FMODB

FMODB: The database of quantum mechanical data based on the FMO method

Last updated: 2025-10-17

All entries: 77277

Number of unique PDB entries: 32023

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FMODB ID: VY291

Calculation Name: 1MZP-A-Xray547

Preferred Name:

Target Type:

Ligand Name:

Ligand 3-letter code:

Ligand of Interest (LOI):

Structure Source: PDB

PDB ID: 1MZP

Chain ID: A

ChEMBL ID:

UniProt ID: P35024

Base Structure: X-ray

Registration Date: 2025-10-05

Reference: Sci Data 11, 1164 (2024).

DOI: https://doi.org/10.1038/s41597-024-03999-2

Apendix: None


IFIE MAP

IFIE Diagram


Modeling method
Optimization MOE:Amber10:EHT
Restraint OptAll
Protonation MOE:Protonate 3D
Complement MOE:Homology Modeling
Water No
Procedure Manual calculation
Remarks
ac.sh, 23 2024 Oct; Missing atoms/residues were imported from a 100% homology model, which was constructed by MOE.
FMO calculation
FMO method FMO2-MP2/6-31G(d)
Fragmentation Auto
Number of fragment 217
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23 (BINDS Ver. 1) / 20230922
Total energy (hartree)
FMO2-HF: Electronic energy -2534453.55295
FMO2-HF: Nuclear repulsion 2449826.453861
FMO2-HF: Total energy -84627.09909
FMO2-MP2: Total energy -84877.035188


