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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: 49YQN

Calculation Name: 4UZ2-A-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 4UZ2

Chain ID: A

ChEMBL ID:

UniProt ID: Q5SLM7

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 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 99
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -632286.47259
FMO2-HF: Nuclear repulsion 594369.422508
FMO2-HF: Total energy -37917.050082
FMO2-MP2: Total energy -38028.626229


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:16:GLN)


Summations of interaction energy for fragment #1(A:16:GLN)
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.
-9.505-1.8222.198-3.694-6.1880.024
Interaction energy analysis for fragmet #1(A:16:GLN)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.044 / q_NPA : 0.020
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].
3A18THR0-0.011-0.0162.7453.3287.1150.375-1.766-2.3950.002
4A19TYR0-0.013-0.0174.965-0.956-0.921-0.001-0.005-0.0290.000
5A20THR00.0090.0058.7210.2670.2670.0000.0000.0000.000
6A21VAL0-0.022-0.00111.574-0.091-0.0910.0000.0000.0000.000
7A22ALA00.0510.03414.403-0.111-0.1110.0000.0000.0000.000
8A23PRO00.005-0.02817.5980.0490.0490.0000.0000.0000.000
9A24GLY00.0330.02920.762-0.040-0.0400.0000.0000.0000.000
10A25ASP-1-0.774-0.86116.0420.6290.6290.0000.0000.0000.000
11A26THR00.005-0.00117.3220.0080.0080.0000.0000.0000.000
12A27LEU00.0580.02212.2900.0400.0400.0000.0000.0000.000
13A28TYR00.0510.03414.6300.0490.0490.0000.0000.0000.000
14A29SER0-0.013-0.01817.1790.0000.0000.0000.0000.0000.000
15A30ILE00.0130.00410.901-0.046-0.0460.0000.0000.0000.000
16A31ALA0-0.010-0.00112.8430.0340.0340.0000.0000.0000.000
17A32ARG10.8950.93613.841-0.529-0.5290.0000.0000.0000.000
18A33ARG10.8020.90614.828-0.583-0.5830.0000.0000.0000.000
19A34TYR0-0.056-0.02810.745-0.188-0.1880.0000.0000.0000.000
20A35GLY0-0.0060.01712.0830.0530.0530.0000.0000.0000.000
21A36THR00.006-0.00110.109-0.043-0.0430.0000.0000.0000.000
22A37THR0-0.025-0.03712.919-0.091-0.0910.0000.0000.0000.000
23A38VAL00.0330.00412.8900.2150.2150.0000.0000.0000.000
24A39GLU-1-0.807-0.89413.3841.0101.0100.0000.0000.0000.000
25A40GLU-1-0.796-0.8578.1452.0632.0630.0000.0000.0000.000
26A41LEU0-0.0010.0048.1570.5400.5400.0000.0000.0000.000
27A42MET0-0.027-0.0059.0440.4640.4640.0000.0000.0000.000
28A43ARG10.8600.9027.088-1.413-1.4130.0000.0000.0000.000
29A44LEU0-0.0270.0073.199-1.222-0.3680.036-0.331-0.5580.002
30A45ASN0-0.073-0.0576.2171.3491.3490.0000.0000.0000.000
31A46GLY00.0250.0267.729-0.240-0.2400.0000.0000.0000.000
32A47LEU0-0.056-0.02811.083-0.192-0.1920.0000.0000.0000.000
33A48GLU-1-0.881-0.94413.4520.6150.6150.0000.0000.0000.000
34A49SER0-0.029-0.02416.552-0.103-0.1030.0000.0000.0000.000
35A50PHE00.024-0.00716.4460.1130.1130.0000.0000.0000.000
36A51LEU0-0.048-0.01317.9720.0050.0050.0000.0000.0000.000
37A52LEU0-0.015-0.00513.2730.1210.1210.0000.0000.0000.000
38A53GLN00.0190.01116.383-0.139-0.1390.0000.0000.0000.000
39A54PRO0-0.007-0.02016.4770.0650.0650.0000.0000.0000.000
40A55GLY00.0180.01315.604-0.056-0.0560.0000.0000.0000.000
41A56GLN00.0020.00912.031-0.182-0.1820.0000.0000.0000.000
42A57VAL0-0.010-0.0046.9700.0600.0600.0000.0000.0000.000
43A58LEU0-0.043-0.0177.6620.1120.1120.0000.0000.0000.000
