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About

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: Z6QMN

Calculation Name: 4ALN-D-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 4ALN

Chain ID: D

ChEMBL ID:

UniProt ID: A0A0H3

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
Software ABINIT-MP - Open Ver. 1 Rev. 22 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -2122438.277252
FMO2-HF: Nuclear repulsion 2048442.571245
FMO2-HF: Total energy -73995.706007
FMO2-MP2: Total energy -74214.281776


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(D:3:ASN)


Summations of interaction energy for fragment #1(D:3:ASN)
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.
-27.104-26.12918.909-9.98-9.903-0.066
Interaction energy analysis for fragmet #1(D:3:ASN)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : -0.062 / q_NPA : -0.033
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].
3D5GLU-1-0.804-0.8941.831-20.342-20.63714.193-8.080-5.818-0.063
4D6ASN0-0.110-0.0605.0971.0161.071-0.001-0.005-0.0500.000
5D7LYS10.8610.9446.2670.4550.4550.0000.0000.0000.000
6D8THR00.0010.0009.076-0.250-0.2500.0000.0000.0000.000
7D9TYR0-0.030-0.0227.5750.0910.0910.0000.0000.0000.000
8D10VAL00.0290.01912.938-0.051-0.0510.0000.0000.0000.000
9D11ILE0-0.047-0.02312.1990.0170.0170.0000.0000.0000.000
10D12MET00.0140.01316.3130.0370.0370.0000.0000.0000.000
11D13GLY00.0590.02519.1580.0040.0040.0000.0000.0000.000
12D14ILE0-0.105-0.04516.5530.0070.0070.0000.0000.0000.000
13D15ALA0-0.019-0.01420.8520.0300.0300.0000.0000.0000.000
14D16ASN0-0.028-0.02922.9600.0120.0120.0000.0000.0000.000
15D17LYS10.9080.93321.0730.3500.3500.0000.0000.0000.000
16D18ARG10.9290.97220.4890.2710.2710.0000.0000.0000.000
17D19SER00.0250.03220.4490.0210.0210.0000.0000.0000.000
18D20ILE00.0820.02516.283-0.055-0.0550.0000.0000.0000.000
19D21ALA00.0730.04015.662-0.079-0.0790.0000.0000.0000.000
20D22PHE00.0240.00414.964-0.089-0.0890.0000.0000.0000.000
21D23GLY0-0.052-0.02414.127-0.086-0.0860.0000.0000.0000.000
22D24VAL00.0370.01210.488-0.187-0.1870.0000.0000.0000.000
23D25ALA00.0070.00510.112-0.263-0.2630.0000.0000.0000.000
24D26LYS10.9180.96910.8790.6110.6110.0000.0000.0000.000
25D27VAL0-0.019-0.0026.076-0.146-0.1460.0000.0000.0000.000
26D28LEU00.0290.0096.055-0.845-0.8450.0000.0000.0000.000
27D29ASP-1-0.784-0.8626.948-2.167-2.1670.0000.0000.0000.000
28D30GLN0-0.073-0.0317.686-0.178-0.1780.0000.0000.0000.000
29D31LEU0-0.057-0.0301.989-1.855-2.0264.686-1.339-3.176-0.001
30D32GLY00.0330.0163.771-2.440-2.0800.006-0.266-0.099-0.002
31D33ALA00.0080.0216.1420.4430.4430.0000.0000.0000.000
32D34LYS10.8780.9457.9901.1481.1480.0000.0000.0000.000
33D35LEU0-0.047-0.03310.2530.0940.0940.0000.0000.0000.000
34D36VAL00.0370.02613.7330.0860.0860.0000.0000.0000.000
35D37PHE0-0.011-0.01314.9080.0120.0120.0000.0000.0000.000
36D38THR00.0420.01419.3100.0470.0470.0000.0000.0000.000
37D39TYR0-0.056-0.03722.317-0.005-0.0050.0000.0000.0000.000
38D40ARG10.8950.92724.9930.2190.2190.0000.0000.0000.000
39D41LYS10.9370.95528.2490.2070.2070.0000.0000.0000.000
