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: G6Y71

Calculation Name: 4AEZ-B-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 4AEZ

Chain ID: B

ChEMBL ID:

UniProt ID: O14417

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 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 180
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -2064405.80173
FMO2-HF: Nuclear repulsion 1990647.142075
FMO2-HF: Total energy -73758.659655
FMO2-MP2: Total energy -73973.303498


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(B:13:LYS)


Summations of interaction energy for fragment #1(B:13:LYS)
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.
2.4438.7533.056-3.52-5.846-0.007
Interaction energy analysis for fragmet #1(B:13:LYS)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 1 / q_Mulliken : 1.029 / q_NPA : 0.995
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].
3B15SER00.0150.0093.6154.5196.4260.015-0.774-1.1480.004
4B16SER00.0910.0382.201-2.547-0.7872.656-1.877-2.539-0.007
5B17LYS10.8930.9693.56229.49929.8140.003-0.061-0.2570.000
6B18LEU0-0.038-0.0185.6733.4623.4620.0000.0000.0000.000
7B19VAL00.0350.0136.9892.3242.3240.0000.0000.0000.000
8B20SER00.0340.0076.7052.3062.3060.0000.0000.0000.000
9B21GLU-1-0.861-0.9179.177-19.768-19.7680.0000.0000.0000.000
10B22PHE00.0160.00911.1941.4211.4210.0000.0000.0000.000
11B23PHE00.0590.01710.3311.0341.0340.0000.0000.0000.000
12B24GLU-1-0.807-0.87513.416-15.078-15.0780.0000.0000.0000.000
13B25TYR0-0.003-0.01515.3321.1511.1510.0000.0000.0000.000
14B26ALA0-0.0040.01816.7330.8370.8370.0000.0000.0000.000
15B27VAL00.0340.01217.4330.6640.6640.0000.0000.0000.000
16B28ASN0-0.011-0.01819.0201.0411.0410.0000.0000.0000.000
17B29SER0-0.021-0.02021.0460.5380.5380.0000.0000.0000.000
18B30ILE00.0010.00420.9950.4320.4320.0000.0000.0000.000
19B31LEU0-0.007-0.00222.9660.4260.4260.0000.0000.0000.000
20B32PHE0-0.023-0.00125.6490.3970.3970.0000.0000.0000.000
21B33GLN0-0.039-0.04225.9160.2970.2970.0000.0000.0000.000
22B34ARG10.7570.84727.5659.3109.3100.0000.0000.0000.000
23B35GLY00.0220.02329.9760.2250.2250.0000.0000.0000.000
24B36ILE0-0.069-0.02927.6240.1520.1520.0000.0000.0000.000
25B37TYR00.001-0.00126.658-0.017-0.0170.0000.0000.0000.000
26B38PRO00.0650.02830.857-0.071-0.0710.0000.0000.0000.000
27B39ALA00.011-0.01031.649-0.228-0.2280.0000.0000.0000.000
28B40GLU-1-0.963-0.97631.631-8.137-8.1370.0000.0000.0000.000
29B41ASP-1-0.838-0.90429.711-9.002-9.0020.0000.0000.0000.000
30B42PHE0-0.076-0.05124.814-0.577-0.5770.0000.0000.0000.000
31B43LYS10.9530.98925.32111.52611.5260.0000.0000.0000.000
32B44VAL00.0120.00126.317-0.345-0.3450.0000.0000.0000.000
33B45VAL0-0.040-0.01921.6350.0090.0090.0000.0000.0000.000
34B46ARG10.8810.94023.58711.52811.5280.0000.0000.0000.000
35B47LYS10.8670.93114.07518.13918.1390.0000.0000.0000.000
36B48TYR00.0930.04213.7730.6960.6960.0000.0000.0000.000
