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: 9QJ52

Calculation Name: 1XV2-A-Xray549

Preferred Name:

Target Type:

Ligand Name: zinc ion

Ligand 3-letter code: ZN

Ligand of Interest (LOI):

Structure Source: PDB

PDB ID: 1XV2

Chain ID: A

ChEMBL ID:

UniProt ID: A0A0H3

Base Structure: X-ray

Registration Date: 2025-10-11

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 OptH
Protonation MOE:Protonate 3D
Complement ac.sh, 23 2024 Oct
Water No
Procedure Manual calculation
Remarks
FMO calculation
FMO method FMO2-MP2/6-31G(d)
Fragmentation Auto
Number of fragment 232
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23 (BINDS Ver. 1) / 20230922
Total energy (hartree)
FMO2-HF: Electronic energy -3021693.881351
FMO2-HF: Nuclear repulsion 2930472.619174
FMO2-HF: Total energy -91221.262177
FMO2-MP2: Total energy -91490.430001


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:3:ASN)


Summations of interaction energy for fragment #1(A:3: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.
-217.95-209.4727.084-6.234-9.328-0.067
Interaction energy analysis for fragmet #1(A:3:ASN)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 1 / q_Mulliken : 0.820 / q_NPA : 0.904
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].
3A5LEU00.0270.0503.8482.0143.895-0.025-0.846-1.010-0.004
78A80LYS10.9100.9474.41234.08334.266-0.001-0.018-0.1630.000
80A82SER0-0.133-0.1023.876-2.028-1.8270.000-0.028-0.1730.000
198A200GLN0-0.0280.0113.287-0.3400.8920.048-0.466-0.8140.000
199A201ASN00.0670.0343.5934.4614.8630.001-0.114-0.2880.000
200A202PHE0-0.048-0.0362.028-33.774-31.2746.718-4.149-5.069-0.055
201A203GLU-1-0.945-0.9622.566-55.782-53.9930.343-0.560-1.573-0.008
202A204THR0-0.060-0.0384.1297.3647.6540.000-0.053-0.2380.000
4A6TYR0-0.019-0.0156.8171.3111.3110.0000.0000.0000.000
5A7GLN0-0.005-0.0049.9420.7830.7830.0000.0000.0000.000
6A8HIS00.0240.02113.359-0.425-0.4250.0000.0000.0000.000
7A9GLY00.0640.03316.7470.6290.6290.0000.0000.0000.000
8A10THR0-0.023-0.00817.859-0.721-0.7210.0000.0000.0000.000
9A11LEU00.0640.05119.1250.7180.7180.0000.0000.0000.000
10A12GLY00.0480.01720.8650.7480.7480.0000.0000.0000.000
11A13THR0-0.055-0.03622.9280.8220.8220.0000.0000.0000.000
12A14LEU00.0210.01522.4360.4690.4690.0000.0000.0000.000
13A15MET00.001-0.00124.5520.5280.5280.0000.0000.0000.000
14A16ALA0-0.013-0.00826.8520.4870.4870.0000.0000.0000.000
15A17GLY00.0470.02728.5530.3980.3980.0000.0000.0000.000
16A18LEU0-0.088-0.04227.2160.2420.2420.0000.0000.0000.000
17A19LEU0-0.0020.00526.746-0.511-0.5110.0000.0000.0000.000
18A20GLU-1-0.815-0.87028.351-10.186-10.1860.0000.0000.0000.000
19A21GLY00.0260.01125.647-0.478-0.4780.0000.0000.0000.000
20A22THR0-0.095-0.05923.6080.1140.1140.0000.0000.0000.000
21A23ALA00.0110.02819.757-0.144-0.1440.0000.0000.0000.000
22A24THR0-0.028-0.01821.4080.5350.5350.0000.0000.0000.000
23A25ILE00.0260.02419.779-0.943-0.9430.0000.0000.0000.000
24A26ASN00.0500.00718.475-1.052-1.0520.0000.0000.0000.000
25A27GLU-1-0.879-0.92817.755-15.146-15.1460.0000.0000.0000.000
