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: 5GVNZ

Calculation Name: 1F75-A-Xray549

Preferred Name:

Target Type:

Ligand Name: sulfate ion

Ligand 3-letter code: SO4

Ligand of Interest (LOI):

Structure Source: PDB

PDB ID: 1F75

Chain ID: A

ChEMBL ID:

UniProt ID: O82827

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 217
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23 (BINDS Ver. 1) / 20230922
Total energy (hartree)
FMO2-HF: Electronic energy -2681086.429816
FMO2-HF: Nuclear repulsion 2593389.26218
FMO2-HF: Total energy -87697.167637
FMO2-MP2: Total energy -87954.01499


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:14:ASN)


Summations of interaction energy for fragment #1(A:14: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.
-197.04-184.68212.323-10.541-14.137-0.088
Interaction energy analysis for fragmet #1(A:14:ASN)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 1 / q_Mulliken : 0.813 / q_NPA : 0.903
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].
3A16ASN00.024-0.0073.7204.6056.5320.045-0.615-1.3560.002
4A17ALA00.0290.0254.6832.9622.980-0.001-0.010-0.0060.000
7A20ILE00.0100.0333.254-4.379-3.5390.097-0.280-0.6580.002
50A63LEU0-0.070-0.0334.448-1.059-0.944-0.001-0.005-0.1080.000
208A233ALA00.0150.0092.773-3.926-3.1170.405-0.396-0.8180.003
209A234GLN00.0090.0222.081-25.207-24.4314.049-2.333-2.492-0.040
210A235CYS0-0.042-0.0274.904-0.297-0.240-0.001-0.004-0.0520.000
211A236ILE00.0050.0012.5200.3051.2241.080-0.466-1.5330.001
212A237SER0-0.034-0.0392.267-14.260-10.9922.141-2.214-3.195-0.022
213A238ILE0-0.046-0.0224.0523.8954.0530.005-0.072-0.0900.000
215A240GLN0-0.019-0.0172.171-22.684-20.5044.487-3.414-3.253-0.028
217A242ARG0-0.0090.0123.300-38.581-37.2900.017-0.732-0.576-0.006
5A18ALA00.001-0.0017.5410.0340.0340.0000.0000.0000.000
6A19GLN0-0.019-0.0235.911-0.316-0.3160.0000.0000.0000.000
8A21PRO0-0.018-0.0016.1412.2082.2080.0000.0000.0000.000
9A22LYS10.9190.9549.00717.52317.5230.0000.0000.0000.000
10A23HIS0-0.051-0.02612.1790.8570.8570.0000.0000.0000.000
11A24ILE00.0300.0327.211-0.593-0.5930.0000.0000.0000.000
12A25ALA00.0020.00311.7341.2551.2550.0000.0000.0000.000
13A26ILE0-0.005-0.01111.347-0.834-0.8340.0000.0000.0000.000
14A27ILE0-0.0100.00215.2421.0861.0860.0000.0000.0000.000
15A28MET0-0.039-0.01217.228-0.580-0.5800.0000.0000.0000.000
16A29ASP-1-0.713-0.84318.999-11.861-11.8610.0000.0000.0000.000
17A30GLY00.016-0.00120.491-0.365-0.3650.0000.0000.0000.000
18A31ASN00.0630.01121.975-0.205-0.2050.0000.0000.0000.000
19A32GLY0-0.048-0.04223.9480.2690.2690.0000.0000.0000.000
20A33ARG10.8400.92523.63712.62012.6200.0000.0000.0000.000
