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: VVZN1

Calculation Name: 1ELP-A-Xray547

Preferred Name:

Target Type:

Ligand Name:

Ligand 3-letter code:

Ligand of Interest (LOI):

Structure Source: PDB

PDB ID: 1ELP

Chain ID: A

ChEMBL ID:

UniProt ID: P08209

Base Structure: X-ray

Registration Date: 2025-09-02

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 173
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23 (BINDS Ver. 1) / 20230922
Total energy (hartree)
FMO2-HF: Electronic energy -2025282.558427
FMO2-HF: Nuclear repulsion 1951485.163422
FMO2-HF: Total energy -73797.395005
FMO2-MP2: Total energy -74010.010056


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:GLY)


Summations of interaction energy for fragment #1(A:1:GLY)
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.
-106.986-99.466.659-7.362-6.826-0.074
Interaction energy analysis for fragmet #1(A:1:GLY)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 1 / q_Mulliken : 0.819 / q_NPA : 0.910
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].
3A3ILE00.0090.0203.8314.7306.064-0.018-0.621-0.695-0.003
19A19SER00.0570.0143.949-3.018-2.809-0.001-0.076-0.1320.000
20A20SER0-0.031-0.0133.093-16.368-15.0820.037-0.833-0.491-0.008
39A39SER0-0.011-0.0112.444-10.368-9.1831.768-1.622-1.331-0.017
40A40GLY0-0.0010.0142.496-20.414-18.3662.435-2.703-1.780-0.027
41A41CYS0-0.057-0.0263.5548.8618.7670.0090.0470.0380.000
42A42TRP00.005-0.0103.086-3.791-2.9560.081-0.322-0.595-0.002
80A80LEU00.0070.0222.121-6.165-5.4422.348-1.232-1.840-0.017
4A4THR00.0150.0086.7500.9110.9110.0000.0000.0000.000
5A5PHE00.023-0.00910.0720.8670.8670.0000.0000.0000.000
6A6TYR00.0500.01113.340-0.200-0.2000.0000.0000.0000.000
7A7GLU-1-0.783-0.88416.929-13.992-13.9920.0000.0000.0000.000
8A8ASP-1-0.826-0.89520.234-12.496-12.4960.0000.0000.0000.000
9A9ARG10.9800.98720.18611.52211.5220.0000.0000.0000.000
10A10GLY0-0.022-0.01220.6690.3300.3300.0000.0000.0000.000
11A11PHE0-0.040-0.03115.2360.2990.2990.0000.0000.0000.000
12A12GLN0-0.0340.00018.5780.3450.3450.0000.0000.0000.000
13A13GLY00.0440.02120.678-0.378-0.3780.0000.0000.0000.000
14A14ARG10.8180.90620.12914.59714.5970.0000.0000.0000.000
15A15HIS00.0030.00115.619-1.045-1.0450.0000.0000.0000.000
16A16TYR0-0.009-0.02012.6020.7590.7590.0000.0000.0000.000
17A17GLU-1-0.819-0.8868.643-34.526-34.5260.0000.0000.0000.000
18A18CYS0-0.064-0.0227.8482.3882.3880.0000.0000.0000.000
21A21ASP-1-0.789-0.9055.660-30.395-30.3950.0000.0000.0000.000
22A22HIS00.0140.0158.7042.6812.6810.0000.0000.0000.000
23A23SER00.0160.01611.8180.3390.3390.0000.0000.0000.000
24A24ASN00.0630.00715.2821.1921.1920.0000.0000.0000.000
25A25LEU00.0150.00412.225-0.156-0.1560.0000.0000.0000.000
26A26GLN00.0180.00716.3320.6740.6740.0000.0000.0000.000
27A27PRO0-0.033-0.01018.7210.4940.4940.0000.0000.0000.000