26A28LEU0-0.030-0.00914.325-1.488-1.4880.0000.0000.0000.000
27A29LEU00.0290.02013.640-1.613-1.6130.0000.0000.0000.000
28A30GLU-1-0.957-0.96913.553-18.736-18.7360.0000.0000.0000.000
29A31HIS10.7610.86910.64821.40221.4020.0000.0000.0000.000
30A32GLY0-0.060-0.0269.103-3.561-3.5610.0000.0000.0000.000
31A33ASN00.004-0.0049.6831.1751.1750.0000.0000.0000.000
32A34LEU00.0130.0129.8921.4721.4720.0000.0000.0000.000
33A35GLY00.022-0.01611.131-2.263-2.2630.0000.0000.0000.000
34A36ILE0-0.0050.01913.2971.0171.0170.0000.0000.0000.000
35A37ALA00.013-0.00416.361-0.788-0.7880.0000.0000.0000.000
36A38THR00.0100.01419.1960.4830.4830.0000.0000.0000.000
37A39LEU00.0490.02023.037-0.418-0.4180.0000.0000.0000.000
38A40THR0-0.040-0.05025.5710.0920.0920.0000.0000.0000.000
39A41GLY0-0.010-0.00528.1490.2520.2520.0000.0000.0000.000
40A42SER00.000-0.01626.4970.0880.0880.0000.0000.0000.000
41A43ASP-1-0.884-0.93827.562-10.348-10.3480.0000.0000.0000.000
42A44GLY00.0710.05326.940-0.397-0.3970.0000.0000.0000.000
43A45GLU-1-0.828-0.87222.862-12.945-12.9450.0000.0000.0000.000
44A46VAL0-0.030-0.01719.3620.2450.2450.0000.0000.0000.000
45A47ILE0-0.012-0.00418.380-0.713-0.7130.0000.0000.0000.000
46A48PHE0-0.025-0.01214.8190.4460.4460.0000.0000.0000.000
47A49LEU00.026-0.00215.474-1.080-1.0800.0000.0000.0000.000
48A50ASP-1-0.837-0.91215.220-16.449-16.4490.0000.0000.0000.000
49A51GLY0-0.042-0.02714.9350.4780.4780.0000.0000.0000.000
50A52LYS10.7650.88915.82813.67713.6770.0000.0000.0000.000
51A53ALA00.0360.00918.093-0.789-0.7890.0000.0000.0000.000
52A54TYR00.0090.00820.0970.9240.9240.0000.0000.0000.000
53A55HIS0-0.043-0.05022.306-0.409-0.4090.0000.0000.0000.000
54A56ALA00.0470.03925.0220.3930.3930.0000.0000.0000.000
55A57ASN0-0.010-0.02427.233-0.099-0.0990.0000.0000.0000.000
56A58GLU-1-0.831-0.93629.968-9.088-9.0880.0000.0000.0000.000
57A59HIS0-0.056-0.02532.6700.3560.3560.0000.0000.0000.000
58A60LYS10.8900.95032.4028.7748.7740.0000.0000.0000.000
59A61GLU-1-0.897-0.91332.597-8.938-8.9380.0000.0000.0000.000
60A62PHE00.014-0.00124.123-0.444-0.4440.0000.0000.0000.000
61A63ILE0-0.031-0.01226.8930.2910.2910.0000.0000.0000.000
62A64GLU-1-0.844-0.91523.634-12.866-12.8660.0000.0000.0000.000
63A65LEU0-0.039-0.01722.2070.3750.3750.0000.0000.0000.000
64A66LYS10.8160.89424.75610.18310.1830.0000.0000.0000.000
65A67GLY00.011-0.00822.906-0.093-0.0930.0000.0000.0000.000
66A68ASP-1-0.915-0.95923.266-11.124-11.1240.0000.0000.0000.000
67A69GLU-1-0.741-0.85525.004-11.535-11.5350.0000.0000.0000.000
68A70LYS10.8700.93823.99710.49910.4990.0000.0000.0000.000
69A71VAL00.0370.01519.5020.3410.3410.0000.0000.0000.000
70A72PRO0-0.060-0.00222.972-0.156-0.1560.0000.0000.0000.000
71A73TYR0-0.043-0.04315.955-0.091-0.0910.0000.0000.0000.000
72A74ALA00.0410.01116.5130.3470.3470.0000.0000.0000.000
73A75SER0-0.044-0.02012.108-0.761-0.7610.0000.0000.0000.000
74A76ILE0-0.0280.00410.7700.6090.6090.0000.0000.0000.000
75A77THR00.0390.0005.578-4.667-4.6670.0000.0000.0000.000
76A78ASN00.0410.0305.5936.0506.0500.0000.0000.0000.000