40D42GLU-1-0.704-0.81629.790-0.285-0.2850.0000.0000.0000.000
41D43ARG10.8710.92430.8480.1890.1890.0000.0000.0000.000
42D44SER0-0.060-0.04726.736-0.007-0.0070.0000.0000.0000.000
43D45ARG10.8820.95826.0530.3370.3370.0000.0000.0000.000
44D46LYS10.9740.98326.0710.2500.2500.0000.0000.0000.000
45D47GLU-1-0.805-0.88624.407-0.397-0.3970.0000.0000.0000.000
46D48LEU00.0300.00319.774-0.027-0.0270.0000.0000.0000.000
47D49GLU-1-0.812-0.90121.785-0.424-0.4240.0000.0000.0000.000
48D50LYS10.7610.85522.9260.3640.3640.0000.0000.0000.000
49D51LEU0-0.073-0.03219.416-0.002-0.0020.0000.0000.0000.000
50D52LEU00.0430.01117.650-0.060-0.0600.0000.0000.0000.000
51D53GLU-1-0.826-0.88218.535-0.471-0.4710.0000.0000.0000.000
52D54GLN0-0.128-0.05818.3490.0020.0020.0000.0000.0000.000
53D55LEU0-0.078-0.02413.339-0.055-0.0550.0000.0000.0000.000
54D56ASN0-0.059-0.04111.8470.2420.2420.0000.0000.0000.000
55D57GLN0-0.021-0.03611.1870.0750.0750.0000.0000.0000.000
56D58PRO0-0.0130.00113.5600.1220.1220.0000.0000.0000.000
57D59GLU-1-0.841-0.91316.552-0.591-0.5910.0000.0000.0000.000
58D60ALA0-0.022-0.01118.514-0.053-0.0530.0000.0000.0000.000
59D61HIS00.0110.00417.8960.0930.0930.0000.0000.0000.000
60D62LEU0-0.069-0.02420.224-0.018-0.0180.0000.0000.0000.000
61D63TYR00.002-0.03521.6950.0250.0250.0000.0000.0000.000
62D64GLN0-0.109-0.06324.967-0.015-0.0150.0000.0000.0000.000
63D65ILE00.0650.02223.8560.0060.0060.0000.0000.0000.000
64D66ASP-1-0.870-0.92526.902-0.190-0.1900.0000.0000.0000.000
65D67VAL00.003-0.01324.6560.0150.0150.0000.0000.0000.000
66D68GLN0-0.091-0.02328.1100.0200.0200.0000.0000.0000.000
67D69SER0-0.043-0.02831.1260.0120.0120.0000.0000.0000.000
68D70ASP-1-0.795-0.90631.079-0.109-0.1090.0000.0000.0000.000
69D71GLU-1-0.958-0.97131.137-0.134-0.1340.0000.0000.0000.000
70D72GLU-1-0.783-0.87729.746-0.216-0.2160.0000.0000.0000.000
71D73VAL0-0.031-0.01225.439-0.021-0.0210.0000.0000.0000.000
72D74ILE00.0210.01426.839-0.012-0.0120.0000.0000.0000.000
73D75ASN0-0.051-0.03828.393-0.008-0.0080.0000.0000.0000.000
74D76GLY00.0120.01126.562-0.013-0.0130.0000.0000.0000.000
75D77PHE00.004-0.01519.725-0.032-0.0320.0000.0000.0000.000
76D78GLU-1-0.801-0.87024.401-0.190-0.1900.0000.0000.0000.000
77D79GLN0-0.063-0.04726.5070.0170.0170.0000.0000.0000.000
78D80ILE0-0.0100.00420.034-0.023-0.0230.0000.0000.0000.000
79D81GLY00.0490.01621.895-0.029-0.0290.0000.0000.0000.000
80D82LYS10.7030.83023.3950.1870.1870.0000.0000.0000.000
81D83ASP-1-0.838-0.89023.372-0.327-0.3270.0000.0000.0000.000
82D84VAL0-0.107-0.05417.255-0.059-0.0590.0000.0000.0000.000
83D85GLY00.0030.02118.596-0.037-0.0370.0000.0000.0000.000
84D86ASN0-0.028-0.02717.556-0.006-0.0060.0000.0000.0000.000
85D87ILE0-0.039-0.02315.110-0.102-0.1020.0000.0000.0000.000
86D88ASP-1-0.760-0.85910.551-0.309-0.3090.0000.0000.0000.000
87D89GLY00.032-0.02412.4550.1830.1830.0000.0000.0000.000
88D90VAL0-0.028-0.00513.395-0.117-0.1170.0000.0000.0000.000
89D91TYR00.007-0.00713.0920.0220.0220.0000.0000.0000.000
90D92HIS00.0500.00815.047-0.030-0.0300.0000.0000.0000.000
91D93SER0-0.024-0.00718.0200.0360.0360.0000.0000.0000.000
92D94ILE0-0.036-0.01619.7190.0080.0080.0000.0000.0000.000