28A28TYR0-0.015-0.00416.1860.6670.6670.0000.0000.0000.000
29A29LEU0-0.036-0.01115.134-0.101-0.1010.0000.0000.0000.000
30A30GLY0-0.013-0.01018.9370.1650.1650.0000.0000.0000.000
31A31ARG10.7760.88320.78313.79813.7980.0000.0000.0000.000
32A32CYS0-0.061-0.02415.180-0.973-0.9730.0000.0000.0000.000
33A33ASN0-0.042-0.04418.4610.5330.5330.0000.0000.0000.000
34A34SER0-0.044-0.02117.0800.2690.2690.0000.0000.0000.000
35A35VAL00.000-0.00410.740-0.560-0.5600.0000.0000.0000.000
36A36ARG10.8520.93110.27722.77922.7790.0000.0000.0000.000
37A37VAL0-0.027-0.0045.418-2.405-2.4050.0000.0000.0000.000
38A38ASP-1-0.890-0.9476.195-30.044-30.0440.0000.0000.0000.000
43A43MET0-0.0540.0067.5053.0893.0890.0000.0000.0000.000
44A44ILE0-0.019-0.00710.597-1.569-1.5690.0000.0000.0000.000
45A45TYR00.0360.00812.8940.4770.4770.0000.0000.0000.000
46A46GLU-1-0.775-0.87416.434-13.331-13.3310.0000.0000.0000.000
47A47GLN0-0.031-0.03019.7240.4220.4220.0000.0000.0000.000
48A48PRO00.0330.01418.548-0.983-0.9830.0000.0000.0000.000
49A49ASN0-0.061-0.04517.633-0.131-0.1310.0000.0000.0000.000
50A50TYR0-0.012-0.01212.571-0.021-0.0210.0000.0000.0000.000
51A51LEU00.0150.02917.0880.4690.4690.0000.0000.0000.000
52A52GLY00.0370.01220.185-0.297-0.2970.0000.0000.0000.000
53A53PRO0-0.058-0.03121.112-0.345-0.3450.0000.0000.0000.000
54A54GLN00.0470.03116.566-1.418-1.4180.0000.0000.0000.000
55A55TYR00.0020.00715.0741.1091.1090.0000.0000.0000.000
56A56PHE00.026-0.00310.355-1.423-1.4230.0000.0000.0000.000
57A57LEU0-0.023-0.0029.7161.1671.1670.0000.0000.0000.000
58A58ARG10.8590.9117.87521.84421.8440.0000.0000.0000.000
59A59ARG10.8990.9737.04333.27133.2710.0000.0000.0000.000
60A60GLY00.0210.0138.0782.7742.7740.0000.0000.0000.000
61A61ASP-1-0.843-0.90710.925-22.888-22.8880.0000.0000.0000.000
62A62TYR0-0.023-0.03410.7211.8261.8260.0000.0000.0000.000
63A63PRO00.0300.01115.476-0.070-0.0700.0000.0000.0000.000
64A64ASP-1-0.848-0.94018.689-13.493-13.4930.0000.0000.0000.000
65A65TYR00.0490.02618.421-0.581-0.5810.0000.0000.0000.000
66A66GLN0-0.012-0.00719.343-0.610-0.6100.0000.0000.0000.000
67A67GLN0-0.038-0.00116.987-0.109-0.1090.0000.0000.0000.000
68A68TRP0-0.0100.00514.849-0.960-0.9600.0000.0000.0000.000
69A69MET0-0.072-0.05016.7240.2690.2690.0000.0000.0000.000
70A70GLY00.0050.00919.7570.1930.1930.0000.0000.0000.000
71A71LEU0-0.029-0.03020.4850.6460.6460.0000.0000.0000.000
72A72ASN0-0.059-0.04822.4230.0790.0790.0000.0000.0000.000
73A73ASP-1-0.791-0.87820.686-13.753-13.7530.0000.0000.0000.000
74A74SER0-0.036-0.01620.636-0.232-0.2320.0000.0000.0000.000
75A75ILE0-0.001-0.00914.194-0.357-0.3570.0000.0000.0000.000
76A76ARG10.8700.94117.64914.03414.0340.0000.0000.0000.000
77A77SER0-0.047-0.01314.582-0.141-0.1410.0000.0000.0000.000
78A78CYS0-0.0300.0029.988-0.121-0.1210.0000.0000.0000.000
79A79ARG10.8440.9288.95225.07325.0730.0000.0000.0000.000
