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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: 14Q1Z

Calculation Name: 2WA0-A-Xray372

Preferred Name: Melanoma-associated antigen 4

Target Type: SINGLE PROTEIN

Ligand Name:

ligand 3-letter code:

PDB ID: 2WA0

Chain ID: A

ChEMBL ID: CHEMBL4296022

UniProt ID: P43358

Base Structure: X-ray

Registration Date: 2023-06-21

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 227
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -2606914.65637
FMO2-HF: Nuclear repulsion 2516724.906348
FMO2-HF: Total energy -90189.750022
FMO2-MP2: Total energy -90453.754059


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:-14:SER)


Summations of interaction energy for fragment #1(A:-14:SER)
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.
-1.2340.335-0.017-0.741-0.8110
Interaction energy analysis for fragmet #1(A:-14:SER)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : -0.022 / q_NPA : -0.028
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].
3A-12VAL00.0150.0073.893-1.4610.108-0.017-0.741-0.8110.000
4A-11ASP-1-0.933-0.9576.7250.3860.3860.0000.0000.0000.000
5A-10LEU0-0.052-0.0267.305-0.183-0.1830.0000.0000.0000.000
6A-9GLY00.0540.03011.1810.0950.0950.0000.0000.0000.000
7A-8THR0-0.020-0.01915.000-0.039-0.0390.0000.0000.0000.000
8A-7GLU-1-0.878-0.93017.686-0.053-0.0530.0000.0000.0000.000
9A-6ASN0-0.075-0.04918.932-0.014-0.0140.0000.0000.0000.000
10A-5LEU0-0.021-0.00816.507-0.012-0.0120.0000.0000.0000.000
11A-4TYR0-0.0230.01219.367-0.025-0.0250.0000.0000.0000.000
12A-3PHE0-0.041-0.02723.1860.0190.0190.0000.0000.0000.000
13A-2GLN00.0020.00123.3750.0010.0010.0000.0000.0000.000
14A-1SER00.034-0.01325.5660.0060.0060.0000.0000.0000.000
15A0MET0-0.027-0.00528.4890.0050.0050.0000.0000.0000.000
16A101ASP-1-0.822-0.90830.704-0.096-0.0960.0000.0000.0000.000
17A102ALA00.014-0.00130.4290.0000.0000.0000.0000.0000.000
18A103GLU-1-0.881-0.94532.574-0.100-0.1000.0000.0000.0000.000
19A104SER0-0.044-0.03635.6720.0000.0000.0000.0000.0000.000
20A105LEU00.0680.03732.9670.0020.0020.0000.0000.0000.000
21A106PHE0-0.0260.00135.800-0.003-0.0030.0000.0000.0000.000
22A107ARG10.9900.98037.3390.0720.0720.0000.0000.0000.000
23A108GLU-1-0.926-0.95839.806-0.077-0.0770.0000.0000.0000.000
24A109ALA0-0.021-0.00437.6390.0010.0010.0000.0000.0000.000
25A110LEU0-0.042-0.03439.7370.0020.0020.0000.0000.0000.000
26A111SER0-0.0060.00342.1270.0040.0040.0000.0000.0000.000
27A112ASN00.0240.00241.1780.0070.0070.0000.0000.0000.000
28A113LYS10.8280.92439.7670.1070.1070.0000.0000.0000.000
29A114VAL0-0.033-0.01244.1560.0010.0010.0000.0000.0000.000
30A115ASP-1-0.894-0.93547.471-0.065-0.0650.0000.0000.0000.000
31A116GLU-1-0.877-0.94143.320-0.095-0.0950.0000.0000.0000.000
32A117LEU0-0.037-0.02147.1480.0010.0010.0000.0000.0000.000