3D Structure Molmil
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.
-18.467-13.19725.679-16.219-14.729-0.191
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 : 1 / q_Mulliken : 0.733 / q_NPA : 0.856
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].
3A3ALA0-0.011-0.0023.1839.45811.9670.025-1.048-1.4850.000
4A4ASP-1-0.779-0.8472.725-46.446-43.5701.071-1.556-2.390-0.020
5A5LYS10.9590.9684.15725.40825.4630.001-0.020-0.0370.000
187A187LEU0-0.028-0.0094.5670.2940.377-0.001-0.008-0.0740.000
191A191GLU-1-0.811-0.9052.073-110.459-109.65112.247-7.032-6.023-0.087
197A197GLU-1-0.860-0.9321.755-112.397-113.65812.336-6.539-4.536-0.084
217A217ARG00.0760.0444.4525.5645.7640.000-0.016-0.1840.000
6A6GLU-1-0.852-0.9227.589-21.282-21.2820.0000.0000.0000.000
7A7SER0-0.014-0.0365.4731.7881.7880.0000.0000.0000.000
8A8LEU0-0.042-0.0307.2671.9351.9350.0000.0000.0000.000
9A9ILE0-0.003-0.0109.5702.1012.1010.0000.0000.0000.000
10A10GLU-1-0.858-0.90611.723-17.556-17.5560.0000.0000.0000.000
11A11ALA00.0210.00612.0441.2361.2360.0000.0000.0000.000
12A12LEU0-0.014-0.02312.6291.2481.2480.0000.0000.0000.000
13A13LYS10.8810.93815.40916.65516.6550.0000.0000.0000.000
14A14LEU00.0010.01816.9290.8450.8450.0000.0000.0000.000
15A15ALA0-0.025-0.00617.4450.7780.7780.0000.0000.0000.000
16A16LEU0-0.006-0.01019.1840.5390.5390.0000.0000.0000.000
17A17SER0-0.025-0.01521.4080.7740.7740.0000.0000.0000.000
18A18THR00.025-0.01223.382-0.057-0.0570.0000.0000.0000.000
19A19GLU-1-0.886-0.92124.690-10.551-10.5510.0000.0000.0000.000
20A20TYR0-0.049-0.03420.896-0.136-0.1360.0000.0000.0000.000
21A21ASN0-0.050-0.00223.5860.0720.0720.0000.0000.0000.000
22A22VAL00.0350.02025.4690.3070.3070.0000.0000.0000.000
23A23LYS10.9680.98828.9889.1239.1230.0000.0000.0000.000
24A24ARG10.8960.94429.07010.57310.5730.0000.0000.0000.000
25A25ASN00.016-0.00732.1860.0280.0280.0000.0000.0000.000
26A26PHE0-0.027-0.01228.5130.1510.1510.0000.0000.0000.000
27A27THR00.0200.02027.019-0.004-0.0040.0000.0000.0000.000
28A28GLN0-0.064-0.05025.668-0.163-0.1630.0000.0000.0000.000
29A29SER0-0.030-0.03422.434-0.119-0.1190.0000.0000.0000.000
30A30VAL00.0250.01417.6670.2320.2320.0000.0000.0000.000
31A31GLU-1-0.892-0.94817.776-14.635-14.6350.0000.0000.0000.000
32A32ILE00.0360.01610.647-0.386-0.3860.0000.0000.0000.000
33A33ILE0-0.007-0.01314.2350.6510.6510.0000.0000.0000.000
34A34LEU00.0170.0228.173-0.768-0.7680.0000.0000.0000.000
35A35THR0-0.013-0.01512.5951.9951.9950.0000.0000.0000.000
36A36PHE00.0480.0058.875-1.019-1.0190.0000.0000.0000.000
37A37LYS10.9150.94313.49424.24624.2460.0000.0000.0000.000
38A38GLY00.0060.00214.878-1.022-1.0220.0000.0000.0000.000
39A39ILE0-0.0010.01314.667-0.863-0.8630.0000.0000.0000.000
40A40ASP-1-0.807-0.92516.522-13.592-13.5920.0000.0000.0000.000
41A41MET0-0.020-0.01917.921-0.399-0.3990.0000.0000.0000.000
42A42LYS10.8880.94219.98012.45512.4550.0000.0000.0000.000
43A43LYS10.8970.96718.84815.51915.5190.0000.0000.0000.000
44A44GLY0-0.066-0.03918.009-0.050-0.0500.0000.0000.0000.000
45A45ASP-1-0.790-0.88814.332-19.802-19.8020.0000.0000.0000.000
46A46LEU00.0270.00911.198-2.071-2.0710.0000.0000.0000.000
47A47LYS10.9300.99813.82116.70116.7010.0000.0000.0000.000
48A48LEU00.0210.02511.226-0.392-0.3920.0000.0000.0000.000
49A49ARG10.8640.90815.24915.10015.1000.0000.0000.0000.000