81A81ILE0-0.054-0.0405.9314.1854.1850.0000.0000.0000.000
82A82PRO0-0.045-0.0097.083-3.450-3.4500.0000.0000.0000.000
83A83HIS00.0440.0107.4162.0322.0320.0000.0000.0000.000
84A84ALA00.0040.0049.2210.7680.7680.0000.0000.0000.000
85A85GLY0-0.029-0.01812.6960.0740.0740.0000.0000.0000.000
86A87SER0-0.045-0.04715.1261.1921.1920.0000.0000.0000.000
87A88HIS0-0.020-0.01714.060-0.058-0.0580.0000.0000.0000.000
88A89ARG10.7760.86218.87613.39713.3970.0000.0000.0000.000
89A90LEU0-0.0050.00320.843-0.352-0.3520.0000.0000.0000.000
90A91ARG10.8380.90723.66911.35311.3530.0000.0000.0000.000
91A92LEU00.0300.00725.364-0.223-0.2230.0000.0000.0000.000
92A93TYR00.011-0.00128.6510.2060.2060.0000.0000.0000.000
93A94GLU-1-0.760-0.87431.908-8.330-8.3300.0000.0000.0000.000
94A95ARG10.8370.90334.8738.1068.1060.0000.0000.0000.000
95A96GLU-1-0.743-0.84833.265-9.498-9.4980.0000.0000.0000.000
96A97ASP-1-0.847-0.89733.181-8.829-8.8290.0000.0000.0000.000
97A98TYR00.0210.00228.8230.1290.1290.0000.0000.0000.000
98A99ARG10.8270.91933.3298.7568.7560.0000.0000.0000.000
99A100GLY0-0.026-0.02036.295-0.097-0.0970.0000.0000.0000.000
100A101GLN0-0.024-0.00935.8070.1100.1100.0000.0000.0000.000
101A102MET0-0.0180.00231.296-0.326-0.3260.0000.0000.0000.000
102A103ILE0-0.0040.00329.6890.2320.2320.0000.0000.0000.000
103A104GLU-1-0.768-0.86327.187-11.611-11.6110.0000.0000.0000.000
104A105ILE0-0.029-0.00824.1470.2320.2320.0000.0000.0000.000
105A106THR00.0370.00522.679-0.292-0.2920.0000.0000.0000.000
106A107GLU-1-0.897-0.94721.888-12.277-12.2770.0000.0000.0000.000
107A108ASP-1-0.827-0.88218.899-16.409-16.4090.0000.0000.0000.000
108A109CYS0-0.040-0.00321.7870.7290.7290.0000.0000.0000.000
109A110SER00.0500.01624.398-0.142-0.1420.0000.0000.0000.000
110A111SER00.010-0.03625.3710.0350.0350.0000.0000.0000.000
111A112LEU0-0.009-0.00427.4340.1720.1720.0000.0000.0000.000
112A113GLN00.0450.01629.7010.3230.3230.0000.0000.0000.000
113A114ASP-1-0.867-0.90632.362-9.167-9.1670.0000.0000.0000.000
114A115ARG10.8350.92329.00710.64410.6440.0000.0000.0000.000
115A116PHE00.001-0.02728.3300.0930.0930.0000.0000.0000.000
116A117HIS10.8740.96233.4738.8498.8490.0000.0000.0000.000
117A118PHE00.0360.03231.8930.1890.1890.0000.0000.0000.000
118A119ASN00.007-0.01332.612-0.218-0.2180.0000.0000.0000.000
119A120GLU-1-0.906-0.95731.275-9.327-9.3270.0000.0000.0000.000
120A121ILE0-0.051-0.01428.1020.1130.1130.0000.0000.0000.000
121A122HIS0-0.001-0.01229.752-0.312-0.3120.0000.0000.0000.000
122A123SER0-0.066-0.03229.147-0.046-0.0460.0000.0000.0000.000
123A124LEU0-0.011-0.01223.443-0.016-0.0160.0000.0000.0000.000
124A125ASN00.0170.00325.025-0.363-0.3630.0000.0000.0000.000
125A126VAL0-0.0050.01118.7250.1530.1530.0000.0000.0000.000
126A127LEU00.0210.01621.146-0.302-0.3020.0000.0000.0000.000
127A128GLU-1-0.787-0.85618.902-14.543-14.5430.0000.0000.0000.000
