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: YZZ62

Calculation Name: 4AEZ-C-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 4AEZ

Chain ID: C

ChEMBL ID:

UniProt ID: O14417

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 215
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -2505182.33972
FMO2-HF: Nuclear repulsion 2416274.297524
FMO2-HF: Total energy -88908.042196
FMO2-MP2: Total energy -89170.146681


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(C:9:ASN)


Summations of interaction energy for fragment #1(C:9: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.
-1.814-0.099-0.025-0.772-0.9180
Interaction energy analysis for fragmet #1(C:9:ASN)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : -0.001 / q_NPA : -0.021
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].
3C11VAL0-0.031-0.0113.808-0.5571.158-0.025-0.772-0.9180.000
4C12HIS00.0260.0275.8980.0040.0040.0000.0000.0000.000
5C13MET00.0460.0108.8340.0310.0310.0000.0000.0000.000
6C14ASP-1-0.804-0.90512.2460.2720.2720.0000.0000.0000.000
7C15VAL0-0.024-0.0159.396-0.006-0.0060.0000.0000.0000.000
8C16ILE0-0.0220.01810.4630.0060.0060.0000.0000.0000.000
9C17GLU-1-0.948-0.97713.2240.2090.2090.0000.0000.0000.000
10C18GLN0-0.061-0.03214.4720.0060.0060.0000.0000.0000.000
11C19SER00.0370.00415.485-0.022-0.0220.0000.0000.0000.000
12C20LYS10.9250.96417.497-0.200-0.2000.0000.0000.0000.000
13C21GLU-1-0.920-0.96219.1280.1960.1960.0000.0000.0000.000
14C22ASN0-0.072-0.02919.806-0.026-0.0260.0000.0000.0000.000
15C23ILE0-0.057-0.02016.4340.0240.0240.0000.0000.0000.000
16C24GLU-1-0.807-0.88620.0520.2450.2450.0000.0000.0000.000
17C25PRO00.0080.01721.3870.0260.0260.0000.0000.0000.000
18C26ARG10.8040.88418.573-0.395-0.3950.0000.0000.0000.000
19C27LYS10.9640.97121.619-0.159-0.1590.0000.0000.0000.000
20C28ALA0-0.056-0.02619.165-0.009-0.0090.0000.0000.0000.000
21C29GLY00.0010.01817.3840.0340.0340.0000.0000.0000.000
22C30HIS0-0.043-0.04214.6170.0550.0550.0000.0000.0000.000
23C31SER0-0.0060.00710.2250.1090.1090.0000.0000.0000.000
24C32ALA00.0920.0347.536-0.060-0.0600.0000.0000.0000.000
25C33SER00.0270.0045.724-0.341-0.3410.0000.0000.0000.000
26C34ALA0-0.0060.0077.466-0.221-0.2210.0000.0000.0000.000
27C35LEU00.0380.03211.063-0.146-0.1460.0000.0000.0000.000
28C36ALA0-0.015-0.0027.601-0.101-0.1010.0000.0000.0000.000
29C37LYS10.9230.9589.521-0.771-0.7710.0000.0000.0000.000
30C38SER0-0.038-0.04011.500-0.096-0.0960.0000.0000.0000.000
31C39SER0-0.047-0.06012.423-0.057-0.0570.0000.0000.0000.000
32C40SER0-0.074-0.01811.522-0.034-0.0340.0000.0000.0000.000
33C41ARG10.8140.93613.977-0.500-0.5000.0000.0000.0000.000
34C42ASN00.0270.00616.913-0.031-0.0310.0000.0000.0000.000