77A79PHE0-0.023-0.0085.281-5.767-5.7670.0000.0000.0000.000
79A81ALA00.0270.0315.400-4.200-4.2000.0000.0000.0000.000
81A83LYS10.8020.8825.92223.27923.2790.0000.0000.0000.000
82A84THR00.0270.0129.587-1.075-1.0750.0000.0000.0000.000
83A85PHE0-0.015-0.01012.8400.4960.4960.0000.0000.0000.000
84A86PRO00.0130.01616.398-0.200-0.2000.0000.0000.0000.000
85A87LEU0-0.018-0.01518.811-0.087-0.0870.0000.0000.0000.000
86A88GLN0-0.045-0.04721.9130.2430.2430.0000.0000.0000.000
87A89GLN0-0.054-0.01825.6450.1950.1950.0000.0000.0000.000
88A90LEU0-0.0130.00922.9830.0930.0930.0000.0000.0000.000
89A91SER00.007-0.01526.118-0.152-0.1520.0000.0000.0000.000
90A92GLN00.0350.01322.255-0.772-0.7720.0000.0000.0000.000
91A93ASP-1-0.881-0.93922.132-12.515-12.5150.0000.0000.0000.000
92A94ASP-1-0.869-0.91622.455-11.804-11.8040.0000.0000.0000.000
93A95VAL0-0.015-0.01418.946-0.597-0.5970.0000.0000.0000.000
94A96PHE00.009-0.00717.952-1.108-1.1080.0000.0000.0000.000
95A97ALA0-0.0030.00017.711-0.865-0.8650.0000.0000.0000.000
96A98GLN0-0.033-0.01417.990-0.643-0.6430.0000.0000.0000.000
97A99ILE00.005-0.00912.720-1.078-1.0780.0000.0000.0000.000
98A100LYS10.8080.88413.29616.20416.2040.0000.0000.0000.000
99A101ASN0-0.037-0.00414.977-0.343-0.3430.0000.0000.0000.000
100A102GLU-1-0.857-0.90912.918-18.881-18.8810.0000.0000.0000.000
101A103MET0-0.058-0.0019.358-2.059-2.0590.0000.0000.0000.000
102A104LEU0-0.054-0.0285.8030.6210.6210.0000.0000.0000.000
103A105SER00.035-0.0098.8422.2862.2860.0000.0000.0000.000
104A106GLU-1-0.836-0.89410.600-18.684-18.6840.0000.0000.0000.000
105A107ASN0-0.051-0.03412.7411.4021.4020.0000.0000.0000.000
106A108LEU0-0.036-0.0106.597-0.452-0.4520.0000.0000.0000.000
107A109PHE00.0560.0267.5711.2691.2690.0000.0000.0000.000
108A110SER0-0.031-0.0246.458-4.259-4.2590.0000.0000.0000.000
109A111ALA0-0.0040.0026.7942.5612.5610.0000.0000.0000.000
110A112VAL0-0.008-0.0098.357-1.114-1.1140.0000.0000.0000.000
111A113LYS10.8740.93511.32119.46719.4670.0000.0000.0000.000
112A114ILE00.0160.00813.669-0.146-0.1460.0000.0000.0000.000
113A115TYR0-0.048-0.03017.1760.5620.5620.0000.0000.0000.000
114A116GLY00.0290.01419.6390.0230.0230.0000.0000.0000.000
115A117THR0-0.022-0.02623.3380.3680.3680.0000.0000.0000.000
116A118PHE0-0.002-0.00621.049-0.247-0.2470.0000.0000.0000.000
117A119LYS10.8270.92527.1369.8669.8660.0000.0000.0000.000
118A120HIS0-0.034-0.01729.1590.5800.5800.0000.0000.0000.000
119A121MET00.0150.02123.209-0.518-0.5180.0000.0000.0000.000
120A122HIS0-0.059-0.03627.2070.4360.4360.0000.0000.0000.000
121A123VAL00.0190.01824.920-0.424-0.4240.0000.0000.0000.000
122A124ARG10.8130.88723.81112.56712.5670.0000.0000.0000.000
123A125MET0-0.022-0.02226.729-0.446-0.4460.0000.0000.0000.000
124A126MET0-0.017-0.00226.3950.6140.6140.0000.0000.0000.000
125A127PRO0-0.0330.00028.6960.0250.0250.0000.0000.0000.000
126A128ALA00.0220.01431.328-0.097-0.0970.0000.0000.0000.000
127A129GLN0-0.040-0.01432.1510.4390.4390.0000.0000.0000.000
128A130GLN0-0.022-0.02633.742-0.099-0.0990.0000.0000.0000.000
