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: MN69Z

Calculation Name: 1ZZG-A-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 1ZZG

Chain ID: A

ChEMBL ID:

UniProt ID: Q5SLL6

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 415
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 22 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -7244736.629742
FMO2-HF: Nuclear repulsion 7085890.684612
FMO2-HF: Total energy -158845.945131
FMO2-MP2: Total energy -159318.994291


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:1:MET)


Summations of interaction energy for fragment #1(A:1:MET)
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.
-14.123-8.7914.444-8.055-11.722-0.031
Interaction energy analysis for fragmet #1(A:1:MET)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : -0.002 / q_NPA : -0.008
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].
3A3ARG10.8300.8862.537-4.002-0.2101.400-2.387-2.805-0.020
4A4LEU0-0.0050.0044.5831.1101.252-0.001-0.016-0.1240.000
5A5ASP-1-0.780-0.8537.262-1.638-1.6380.0000.0000.0000.000
6A6THR00.0620.01210.4130.1330.1330.0000.0000.0000.000
7A7ARG10.7680.87012.7591.3131.3130.0000.0000.0000.000
8A8PHE00.0460.03215.5520.0810.0810.0000.0000.0000.000
9A9LEU0-0.042-0.01316.1100.0810.0810.0000.0000.0000.000
10A10PRO00.0380.01017.573-0.026-0.0260.0000.0000.0000.000
11A11GLY00.0060.00619.0540.0150.0150.0000.0000.0000.000
12A12PHE0-0.006-0.00811.7650.0390.0390.0000.0000.0000.000
13A13PRO00.0500.01314.5520.0150.0150.0000.0000.0000.000
14A14GLU-1-0.846-0.89816.042-0.300-0.3000.0000.0000.0000.000
15A15ALA00.0370.01618.5760.0340.0340.0000.0000.0000.000
16A16LEU0-0.012-0.00911.6680.0370.0370.0000.0000.0000.000
17A17SER0-0.0050.00016.3070.0530.0530.0000.0000.0000.000
18A18ARG10.8160.89717.9140.3480.3480.0000.0000.0000.000
19A19HIS0-0.038-0.03719.1860.0640.0640.0000.0000.0000.000
20A20GLY00.0760.04316.8340.0100.0100.0000.0000.0000.000
21A21PRO00.003-0.01417.7650.0240.0240.0000.0000.0000.000
22A22LEU0-0.0160.00220.6270.0270.0270.0000.0000.0000.000
23A23LEU00.0010.00314.7140.0150.0150.0000.0000.0000.000
24A24GLU-1-0.778-0.87014.539-0.094-0.0940.0000.0000.0000.000
25A25GLU-1-0.808-0.85917.932-0.014-0.0140.0000.0000.0000.000
26A26ALA0-0.023-0.01318.7400.0250.0250.0000.0000.0000.000
27A27ARG10.7790.84210.9910.0740.0740.0000.0000.0000.000
28A28ARG10.8340.88717.7690.0570.0570.0000.0000.0000.000
29A29ARG10.7330.84320.8100.1160.1160.0000.0000.0000.000
30A30LEU00.0050.01117.3090.0150.0150.0000.0000.0000.000
31A31LEU00.002-0.01116.3060.0300.0300.0000.0000.0000.000
32A32ALA0-0.053-0.02420.4500.0230.0230.0000.0000.0000.000
33A33LYS10.8080.89523.6470.0240.0240.0000.0000.0000.000
34A34ARG10.8340.91018.552-0.284-0.2840.0000.0000.0000.000