35C43HIS0-0.0020.00419.485-0.023-0.0230.0000.0000.0000.000
36C44THR0-0.031-0.02321.274-0.023-0.0230.0000.0000.0000.000
37C45GLU-1-0.872-0.95223.4750.1710.1710.0000.0000.0000.000
38C46LYS10.9700.98119.457-0.239-0.2390.0000.0000.0000.000
39C47GLU-1-0.846-0.91217.9970.3680.3680.0000.0000.0000.000
40C48VAL00.0450.02220.6730.0240.0240.0000.0000.0000.000
41C49ALA0-0.014-0.00723.3050.0020.0020.0000.0000.0000.000
42C50GLY0-0.008-0.00920.156-0.004-0.0040.0000.0000.0000.000
43C51LEU00.0110.00817.8900.0150.0150.0000.0000.0000.000
44C52GLN00.0130.01320.8920.0070.0070.0000.0000.0000.000
45C53LYS10.9090.93922.348-0.218-0.2180.0000.0000.0000.000
46C54GLU-1-0.879-0.92716.3910.5410.5410.0000.0000.0000.000
47C55ARG10.9010.96820.907-0.275-0.2750.0000.0000.0000.000
48C56MET0-0.045-0.02423.421-0.016-0.0160.0000.0000.0000.000
49C57GLY0-0.018-0.00322.671-0.017-0.0170.0000.0000.0000.000
50C58HIS0-0.015-0.01518.158-0.045-0.0450.0000.0000.0000.000
51C59GLU-1-0.743-0.84223.2620.1860.1860.0000.0000.0000.000
52C60ARG10.9820.99824.837-0.206-0.2060.0000.0000.0000.000
53C61LYS10.9050.95420.090-0.319-0.3190.0000.0000.0000.000
54C62ILE00.0270.00525.811-0.009-0.0090.0000.0000.0000.000
55C63GLU-1-0.979-0.96328.0100.1270.1270.0000.0000.0000.000
56C64THR0-0.034-0.01528.133-0.009-0.0090.0000.0000.0000.000
57C65SER0-0.028-0.03627.889-0.009-0.0090.0000.0000.0000.000
58C66GLU-1-0.926-0.96129.0470.0960.0960.0000.0000.0000.000
59C67SER0-0.065-0.03830.670-0.009-0.0090.0000.0000.0000.000
60C68LEU0-0.088-0.03425.460-0.004-0.0040.0000.0000.0000.000
61C69ASP-1-0.855-0.91527.8410.0590.0590.0000.0000.0000.000
62C70ASP-1-0.834-0.87025.2590.1410.1410.0000.0000.0000.000
63C71PRO00.0390.02125.6200.0210.0210.0000.0000.0000.000
64C72LEU0-0.017-0.00725.1230.0200.0200.0000.0000.0000.000
65C73GLN0-0.057-0.04318.731-0.005-0.0050.0000.0000.0000.000
66C74VAL00.0290.01421.4860.0390.0390.0000.0000.0000.000
67C75TRP00.0590.01022.4470.0360.0360.0000.0000.0000.000
68C76ILE0-0.035-0.00418.9340.0260.0260.0000.0000.0000.000
69C77ASP-1-0.855-0.90917.8100.4330.4330.0000.0000.0000.000
70C78TYR0-0.061-0.03318.2990.0630.0630.0000.0000.0000.000
71C79ILE00.022-0.01120.6600.0210.0210.0000.0000.0000.000
72C80LYS10.9110.95811.848-0.950-0.9500.0000.0000.0000.000
73C81TRP0-0.031-0.02516.4370.0350.0350.0000.0000.0000.000
74C82THR00.0140.00317.4930.0080.0080.0000.0000.0000.000
75C83LEU0-0.052-0.03118.175-0.002-0.0020.0000.0000.0000.000
76C84ASP-1-0.883-0.95413.1790.9600.9600.0000.0000.0000.000
77C85ASN0-0.050-0.04215.1710.0480.0480.0000.0000.0000.000
78C86PHE0-0.0070.00117.021-0.034-0.0340.0000.0000.0000.000
79C87PRO00.0470.04516.866-0.023-0.0230.0000.0000.0000.000
80C88GLN00.0980.03518.7900.0050.0050.0000.0000.0000.000