129A131PRO0-0.0220.01834.9610.0260.0260.0000.0000.0000.000
130A132PRO0-0.060-0.04936.6350.2210.2210.0000.0000.0000.000
131A133TYR00.020-0.00131.4730.0050.0050.0000.0000.0000.000
132A134THR0-0.071-0.06134.3920.1480.1480.0000.0000.0000.000
133A135ARG10.8190.88330.4489.8039.8030.0000.0000.0000.000
134A136LEU00.0150.00325.7190.1770.1770.0000.0000.0000.000
135A137ILE00.0180.00929.7310.0330.0330.0000.0000.0000.000
136A138ASP-1-0.849-0.90531.161-8.801-8.8010.0000.0000.0000.000
137A139SER0-0.069-0.04230.7140.3440.3440.0000.0000.0000.000
138A140ALA00.0510.02629.0580.1090.1090.0000.0000.0000.000
139A141ARG10.7810.84930.8839.2859.2850.0000.0000.0000.000
140A142ARG10.7940.90434.1239.2739.2730.0000.0000.0000.000
141A143GLN00.0270.01629.184-0.193-0.1930.0000.0000.0000.000
142A144PRO0-0.0380.00532.3670.2000.2000.0000.0000.0000.000
143A145GLU-1-0.804-0.90231.041-10.102-10.1020.0000.0000.0000.000
144A146GLU-1-0.863-0.93230.991-8.887-8.8870.0000.0000.0000.000
145A147LYS10.9020.97030.5138.8278.8270.0000.0000.0000.000
146A148ARG10.8100.90430.0879.8009.8000.0000.0000.0000.000
147A149GLN0-0.016-0.01331.297-0.037-0.0370.0000.0000.0000.000
148A150ASP-1-0.912-0.95831.424-9.035-9.0350.0000.0000.0000.000
149A151ILE0-0.0270.01027.4550.0650.0650.0000.0000.0000.000
150A152ARG10.8450.90525.53511.09211.0920.0000.0000.0000.000
151A153GLY00.0380.01223.8290.2350.2350.0000.0000.0000.000
152A154ALA0-0.042-0.02118.211-0.318-0.3180.0000.0000.0000.000
153A155ILE00.0150.02717.1020.2300.2300.0000.0000.0000.000
154A156VAL0-0.034-0.01713.961-0.981-0.9810.0000.0000.0000.000
155A157GLY00.0400.01812.9681.1541.1540.0000.0000.0000.000
156A158PHE0-0.057-0.0258.518-2.476-2.4760.0000.0000.0000.000
157A159PHE00.0030.01810.8172.3802.3800.0000.0000.0000.000
158A160THR0-0.029-0.01510.995-2.911-2.9110.0000.0000.0000.000
159A161PRO00.0200.01311.6831.4941.4940.0000.0000.0000.000
160A162GLU-1-0.880-0.96014.577-14.106-14.1060.0000.0000.0000.000
161A163LEU0-0.049-0.02216.5450.4590.4590.0000.0000.0000.000
162A164PHE0-0.002-0.01013.609-0.200-0.2000.0000.0000.0000.000
163A165HIS0-0.0120.01416.7330.5840.5840.0000.0000.0000.000
164A166GLY00.0070.01719.2070.5950.5950.0000.0000.0000.000
165A167VAL0-0.065-0.03515.9020.2420.2420.0000.0000.0000.000
166A168GLY00.0670.03015.632-0.318-0.3180.0000.0000.0000.000
167A169SER00.0290.01016.5340.7670.7670.0000.0000.0000.000
168A170ALA0-0.015-0.01917.457-0.679-0.6790.0000.0000.0000.000
169A171GLY00.0420.03416.4030.5400.5400.0000.0000.0000.000
170A172PHE0-0.022-0.02613.783-1.258-1.2580.0000.0000.0000.000
171A173HIS10.8600.94915.55416.56716.5670.0000.0000.0000.000
172A174ILE0-0.008-0.00715.605-1.379-1.3790.0000.0000.0000.000
173A175HIS00.0010.00017.5820.7810.7810.0000.0000.0000.000
174A176PHE00.0270.00518.839-0.594-0.5940.0000.0000.0000.000
175A177ALA00.0150.00321.5190.3120.3120.0000.0000.0000.000
176A178ASP-1-0.715-0.85622.942-11.162-11.1620.0000.0000.0000.000
177A179ASP-1-0.829-0.90424.710-12.398-12.3980.0000.0000.0000.000
178A180GLU-1-1.001-0.99626.264-9.406-9.4060.0000.0000.0000.000