21A34TRP00.0360.00921.3060.8540.8540.0000.0000.0000.000
22A35ALA0-0.028-0.00924.5180.2320.2320.0000.0000.0000.000
23A36LYS10.9540.98827.69910.34810.3480.0000.0000.0000.000
24A37GLN00.0180.01226.0690.4860.4860.0000.0000.0000.000
25A38LYS10.9290.96823.48412.50112.5010.0000.0000.0000.000
26A39LYS10.9030.95928.0189.9509.9500.0000.0000.0000.000
27A40MET00.0000.00927.1090.3140.3140.0000.0000.0000.000
28A41PRO00.0500.01331.378-0.070-0.0700.0000.0000.0000.000
29A42ARG11.0071.00027.4029.9829.9820.0000.0000.0000.000
30A43ILE00.0090.00529.001-0.309-0.3090.0000.0000.0000.000
31A44LYS10.9670.97828.2429.8689.8680.0000.0000.0000.000
32A45GLY00.0720.03325.211-0.287-0.2870.0000.0000.0000.000
33A46HIS0-0.030-0.00624.234-0.545-0.5450.0000.0000.0000.000
34A47TYR00.015-0.00624.499-0.291-0.2910.0000.0000.0000.000
35A48GLU-1-0.879-0.93121.568-13.141-13.1410.0000.0000.0000.000
36A49GLY00.0620.03220.360-0.606-0.6060.0000.0000.0000.000
37A50MET0-0.064-0.03819.941-0.376-0.3760.0000.0000.0000.000
38A51GLN0-0.059-0.03019.5100.0900.0900.0000.0000.0000.000
39A52THR00.013-0.01014.918-0.390-0.3900.0000.0000.0000.000
40A53VAL0-0.0030.01315.721-0.756-0.7560.0000.0000.0000.000
41A54ARG10.9130.98216.62312.07912.0790.0000.0000.0000.000
42A55LYS10.8780.96314.04016.86216.8620.0000.0000.0000.000
43A56ILE00.0230.01010.388-0.757-0.7570.0000.0000.0000.000
44A57THR0-0.034-0.02711.885-0.570-0.5700.0000.0000.0000.000
45A58ARG10.7680.84713.87114.44814.4480.0000.0000.0000.000
46A59TYR00.0760.0345.1690.5160.5160.0000.0000.0000.000
47A60ALA00.0130.0068.795-1.382-1.3820.0000.0000.0000.000
48A61SER0-0.023-0.0129.858-0.131-0.1310.0000.0000.0000.000
49A62ASP-1-0.935-0.96210.639-18.696-18.6960.0000.0000.0000.000
51A64GLY0-0.0250.0007.983-0.587-0.5870.0000.0000.0000.000
52A65VAL0-0.051-0.0197.9350.3250.3250.0000.0000.0000.000
53A66LYS10.9300.96210.44818.09618.0960.0000.0000.0000.000
54A67TYR0-0.004-0.00413.6060.9960.9960.0000.0000.0000.000
55A68LEU00.0270.01511.753-1.134-1.1340.0000.0000.0000.000
56A69THR0-0.011-0.02214.4601.1851.1850.0000.0000.0000.000
57A70LEU0-0.017-0.01114.980-0.629-0.6290.0000.0000.0000.000
58A71TYR0-0.024-0.01818.3250.7880.7880.0000.0000.0000.000
59A72ALA0-0.036-0.01820.495-0.472-0.4720.0000.0000.0000.000
60A73PHE-1-0.914-0.95623.007-11.032-11.0320.0000.0000.0000.000
61A86ASN00.0380.00438.657-0.035-0.0350.0000.0000.0000.000
62A87TYR00.0730.02133.817-0.201-0.2010.0000.0000.0000.000
63A88LEU00.0030.00132.119-0.165-0.1650.0000.0000.0000.000
64A89MET00.0050.00532.219-0.230-0.2300.0000.0000.0000.000
65A90LYS10.8900.96233.5917.6777.6770.0000.0000.0000.000
66A91LEU0-0.0230.00229.419-0.107-0.1070.0000.0000.0000.000
67A92PRO00.0260.01027.233-0.229-0.2290.0000.0000.0000.000