35A35GLY0-0.0170.00024.0780.0050.0050.0000.0000.0000.000
36A36GLU-1-0.891-0.93727.0440.0720.0720.0000.0000.0000.000
37A37PRO0-0.046-0.02729.101-0.002-0.0020.0000.0000.0000.000
38A38GLY0-0.042-0.03230.476-0.011-0.0110.0000.0000.0000.000
39A39SER0-0.020-0.00326.004-0.010-0.0100.0000.0000.0000.000
40A40MET0-0.116-0.05126.088-0.008-0.0080.0000.0000.0000.000
41A41LEU00.0640.01821.527-0.011-0.0110.0000.0000.0000.000
42A42GLY00.0240.01321.3000.0280.0280.0000.0000.0000.000
43A43TRP0-0.001-0.01016.0920.0370.0370.0000.0000.0000.000
44A44MET0-0.0200.01317.0020.0410.0410.0000.0000.0000.000
45A45ASP-1-0.799-0.89516.8380.4190.4190.0000.0000.0000.000
46A46LEU0-0.036-0.00918.0070.0280.0280.0000.0000.0000.000
47A47PRO0-0.020-0.01113.3570.0020.0020.0000.0000.0000.000
48A48GLU-1-0.802-0.89114.9951.0331.0330.0000.0000.0000.000
49A49ASP-1-0.820-0.85517.9460.2990.2990.0000.0000.0000.000
50A50THR0-0.055-0.04717.926-0.013-0.0130.0000.0000.0000.000
51A51GLU-1-0.962-0.97720.3140.2810.2810.0000.0000.0000.000
52A52THR0-0.003-0.04822.892-0.031-0.0310.0000.0000.0000.000
53A53LEU0-0.0140.00017.538-0.036-0.0360.0000.0000.0000.000
54A54ARG10.9360.97220.536-0.492-0.4920.0000.0000.0000.000
55A55GLU-1-0.822-0.89223.7880.1510.1510.0000.0000.0000.000
56A56VAL0-0.020-0.01222.831-0.023-0.0230.0000.0000.0000.000
57A57ARG10.7930.87217.557-0.446-0.4460.0000.0000.0000.000
58A58ARG10.8270.87624.594-0.293-0.2930.0000.0000.0000.000
59A59TYR00.0280.00528.178-0.018-0.0180.0000.0000.0000.000
60A60ARG10.8700.95125.363-0.135-0.1350.0000.0000.0000.000
61A61GLU-1-0.817-0.87325.4630.2360.2360.0000.0000.0000.000
62A62ALA0-0.0220.00029.156-0.011-0.0110.0000.0000.0000.000
63A63ASN0-0.039-0.02431.376-0.021-0.0210.0000.0000.0000.000
64A64PRO00.0380.01431.195-0.006-0.0060.0000.0000.0000.000
65A65TRP0-0.072-0.03932.256-0.008-0.0080.0000.0000.0000.000
66A66VAL0-0.034-0.00730.832-0.008-0.0080.0000.0000.0000.000
67A67GLU-1-0.712-0.82231.1070.0280.0280.0000.0000.0000.000
68A68ASP-1-0.789-0.84731.596-0.007-0.0070.0000.0000.0000.000
69A69PHE00.0210.00827.8770.0090.0090.0000.0000.0000.000
70A70VAL0-0.030-0.02830.779-0.013-0.0130.0000.0000.0000.000
71A71LEU00.0320.02926.2090.0080.0080.0000.0000.0000.000
72A72ILE0-0.030-0.00130.338-0.013-0.0130.0000.0000.0000.000
73A73GLY00.013-0.00730.4890.0110.0110.0000.0000.0000.000
74A74ILE00.0220.01430.103-0.007-0.0070.0000.0000.0000.000
75A75GLY00.0260.02127.7560.0080.0080.0000.0000.0000.000
76A76GLY00.0450.02224.522-0.003-0.0030.0000.0000.0000.000
77A77SER0-0.081-0.05724.3670.0100.0100.0000.0000.0000.000
78A78ALA00.004-0.00725.6290.0130.0130.0000.0000.0000.000
79A79LEU0-0.0010.00323.076-0.004-0.0040.0000.0000.0000.000
80A80GLY00.0390.02619.618-0.021-0.0210.0000.0000.0000.000
