FMODB

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

Last updated: 2025-07-23

All entries: 44592

Number of unique PDB entries: 7794

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FMODB ID: VV531

Calculation Name: 2HZE-A-Xray540

Preferred Name:

Target Type:

Ligand Name: s-(dimethylarsenic)cysteine

Ligand 3-letter code: CAS

Ligand of Interest (LOI):

PDB ID: 2HZE

Chain ID: A

ChEMBL ID:

UniProt ID: Q8JLF5

Base Structure: X-ray

Registration Date: 2025-07-14

Reference: C. Watanabe, N. Tani, K. Kamisaka, T. Honma et al., Interaction energy analysis of Apo structure dataset on FMODB, To be published.

DOI:

Apendix: None


IFIE MAP

IFIE Diagram


Modeling method
Optimization MOE:Amber10:EHT
Restraint OptHSide
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 209
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -899416.008726
FMO2-HF: Nuclear repulsion 855150.05433
FMO2-HF: Total energy -44265.954396
FMO2-MP2: Total energy -44394.522226


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:-2:HIS)


Summations of interaction energy for fragment #1(A:-2:HIS)
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.
-0.4491.978-0.021-1.324-1.082-0.001
Interaction energy analysis for fragmet #1(A:-2:HIS)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.096 / q_NPA : 0.032
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].
4A-1HIS0-0.1560.0553.870-1.558-1.0370.003-0.261-0.2630.000
5A0GLN00.157-0.0233.8070.2502.156-0.024-1.063-0.819-0.001
6A0GLN0-0.1130.0757.378-0.095-0.0950.0000.0000.0000.000
7A1MET00.109-0.1137.082-0.716-0.7160.0000.0000.0000.000
8A1MET0-0.1060.1136.074-0.244-0.2440.0000.0000.0000.000
9A2ALA00.120-0.0999.3910.1100.1100.0000.0000.0000.000
10A2ALA0-0.0550.12413.172-0.032-0.0320.0000.0000.0000.000
11A3GLU00.079-0.11812.775-0.006-0.0060.0000.0000.0000.000
12A3GLU-1-0.930-0.80413.5090.4200.4200.0000.0000.0000.000
13A4GLU00.055-0.15311.849-0.152-0.1520.0000.0000.0000.000
14A4GLU-1-0.898-0.7919.0682.1432.1430.0000.0000.0000.000
15A5PHE00.101-0.06012.6390.0220.0220.0000.0000.0000.000
16A5PHE0-0.1220.06812.130-0.033-0.0330.0000.0000.0000.000
17A6VAL00.019-0.11713.759-0.035-0.0350.0000.0000.0000.000
18A6VAL0-0.0920.09416.609-0.012-0.0120.0000.0000.0000.000
19A7GLN00.103-0.09516.772-0.042-0.0420.0000.0000.0000.000
20A7GLN0-0.0020.12816.8430.0060.0060.0000.0000.0000.000
21A8GLN0-0.001-0.13116.021-0.070-0.0700.0000.0000.0000.000
22A8GLN0-0.0930.08212.1630.0790.0790.0000.0000.0000.000
23A9ARG00.049-0.12017.316-0.002-0.0020.0000.0000.0000.000
24A9ARG10.7531.00215.110-0.472-0.4720.0000.0000.0000.000
25A10LEU00.077-0.08019.900-0.052-0.0520.0000.0000.0000.000
26A10LEU0-0.1330.09821.165-0.003-0.0030.0000.0000.0000.000