68A93GLY00.0610.03527.769-0.188-0.1880.0000.0000.0000.000
69A94ASP-1-0.843-0.92030.026-8.657-8.6570.0000.0000.0000.000
70A95PHE0-0.032-0.00221.005-0.031-0.0310.0000.0000.0000.000
71A96LEU00.0270.01624.468-0.190-0.1900.0000.0000.0000.000
72A97ASN0-0.029-0.03126.919-0.100-0.1000.0000.0000.0000.000
73A98THR0-0.074-0.04527.737-0.020-0.0200.0000.0000.0000.000
74A99PHE0-0.011-0.00218.570-0.104-0.1040.0000.0000.0000.000
75A100LEU00.0200.01724.178-0.267-0.2670.0000.0000.0000.000
76A101PRO0-0.005-0.01125.881-0.090-0.0900.0000.0000.0000.000
77A102GLU-1-0.729-0.82919.813-13.515-13.5150.0000.0000.0000.000
78A103LEU0-0.024-0.01519.964-0.334-0.3340.0000.0000.0000.000
79A104ILE00.0020.00522.248-0.146-0.1460.0000.0000.0000.000
80A105GLU-1-0.945-0.96923.140-11.402-11.4020.0000.0000.0000.000
81A106LYS10.8500.92518.24213.64113.6410.0000.0000.0000.000
82A107ASN00.0020.00918.950-0.205-0.2050.0000.0000.0000.000
83A108VAL00.0170.01417.573-0.338-0.3380.0000.0000.0000.000
84A109LYS10.8890.96019.89711.51811.5180.0000.0000.0000.000
85A110VAL0-0.024-0.01220.848-0.490-0.4900.0000.0000.0000.000
86A111GLU-1-0.816-0.92522.050-10.218-10.2180.0000.0000.0000.000
87A112THR0-0.032-0.01823.427-0.059-0.0590.0000.0000.0000.000
88A113ILE00.0020.01922.1790.1920.1920.0000.0000.0000.000
89A114GLY00.0140.00625.756-0.099-0.0990.0000.0000.0000.000
90A115PHE0-0.014-0.00528.7970.0960.0960.0000.0000.0000.000
91A116ILE00.013-0.02229.1430.1790.1790.0000.0000.0000.000
92A117ASP-1-0.910-0.94432.153-7.570-7.5700.0000.0000.0000.000
93A118ASP-1-0.881-0.93735.487-7.725-7.7250.0000.0000.0000.000
94A119LEU0-0.078-0.02030.3910.0160.0160.0000.0000.0000.000
95A120PRO00.020-0.00734.7340.1760.1760.0000.0000.0000.000
96A121ASP-1-0.862-0.93236.007-7.487-7.4870.0000.0000.0000.000
97A122HIS0-0.058-0.03534.3290.1810.1810.0000.0000.0000.000
98A123THR00.015-0.03030.588-0.150-0.1500.0000.0000.0000.000
99A124LYS10.8640.93932.1447.5397.5390.0000.0000.0000.000
100A125LYS10.9800.98933.5917.4897.4890.0000.0000.0000.000
101A126ALA00.0100.02030.775-0.069-0.0690.0000.0000.0000.000
102A127VAL00.0160.00528.161-0.250-0.2500.0000.0000.0000.000
103A128LEU0-0.010-0.00429.518-0.171-0.1710.0000.0000.0000.000
104A129GLU-1-0.891-0.93831.573-8.475-8.4750.0000.0000.0000.000
105A130ALA00.016-0.00426.530-0.081-0.0810.0000.0000.0000.000
106A131LYS10.8520.94426.6709.9179.9170.0000.0000.0000.000
107A132GLU-1-0.811-0.89128.153-8.618-8.6180.0000.0000.0000.000
108A133LYS10.8170.88329.7428.5448.5440.0000.0000.0000.000
109A134THR00.012-0.00124.475-0.220-0.2200.0000.0000.0000.000
110A135LYS10.7870.89625.4878.3628.3620.0000.0000.0000.000
111A136HIS00.004-0.00827.024-0.190-0.1900.0000.0000.0000.000