81A81PRO0-0.017-0.02319.453-0.006-0.0060.0000.0000.0000.000
82A82LYS10.8380.92020.9890.1020.1020.0000.0000.0000.000
83A83ALA0-0.041-0.01517.447-0.012-0.0120.0000.0000.0000.000
84A84LEU0-0.014-0.00214.707-0.025-0.0250.0000.0000.0000.000
85A85GLU-1-0.809-0.88817.375-0.042-0.0420.0000.0000.0000.000
86A86ALA0-0.001-0.00720.2080.0060.0060.0000.0000.0000.000
87A87ALA00.0010.01414.827-0.025-0.0250.0000.0000.0000.000
88A88PHE0-0.050-0.03011.6590.0010.0010.0000.0000.0000.000
89A89ASN0-0.060-0.03217.4460.0600.0600.0000.0000.0000.000
90A90GLU-1-0.866-0.93717.2530.0170.0170.0000.0000.0000.000
91A91SER0-0.104-0.06421.240-0.001-0.0010.0000.0000.0000.000
92A92GLY00.0270.02424.625-0.002-0.0020.0000.0000.0000.000
93A93VAL0-0.081-0.02926.367-0.006-0.0060.0000.0000.0000.000
94A94ARG10.7830.84827.251-0.020-0.0200.0000.0000.0000.000
95A95PHE00.0180.01325.0700.0070.0070.0000.0000.0000.000
96A96HIS10.7750.86928.4970.0080.0080.0000.0000.0000.000
97A97TYR0-0.029-0.04824.4570.0090.0090.0000.0000.0000.000
98A98LEU0-0.031-0.01930.741-0.005-0.0050.0000.0000.0000.000
99A99ASP-1-0.805-0.88729.096-0.082-0.0820.0000.0000.0000.000
100A100HIS00.002-0.00331.842-0.010-0.0100.0000.0000.0000.000
101A101VAL0-0.020-0.02335.2690.0080.0080.0000.0000.0000.000
102A102GLU-1-0.892-0.93638.577-0.070-0.0700.0000.0000.0000.000
103A103PRO00.011-0.00340.3010.0030.0030.0000.0000.0000.000
104A104GLU-1-0.861-0.93442.765-0.042-0.0420.0000.0000.0000.000
105A105PRO00.000-0.00537.4080.0040.0040.0000.0000.0000.000
106A106ILE0-0.0020.00538.0510.0050.0050.0000.0000.0000.000
107A107LEU0-0.020-0.01939.8650.0060.0060.0000.0000.0000.000
108A108ARG10.9670.98139.2980.0520.0520.0000.0000.0000.000
109A109LEU00.0210.03135.2830.0040.0040.0000.0000.0000.000
110A110LEU0-0.017-0.00739.2170.0050.0050.0000.0000.0000.000
111A111ARG10.8990.95942.1100.0260.0260.0000.0000.0000.000
112A112THR0-0.064-0.05239.902-0.002-0.0020.0000.0000.0000.000
113A113LEU0-0.0280.00935.8200.0010.0010.0000.0000.0000.000
114A114ASP-1-0.771-0.89238.8670.0230.0230.0000.0000.0000.000
115A115PRO00.003-0.00139.0820.0040.0040.0000.0000.0000.000
116A116ARG10.9250.95039.846-0.033-0.0330.0000.0000.0000.000
117A117LYS10.8420.91436.179-0.020-0.0200.0000.0000.0000.000
118A118THR0-0.021-0.01635.0670.0000.0000.0000.0000.0000.000
119A119LEU0-0.043-0.00730.7760.0050.0050.0000.0000.0000.000
120A120VAL0-0.008-0.00532.797-0.005-0.0050.0000.0000.0000.000
121A121ASN00.0550.02627.8960.0130.0130.0000.0000.0000.000
122A122ALA0-0.0020.01231.843-0.011-0.0110.0000.0000.0000.000
123A123VAL00.0230.01127.2230.0100.0100.0000.0000.0000.000
124A124SER00.005-0.02030.649-0.012-0.0120.0000.0000.0000.000
125A125LYS10.8100.94728.302-0.061-0.0610.0000.0000.0000.000