27A11ALA00.088-0.11322.6610.0350.0350.0000.0000.0000.000
28A11ALA0-0.0630.10324.684-0.001-0.0010.0000.0000.0000.000
29A12ASN00.109-0.05825.448-0.016-0.0160.0000.0000.0000.000
30A12ASN0-0.1170.06027.7780.0100.0100.0000.0000.0000.000
31A13ASN00.121-0.04428.828-0.014-0.0140.0000.0000.0000.000
32A13ASN0-0.1840.03031.3770.0090.0090.0000.0000.0000.000
33A14LYS00.169-0.12627.722-0.008-0.0080.0000.0000.0000.000
34A14LYS10.6730.99422.898-0.318-0.3180.0000.0000.0000.000
35A15VAL00.069-0.09728.8810.0030.0030.0000.0000.0000.000
36A15VAL0-0.0890.10629.190-0.002-0.0020.0000.0000.0000.000
37A16THR0-0.002-0.07124.4340.0010.0010.0000.0000.0000.000
38A16THR0-0.0330.05922.276-0.001-0.0010.0000.0000.0000.000
39A17ILE00.115-0.07325.338-0.005-0.0050.0000.0000.0000.000
40A17ILE0-0.0850.10026.489-0.004-0.0040.0000.0000.0000.000
41A18PHE00.086-0.08721.8850.0130.0130.0000.0000.0000.000
42A18PHE0-0.1050.09018.414-0.007-0.0070.0000.0000.0000.000
43A19VAL00.080-0.12522.509-0.023-0.0230.0000.0000.0000.000
44A19VAL0-0.0300.11223.882-0.004-0.0040.0000.0000.0000.000
45A20LYS00.129-0.09821.9200.0100.0100.0000.0000.0000.000
46A20LYS10.7671.00020.3880.0960.0960.0000.0000.0000.000
47A21TYR00.093-0.09623.599-0.002-0.0020.0000.0000.0000.000
48A21TYR0-0.0630.12223.317-0.007-0.0070.0000.0000.0000.000
49A22THR00.036-0.08425.7310.0040.0040.0000.0000.0000.000
50A22THR0-0.0410.06225.6140.0020.0020.0000.0000.0000.000
51A23CYS00.108-0.09327.481-0.011-0.0110.0000.0000.0000.000
52A23CYS0-0.1360.12227.0380.0010.0010.0000.0000.0000.000
53A24PRO00.029-0.11328.8370.0110.0110.0000.0000.0000.000
54A25PHE00.1230.03431.6990.0060.0060.0000.0000.0000.000
55A25PHE0-0.0220.10431.053-0.001-0.0010.0000.0000.0000.000
56A26CYS00.156-0.08028.2320.0070.0070.0000.0000.0000.000
57A26CYS0-0.1510.09127.0250.0010.0010.0000.0000.0000.000
58A27ARG00.110-0.04929.5810.0130.0130.0000.0000.0000.000
59A27ARG10.8441.04530.251-0.006-0.0060.0000.0000.0000.000
60A28ASN00.119-0.06531.9110.0060.0060.0000.0000.0000.000
61A28ASN0-0.1220.05234.565-0.002-0.0020.0000.0000.0000.000
62A29ALA00.123-0.05731.7360.0010.0010.0000.0000.0000.000
63A29ALA0-0.0730.08830.8940.0010.0010.0000.0000.0000.000
64A30LEU00.039-0.12231.1890.0070.0070.0000.0000.0000.000
65A30LEU0-0.0900.08127.9400.0010.0010.0000.0000.0000.000
66A31ASP00.097-0.10732.0280.0100.0100.0000.0000.0000.000
67A31ASP-1-1.030-0.84435.9430.0460.0460.0000.0000.0000.000
68A32ILE00.096-0.08835.5130.0010.0010.0000.0000.0000.000
69A32ILE0-0.0980.08435.6590.0000.0000.0000.0000.0000.000
70A33LEU00.093-0.10033.114-0.001-0.0010.0000.0000.0000.000
71A33LEU0-0.0970.09330.7240.0030.0030.0000.0000.0000.000
72A34ASN00.061-0.07034.6370.0080.0080.0000.0000.0000.000