33A118ALA00.0420.02148.6100.0020.0020.0000.0000.0000.000
34A119HIS00.003-0.01050.5940.0040.0040.0000.0000.0000.000
35A120PHE0-0.102-0.05349.1740.0010.0010.0000.0000.0000.000
36A121LEU0-0.006-0.00951.2930.0010.0010.0000.0000.0000.000
37A122LEU00.0500.02654.0020.0020.0020.0000.0000.0000.000
38A123ARG10.9070.95849.4160.0740.0740.0000.0000.0000.000
39A124LYS10.8250.90852.3880.0720.0720.0000.0000.0000.000
40A125TYR0-0.099-0.08856.2860.0010.0010.0000.0000.0000.000
41A126ARG10.8430.91855.9360.0570.0570.0000.0000.0000.000
42A127ALA0-0.051-0.00357.8910.0010.0010.0000.0000.0000.000
43A128LYS10.9160.95859.8890.0460.0460.0000.0000.0000.000
44A129GLU-1-0.911-0.94355.564-0.066-0.0660.0000.0000.0000.000
45A130LEU0-0.010-0.00757.3910.0000.0000.0000.0000.0000.000
46A131VAL00.0190.00851.741-0.002-0.0020.0000.0000.0000.000
47A132THR00.0340.02349.7840.0000.0000.0000.0000.0000.000
48A133LYS11.0481.00945.7760.0890.0890.0000.0000.0000.000
49A134ALA0-0.015-0.00345.727-0.004-0.0040.0000.0000.0000.000
50A135GLU-1-0.766-0.89545.328-0.082-0.0820.0000.0000.0000.000
51A136MET0-0.0140.02446.209-0.002-0.0020.0000.0000.0000.000
52A137LEU0-0.075-0.04542.054-0.004-0.0040.0000.0000.0000.000
53A138GLU-1-0.964-0.99140.660-0.130-0.1300.0000.0000.0000.000
54A139ARG10.8800.95341.6560.0830.0830.0000.0000.0000.000
55A140VAL00.0430.03043.6840.0010.0010.0000.0000.0000.000
56A141ILE0-0.011-0.00940.916-0.002-0.0020.0000.0000.0000.000
57A142LYS10.9710.99335.3220.1480.1480.0000.0000.0000.000
58A143ASN0-0.008-0.02834.507-0.011-0.0110.0000.0000.0000.000
59A144TYR00.0660.03435.530-0.003-0.0030.0000.0000.0000.000
60A145LYS10.9480.98237.2700.1430.1430.0000.0000.0000.000
61A146ARG10.7930.88534.3040.1470.1470.0000.0000.0000.000
62A147CYS0-0.0010.00039.4030.0040.0040.0000.0000.0000.000
63A148PHE00.0330.00842.1410.0050.0050.0000.0000.0000.000
64A149PRO00.010-0.00444.6370.0040.0040.0000.0000.0000.000
65A150VAL00.0370.02245.0830.0040.0040.0000.0000.0000.000
66A151ILE0-0.017-0.01742.0500.0030.0030.0000.0000.0000.000
67A152PHE00.0230.00446.6920.0030.0030.0000.0000.0000.000
68A153GLY00.0350.02749.5430.0030.0030.0000.0000.0000.000
69A154LYS10.9250.96748.0400.0680.0680.0000.0000.0000.000
70A155ALA00.0140.02050.1170.0030.0030.0000.0000.0000.000
71A156SER0-0.015-0.02152.0070.0030.0030.0000.0000.0000.000
72A157GLU-1-0.922-0.96354.714-0.052-0.0520.0000.0000.0000.000
73A158SER00.0290.00154.1070.0030.0030.0000.0000.0000.000
74A159LEU0-0.025-0.00954.9630.0020.0020.0000.0000.0000.000
75A160LYS10.9190.97957.8510.0490.0490.0000.0000.0000.000
76A161MET0-0.072-0.04759.5510.0010.0010.0000.0000.0000.000
77A162ILE00.0360.03556.6240.0020.0020.0000.0000.0000.000
78A163PHE0-0.001-0.01856.2880.0010.0010.0000.0000.0000.000
79A164GLY00.0720.04361.5000.0010.0010.0000.0000.0000.000
80A165ILE0-0.078-0.04059.8510.0000.0000.0000.0000.0000.000
