHE00.008-0.02767.958-0.048-0.0480.0000.0000.0000.000
142A262GLY0-0.025-0.00567.913-0.052-0.0520.0000.0000.0000.000
143A263ILE0-0.042-0.00167.190-0.009-0.0090.0000.0000.0000.000
144A264PHE0-0.060-0.02970.085-0.045-0.0450.0000.0000.0000.000
145A265LYS10.9761.00073.565-3.956-3.9560.0000.0000.0000.000
146A266PRO00.000-0.03274.328-0.043-0.0430.0000.0000.0000.000
147A267GLU-1-0.935-0.94976.9913.8553.8550.0000.0000.0000.000
148A268LEU00.015-0.03878.8970.0240.0240.0000.0000.0000.000
149A269THR0-0.073-0.03182.619-0.037-0.0370.0000.0000.0000.000
150A270PHE00.0740.02986.138-0.016-0.0160.0000.0000.0000.000
151A271ALA00.0540.02388.022-0.022-0.0220.0000.0000.0000.000
152A272ASN0-0.054-0.03791.661-0.027-0.0270.0000.0000.0000.000
153A273TYR0-0.010-0.01289.6320.0000.0000.0000.0000.0000.000
154A274ASP-1-0.876-0.98191.7803.4523.4520.0000.0000.0000.000
155A275GLU-1-0.876-0.90193.4853.2693.2690.0000.0000.0000.000
156A276SER0-0.062-0.00595.4040.0220.0220.0000.0000.0000.000
157A277ASN0-0.093-0.09494.678-0.022-0.0220.0000.0000.0000.000
158A278GLU-1-0.931-0.97592.3513.4823.4820.0000.0000.0000.000
159A279ALA00.0440.02990.7860.0480.0480.0000.0000.0000.000
160A280ASP-1-0.748-0.86389.7973.5223.5220.0000.0000.0000.000
161A281LYS10.9190.97289.264-3.456-3.4560.0000.0000.0000.000
162A282GLU-1-0.870-0.93585.9063.8043.8040.0000.0000.0000.000
163A283LEU00.0020.00684.7330.0620.0620.0000.0000.0000.000
164A284MET0-0.0170.00484.2430.0740.0740.0000.0000.0000.000
165A285ASN0-0.062-0.01281.3520.0570.0570.0000.0000.0000.000
166A286GLY00.1190.06280.3690.0590.0590.0000.0000.0000.000
167A287LEU0-0.020-0.00979.3990.0620.0620.0000.0000.0000.000
168A288SER0-0.057-0.03279.5750.0540.0540.0000.0000.0000.000
169A289ASN0-0.059-0.05976.412-0.013-0.0130.0000.0000.0000.000
170A290LEU00.0170.04874.3460.0640.0640.0000.0000.0000.000
171A291TYR0-0.0190.00373.6410.0620.0620.0000.0000.0000.000
172A292LYS10.9010.96673.434-4.199-4.1990.0000.0000.0000.000
173A293ARG10.8700.96466.922-4.685-4.6850.0000.0000.0000.000
174A294SER00.0650.02568.709-0.066-0.0660.0000.0000.0000.000
175A295PRO00.0840.02666.300-0.026-0.0260.0000.0000.0000.000
176A296GLU-1-0.914-0.93268.8204.3464.3460.0000.0000.0000.000
177A297SER0-0.061-0.05571.745-0.090-0.0900.0000.0000.0000.000
178A298TYR00.038-0.00968.605-0.022-0.0220.0000.0000.0000.000
179A299ASP-1-0.892-0.94471.4244.4694.4690.0000.0000.0000.000
180A300LYS10.9010.94374.321-4.062-4.0620.0000.0000.0000.000
181A301ALA0-0.016-0.00676.576-0.069-0.0690.0000.0000.0000.000
182A302ASP-1-0.884-0.93476.1664.1184.1180.0000.0000.0000.000
183A303GLU-1-0.925-0.95878.2433.9173.9170.0000.0000.0000.000
184A304SER0-0.011-0.00280.743-0.062-0.0620.0000.0000.0000.000
185A305PHE00.0250.00378.588-0.060-0.0600.0000.0000.0000.000
186A306THR0-0.041-0.03381.052-0.064-0.0640.0000.0000.0000.000
187A307LYS10.8430.93683.924-3.729-3.7290.0000.0000.0000.000
188A308ALA00.0290.00086.182-0.055-0.0550.0000.0000.0000.000
189A309ALA0-0.015-0.00586.202-0.045-0.0450.0000.0000.0000.000
190A310ARG10.9190.94888.004-3.687-3.6870.0000.0000.0000.000
191A311LEU00.0250.03390.250-0.032-0.0320.0000.0000.0000.000
192A312PHE0-0.0050.01089.502-0.040-0.0400.0000.0000.0000.000
193A313GLU-1-0.907-0.96191.1623.4853.4850.0000.0000.0000.000
194A314GLU-1-0.933-0.95593.4323.3803.3800.0000.0000.0000.000
195A315GLN0-0.050-0.05195.327-0.010-0.0100.0000.0000.0000.000
196A316LEU00.000-0.00694.738-0.040-0.0400.0000.0000.0000.000
197A317ASP-1-0.902-0.94597.9643.2563.2560.0000.0000.0000.000
198A318LYS10.8090.927100.553-3.117-3.1170.0000.0000.0000.000
199A319ASN0-0.074-0.061101.041-0.040-0.0400.0000.0000.0000.000
200A320ASN00.0500.020100.6240.0080.0080.0000.0000.0000.000
201A321GLU-1-0.944-0.957100.6973.1813.1810.0000.0000.0000.000
202A322ASP-1-0.866-0.92699.0963.2413.2410.0000.0000.0000.000
203A323GLU-1-0.968-0.99197.8603.2653.2650.0000.0000.0000.000
204A324LYS10.8970.94095.815-3.268-3.2680.0000.0000.0000.000
205A325LEU0-0.012-0.01794.6550.0440.0440.0000.0000.0000.000
206A326LYS10.9450.99293.757-3.295-3.2950.0000.0000.0000.000
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