50A50GLU-1-0.745-0.84312.631-19.436-19.4360.0000.0000.0000.000
51A51ILE0-0.032-0.01415.8980.3060.3060.0000.0000.0000.000
52A52VAL00.0430.01712.594-0.304-0.3040.0000.0000.0000.000
53A53PRO0-0.025-0.01615.6080.6390.6390.0000.0000.0000.000
54A54LEU0-0.035-0.01315.313-0.973-0.9730.0000.0000.0000.000
55A55PRO0-0.002-0.00313.3091.0091.0090.0000.0000.0000.000
56A56LYS10.8550.94316.63917.92817.9280.0000.0000.0000.000
57A57GLN00.0070.00118.764-0.340-0.3400.0000.0000.0000.000
58A58PRO00.023-0.00620.4780.2330.2330.0000.0000.0000.000
59A59SER0-0.039-0.03922.9950.3190.3190.0000.0000.0000.000
60A60LYS10.8870.94525.40911.89611.8960.0000.0000.0000.000
61A61ALA00.0290.01924.790-0.513-0.5130.0000.0000.0000.000
62A62LYS10.7950.91621.38513.81813.8180.0000.0000.0000.000
63A63ARG10.8320.89525.88411.12911.1290.0000.0000.0000.000
64A64VAL00.004-0.00327.267-0.309-0.3090.0000.0000.0000.000
65A65LEU00.0280.02329.8170.3460.3460.0000.0000.0000.000
66A66VAL0-0.001-0.01231.838-0.291-0.2910.0000.0000.0000.000
67A67VAL0-0.021-0.01134.0460.2590.2590.0000.0000.0000.000
68A68PRO0-0.009-0.00136.319-0.160-0.1600.0000.0000.0000.000
69A69SER00.0460.01037.6730.0080.0080.0000.0000.0000.000
70A70SER0-0.007-0.01840.720-0.045-0.0450.0000.0000.0000.000
71A71GLU-1-0.813-0.90241.572-7.473-7.4730.0000.0000.0000.000
72A72GLN0-0.042-0.01135.582-0.040-0.0400.0000.0000.0000.000
73A73LEU0-0.0150.01538.397-0.216-0.2160.0000.0000.0000.000
74A74GLU-1-0.750-0.88139.688-7.472-7.4720.0000.0000.0000.000
75A75TYR00.0130.01636.301-0.098-0.0980.0000.0000.0000.000
76A76ALA00.002-0.00234.971-0.296-0.2960.0000.0000.0000.000
77A77LYS10.8270.88735.3837.1577.1570.0000.0000.0000.000
78A78LYS10.9160.97336.5477.8867.8860.0000.0000.0000.000
79A79ALA00.0160.02631.487-0.068-0.0680.0000.0000.0000.000
80A80SER0-0.011-0.00332.212-0.410-0.4100.0000.0000.0000.000
81A81PRO0-0.0100.00931.940-0.314-0.3140.0000.0000.0000.000
82A82LYS0-0.071-0.01232.0320.0390.0390.0000.0000.0000.000
83A83VAL0-0.027-0.03133.7590.2960.2960.0000.0000.0000.000
84A84VAL00.0180.01635.336-0.265-0.2650.0000.0000.0000.000
85A85ILE0-0.036-0.01037.7820.1830.1830.0000.0000.0000.000
86A86THR00.036-0.03139.349-0.096-0.0960.0000.0000.0000.000
87A87ARG10.9200.94741.7737.4647.4640.0000.0000.0000.000
88A88GLU-1-0.838-0.92442.587-6.719-6.7190.0000.0000.0000.000
89A89GLU-1-0.852-0.89143.036-7.295-7.2950.0000.0000.0000.000
90A90LEU0-0.028-0.02738.478-0.014-0.0140.0000.0000.0000.000
91A91GLN0-0.025-0.02942.124-0.061-0.0610.0000.0000.0000.000
92A92LYS10.9540.98745.2396.5596.5590.0000.0000.0000.000
93A93LEU0-0.0140.00240.0900.0110.0110.0000.0000.0000.000
94A94GLN00.0190.01443.487-0.209-0.2090.0000.0000.0000.000
95A95GLY00.0390.02443.8600.1580.1580.0000.0000.0000.000
96A96GLN00.0260.02244.137-0.053-0.0530.0000.0000.0000.000
97A97LYS10.9450.94941.9947.1407.1400.0000.0000.0000.000
98A98ARG10.9320.97139.7467.5387.5380.0000.0000.0000.000
99A99PRO00.0830.02640.819-0.209-0.2090.0000.0000.0000.000
100A100VAL00.0900.06637.630-0.264-0.2640.0000.0000.0000.000
101A101LYS10.9320.95236.5097.9997.9990.0000.0000.0000.000
102A102LYS10.9090.97135.7867.6437.6430.0000.0000.0000.000
103A103LEU00.0610.04235.008-0.314-0.3140.0000.0000.0000.000
104A104ALA00.0780.03732.405-0.301-0.3010.0000.0000.0000.000
105A105ARG10.8870.94530.9639.5919.5910.0000.0000.0000.000