81A166ASP-1-0.906-0.97360.564-0.050-0.0500.0000.0000.0000.000
82A167VAL0-0.033-0.02455.202-0.001-0.0010.0000.0000.0000.000
83A168LYS10.9550.98358.6220.0470.0470.0000.0000.0000.000
84A169GLU-1-0.906-0.95456.032-0.065-0.0650.0000.0000.0000.000
85A170VAL0-0.069-0.03558.3570.0020.0020.0000.0000.0000.000
86A171ASP-1-0.883-0.93358.853-0.057-0.0570.0000.0000.0000.000
87A172PRO0-0.014-0.03659.8340.0000.0000.0000.0000.0000.000
88A173THR0-0.0160.02055.146-0.001-0.0010.0000.0000.0000.000
89A174SER00.0410.03654.738-0.001-0.0010.0000.0000.0000.000
90A175ASN0-0.092-0.07850.685-0.002-0.0020.0000.0000.0000.000
91A176THR0-0.023-0.00552.618-0.003-0.0030.0000.0000.0000.000
92A177TYR00.0260.00452.1620.0000.0000.0000.0000.0000.000
93A178THR0-0.023-0.01657.0450.0000.0000.0000.0000.0000.000
94A179LEU00.0010.00156.3330.0000.0000.0000.0000.0000.000
95A180VAL0-0.007-0.00360.4940.0010.0010.0000.0000.0000.000
96A181THR00.031-0.01163.713-0.001-0.0010.0000.0000.0000.000
97A182CYS0-0.039-0.01764.0120.0000.0000.0000.0000.0000.000
98A183LEU0-0.045-0.03666.6800.0010.0010.0000.0000.0000.000
99A184GLY0-0.0120.01369.2810.0010.0010.0000.0000.0000.000
100A185LEU00.0020.01370.2250.0010.0010.0000.0000.0000.000
101A186SER0-0.0480.00070.339-0.001-0.0010.0000.0000.0000.000
102A187TYR00.0530.04169.582-0.001-0.0010.0000.0000.0000.000
103A188ASP-1-0.731-0.82365.593-0.043-0.0430.0000.0000.0000.000
104A189GLY00.0130.01366.445-0.001-0.0010.0000.0000.0000.000
105A190LEU0-0.126-0.06462.5510.0000.0000.0000.0000.0000.000
106A191LEU00.0310.00166.3300.0000.0000.0000.0000.0000.000
107A192GLY0-0.0250.00668.4050.0000.0000.0000.0000.0000.000
108A193ASN0-0.013-0.01862.715-0.001-0.0010.0000.0000.0000.000
109A194ASN0-0.010-0.01863.385-0.002-0.0020.0000.0000.0000.000
110A195GLN00.0240.02762.7840.0000.0000.0000.0000.0000.000
111A196ILE0-0.004-0.01456.126-0.002-0.0020.0000.0000.0000.000
112A197PHE00.0600.02555.705-0.002-0.0020.0000.0000.0000.000
113A198PRO00.0070.02060.4960.0020.0020.0000.0000.0000.000
114A199LYS10.9270.96563.2350.0380.0380.0000.0000.0000.000
115A200THR00.012-0.00365.6560.0010.0010.0000.0000.0000.000
116A201GLY0-0.0160.00164.2880.0010.0010.0000.0000.0000.000
117A202LEU00.0360.02665.3300.0010.0010.0000.0000.0000.000
118A203LEU00.0110.01767.2720.0010.0010.0000.0000.0000.000
119A204ILE0-0.033-0.03267.1020.0010.0010.0000.0000.0000.000
120A205ILE0-0.0080.00364.8700.0010.0010.0000.0000.0000.000
121A206VAL00.0310.02669.4370.0010.0010.0000.0000.0000.000
122A207LEU0-0.033-0.01772.6290.0010.0010.0000.0000.0000.000
123A208GLY0-0.001-0.02072.3200.0010.0010.0000.0000.0000.000
124A209THR00.0260.00671.9650.0010.0010.0000.0000.0000.000
125A210ILE0-0.033-0.01074.3010.0010.0010.0000.0000.0000.000
126A211ALA0-0.051-0.03376.0220.0010.0010.0000.0000.0000.000
127A212MET0-0.092-0.06171.9320.0000.0000.0000.0000.0000.000