81C89GLY0-0.028-0.00821.908-0.024-0.0240.0000.0000.0000.000
82C90GLU-1-0.847-0.91723.7070.2120.2120.0000.0000.0000.000
83C91THR00.017-0.00325.405-0.009-0.0090.0000.0000.0000.000
84C92LYS10.9830.98627.998-0.148-0.1480.0000.0000.0000.000
85C93THR0-0.043-0.02625.7940.0040.0040.0000.0000.0000.000
86C94SER0-0.015-0.00523.6400.0050.0050.0000.0000.0000.000
87C95GLY00.0420.02025.2020.0110.0110.0000.0000.0000.000
88C96LEU00.0220.01523.414-0.001-0.0010.0000.0000.0000.000
89C97VAL00.0280.00626.384-0.003-0.0030.0000.0000.0000.000
90C98THR00.0120.00829.674-0.012-0.0120.0000.0000.0000.000
91C99LEU0-0.029-0.00323.882-0.010-0.0100.0000.0000.0000.000
92C100LEU0-0.008-0.01225.121-0.006-0.0060.0000.0000.0000.000
93C101GLU-1-0.892-0.93428.4920.1220.1220.0000.0000.0000.000
94C102ARG10.7470.85129.255-0.188-0.1880.0000.0000.0000.000
95C103CYS00.0150.02727.741-0.006-0.0060.0000.0000.0000.000
96C104THR0-0.007-0.01229.798-0.013-0.0130.0000.0000.0000.000
97C105ARG10.9710.98232.054-0.133-0.1330.0000.0000.0000.000
98C106GLU-1-0.948-0.95831.3290.1190.1190.0000.0000.0000.000
99C107PHE0-0.009-0.02028.768-0.010-0.0100.0000.0000.0000.000
100C108VAL00.0320.04533.762-0.008-0.0080.0000.0000.0000.000
101C109ARG10.9250.93736.724-0.081-0.0810.0000.0000.0000.000
102C110ASN00.0230.02033.606-0.011-0.0110.0000.0000.0000.000
103C111PRO00.011-0.01935.7070.0030.0030.0000.0000.0000.000
104C112LEU00.0140.02230.401-0.002-0.0020.0000.0000.0000.000
105C113TYR0-0.041-0.08227.5910.0010.0010.0000.0000.0000.000
106C114LYS10.8340.94832.261-0.068-0.0680.0000.0000.0000.000
107C115ASP-1-0.854-0.93933.5060.0650.0650.0000.0000.0000.000
108C116ASP-1-0.825-0.87927.0540.1300.1300.0000.0000.0000.000
109C117VAL0-0.010-0.02925.5000.0100.0100.0000.0000.0000.000
110C118ARG10.7490.84222.757-0.143-0.1430.0000.0000.0000.000
111C119TYR00.0320.01025.3050.0130.0130.0000.0000.0000.000
112C120LEU00.0180.01228.1510.0030.0030.0000.0000.0000.000
113C121ARG10.9100.95222.551-0.186-0.1860.0000.0000.0000.000
114C122ILE00.0490.03024.3510.0070.0070.0000.0000.0000.000
115C123TRP00.0370.01226.8570.0010.0010.0000.0000.0000.000
116C124MET0-0.109-0.05228.298-0.006-0.0060.0000.0000.0000.000
117C125GLN0-0.052-0.02922.249-0.004-0.0040.0000.0000.0000.000
118C126TYR0-0.0010.00127.520-0.001-0.0010.0000.0000.0000.000
119C127VAL00.0220.00230.403-0.004-0.0040.0000.0000.0000.000
120C128ASN0-0.049-0.02027.981-0.016-0.0160.0000.0000.0000.000
121C129TYR0-0.040-0.01726.9530.0040.0040.0000.0000.0000.000
122C130ILE0-0.033-0.00833.136-0.005-0.0050.0000.0000.0000.000
123C131ASP-1-0.870-0.92836.4570.1020.1020.0000.0000.0000.000
124C132GLU-1-0.968-0.98339.7340.0760.0760.0000.0000.0000.000
125C133PRO0-0.016-0.01837.001-0.001-0.0010.0000.0000.0000.000
126C134VAL0-0.033-0.01238.8140.0000.0000.0000.0000.0000.000