112A137ASN0-0.063-0.02222.4390.2700.2700.0000.0000.0000.000
113A138THR0-0.044-0.03221.544-0.122-0.1220.0000.0000.0000.000
114A139GLY00.0100.02717.550-0.365-0.3650.0000.0000.0000.000
115A140LEU0-0.0090.00112.8810.1340.1340.0000.0000.0000.000
116A141THR0-0.016-0.01116.0031.0121.0120.0000.0000.0000.000
117A142LEU0-0.009-0.00616.434-0.575-0.5750.0000.0000.0000.000
118A143VAL00.001-0.00318.2490.8080.8080.0000.0000.0000.000
119A144PHE00.013-0.00519.854-0.378-0.3780.0000.0000.0000.000
120A145ALA0-0.001-0.00422.0820.4590.4590.0000.0000.0000.000
121A146LEU0-0.026-0.02323.7410.1020.1020.0000.0000.0000.000
122A147ASN0-0.034-0.02027.2210.1360.1360.0000.0000.0000.000
123A148TYR0-0.017-0.02024.0470.0560.0560.0000.0000.0000.000
124A149GLY00.0410.01427.701-0.056-0.0560.0000.0000.0000.000
125A150GLY00.0140.01127.1290.2800.2800.0000.0000.0000.000
126A151ARG10.9630.96627.8549.5839.5830.0000.0000.0000.000
127A152LYS10.9380.98731.4058.5118.5110.0000.0000.0000.000
128A153GLU-1-0.754-0.84526.574-10.657-10.6570.0000.0000.0000.000
129A154ILE00.0440.02228.5140.2100.2100.0000.0000.0000.000
130A155ILE0-0.019-0.01531.9920.2180.2180.0000.0000.0000.000
131A156SER0-0.003-0.01733.7950.2920.2920.0000.0000.0000.000
132A157ALA00.0320.02332.3050.1920.1920.0000.0000.0000.000
133A158VAL0-0.012-0.01134.4610.1760.1760.0000.0000.0000.000
134A159GLN0-0.046-0.03037.3300.1320.1320.0000.0000.0000.000
135A160LEU0-0.0060.00235.1710.1920.1920.0000.0000.0000.000
136A161ILE00.0200.01434.9470.1510.1510.0000.0000.0000.000
137A162ALA0-0.016-0.00539.2850.1660.1660.0000.0000.0000.000
138A163GLU-1-0.912-0.96442.472-6.331-6.3310.0000.0000.0000.000
139A164ARG10.8490.92438.8897.5387.5380.0000.0000.0000.000
140A165TYR0-0.0070.00543.2020.1320.1320.0000.0000.0000.000
141A166LYS10.8830.94644.8116.2726.2720.0000.0000.0000.000
142A167SER0-0.055-0.05445.9290.1370.1370.0000.0000.0000.000
143A168GLY0-0.018-0.00247.6150.0990.0990.0000.0000.0000.000
144A169GLU-1-0.908-0.93643.446-6.880-6.8800.0000.0000.0000.000
145A170ILE0-0.064-0.02040.219-0.135-0.1350.0000.0000.0000.000
146A171SER0-0.021-0.04543.5490.2050.2050.0000.0000.0000.000
147A172LEU0-0.037-0.03042.635-0.136-0.1360.0000.0000.0000.000
148A173ASP-1-0.892-0.92541.261-7.322-7.3220.0000.0000.0000.000
149A174GLU-1-0.846-0.91438.880-7.593-7.5930.0000.0000.0000.000
150A175ILE0-0.0270.00137.254-0.284-0.2840.0000.0000.0000.000
151A176SER00.0060.00334.567-0.104-0.1040.0000.0000.0000.000
152A177GLU-1-0.924-0.98229.390-10.205-10.2050.0000.0000.0000.000
153A178THR0-0.039-0.02229.801-0.146-0.1460.0000.0000.0000.000
154A179HIS10.8750.93130.4998.3668.3660.0000.0000.0000.000
155A180PHE00.0190.02529.7000.0720.0720.0000.0000.0000.000