73A34ASN0-0.1070.05734.2430.0060.0060.0000.0000.0000.000
74A35LYS00.058-0.11935.543-0.001-0.0010.0000.0000.0000.000
75A35LYS10.7390.98539.103-0.062-0.0620.0000.0000.0000.000
76A36PHE00.002-0.08537.311-0.004-0.0040.0000.0000.0000.000
77A36PHE0-0.0660.09036.6820.0010.0010.0000.0000.0000.000
78A37SER00.044-0.06236.7470.0040.0040.0000.0000.0000.000
79A37SER0-0.0430.06738.550-0.002-0.0020.0000.0000.0000.000
80A38PHE00.087-0.13533.518-0.004-0.0040.0000.0000.0000.000
81A38PHE0-0.0320.16132.9010.0040.0040.0000.0000.0000.000
82A39LYS00.025-0.12734.473-0.004-0.0040.0000.0000.0000.000
83A39LYS10.8201.03433.764-0.137-0.1370.0000.0000.0000.000
84A40ARG00.146-0.07631.7270.0040.0040.0000.0000.0000.000
85A40ARG10.8631.07029.499-0.219-0.2190.0000.0000.0000.000
86A41GLY0-0.045-0.12327.6090.0050.0050.0000.0000.0000.000
87A42ALA00.1410.03527.5350.0230.0230.0000.0000.0000.000
88A42ALA0-0.0950.10931.472-0.003-0.0030.0000.0000.0000.000
89A43TYR00.094-0.09428.667-0.004-0.0040.0000.0000.0000.000
90A43TYR0-0.0870.09528.976-0.003-0.0030.0000.0000.0000.000
91A44GLU00.040-0.11924.145-0.006-0.0060.0000.0000.0000.000
92A44GLU-1-0.854-0.78320.5360.3680.3680.0000.0000.0000.000
93A45ILE00.046-0.10124.7920.0000.0000.0000.0000.0000.000
94A45ILE0-0.0820.09824.624-0.004-0.0040.0000.0000.0000.000
95A46VAL00.078-0.11820.4920.0050.0050.0000.0000.0000.000
96A46VAL0-0.0620.11418.5320.0030.0030.0000.0000.0000.000
97A47ASP00.155-0.06120.035-0.026-0.0260.0000.0000.0000.000
98A47ASP-1-0.913-0.80319.4950.0520.0520.0000.0000.0000.000
99A48ILE00.138-0.08017.3370.0350.0350.0000.0000.0000.000
100A48ILE0-0.1060.08117.769-0.006-0.0060.0000.0000.0000.000
101A49LYS00.055-0.08616.291-0.024-0.0240.0000.0000.0000.000
102A49LYS10.7330.94717.856-0.018-0.0180.0000.0000.0000.000
103A50GLU00.009-0.16414.323-0.091-0.0910.0000.0000.0000.000
104A50GLU-1-0.896-0.78213.7620.3840.3840.0000.0000.0000.000
105A51PHE00.034-0.07711.7460.0380.0380.0000.0000.0000.000
106A51PHE0-0.0860.11310.227-0.015-0.0150.0000.0000.0000.000
107A52LYS0-0.037-0.12210.547-0.012-0.0120.0000.0000.0000.000
108A52LYS10.9011.07310.0670.4360.4360.0000.0000.0000.000
109A53PRO00.072-0.0539.200-0.034-0.0340.0000.0000.0000.000
110A54GLU00.1890.00212.1020.1030.1030.0000.0000.0000.000
111A54GLU-1-0.889-0.78316.389-0.146-0.1460.0000.0000.0000.000
112A55ASN0-0.023-0.09615.5250.0870.0870.0000.0000.0000.000
113A55ASN0-0.0280.07814.900-0.053-0.0530.0000.0000.0000.000
114A56GLU00.153-0.10012.9800.0420.0420.0000.0000.0000.000
115A56GLU-1-0.893-0.78510.406-0.547-0.5470.0000.0000.0000.000
116A57LEU00.142-0.08314.4850.0780.0780.0000.0000.0000.000
117A57LEU0-0.1350.10014.580-0.002-0.0020.0000.0000.0000.000
118A58ARG00.052-0.09615.8550.0500.0500.0000.0000.0000.000