37B49GLY00.0010.01119.5380.4000.4000.0000.0000.0000.000
38B50LEU0-0.014-0.01221.9430.6320.6320.0000.0000.0000.000
39B51ASN0-0.008-0.00724.055-0.505-0.5050.0000.0000.0000.000
40B52MET00.0070.02519.7990.1920.1920.0000.0000.0000.000
41B53LEU00.0370.01923.6870.1320.1320.0000.0000.0000.000
42B54VAL0-0.040-0.03120.865-0.434-0.4340.0000.0000.0000.000
43B55SER00.0570.03323.2540.3640.3640.0000.0000.0000.000
44B56VAL0-0.072-0.06124.424-0.439-0.4390.0000.0000.0000.000
45B57ASP-1-0.775-0.87626.973-9.550-9.5500.0000.0000.0000.000
46B58GLU-1-0.812-0.89625.737-11.444-11.4440.0000.0000.0000.000
47B59GLU-1-0.912-0.93625.320-9.755-9.7550.0000.0000.0000.000
48B60VAL00.0200.00623.953-0.453-0.4530.0000.0000.0000.000
49B61LYS10.7630.86121.91410.92410.9240.0000.0000.0000.000
50B62THR0-0.035-0.03220.590-0.808-0.8080.0000.0000.0000.000
51B63TYR0-0.0160.00520.605-0.568-0.5680.0000.0000.0000.000
52B64ILE00.0190.00117.625-0.576-0.5760.0000.0000.0000.000
53B65ARG10.8340.89316.51214.08914.0890.0000.0000.0000.000
54B66LYS10.8690.93315.69510.94610.9460.0000.0000.0000.000
55B67ILE00.0310.02415.800-0.865-0.8650.0000.0000.0000.000
56B68VAL00.0240.00611.903-0.926-0.9260.0000.0000.0000.000
57B69SER0-0.036-0.02011.293-1.660-1.6600.0000.0000.0000.000
58B70GLN00.0070.00210.932-1.561-1.5610.0000.0000.0000.000
59B71LEU00.0330.01710.986-0.944-0.9440.0000.0000.0000.000
60B72HIS0-0.011-0.0044.240-1.503-1.354-0.001-0.011-0.1370.000
61B73LYS10.8480.9226.34616.41416.4140.0000.0000.0000.000
62B74TRP00.0270.0077.911-1.564-1.5640.0000.0000.0000.000
63B75MET0-0.0170.0135.229-0.205-0.2050.0000.0000.0000.000
64B76PHE0-0.140-0.0622.890-6.453-4.6750.386-0.763-1.401-0.004
65B77ALA0-0.011-0.0054.400-1.999-1.890-0.001-0.012-0.0950.000
66B78LYS10.8750.9295.71633.33533.3350.0000.0000.0000.000
67B79LYS10.8220.8908.29919.33119.3310.0000.0000.0000.000
68B80ILE0-0.0110.0039.4641.1771.1770.0000.0000.0000.000
69B81GLN0-0.007-0.01211.759-0.096-0.0960.0000.0000.0000.000
70B82LYS10.8280.91314.56114.06914.0690.0000.0000.0000.000
71B83LEU00.0000.01414.362-0.158-0.1580.0000.0000.0000.000
72B84ILE0-0.044-0.02216.4680.2460.2460.0000.0000.0000.000
73B85LEU0-0.0230.00220.183-0.110-0.1100.0000.0000.0000.000
74B86VAL0-0.0080.00422.2880.1680.1680.0000.0000.0000.000
75B87ILE00.0130.00325.956-0.068-0.0680.0000.0000.0000.000
76B88THR0-0.008-0.02828.7990.0590.0590.0000.0000.0000.000
77B89SER00.035-0.00731.999-0.049-0.0490.0000.0000.0000.000
78B90LYS10.8990.93334.0988.0038.0030.0000.0000.0000.000
79B91CYS0-0.076-0.01636.5890.0990.0990.0000.0000.0000.000
80B92SER00.0400.01238.8780.0580.0580.0000.0000.0000.000
81B93GLY0-0.0140.00336.0560.0410.0410.0000.0000.0000.000
82B94GLU-1-0.870-0.91235.286-7.695-7.6950.0000.0000.0000.000
83B95ASP-1-0.822-0.87730.664-9.066-9.0660.0000.0000.0000.000
84B96LEU00.0480.01332.2170.1100.1100.0000.0000.0000.000
85B97GLU-1-0.736-0.84928.168-9.353-9.3530.0000.0000.0000.000