126A126SER00.0380.00831.1450.0050.0050.0000.0000.0000.000
127A127GLY00.0400.03034.2700.0000.0000.0000.0000.0000.000
128A128SER00.002-0.03036.144-0.003-0.0030.0000.0000.0000.000
129A129THR0-0.0490.00533.681-0.003-0.0030.0000.0000.0000.000
130A130ALA00.0560.02636.6000.0020.0020.0000.0000.0000.000
131A131GLU-1-0.753-0.87335.468-0.041-0.0410.0000.0000.0000.000
132A132THR00.0380.01533.351-0.002-0.0020.0000.0000.0000.000
133A133LEU0-0.018-0.01436.0800.0040.0040.0000.0000.0000.000
134A134ALA0-0.0130.00239.6020.0030.0030.0000.0000.0000.000
135A135GLY00.0490.02138.0570.0010.0010.0000.0000.0000.000
136A136LEU00.010-0.00437.2310.0030.0030.0000.0000.0000.000
137A137ALA0-0.0040.00139.3060.0040.0040.0000.0000.0000.000
138A138VAL0-0.016-0.00342.0150.0020.0020.0000.0000.0000.000
139A139PHE00.0590.01338.0180.0020.0020.0000.0000.0000.000
140A140LEU0-0.0150.00241.0830.0040.0040.0000.0000.0000.000
141A141LYS10.9260.96642.856-0.001-0.0010.0000.0000.0000.000
142A142TRP0-0.010-0.01239.2320.0030.0030.0000.0000.0000.000
143A143LEU00.0240.01838.7950.0010.0010.0000.0000.0000.000
144A144LYS10.9120.96043.198-0.028-0.0280.0000.0000.0000.000
145A145ALA0-0.056-0.02346.5120.0010.0010.0000.0000.0000.000
146A146HIS0-0.058-0.02945.093-0.003-0.0030.0000.0000.0000.000
147A147LEU0-0.033-0.00441.4500.0020.0020.0000.0000.0000.000
148A148GLY00.0280.02645.9880.0030.0030.0000.0000.0000.000
149A149GLU-1-0.821-0.92646.6280.0430.0430.0000.0000.0000.000
150A150ASP-1-0.865-0.91142.1880.0570.0570.0000.0000.0000.000
151A151TRP0-0.054-0.03441.8170.0020.0020.0000.0000.0000.000
152A152ARG10.8250.89340.721-0.049-0.0490.0000.0000.0000.000
153A153ARG10.9060.96136.066-0.083-0.0830.0000.0000.0000.000
154A154HIS10.7680.87436.575-0.043-0.0430.0000.0000.0000.000
155A155LEU0-0.019-0.00635.699-0.008-0.0080.0000.0000.0000.000
156A156VAL0-0.0140.02230.7980.0050.0050.0000.0000.0000.000
157A157VAL0-0.004-0.01333.168-0.011-0.0110.0000.0000.0000.000
158A158THR00.008-0.00526.7980.0180.0180.0000.0000.0000.000
159A159THR00.009-0.02330.185-0.014-0.0140.0000.0000.0000.000
160A160ASP-1-0.717-0.85230.7700.0910.0910.0000.0000.0000.000
161A161PRO0-0.040-0.01730.236-0.001-0.0010.0000.0000.0000.000
162A162LYS10.8540.91332.959-0.076-0.0760.0000.0000.0000.000
163A163GLU-1-0.877-0.91435.4740.0540.0540.0000.0000.0000.000
164A164GLY00.0470.01736.297-0.001-0.0010.0000.0000.0000.000
165A165PRO0-0.060-0.04438.5230.0040.0040.0000.0000.0000.000
166A166LEU0-0.030-0.00534.4030.0020.0020.0000.0000.0000.000
167A167ARG10.8070.91432.735-0.086-0.0860.0000.0000.0000.000
168A168ALA00.0630.02837.5480.0030.0030.0000.0000.0000.000
169A169PHE0-0.053-0.03439.7550.0000.0000.0000.0000.0000.000
170A170ALA00.0240.00237.2530.0000.0000.0000.0000.0000.000
171A171GLU-1-0.841-0.91237.7460.0840.0840.0000.0000.0000.000