106A106GLN0-0.011-0.02530.469-0.266-0.2660.0000.0000.0000.000
107A107ASN00.0430.02330.1830.0470.0470.0000.0000.0000.000
108A108GLU-1-0.815-0.87324.516-11.587-11.5870.0000.0000.0000.000
109A109TRP0-0.005-0.00420.173-0.252-0.2520.0000.0000.0000.000
110A110PHE00.0220.00426.9140.5130.5130.0000.0000.0000.000
111A111LEU00.0070.01226.774-0.208-0.2080.0000.0000.0000.000
112A112ILE0-0.013-0.00830.5740.3560.3560.0000.0000.0000.000
113A113ASN00.0740.03233.122-0.173-0.1730.0000.0000.0000.000
114A114GLN00.0710.03635.0590.0450.0450.0000.0000.0000.000
115A115GLU-1-0.862-0.92636.128-7.649-7.6490.0000.0000.0000.000
116A116SER00.007-0.01037.9110.2930.2930.0000.0000.0000.000
117A117MET0-0.0060.00732.185-0.033-0.0330.0000.0000.0000.000
118A118ALA00.0290.00335.861-0.095-0.0950.0000.0000.0000.000
119A119LEU0-0.0220.00738.1040.0980.0980.0000.0000.0000.000
120A120ALA00.0610.02135.2070.0190.0190.0000.0000.0000.000
121A121GLY0-0.002-0.00434.430-0.159-0.1590.0000.0000.0000.000
122A122ARG10.9550.97735.4347.5417.5410.0000.0000.0000.000
123A123ILE0-0.042-0.01138.6860.0210.0210.0000.0000.0000.000
124A124LEU00.001-0.01134.409-0.007-0.0070.0000.0000.0000.000
125A125GLY00.0320.02032.665-0.190-0.1900.0000.0000.0000.000
126A126PRO00.0130.00832.773-0.318-0.3180.0000.0000.0000.000
127A127ALA0-0.055-0.02534.556-0.003-0.0030.0000.0000.0000.000
128A128LEU0-0.028-0.00429.635-0.176-0.1760.0000.0000.0000.000
129A129GLY00.0850.04828.821-0.356-0.3560.0000.0000.0000.000
130A130PRO0-0.014-0.00728.347-0.397-0.3970.0000.0000.0000.000
131A131ARG10.7760.88528.6159.6629.6620.0000.0000.0000.000
132A132GLY0-0.0040.00724.690-0.420-0.4200.0000.0000.0000.000
133A133LYS10.7740.87423.98510.70310.7030.0000.0000.0000.000
134A134PHE00.020-0.00821.6500.2110.2110.0000.0000.0000.000
135A135PRO00.0060.01227.606-0.097-0.0970.0000.0000.0000.000
136A136THR0-0.010-0.02124.587-0.483-0.4830.0000.0000.0000.000
137A137PRO00.0090.01627.1460.2970.2970.0000.0000.0000.000
138A138LEU0-0.003-0.00228.778-0.440-0.4400.0000.0000.0000.000
139A139PRO0-0.006-0.00329.3460.0770.0770.0000.0000.0000.000
140A140ASN00.005-0.00931.8770.1790.1790.0000.0000.0000.000
141A141THR00.0100.00633.7290.1700.1700.0000.0000.0000.000
142A142ALA00.0630.02735.991-0.020-0.0200.0000.0000.0000.000
143A143ASP-1-0.838-0.92734.501-9.054-9.0540.0000.0000.0000.000
144A144ILE00.0130.00131.829-0.294-0.2940.0000.0000.0000.000
145A145SER0-0.021-0.02631.317-0.262-0.2620.0000.0000.0000.000
146A146GLU-1-0.800-0.90726.195-11.757-11.7570.0000.0000.0000.000
147A147TYR0-0.072-0.03525.954-0.710-0.7100.0000.0000.0000.000
148A148ILE00.0040.00326.692-0.422-0.4220.0000.0000.0000.000
149A149ASN0-0.011-0.01327.210-0.173-0.1730.0000.0000.0000.000
150A150ARG10.9630.99121.40113.15413.1540.0000.0000.0000.000
151A151PHE00.0030.01122.576-0.647-0.6470.0000.0000.0000.000
152A152LYS10.8410.91423.9619.9109.9100.0000.0000.0000.000
153A153ARG10.9230.98820.56713.89113.8910.0000.0000.0000.000
154A154SER00.002-0.00719.185-0.987-0.9870.0000.0000.0000.000
155A155VAL0-0.037-0.02315.7470.8870.8870.0000.0000.0000.000
156A156LEU0-0.038-0.01517.366-0.425-0.4250.0000.0000.0000.000
157A157VAL00.0230.01711.8370.3880.3880.0000.0000.0000.000
158A158LYS10.8810.94915.30814.42514.4250.0000.0000.0000.000
159A159THR0-0.007-0.01715.1540.0730.0730.0000.0000.0000.000