119A58ARG10.7961.02319.0620.1150.1150.0000.0000.0000.000
120A59ASP00.154-0.08618.0460.0360.0360.0000.0000.0000.000
121A59ASP-1-0.962-0.80917.166-0.168-0.1680.0000.0000.0000.000
122A60TYR00.068-0.08216.9320.0010.0010.0000.0000.0000.000
123A60TYR0-0.1220.03416.0230.0120.0120.0000.0000.0000.000
124A61PHE00.066-0.08618.1380.0250.0250.0000.0000.0000.000
125A61PHE0-0.0810.05719.6840.0040.0040.0000.0000.0000.000
126A62GLU00.085-0.03521.1000.0180.0180.0000.0000.0000.000
127A62GLU-1-0.936-0.85122.190-0.051-0.0510.0000.0000.0000.000
128A63GLN00.064-0.09021.419-0.007-0.0070.0000.0000.0000.000
129A63GLN0-0.0670.08220.0490.0120.0120.0000.0000.0000.000
130A64ILE00.039-0.09722.041-0.005-0.0050.0000.0000.0000.000
131A64ILE0-0.1000.09820.6880.0060.0060.0000.0000.0000.000
132A65THR0-0.059-0.11023.4240.0090.0090.0000.0000.0000.000
133A65THR0-0.0510.03123.449-0.005-0.0050.0000.0000.0000.000
134A66GLY00.038-0.06025.573-0.006-0.0060.0000.0000.0000.000
135A67GLY0-0.019-0.01726.076-0.015-0.0150.0000.0000.0000.000
136A68LYS00.110-0.00422.9890.0220.0220.0000.0000.0000.000
137A68LYS10.7270.98721.5580.0780.0780.0000.0000.0000.000
138A69THR0-0.031-0.11122.6390.0000.0000.0000.0000.0000.000
139A69THR0-0.0560.07524.917-0.005-0.0050.0000.0000.0000.000
140A70VAL00.068-0.07224.2060.0120.0120.0000.0000.0000.000
141A70VAL0-0.0990.10322.268-0.002-0.0020.0000.0000.0000.000
142A71PRO0-0.019-0.14725.056-0.017-0.0170.0000.0000.0000.000
143A72ARG00.007-0.01124.255-0.017-0.0170.0000.0000.0000.000
144A72ARG10.8331.03922.780-0.060-0.0600.0000.0000.0000.000
145A73ILE00.165-0.08125.2790.0210.0210.0000.0000.0000.000
146A73ILE0-0.0930.10528.582-0.001-0.0010.0000.0000.0000.000
147A74PHE00.049-0.08826.009-0.014-0.0140.0000.0000.0000.000
148A74PHE0-0.0510.09822.7170.0060.0060.0000.0000.0000.000
149A75PHE00.089-0.08927.3900.0070.0070.0000.0000.0000.000
150A75PHE0-0.0660.09630.799-0.003-0.0030.0000.0000.0000.000
151A76GLY00.073-0.08428.661-0.006-0.0060.0000.0000.0000.000
152A77LYS00.034-0.02925.4040.0070.0070.0000.0000.0000.000
153A77LYS10.8081.05321.312-0.394-0.3940.0000.0000.0000.000
154A78THR00.036-0.09525.7020.0090.0090.0000.0000.0000.000
155A78THR0-0.0420.07429.7870.0040.0040.0000.0000.0000.000
156A79SER00.050-0.06827.1090.0010.0010.0000.0000.0000.000
157A79SER00.0050.10026.041-0.002-0.0020.0000.0000.0000.000
158A80ILE0-0.005-0.12227.907-0.006-0.0060.0000.0000.0000.000
159A80ILE0-0.1050.11830.8100.0000.0000.0000.0000.0000.000
160A81GLY00.077-0.06729.071-0.012-0.0120.0000.0000.0000.000
161A82GLY0-0.045-0.06728.8280.0080.0080.0000.0000.0000.000
162A83TYR00.1130.03030.4120.0060.0060.0000.0000.0000.000
163A83TYR0-0.0720.09232.095-0.003-0.0030.0000.0000.0000.000
164A84SER0-0.007-0.10632.8900.0040.0040.0000.0000.0000.000