93D109THR00.0190.00440.042-0.001-0.0010.0000.0000.0000.000
94D110SER0-0.044-0.05442.8430.0030.0030.0000.0000.0000.000
95D111ARG10.9900.99441.4720.0380.0380.0000.0000.0000.000
96D112GLU-1-0.800-0.88740.459-0.058-0.0580.0000.0000.0000.000
97D113GLY00.0150.01538.445-0.005-0.0050.0000.0000.0000.000
98D114PHE0-0.015-0.01536.740-0.005-0.0050.0000.0000.0000.000
99D115LEU00.009-0.00935.701-0.001-0.0010.0000.0000.0000.000
100D116LEU00.0330.03334.373-0.002-0.0020.0000.0000.0000.000
101D117ALA0-0.018-0.00832.365-0.009-0.0090.0000.0000.0000.000
102D118GLN0-0.005-0.00930.920-0.006-0.0060.0000.0000.0000.000
103D119ASP-1-0.857-0.93530.528-0.111-0.1110.0000.0000.0000.000
104D120ILE00.0240.01128.348-0.008-0.0080.0000.0000.0000.000
105D121SER0-0.096-0.03126.601-0.021-0.0210.0000.0000.0000.000
106D122SER0-0.007-0.00125.7570.0000.0000.0000.0000.0000.000
107D123TYR0-0.016-0.01226.6360.0070.0070.0000.0000.0000.000
108D124SER00.024-0.01725.845-0.002-0.0020.0000.0000.0000.000
109D125LEU0-0.0040.00719.838-0.015-0.0150.0000.0000.0000.000
110D126THR00.0080.00323.4220.0020.0020.0000.0000.0000.000
111D127ILE00.0030.01425.7420.0050.0050.0000.0000.0000.000
112D128VAL00.003-0.00520.705-0.005-0.0050.0000.0000.0000.000
113D129ALA00.0050.00121.145-0.011-0.0110.0000.0000.0000.000
114D130HIS0-0.056-0.02622.1420.0230.0230.0000.0000.0000.000
115D131GLU-1-0.788-0.88924.729-0.105-0.1050.0000.0000.0000.000
116D132ALA00.0030.00219.148-0.006-0.0060.0000.0000.0000.000
117D133LYS10.8640.93120.585-0.049-0.0490.0000.0000.0000.000
118D134LYS10.7390.85522.1130.1130.1130.0000.0000.0000.000
119D135LEU0-0.055-0.00319.960-0.007-0.0070.0000.0000.0000.000
120D136MET0-0.0240.00915.792-0.018-0.0180.0000.0000.0000.000
121D137PRO0-0.0010.00318.8810.0480.0480.0000.0000.0000.000
122D138GLU-1-0.931-0.96616.8710.0300.0300.0000.0000.0000.000
123D139GLY00.0050.01716.4850.1010.1010.0000.0000.0000.000
124D140GLY00.003-0.01313.440-0.073-0.0730.0000.0000.0000.000
125D141SER0-0.122-0.06211.1880.0800.0800.0000.0000.0000.000
126D142ILE00.0280.02013.292-0.147-0.1470.0000.0000.0000.000
127D143VAL0-0.013-0.00711.3990.0520.0520.0000.0000.0000.000
128D144ALA00.0490.03114.797-0.076-0.0760.0000.0000.0000.000
129D145THR0-0.064-0.03816.316-0.044-0.0440.0000.0000.0000.000
130D146THR0-0.0090.00418.5540.0020.0020.0000.0000.0000.000
131D156ASN00.0140.00537.2420.0000.0000.0000.0000.0000.000
132D157TYR00.0160.00238.8350.0040.0040.0000.0000.0000.000
133D158ASN00.0470.01332.868-0.007-0.0070.0000.0000.0000.000
134D159VAL00.0290.01134.6250.0020.0020.0000.0000.0000.000
135D160MET00.0250.01430.4490.0010.0010.0000.0000.0000.000
136D161GLY00.0270.02030.437-0.002-0.0020.0000.0000.0000.000
137D162VAL0-0.007-0.00730.7400.0060.0060.0000.0000.0000.000
138D163ALA00.0070.00330.4850.0060.0060.0000.0000.0000.000
139D164LYS10.8640.93425.4460.1370.1370.0000.0000.0000.000
140D165ALA00.0230.01426.6370.0060.0060.0000.0000.0000.000
141D166SER0-0.023-0.00328.5330.0120.0120.0000.0000.0000.000
142D167LEU00.0120.01322.2750.0080.0080.0000.0000.0000.000
143D168GLU-1-0.819-0.90323.3130.0300.0300.0000.0000.0000.000
144D169ALA0-0.0060.00724.3620.0210.0210.0000.0000.0000.000