160A160LYS10.8790.92917.99912.85612.8560.0000.0000.0000.000
161A161ASP-1-0.862-0.94321.458-13.112-13.1120.0000.0000.0000.000
162A162GLN00.0250.02720.463-0.078-0.0780.0000.0000.0000.000
163A163PRO00.0140.02216.823-0.653-0.6530.0000.0000.0000.000
164A164GLN0-0.039-0.04015.297-1.310-1.3100.0000.0000.0000.000
165A165VAL00.0190.01612.2200.5640.5640.0000.0000.0000.000
166A166GLN0-0.0130.00014.663-0.299-0.2990.0000.0000.0000.000
167A167VAL0-0.011-0.01013.7860.6440.6440.0000.0000.0000.000
168A168PHE00.0060.00916.6180.1440.1440.0000.0000.0000.000
169A169ILE00.0290.00212.477-0.587-0.5870.0000.0000.0000.000
170A170GLY00.0640.01416.481-0.194-0.1940.0000.0000.0000.000
171A171THR0-0.069-0.05919.6110.1910.1910.0000.0000.0000.000
172A172GLU-1-0.771-0.88522.229-11.830-11.8300.0000.0000.0000.000
173A173ASP-1-0.773-0.82923.597-11.808-11.8080.0000.0000.0000.000
174A174MET0-0.0690.00518.9100.0420.0420.0000.0000.0000.000
175A175LYS11.0081.01019.51312.91612.9160.0000.0000.0000.000
176A176PRO00.0210.00316.045-0.652-0.6520.0000.0000.0000.000
177A177GLU-1-0.788-0.89914.397-17.054-17.0540.0000.0000.0000.000
178A178ASP-1-0.887-0.95514.396-16.516-16.5160.0000.0000.0000.000
179A179LEU0-0.028-0.01815.374-0.954-0.9540.0000.0000.0000.000
180A180ALA00.0410.02110.629-1.215-1.2150.0000.0000.0000.000
181A181GLU-1-0.884-0.93010.580-21.653-21.6530.0000.0000.0000.000
182A182ASN0-0.035-0.03211.466-1.419-1.4190.0000.0000.0000.000
183A183ALA00.0120.00110.098-0.683-0.6830.0000.0000.0000.000
184A184ILE00.0040.0035.812-2.220-2.2200.0000.0000.0000.000
185A185ALA0-0.0040.0067.321-2.671-2.6710.0000.0000.0000.000
186A186VAL0-0.017-0.0189.8510.0240.0240.0000.0000.0000.000
188A188ASN00.0620.0205.322-7.780-7.7800.0000.0000.0000.000
189A189ALA0-0.025-0.0096.4660.9510.9510.0000.0000.0000.000
190A190ILE0-0.034-0.0187.3352.2312.2310.0000.0000.0000.000
192A192ASN0-0.066-0.0285.4832.3662.3660.0000.0000.0000.000
193A193LYS10.7860.8818.47123.54923.5490.0000.0000.0000.000
194A194ALA00.0060.0008.7422.5502.5500.0000.0000.0000.000
195A195LYS10.9660.9876.53933.31933.3190.0000.0000.0000.000
196A196VAL00.0080.0057.0101.8371.8370.0000.0000.0000.000
198A198THR00.0400.0175.8432.2972.2970.0000.0000.0000.000
199A199ASN0-0.052-0.0199.1270.9700.9700.0000.0000.0000.000
200A200LEU00.0220.0297.9363.5713.5710.0000.0000.0000.000
201A201ARG10.8540.93310.28519.97619.9760.0000.0000.0000.000
202A202ASN00.0270.00911.8011.0811.0810.0000.0000.0000.000
203A203ILE00.0630.0407.5240.2320.2320.0000.0000.0000.000
204A204TYR0-0.025-0.01811.6731.1951.1950.0000.0000.0000.000
205A205VAL00.0130.01012.993-0.762-0.7620.0000.0000.0000.000
206A206LYS10.8470.93415.71314.59514.5950.0000.0000.0000.000
207A207THR00.0650.02219.445-0.431-0.4310.0000.0000.0000.000
208A208THR0-0.037-0.02522.4700.2220.2220.0000.0000.0000.000
209A209MET0-0.066-0.03224.9520.1580.1580.0000.0000.0000.000
210A210GLY00.0550.05523.9670.5060.5060.0000.0000.0000.000
211A211LYS10.8820.93523.00711.08511.0850.0000.0000.0000.000
212A212ALA0-0.040-0.01718.816-0.389-0.3890.0000.0000.0000.000
213A213VAL00.0200.02915.1100.3100.3100.0000.0000.0000.000
214A214LYS10.8590.92113.64917.18117.1810.0000.0000.0000.000
215A215VAL0-0.014-0.0127.6790.7760.7760.0000.0000.0000.000
216A216LYS10.8240.9019.80117.96117.9610.0000.0000.0000.000