172A172ARG10.8070.89741.025-0.039-0.0390.0000.0000.0000.000
173A173GLU-1-0.838-0.90942.4830.0380.0380.0000.0000.0000.000
174A174GLY00.0080.01341.4660.0000.0000.0000.0000.0000.000
175A175LEU0-0.044-0.01037.5950.0030.0030.0000.0000.0000.000
176A176LYS10.7980.89330.322-0.139-0.1390.0000.0000.0000.000
177A177ALA00.0220.01233.465-0.006-0.0060.0000.0000.0000.000
178A178PHE00.0130.00127.3040.0100.0100.0000.0000.0000.000
179A179ALA00.014-0.00428.173-0.012-0.0120.0000.0000.0000.000
180A180ILE00.0010.00925.6430.0110.0110.0000.0000.0000.000
181A181PRO00.0480.00724.488-0.016-0.0160.0000.0000.0000.000
182A182LYS10.9270.94627.473-0.088-0.0880.0000.0000.0000.000
183A183GLU-1-0.751-0.87626.2890.0670.0670.0000.0000.0000.000
184A184VAL00.0190.02022.7820.0040.0040.0000.0000.0000.000
185A185GLY00.0670.02924.988-0.008-0.0080.0000.0000.0000.000
186A186GLY00.017-0.00724.4930.0020.0020.0000.0000.0000.000
187A187ARG10.7700.85123.1970.1100.1100.0000.0000.0000.000
188A188PHE00.0430.01419.802-0.017-0.0170.0000.0000.0000.000
189A189SER0-0.036-0.03420.2320.0360.0360.0000.0000.0000.000
190A190ALA00.0390.02817.9180.0280.0280.0000.0000.0000.000
191A191LEU00.0420.02213.9080.0080.0080.0000.0000.0000.000
192A192SER0-0.012-0.00517.7710.0460.0460.0000.0000.0000.000
193A193PRO00.022-0.01521.328-0.012-0.0120.0000.0000.0000.000
194A194VAL0-0.037-0.01223.093-0.009-0.0090.0000.0000.0000.000
195A195GLY00.0330.02520.072-0.023-0.0230.0000.0000.0000.000
196A196LEU00.0160.00117.330-0.003-0.0030.0000.0000.0000.000
197A197LEU0-0.004-0.00120.4660.0080.0080.0000.0000.0000.000
198A198PRO0-0.024-0.01122.4730.0010.0010.0000.0000.0000.000
199A199LEU00.0400.01816.580-0.002-0.0020.0000.0000.0000.000
200A200ALA00.0300.02220.5180.0080.0080.0000.0000.0000.000
201A201PHE0-0.053-0.04822.3870.0000.0000.0000.0000.0000.000
202A202ALA00.0300.02021.259-0.005-0.0050.0000.0000.0000.000
203A203GLY0-0.0120.00921.822-0.011-0.0110.0000.0000.0000.000
204A204ALA00.0290.03216.5440.0240.0240.0000.0000.0000.000
205A205ASP-1-0.851-0.91614.1640.6190.6190.0000.0000.0000.000
206A206LEU0-0.021-0.01414.3970.0230.0230.0000.0000.0000.000
207A207ASP-1-0.798-0.89714.7990.5970.5970.0000.0000.0000.000
208A208ALA00.0370.01410.2660.1560.1560.0000.0000.0000.000
209A209LEU0-0.0170.0039.7110.1470.1470.0000.0000.0000.000
210A210LEU0-0.030-0.00710.9320.0360.0360.0000.0000.0000.000
211A211MET0-0.036-0.0239.2380.0450.0450.0000.0000.0000.000
212A212GLY00.0380.0206.5070.4730.4730.0000.0000.0000.000
213A213ALA0-0.022-0.0117.5010.0890.0890.0000.0000.0000.000
214A214ARG10.8340.89410.326-1.244-1.2440.0000.0000.0000.000
215A215LYS10.8220.9005.007-4.592-4.5920.0000.0000.0000.000
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