165A84SER0-0.0180.06635.257-0.002-0.0020.0000.0000.0000.000
166A85ASP00.098-0.05934.170-0.003-0.0030.0000.0000.0000.000
167A85ASP-1-0.871-0.78933.0260.0520.0520.0000.0000.0000.000
168A86LEU00.130-0.08534.2660.0030.0030.0000.0000.0000.000
169A86LEU0-0.1260.07732.8560.0020.0020.0000.0000.0000.000
170A87LEU00.133-0.08235.4550.0040.0040.0000.0000.0000.000
171A87LEU0-0.1540.07837.679-0.001-0.0010.0000.0000.0000.000
172A88GLU00.070-0.10938.446-0.001-0.0010.0000.0000.0000.000
173A88GLU-1-1.014-0.84338.8460.0410.0410.0000.0000.0000.000
174A89ILE00.103-0.08438.662-0.003-0.0030.0000.0000.0000.000
175A89ILE0-0.1170.07036.0560.0020.0020.0000.0000.0000.000
176A90ASP00.058-0.08739.4030.0020.0020.0000.0000.0000.000
177A90ASP-1-0.879-0.82539.0370.0600.0600.0000.0000.0000.000
178A91ASN00.062-0.07540.8820.0000.0000.0000.0000.0000.000
179A91ASN0-0.1420.03442.740-0.001-0.0010.0000.0000.0000.000
180A92MET00.044-0.08843.461-0.003-0.0030.0000.0000.0000.000
181A92MET0-0.1480.06641.9830.0010.0010.0000.0000.0000.000
182A93ASP00.064-0.09744.4560.0010.0010.0000.0000.0000.000
183A93ASP-1-1.000-0.84945.4980.0570.0570.0000.0000.0000.000
184A94ALA00.150-0.09742.6340.0010.0010.0000.0000.0000.000
185A94ALA0-0.0800.10141.9930.0000.0000.0000.0000.0000.000
186A95LEU00.049-0.11639.1420.0060.0060.0000.0000.0000.000
187A95LEU0-0.0800.10736.0300.0010.0010.0000.0000.0000.000
188A96GLY00.037-0.09939.3690.0070.0070.0000.0000.0000.000
189A97ASP00.1810.00041.2390.0070.0070.0000.0000.0000.000
190A97ASP-1-0.963-0.79643.2540.0730.0730.0000.0000.0000.000
191A98ILE00.056-0.08738.4040.0050.0050.0000.0000.0000.000
192A98ILE0-0.0750.09836.3220.0010.0010.0000.0000.0000.000
193A99LEU00.069-0.11036.4280.0100.0100.0000.0000.0000.000
194A99LEU0-0.0650.08234.6230.0020.0020.0000.0000.0000.000
195A100SER0-0.004-0.13337.4400.0100.0100.0000.0000.0000.000
196A100SER0-0.0400.08041.651-0.002-0.0020.0000.0000.0000.000
197A101SER00.013-0.09239.3210.0060.0060.0000.0000.0000.000
198A101SER0-0.0660.07238.654-0.002-0.0020.0000.0000.0000.000
199A102ILE0-0.006-0.11134.5360.0030.0030.0000.0000.0000.000
200A102ILE0-0.0980.11532.4310.0020.0020.0000.0000.0000.000
201A103GLY00.025-0.09234.2480.0140.0140.0000.0000.0000.000
202A104VAL00.061-0.05533.6770.0080.0080.0000.0000.0000.000
203A104VAL0-0.0710.14732.0990.0000.0000.0000.0000.0000.000
204A105LEU00.113-0.11934.5940.0050.0050.0000.0000.0000.000
205A105LEU0-0.0230.16836.8760.0000.0000.0000.0000.0000.000
206A106ARG00.007-0.11737.6170.0050.0050.0000.0000.0000.000
207A106ARG10.7751.02435.253-0.122-0.1220.0000.0000.0000.000
208A107THR0-0.040-0.13038.911-0.005-0.0050.0000.0000.0000.000
209A107THR00.0670.05342.9570.0010.0010.0000.0000.0000.000