128A213GLU-1-0.910-0.93077.286-0.024-0.0240.0000.0000.0000.000
129A214GLY0-0.0460.00579.9520.0010.0010.0000.0000.0000.000
130A215ASP-1-0.918-0.95782.035-0.023-0.0230.0000.0000.0000.000
131A216SER0-0.140-0.10482.8330.0000.0000.0000.0000.0000.000
132A217ALA00.1030.06178.8140.0000.0000.0000.0000.0000.000
133A218SER0-0.070-0.04380.7600.0000.0000.0000.0000.0000.000
134A219GLU-1-0.727-0.85478.544-0.024-0.0240.0000.0000.0000.000
135A220GLU-1-0.923-0.97377.437-0.022-0.0220.0000.0000.0000.000
136A221GLU-1-0.741-0.87276.197-0.024-0.0240.0000.0000.0000.000
137A222ILE0-0.049-0.01773.982-0.001-0.0010.0000.0000.0000.000
138A223TRP0-0.059-0.04971.442-0.002-0.0020.0000.0000.0000.000
139A224GLU-1-0.952-0.96371.424-0.025-0.0250.0000.0000.0000.000
140A225GLU-1-0.933-0.95968.196-0.033-0.0330.0000.0000.0000.000
141A226LEU0-0.030-0.02868.323-0.002-0.0020.0000.0000.0000.000
142A227GLY00.0190.01166.947-0.001-0.0010.0000.0000.0000.000
143A228VAL0-0.063-0.01864.976-0.001-0.0010.0000.0000.0000.000
144A229MET0-0.062-0.01762.902-0.001-0.0010.0000.0000.0000.000
145A230GLY0-0.056-0.03362.519-0.001-0.0010.0000.0000.0000.000
146A231VAL0-0.053-0.03563.591-0.001-0.0010.0000.0000.0000.000
147A232TYR0-0.011-0.01364.0380.0010.0010.0000.0000.0000.000
148A233ASP-1-0.823-0.91668.908-0.026-0.0260.0000.0000.0000.000
149A234GLY00.0210.02071.8240.0010.0010.0000.0000.0000.000
150A235ARG10.8470.91863.8160.0310.0310.0000.0000.0000.000
151A236GLU-1-0.968-0.99165.087-0.036-0.0360.0000.0000.0000.000
152A237HIS00.0340.02760.601-0.001-0.0010.0000.0000.0000.000
153A238THR0-0.015-0.01657.9240.0000.0000.0000.0000.0000.000
154A239VAL0-0.027-0.00958.294-0.001-0.0010.0000.0000.0000.000
155A240TYR00.0220.00460.9630.0000.0000.0000.0000.0000.000
156A241GLY00.0140.01464.3920.0010.0010.0000.0000.0000.000
157A242GLU-1-0.802-0.92766.232-0.029-0.0290.0000.0000.0000.000
158A243PRO00.0070.01968.3000.0000.0000.0000.0000.0000.000
159A244ARG10.8580.93670.7200.0250.0250.0000.0000.0000.000
160A245LYS10.8710.91872.4260.0320.0320.0000.0000.0000.000
161A246LEU0-0.035-0.00868.8430.0000.0000.0000.0000.0000.000
162A247LEU00.012-0.01172.9910.0000.0000.0000.0000.0000.000
163A248THR0-0.013-0.00875.2850.0010.0010.0000.0000.0000.000
164A249GLN0-0.021-0.00277.0310.0010.0010.0000.0000.0000.000
165A250ASP-1-0.879-0.92472.681-0.032-0.0320.0000.0000.0000.000
166A251TRP00.043-0.00569.8660.0000.0000.0000.0000.0000.000
167A252VAL0-0.0070.01976.4680.0000.0000.0000.0000.0000.000
168A253GLN0-0.037-0.02379.0010.0010.0010.0000.0000.0000.000
169A254GLU-1-0.932-0.93874.703-0.033-0.0330.0000.0000.0000.000
170A255ASN0-0.027-0.01678.5790.0000.0000.0000.0000.0000.000
171A256TYR0-0.107-0.11774.3440.0000.0000.0000.0000.0000.000
172A257LEU0-0.019-0.00875.8060.0000.0000.0000.0000.0000.000
173A258GLU-1-0.944-0.96679.790-0.023-0.0230.0000.0000.0000.000