86B98ARG10.7940.88623.75210.57710.5770.0000.0000.0000.000
87B99TRP0-0.003-0.01722.099-0.283-0.2830.0000.0000.0000.000
88B100GLN00.0170.01020.183-0.083-0.0830.0000.0000.0000.000
89B101PHE0-0.015-0.02215.641-0.104-0.1040.0000.0000.0000.000
90B102ASN0-0.035-0.02116.370-0.147-0.1470.0000.0000.0000.000
91B103VAL0-0.017-0.02310.082-0.681-0.6810.0000.0000.0000.000
92B104GLU-1-0.870-0.94213.173-14.943-14.9430.0000.0000.0000.000
93B105MET0-0.047-0.0309.039-2.281-2.2810.0000.0000.0000.000
94B106VAL0-0.031-0.01111.7611.2411.2410.0000.0000.0000.000
95B107ASP-1-0.948-0.96213.710-17.666-17.6660.0000.0000.0000.000
96B117ASN00.0370.0059.7510.0730.0730.0000.0000.0000.000
97B118LYS10.8250.88110.93124.49824.4980.0000.0000.0000.000
98B119GLU-1-0.900-0.95412.868-16.066-16.0660.0000.0000.0000.000
99B120ASP-1-0.793-0.88011.310-22.407-22.4070.0000.0000.0000.000
100B121GLU-1-0.861-0.9089.805-27.174-27.1740.0000.0000.0000.000
101B122LEU0-0.002-0.00312.2681.0121.0120.0000.0000.0000.000
102B123ARG10.7980.87313.06821.32021.3200.0000.0000.0000.000
103B124VAL00.0060.00511.6430.6710.6710.0000.0000.0000.000
104B125GLN0-0.026-0.01813.6901.6791.6790.0000.0000.0000.000
105B126LYS10.8780.92716.72613.97013.9700.0000.0000.0000.000
106B127GLU-1-0.799-0.88916.534-17.047-17.0470.0000.0000.0000.000
107B128ILE0-0.0070.00612.7260.5740.5740.0000.0000.0000.000
108B129GLN0-0.019-0.00617.2880.9650.9650.0000.0000.0000.000
109B130ALA0-0.022-0.01420.5980.6300.6300.0000.0000.0000.000
110B131LEU0-0.0170.00117.1620.5240.5240.0000.0000.0000.000
111B132ILE00.0320.00518.0620.4320.4320.0000.0000.0000.000
112B133ALA0-0.006-0.00221.4920.5160.5160.0000.0000.0000.000
113B134GLN00.015-0.00724.0030.1480.1480.0000.0000.0000.000
114B135ILE00.0180.01220.0380.3030.3030.0000.0000.0000.000
115B136THR0-0.0020.01324.5130.3350.3350.0000.0000.0000.000
116B137ALA0-0.024-0.00727.1330.3550.3550.0000.0000.0000.000
117B138THR0-0.028-0.01626.8390.3590.3590.0000.0000.0000.000
118B139VAL0-0.005-0.00229.7170.2350.2350.0000.0000.0000.000
119B140THR0-0.099-0.06032.2570.2830.2830.0000.0000.0000.000
120B141PHE00.002-0.00229.4300.1430.1430.0000.0000.0000.000
121B142LEU0-0.0510.00028.9740.1140.1140.0000.0000.0000.000
122B143PRO00.0190.02933.7170.1150.1150.0000.0000.0000.000
123B144GLN0-0.004-0.01235.050-0.136-0.1360.0000.0000.0000.000
124B145LEU0-0.013-0.00431.5570.0990.0990.0000.0000.0000.000
125B146GLU-1-0.940-0.96836.192-6.867-6.8670.0000.0000.0000.000
126B147GLU-1-0.823-0.87938.048-6.994-6.9940.0000.0000.0000.000
127B148GLN0-0.019-0.00733.199-0.047-0.0470.0000.0000.0000.000
128B149CYS0-0.033-0.00732.0670.0780.0780.0000.0000.0000.000
129B150THR0-0.014-0.01529.808-0.100-0.1000.0000.0000.0000.000
130B151PHE00.025-0.00122.225-0.114-0.1140.0000.0000.0000.000
131B152ASN0-0.0250.00024.8590.2150.2150.0000.0000.0000.000
132B153VAL00.008-0.00219.025-0.123-0.1230.0000.0000.0000.000
133B154LEU00.0180.01620.5400.0490.0490.0000.0000.0000.000