145D170ASN0-0.034-0.02825.5590.0230.0230.0000.0000.0000.000
146D171VAL00.0280.01519.5910.0070.0070.0000.0000.0000.000
147D172LYS10.8340.92521.843-0.048-0.0480.0000.0000.0000.000
148D173TYR0-0.034-0.02623.6760.0170.0170.0000.0000.0000.000
149D174LEU00.0160.01322.3030.0060.0060.0000.0000.0000.000
150D175ALA0-0.0080.00420.2150.0120.0120.0000.0000.0000.000
151D176LEU0-0.095-0.04221.3960.0310.0310.0000.0000.0000.000
152D177ASP-1-0.951-0.99224.6680.0640.0640.0000.0000.0000.000
153D178LEU00.0120.00721.148-0.004-0.0040.0000.0000.0000.000
154D179GLY00.0150.02420.2700.0240.0240.0000.0000.0000.000
155D180PRO0-0.062-0.04620.9880.0370.0370.0000.0000.0000.000
156D181ASP-1-0.830-0.90221.4410.0910.0910.0000.0000.0000.000
157D182ASN0-0.057-0.03715.1390.0430.0430.0000.0000.0000.000
158D183ILE0-0.0030.01216.4300.0370.0370.0000.0000.0000.000
159D184ARG10.8380.9349.610-0.862-0.8620.0000.0000.0000.000
160D185VAL00.010-0.00215.975-0.069-0.0690.0000.0000.0000.000
161D186ASN0-0.015-0.01913.8170.0460.0460.0000.0000.0000.000
162D187ALA0-0.025-0.01316.467-0.063-0.0630.0000.0000.0000.000
163D188ILE00.0080.01712.1720.0110.0110.0000.0000.0000.000
164D189SER0-0.044-0.02016.696-0.027-0.0270.0000.0000.0000.000
165D190ALA00.0230.00719.1430.0130.0130.0000.0000.0000.000
166D222ASP-1-0.765-0.88216.007-0.538-0.5380.0000.0000.0000.000
167D223GLN0-0.080-0.05816.236-0.015-0.0150.0000.0000.0000.000
168D224VAL0-0.005-0.00811.367-0.115-0.1150.0000.0000.0000.000
169D225GLU-1-0.863-0.91411.509-0.598-0.5980.0000.0000.0000.000
170D226VAL00.0070.00212.133-0.012-0.0120.0000.0000.0000.000
171D227GLY00.0210.00510.641-0.009-0.0090.0000.0000.0000.000
172D228LYS10.8650.9177.4430.3790.3790.0000.0000.0000.000
173D229THR0-0.0030.0037.211-0.078-0.0780.0000.0000.0000.000
174D230ALA0-0.001-0.0079.2640.1720.1720.0000.0000.0000.000
175D231ALA00.0340.0164.4560.1130.130-0.001-0.005-0.0110.000
176D232TYR0-0.029-0.0075.0870.2030.246-0.001-0.003-0.0380.000
177D233LEU00.0020.0056.0910.6950.6950.0000.0000.0000.000
178D234LEU0-0.0210.0117.6540.1770.1770.0000.0000.0000.000
179D235SER0-0.0220.0093.6960.2190.5770.006-0.106-0.2570.000
180D236ASP-1-0.865-0.9545.3672.0732.0730.0000.0000.0000.000
181D237LEU0-0.036-0.0133.282-1.570-0.9620.021-0.176-0.4540.000
182D238SER0-0.032-0.0246.943-0.709-0.7090.0000.0000.0000.000
183D239SER00.0270.0159.787-0.460-0.4600.0000.0000.0000.000
184D240GLY0-0.029-0.00811.640-0.190-0.1900.0000.0000.0000.000
185D241VAL0-0.051-0.02112.942-0.121-0.1210.0000.0000.0000.000
186D242THR00.0640.02814.407-0.025-0.0250.0000.0000.0000.000
187D243GLY00.0130.00317.2000.0030.0030.0000.0000.0000.000
188D244GLU-1-0.902-0.94416.3140.1770.1770.0000.0000.0000.000
189D245ASN0-0.089-0.08217.747-0.064-0.0640.0000.0000.0000.000
190D246ILE00.0100.01412.3710.0160.0160.0000.0000.0000.000
191D247HIS00.0140.00816.461-0.082-0.0820.0000.0000.0000.000
192D248VAL0-0.053-0.03014.2250.0110.0110.0000.0000.0000.000
193D249ASP-1-0.777-0.86417.294-0.096-0.0960.0000.0000.0000.000
194D250SER0-0.094-0.04119.568-0.001-0.0010.0000.0000.0000.000
195D251GLY0-0.098-0.06921.0450.0330.0330.0000.0000.0000.000