44A59LYS10.8650.9202.588-9.406-7.2741.772-1.357-2.5490.018
45A60LEU0-0.020-0.0133.409-4.309-3.8100.011-0.164-0.3460.002
46A61PRO0-0.0070.0053.9371.6761.9690.006-0.057-0.2420.000
47A62SER0-0.015-0.0094.599-0.644-0.561-0.001-0.014-0.0690.000
48A63ARG10.9070.9515.740-0.408-0.4080.0000.0000.0000.000
49A64GLU-1-0.791-0.8787.794-0.548-0.5480.0000.0000.0000.000
50A65ARG10.7690.8695.0421.6001.6000.0000.0000.0000.000
51A66THR0-0.018-0.0209.2970.1610.1610.0000.0000.0000.000
52A67HIS0-0.0060.00512.748-0.154-0.1540.0000.0000.0000.000
53A68VAL0-0.003-0.00915.2880.0630.0630.0000.0000.0000.000
54A69VAL0-0.0340.00019.097-0.018-0.0180.0000.0000.0000.000
55A70ALA00.0650.02921.1920.0320.0320.0000.0000.0000.000
56A71PRO0-0.026-0.04322.8270.0120.0120.0000.0000.0000.000
57A72GLY00.0160.01825.534-0.009-0.0090.0000.0000.0000.000
58A73ASP-1-0.786-0.88119.954-0.423-0.4230.0000.0000.0000.000
59A74THR0-0.015-0.01321.5390.0280.0280.0000.0000.0000.000
60A75LEU00.0740.03119.441-0.032-0.0320.0000.0000.0000.000
61A76PHE00.0100.00618.797-0.030-0.0300.0000.0000.0000.000
62A77SER0-0.039-0.01918.761-0.018-0.0180.0000.0000.0000.000
63A78LEU00.0130.00415.971-0.060-0.0600.0000.0000.0000.000
64A79ALA00.0020.00614.352-0.069-0.0690.0000.0000.0000.000
65A80ARG10.9480.97113.9150.3850.3850.0000.0000.0000.000
66A81ARG10.8480.93710.7721.0071.0070.0000.0000.0000.000
67A82TYR0-0.020-0.0209.639-0.172-0.1720.0000.0000.0000.000
68A83GLY00.0620.0499.498-0.032-0.0320.0000.0000.0000.000
69A84THR00.0250.00510.8040.0920.0920.0000.0000.0000.000
70A85THR00.004-0.02812.9880.0080.0080.0000.0000.0000.000
71A86VAL00.006-0.01516.774-0.006-0.0060.0000.0000.0000.000
72A87GLU-1-0.811-0.88419.458-0.168-0.1680.0000.0000.0000.000
73A88ALA00.0290.02915.1430.0150.0150.0000.0000.0000.000
74A89LEU0-0.012-0.01315.0570.0030.0030.0000.0000.0000.000
75A90MET0-0.047-0.01117.0080.0090.0090.0000.0000.0000.000
76A91ARG10.7800.85916.3780.2130.2130.0000.0000.0000.000
77A92LEU0-0.036-0.01513.1910.0240.0240.0000.0000.0000.000
78A93ASN0-0.090-0.06316.4950.0170.0170.0000.0000.0000.000
79A94GLY00.0190.02319.9290.0120.0120.0000.0000.0000.000
80A95LEU0-0.051-0.01921.4550.0090.0090.0000.0000.0000.000
81A96SER00.013-0.00424.3930.0040.0040.0000.0000.0000.000
82A97SER0-0.043-0.04826.9060.0040.0040.0000.0000.0000.000
83A98PRO00.003-0.01524.687-0.008-0.0080.0000.0000.0000.000
84A99GLU-1-0.920-0.91925.212-0.152-0.1520.0000.0000.0000.000
85A100ILE0-0.010-0.00821.894-0.006-0.0060.0000.0000.0000.000
86A101LYS10.9360.97125.3490.1480.1480.0000.0000.0000.000
87A102VAL00.003-0.01025.066-0.010-0.0100.0000.0000.0000.000
88A103GLY0-0.012-0.00724.1550.0200.0200.0000.0000.0000.000
89A104GLN00.0110.01422.0890.0070.0070.0000.0000.0000.000
90A105VAL0-0.007-0.00518.108-0.030-0.0300.0000.0000.0000.000
91A106LEU0-0.036-0.01417.1830.0300.0300.0000.0000.0000.000
92A107ARG10.8820.92714.1950.0990.0990.0000.0000.0000.000
93A108LEU0-0.016-0.00910.5060.0140.0140.0000.0000.0000.000
94A109PRO0-0.0100.00910.315-0.033-0.0330.0000.0000.0000.000
95A110GLU-1-0.819-0.9125.510-1.310-1.3100.0000.0000.0000.000
96A111GLU-1-0.932-0.9535.421-1.906-1.9060.0000.0000.0000.000
97A112GLY0-0.016-0.0167.546-0.012-0.0120.0000.0000.0000.000
98A113GLU-1-0.830-0.8749.979-0.213-0.2130.0000.0000.0000.000
99A114ALA0-0.0060.0169.6530.0250.0250.0000.0000.0000.000