156A181ASN00.0490.00824.781-0.011-0.0110.0000.0000.0000.000
157A182GLU-1-0.904-0.96128.533-8.868-8.8680.0000.0000.0000.000
158A183TYR0-0.033-0.00531.1970.3060.3060.0000.0000.0000.000
159A184LEU0-0.054-0.00326.6000.0930.0930.0000.0000.0000.000
160A185PHE0-0.033-0.03726.4140.0350.0350.0000.0000.0000.000
161A186THR0-0.013-0.01022.315-0.067-0.0670.0000.0000.0000.000
162A187ALA00.0190.03824.278-0.304-0.3040.0000.0000.0000.000
163A188ASN0-0.064-0.03425.0930.0110.0110.0000.0000.0000.000
164A189MET0-0.050-0.02119.197-0.120-0.1200.0000.0000.0000.000
165A190PRO0-0.0160.00217.1300.2000.2000.0000.0000.0000.000
166A191ASP-1-0.823-0.90118.733-13.262-13.2620.0000.0000.0000.000
167A192PRO0-0.091-0.03814.607-0.556-0.5560.0000.0000.0000.000
168A193GLU-1-0.742-0.86311.306-20.092-20.0920.0000.0000.0000.000
169A194LEU0-0.020-0.0027.723-0.865-0.8650.0000.0000.0000.000
170A195LEU0-0.0110.00011.6910.8570.8570.0000.0000.0000.000
171A196ILE00.001-0.0028.922-0.719-0.7190.0000.0000.0000.000
172A197ARG10.7880.88113.40814.79514.7950.0000.0000.0000.000
173A198THR00.0330.02614.893-0.237-0.2370.0000.0000.0000.000
174A199SER0-0.068-0.06116.8681.0211.0210.0000.0000.0000.000
175A200GLY00.0200.02518.2830.7520.7520.0000.0000.0000.000
176A201GLU-1-0.873-0.91119.602-11.639-11.6390.0000.0000.0000.000
177A202GLU-1-0.900-0.94519.451-15.718-15.7180.0000.0000.0000.000
178A203ARG10.7450.86021.22812.20112.2010.0000.0000.0000.000
179A204LEU00.0720.05621.411-0.155-0.1550.0000.0000.0000.000
180A205SER0-0.069-0.05922.8880.5860.5860.0000.0000.0000.000
181A206ASN00.0140.00825.259-0.006-0.0060.0000.0000.0000.000
182A207PHE00.0560.02518.3130.4100.4100.0000.0000.0000.000
183A208LEU00.0670.02918.895-0.346-0.3460.0000.0000.0000.000
184A209ILE0-0.020-0.00922.406-0.197-0.1970.0000.0000.0000.000
185A210TRP00.0440.03524.7280.0980.0980.0000.0000.0000.000
186A211GLN00.0640.01520.786-0.260-0.2600.0000.0000.0000.000
187A212CYS0-0.057-0.03319.112-0.687-0.6870.0000.0000.0000.000
188A213SER0-0.060-0.03420.105-0.241-0.2410.0000.0000.0000.000
189A214TYR0-0.026-0.02019.6750.1990.1990.0000.0000.0000.000
190A215SER0-0.048-0.02315.301-0.366-0.3660.0000.0000.0000.000
191A216GLU-1-0.892-0.95012.096-21.375-21.3750.0000.0000.0000.000
192A217PHE0-0.038-0.02113.9570.5200.5200.0000.0000.0000.000
193A218VAL0-0.016-0.0099.618-0.519-0.5190.0000.0000.0000.000
194A219PHE00.0190.01212.8830.6240.6240.0000.0000.0000.000
195A220ILE0-0.002-0.00410.480-0.806-0.8060.0000.0000.0000.000
196A221ASP-1-0.896-0.96814.357-14.477-14.4770.0000.0000.0000.000
197A222GLU-1-0.826-0.88013.000-20.676-20.6760.0000.0000.0000.000
198A223PHE0-0.004-0.02616.9820.2220.2220.0000.0000.0000.000
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