174A259TYR0-0.032-0.03981.0740.0000.0000.0000.0000.0000.000
175A260ARG10.9390.97283.2070.0220.0220.0000.0000.0000.000
176A261GLN00.0310.01486.4780.0000.0000.0000.0000.0000.000
177A262VAL00.0300.03887.3470.0010.0010.0000.0000.0000.000
178A263PRO0-0.093-0.04389.6830.0000.0000.0000.0000.0000.000
179A264GLY00.0440.01391.6150.0010.0010.0000.0000.0000.000
180A265SER0-0.040-0.02492.2040.0000.0000.0000.0000.0000.000
181A266ASN0-0.061-0.04593.6680.0010.0010.0000.0000.0000.000
182A267PRO0-0.052-0.00791.4770.0000.0000.0000.0000.0000.000
183A268ALA00.027-0.00286.8410.0000.0000.0000.0000.0000.000
184A269ARG10.8990.95284.4400.0210.0210.0000.0000.0000.000
185A270TYR0-0.0130.01083.2640.0000.0000.0000.0000.0000.000
186A271GLU-1-0.817-0.89682.370-0.021-0.0210.0000.0000.0000.000
187A272PHE00.0050.00178.2120.0000.0000.0000.0000.0000.000
188A273LEU00.0340.00881.3860.0000.0000.0000.0000.0000.000
189A274TRP0-0.033-0.01976.223-0.001-0.0010.0000.0000.0000.000
190A275GLY00.0630.04780.4010.0010.0010.0000.0000.0000.000
191A276PRO00.024-0.01581.698-0.001-0.0010.0000.0000.0000.000
192A277ARG10.7850.88075.1380.0320.0320.0000.0000.0000.000
193A278ALA00.0220.01877.519-0.001-0.0010.0000.0000.0000.000
194A279LEU0-0.027-0.01478.5080.0000.0000.0000.0000.0000.000
195A280ALA0-0.059-0.01480.7990.0000.0000.0000.0000.0000.000
196A281GLU-1-0.741-0.82275.044-0.034-0.0340.0000.0000.0000.000
197A282THR0-0.028-0.01373.794-0.001-0.0010.0000.0000.0000.000
198A283SER00.0330.00476.4080.0010.0010.0000.0000.0000.000
199A284TYR00.0650.01676.488-0.001-0.0010.0000.0000.0000.000
200A285VAL0-0.003-0.00376.442-0.001-0.0010.0000.0000.0000.000
201A286LYS10.9240.96773.6860.0320.0320.0000.0000.0000.000
202A287VAL00.0360.03271.915-0.001-0.0010.0000.0000.0000.000
203A288LEU00.0390.01871.494-0.001-0.0010.0000.0000.0000.000
204A289GLU-1-0.938-0.97270.756-0.036-0.0360.0000.0000.0000.000
205A290HIS0-0.040-0.01465.275-0.002-0.0020.0000.0000.0000.000
206A291VAL00.0560.02667.174-0.001-0.0010.0000.0000.0000.000
207A292VAL0-0.031-0.00667.097-0.001-0.0010.0000.0000.0000.000
208A293ARG10.9350.95264.3830.0390.0390.0000.0000.0000.000
209A294VAL0-0.011-0.00661.957-0.002-0.0020.0000.0000.0000.000
210A295ASN00.0050.00662.257-0.002-0.0020.0000.0000.0000.000
211A296ALA0-0.0210.00363.2560.0000.0000.0000.0000.0000.000
212A297ARG10.8130.91957.5730.0470.0470.0000.0000.0000.000
213A298VAL00.017-0.01154.8680.0010.0010.0000.0000.0000.000
214A299ARG10.9160.96954.3760.0440.0440.0000.0000.0000.000
215A300ILE00.0180.02148.957-0.001-0.0010.0000.0000.0000.000
216A301ALA0-0.011-0.00947.8630.0010.0010.0000.0000.0000.000
217A302TYR0-0.022-0.03343.766-0.002-0.0020.0000.0000.0000.000
218A303PRO00.0010.01741.1170.0020.0020.0000.0000.0000.000
219A304SER00.0430.01839.057-0.004-0.0040.0000.0000.0000.000
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