127C135GLU-1-0.818-0.91841.6870.0690.0690.0000.0000.0000.000
128C136LEU0-0.0250.00934.419-0.001-0.0010.0000.0000.0000.000
129C137PHE0-0.006-0.02334.935-0.001-0.0010.0000.0000.0000.000
130C138SER0-0.006-0.00739.071-0.005-0.0050.0000.0000.0000.000
131C139PHE0-0.0150.00638.169-0.004-0.0040.0000.0000.0000.000
132C140LEU00.013-0.01334.624-0.003-0.0030.0000.0000.0000.000
133C141ALA0-0.023-0.01438.748-0.003-0.0030.0000.0000.0000.000
134C142HIS0-0.037-0.00141.368-0.005-0.0050.0000.0000.0000.000
135C143HIS0-0.058-0.02739.904-0.004-0.0040.0000.0000.0000.000
136C144HIS0-0.023-0.01640.2100.0010.0010.0000.0000.0000.000
137C145ILE00.0010.01334.3590.0000.0000.0000.0000.0000.000
138C146GLY00.0220.00433.9840.0020.0020.0000.0000.0000.000
139C147GLN0-0.008-0.00634.768-0.006-0.0060.0000.0000.0000.000
140C148GLU-1-0.815-0.87535.7800.0390.0390.0000.0000.0000.000
141C149SER0-0.022-0.01630.904-0.003-0.0030.0000.0000.0000.000
142C150SER0-0.032-0.05132.218-0.002-0.0020.0000.0000.0000.000
143C151ILE0-0.006-0.00627.1460.0010.0010.0000.0000.0000.000
144C152PHE00.0580.04531.5340.0040.0040.0000.0000.0000.000
145C153TYR0-0.061-0.06534.288-0.001-0.0010.0000.0000.0000.000
146C154GLU-1-0.742-0.84031.1450.0880.0880.0000.0000.0000.000
147C155GLU-1-0.897-0.95430.6320.1260.1260.0000.0000.0000.000
148C156TYR00.0010.01034.220-0.002-0.0020.0000.0000.0000.000
149C157ALA0-0.008-0.01737.839-0.002-0.0020.0000.0000.0000.000
150C158ASN00.0150.00733.067-0.008-0.0080.0000.0000.0000.000
151C159TYR00.0330.03337.0590.0000.0000.0000.0000.0000.000
152C160PHE00.010-0.01638.493-0.002-0.0020.0000.0000.0000.000
153C161GLU-1-0.779-0.87539.2880.0620.0620.0000.0000.0000.000
154C162SER0-0.090-0.03837.906-0.001-0.0010.0000.0000.0000.000
155C163ARG10.9080.95339.878-0.082-0.0820.0000.0000.0000.000
156C164GLY00.0260.02542.993-0.003-0.0030.0000.0000.0000.000
157C165LEU0-0.068-0.03644.632-0.004-0.0040.0000.0000.0000.000
158C166PHE00.0860.02542.9190.0010.0010.0000.0000.0000.000
159C167GLN00.0780.06345.735-0.001-0.0010.0000.0000.0000.000
160C168LYS10.8660.93845.498-0.053-0.0530.0000.0000.0000.000
161C169ALA00.0300.01241.6570.0010.0010.0000.0000.0000.000
162C170ASP-1-0.800-0.89242.7280.0390.0390.0000.0000.0000.000
163C171GLU-1-0.872-0.93644.9610.0440.0440.0000.0000.0000.000
164C172VAL0-0.057-0.01639.781-0.001-0.0010.0000.0000.0000.000
165C173TYR00.0400.01037.4170.0010.0010.0000.0000.0000.000
166C174GLN0-0.011-0.00841.868-0.003-0.0030.0000.0000.0000.000
167C175LYS10.8830.95742.026-0.056-0.0560.0000.0000.0000.000
168C176GLY00.0940.03540.120-0.001-0.0010.0000.0000.0000.000
169C177LYS10.9540.97140.790-0.027-0.0270.0000.0000.0000.000
170C178ARG10.8630.93042.543-0.040-0.0400.0000.0000.0000.000