134B155VAL00.005-0.00614.923-0.478-0.4780.0000.0000.0000.000
135B156TYR0-0.0150.01117.2520.6290.6290.0000.0000.0000.000
136B157ALA00.0310.00115.331-0.815-0.8150.0000.0000.0000.000
137B158ASP-1-0.783-0.85714.008-16.298-16.2980.0000.0000.0000.000
138B159LYS10.9370.96316.77011.52811.5280.0000.0000.0000.000
139B160ASP-1-0.858-0.89815.909-15.965-15.9650.0000.0000.0000.000
140B161SER0-0.019-0.04014.846-0.928-0.9280.0000.0000.0000.000
141B162GLU-1-0.931-0.95114.624-14.262-14.2620.0000.0000.0000.000
142B163VAL0-0.002-0.00715.819-0.594-0.5940.0000.0000.0000.000
143B164PRO0-0.029-0.01616.4880.4500.4500.0000.0000.0000.000
144B165THR00.0490.01419.2680.1480.1480.0000.0000.0000.000
145B166ASP-1-0.920-0.94420.352-11.552-11.5520.0000.0000.0000.000
146B167TRP0-0.049-0.02716.350-0.140-0.1400.0000.0000.0000.000
147B168VAL00.0200.01021.0970.1100.1100.0000.0000.0000.000
148B169ASP-1-0.935-0.95623.528-10.913-10.9130.0000.0000.0000.000
149B170SER0-0.020-0.02624.4830.3420.3420.0000.0000.0000.000
150B171ASP-1-0.874-0.92025.825-9.383-9.3830.0000.0000.0000.000
151B172PRO0-0.015-0.01424.964-0.176-0.1760.0000.0000.0000.000
152B173ARG10.8630.89225.9279.1349.1340.0000.0000.0000.000
153B174ILE0-0.046-0.02127.106-0.098-0.0980.0000.0000.0000.000
154B175LEU0-0.053-0.01329.0780.2410.2410.0000.0000.0000.000
155B176ARG10.8880.94731.6378.1538.1530.0000.0000.0000.000
156B177ASP-1-0.913-0.96835.147-7.368-7.3680.0000.0000.0000.000
157B178ALA0-0.042-0.01832.2580.0490.0490.0000.0000.0000.000
158B179GLU-1-0.905-0.93333.722-7.877-7.8770.0000.0000.0000.000
159B180GLN0-0.029-0.03928.696-0.341-0.3410.0000.0000.0000.000
160B181VAL0-0.0120.00727.8890.0930.0930.0000.0000.0000.000
161B182GLN0-0.039-0.01821.676-0.116-0.1160.0000.0000.0000.000
162B183LEU0-0.021-0.01022.6660.1620.1620.0000.0000.0000.000
163B184ARG10.9290.96421.59811.61011.6100.0000.0000.0000.000
164B185SER00.0300.00517.3250.0070.0070.0000.0000.0000.000
165B186PHE0-0.058-0.02511.0220.1160.1160.0000.0000.0000.000
166B187SER00.0390.01613.080-0.118-0.1180.0000.0000.0000.000
167B188THR0-0.044-0.0427.685-0.369-0.3690.0000.0000.0000.000
168B189SER00.000-0.0056.6560.7620.7620.0000.0000.0000.000
169B190MET0-0.062-0.0264.281-0.444-0.234-0.001-0.018-0.1920.000
170B191HIS00.0930.0494.5240.6140.696-0.001-0.004-0.0770.000
171B192LYS10.9420.9839.64515.54415.5440.0000.0000.0000.000
172B193ILE0-0.026-0.00610.0020.3020.3020.0000.0000.0000.000
173B194ASP-1-0.799-0.88814.015-13.551-13.5510.0000.0000.0000.000
174B195CYS0-0.0330.00017.613-0.059-0.0590.0000.0000.0000.000
175B196GLN00.0380.03120.0830.2350.2350.0000.0000.0000.000
176B197VAL00.0250.01223.372-0.192-0.1920.0000.0000.0000.000
177B198ALA00.0020.00625.9640.2280.2280.0000.0000.0000.000
178B199TYR00.037-0.00128.878-0.159-0.1590.0000.0000.0000.000
179B200ARG10.8890.93331.8437.7217.7210.0000.0000.0000.000
180B201VAL00.0130.02235.4650.0660.0660.0000.0000.0000.000