179A181ARG10.7640.88021.54512.95712.9570.0000.0000.0000.000
180A182ALA00.000-0.00227.6700.2160.2160.0000.0000.0000.000
181A183TYR0-0.066-0.05727.3580.1660.1660.0000.0000.0000.000
182A184GLY00.025-0.00325.030-0.413-0.4130.0000.0000.0000.000
183A185GLY00.0060.00423.8630.4710.4710.0000.0000.0000.000
184A186HIS0-0.049-0.03421.101-1.009-1.0090.0000.0000.0000.000
185A187VAL0-0.023-0.03121.4290.6170.6170.0000.0000.0000.000
186A188LEU0-0.0230.00623.030-0.247-0.2470.0000.0000.0000.000
187A189ASP-1-0.845-0.93625.690-10.806-10.8060.0000.0000.0000.000
188A190PHE0-0.042-0.03220.308-0.126-0.1260.0000.0000.0000.000
189A191GLU-1-0.848-0.91526.099-9.806-9.8060.0000.0000.0000.000
190A192VAL0-0.032-0.01922.2770.0140.0140.0000.0000.0000.000
191A193ASP-1-0.905-0.95525.726-9.598-9.5980.0000.0000.0000.000
192A194ASP-1-0.871-0.92824.695-11.707-11.7070.0000.0000.0000.000
193A195VAL00.0100.01720.572-0.103-0.1030.0000.0000.0000.000
194A196VAL0-0.017-0.01016.201-0.078-0.0780.0000.0000.0000.000
195A197VAL00.0140.01813.698-0.341-0.3410.0000.0000.0000.000
196A198GLU-1-0.924-0.97811.082-21.629-21.6290.0000.0000.0000.000
197A199ILE00.0660.0297.511-0.516-0.5160.0000.0000.0000.000
203A205PHE00.0510.0276.053-3.843-3.8430.0000.0000.0000.000
204A206GLN0-0.027-0.0238.8704.1314.1310.0000.0000.0000.000
205A207GLN00.0020.00310.4970.3850.3850.0000.0000.0000.000
206A208HIS0-0.059-0.03613.9670.5320.5320.0000.0000.0000.000
207A209PHE00.0420.01216.5460.3120.3120.0000.0000.0000.000
208A210PRO00.0360.03320.3480.0690.0690.0000.0000.0000.000
209A211VAL00.008-0.01622.6660.6710.6710.0000.0000.0000.000
210A212ASN0-0.011-0.00324.6900.6430.6430.0000.0000.0000.000
211A213ASN0-0.051-0.02726.9900.3710.3710.0000.0000.0000.000
212A214GLU-1-0.815-0.90328.536-8.991-8.9910.0000.0000.0000.000
213A215THR0-0.021-0.04130.8600.1630.1630.0000.0000.0000.000
214A216PHE00.004-0.01523.696-0.055-0.0550.0000.0000.0000.000
215A217VAL0-0.045-0.01028.141-0.032-0.0320.0000.0000.0000.000
216A218LYS10.7970.88329.8799.0469.0460.0000.0000.0000.000
217A219ALA00.0050.02530.7710.3200.3200.0000.0000.0000.000
218A220LYS10.9250.96331.7658.8088.8080.0000.0000.0000.000
219A221ILE0-0.008-0.00827.1200.2730.2730.0000.0000.0000.000
220A222ASP-1-0.907-0.94831.116-9.487-9.4870.0000.0000.0000.000
221A223TYR0-0.005-0.01725.039-0.018-0.0180.0000.0000.0000.000
222A224LYS10.8190.90029.4998.7128.7120.0000.0000.0000.000
223A225ASP-1-0.817-0.90731.609-9.194-9.1940.0000.0000.0000.000
224A226VAL00.0200.02925.805-0.147-0.1470.0000.0000.0000.000
225A227ALA0-0.018-0.00825.485-0.398-0.3980.0000.0000.0000.000
226A228GLU-1-0.902-0.95826.524-10.942-10.9420.0000.0000.0000.000
227A229GLU-1-0.775-0.87228.776-10.257-10.2570.0000.0000.0000.000
228A230ILE0-0.021-0.02022.201-0.107-0.1070.0000.0000.0000.000
229A231ARG10.8640.92525.03611.60311.6030.0000.0000.0000.000
230A232GLU-1-0.849-0.87126.532-9.190-9.1900.0000.0000.0000.000
231A233ALA0-0.024-0.01726.5950.1980.1980.0000.0000.0000.000
232A234GLU-2-1.693-1.81420.611-27.345-27.3450.0000.0000.0000.000