171C179MET0-0.033-0.00240.217-0.003-0.0030.0000.0000.0000.000
172C180LYS10.8910.97239.540-0.020-0.0200.0000.0000.0000.000
173C181ALA00.0280.01935.9160.0000.0000.0000.0000.0000.000
174C182LYS10.8850.96033.189-0.039-0.0390.0000.0000.0000.000
175C183PRO00.030-0.02729.0440.0070.0070.0000.0000.0000.000
176C184PHE00.0630.01032.1780.0010.0010.0000.0000.0000.000
177C185LEU00.0290.03930.5800.0010.0010.0000.0000.0000.000
178C186ARG10.8220.88526.224-0.099-0.0990.0000.0000.0000.000
179C187PHE00.0190.00832.3100.0010.0010.0000.0000.0000.000
180C188GLN0-0.0070.00135.2670.0000.0000.0000.0000.0000.000
181C189GLN00.0060.00233.2450.0000.0000.0000.0000.0000.000
182C190LYS10.8890.95529.802-0.076-0.0760.0000.0000.0000.000
183C191TYR0-0.036-0.02035.5340.0000.0000.0000.0000.0000.000
184C192GLN0-0.015-0.00938.7880.0000.0000.0000.0000.0000.000
185C193GLN00.003-0.01233.1960.0030.0030.0000.0000.0000.000
186C194PHE0-0.035-0.00338.5110.0000.0000.0000.0000.0000.000
187C195THR00.019-0.00439.996-0.001-0.0010.0000.0000.0000.000
188C196HIS0-0.086-0.03240.046-0.003-0.0030.0000.0000.0000.000
189C197ARG10.9050.92936.181-0.063-0.0630.0000.0000.0000.000
190C198TRP0-0.062-0.02642.1330.0010.0010.0000.0000.0000.000
191C199LEU0-0.035-0.02445.182-0.001-0.0010.0000.0000.0000.000
192C200GLU-1-0.922-0.96042.2380.0390.0390.0000.0000.0000.000
193C201PHE0-0.046-0.02940.6780.0000.0000.0000.0000.0000.000
194C202ALA0-0.073-0.02046.2520.0000.0000.0000.0000.0000.000
195C203PRO00.0820.04149.060-0.001-0.0010.0000.0000.0000.000
196C204GLN00.0070.00451.069-0.002-0.0020.0000.0000.0000.000
197C205SER0-0.072-0.03750.5000.0000.0000.0000.0000.0000.000
198C206PHE0-0.0030.00247.2120.0000.0000.0000.0000.0000.000
199C207SER0-0.006-0.02551.455-0.002-0.0020.0000.0000.0000.000
200C208SER0-0.045-0.00550.683-0.001-0.0010.0000.0000.0000.000
201C209ASN0-0.026-0.03652.8300.0000.0000.0000.0000.0000.000
202C210THR00.0810.02652.5150.0000.0000.0000.0000.0000.000
203C211ASN0-0.080-0.02954.1450.0000.0000.0000.0000.0000.000
204C212SER0-0.0030.01656.814-0.001-0.0010.0000.0000.0000.000
205C213VAL00.0160.00357.872-0.001-0.0010.0000.0000.0000.000
206C214ASN00.0170.00460.6360.0010.0010.0000.0000.0000.000
207C215PRO0-0.019-0.01463.185-0.001-0.0010.0000.0000.0000.000
208C216LEU0-0.009-0.00865.8470.0000.0000.0000.0000.0000.000
209C217GLN00.0240.03665.2470.0000.0000.0000.0000.0000.000
210C218THR00.003-0.00769.708-0.001-0.0010.0000.0000.0000.000
211C219THR0-0.048-0.03168.0960.0000.0000.0000.0000.0000.000
212C220PHE0-0.021-0.02271.337-0.001-0.0010.0000.0000.0000.000
213C221GLU-1-0.907-0.93974.7470.0070.0070.0000.0000.0000.000
214C222SER0-0.064-0.02278.4190.0000.0000.0000.0000.0000.000
215C223THR00.0190.01181.2970.0000.0000.0000.0000.0000.000