128A129GLY00.0670.03314.8900.0830.0830.0000.0000.0000.000
129A130SER0-0.002-0.00112.2431.0051.0050.0000.0000.0000.000
130A131TRP0-0.027-0.02714.620-0.234-0.2340.0000.0000.0000.000
131A132VAL0-0.016-0.00614.392-0.574-0.5740.0000.0000.0000.000
132A133LEU00.0050.01417.1610.6230.6230.0000.0000.0000.000
133A134TYR00.024-0.00216.753-0.547-0.5470.0000.0000.0000.000
134A135GLU-1-0.816-0.91522.555-10.815-10.8150.0000.0000.0000.000
135A136LEU0-0.0030.00225.3350.5740.5740.0000.0000.0000.000
136A137PRO00.0140.01525.369-0.494-0.4940.0000.0000.0000.000
137A138ASN0-0.067-0.04924.570-0.215-0.2150.0000.0000.0000.000
138A139TYR0-0.033-0.01619.702-0.380-0.3800.0000.0000.0000.000
139A140ARG10.9790.99620.90011.82711.8270.0000.0000.0000.000
140A141GLY00.0460.02123.2250.1920.1920.0000.0000.0000.000
141A142ARG10.9110.95522.41312.42612.4260.0000.0000.0000.000
142A143GLN00.0390.02516.826-0.633-0.6330.0000.0000.0000.000
143A144TYR0-0.053-0.01719.0870.1560.1560.0000.0000.0000.000
144A145LEU0-0.009-0.01212.888-0.222-0.2220.0000.0000.0000.000
145A146LEU0-0.0220.00616.5140.6260.6260.0000.0000.0000.000
146A147ARG10.9540.97213.17819.07419.0740.0000.0000.0000.000
147A148PRO00.0330.00915.4860.8980.8980.0000.0000.0000.000
148A149GLY00.0260.02818.434-0.223-0.2230.0000.0000.0000.000
149A150GLU-1-0.965-0.97821.849-11.575-11.5750.0000.0000.0000.000
150A151TYR0-0.051-0.04519.415-0.323-0.3230.0000.0000.0000.000
151A152ARG10.7880.86726.0579.7989.7980.0000.0000.0000.000
152A153ARG10.8630.89028.98611.07911.0790.0000.0000.0000.000
153A154TYR00.0800.03227.579-0.387-0.3870.0000.0000.0000.000
154A155HIS0-0.0080.02226.648-0.197-0.1970.0000.0000.0000.000
155A156ASP-1-0.805-0.90025.124-11.803-11.8030.0000.0000.0000.000
156A157TRP0-0.0120.00821.694-0.624-0.6240.0000.0000.0000.000
157A158GLY0-0.019-0.01821.919-0.586-0.5860.0000.0000.0000.000
158A159ALA0-0.0150.00123.9910.0600.0600.0000.0000.0000.000
159A160MET0-0.023-0.02626.1510.2740.2740.0000.0000.0000.000
160A161ASN0-0.011-0.02129.3170.3300.3300.0000.0000.0000.000
161A162ALA00.0780.04129.234-0.400-0.4000.0000.0000.0000.000
162A163LYS10.8730.95429.94810.22210.2220.0000.0000.0000.000
163A164VAL0-0.031-0.01425.309-0.462-0.4620.0000.0000.0000.000
164A165GLY00.0200.01426.5390.4140.4140.0000.0000.0000.000
165A166SER0-0.058-0.04323.408-0.055-0.0550.0000.0000.0000.000
166A167LEU00.0150.02121.414-0.259-0.2590.0000.0000.0000.000
167A168ARG10.8910.95414.99618.08918.0890.0000.0000.0000.000
168A169ARG10.8820.93116.32115.60415.6040.0000.0000.0000.000
169A170VAL0-0.053-0.02510.055-0.426-0.4260.0000.0000.0000.000
170A171ILE00.0070.00612.023-0.804-0.8040.0000.0000.0000.000
171A172ASP-1-0.766-0.9076.136-42.625-42.6250.0000.0000.0000.000
172A173ILE0-0.072-0.0348.5392.7032.7030.0000.0000.0000.000
173A174TYR-1-0.814-0.8975.945-39.778-39.7780.0000.0000.0000.000