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: 9QQ72

Calculation Name: 6JC5-H-Xray547

Preferred Name:

Target Type:

Ligand Name: {2-[(1s)-1-amino-3-methylbutyl]-5-hydroxy-4-(2-methylpropyl)-1h-imidazol-1-yl}acetic acid

Ligand 3-letter code: BJF

Ligand of Interest (LOI):

Structure Source: PDB

PDB ID: 6JC5

Chain ID: H

ChEMBL ID:

UniProt ID: A0A4V8

Base Structure: X-ray

Registration Date: 2025-10-06

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 220
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23 (BINDS Ver. 1) / 20230922
Total energy (hartree)
FMO2-HF: Electronic energy -2743712.726474
FMO2-HF: Nuclear repulsion 2654305.317633
FMO2-HF: Total energy -89407.40884
FMO2-MP2: Total energy -89660.692094


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(H:4:LEU)


Summations of interaction energy for fragment #1(H:4:LEU)
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.
-5.7739999999999-1.61899999999993.436-1.716-5.875-0.011
Interaction energy analysis for fragmet #1(H:4:LEU)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 1 / q_Mulliken : 0.834 / q_NPA : 0.913
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].
3H6LYS10.9250.9483.74641.27142.664-0.013-0.709-0.6710.000
77H82GLN0-0.028-0.0314.868-5.109-5.008-0.001-0.002-0.0980.000
79H84PHE0-0.0290.0262.372-0.543-0.1841.218-0.331-1.2470.000
80H85PRO0-0.029-0.0382.280-5.225-3.5701.720-0.736-2.638-0.005
81H86GLU-1-0.809-0.8953.210-28.993-29.3010.1070.396-0.195-0.001
105H110LEU0-0.017-0.0232.562-2.880-1.9250.405-0.334-1.026-0.005
4H7GLU-1-0.897-0.9566.438-24.622-24.6220.0000.0000.0000.000
5H8SER0-0.032-0.0109.7982.6472.6470.0000.0000.0000.000
6H9MET00.0140.0495.584-4.594-4.5940.0000.0000.0000.000
7H10ARG10.8570.91110.36820.17320.1730.0000.0000.0000.000
8H11ILE0-0.012-0.00211.123-1.929-1.9290.0000.0000.0000.000
9H12LYS10.9610.97513.57020.21320.2130.0000.0000.0000.000
10H13MET0-0.027-0.01115.218-0.809-0.8090.0000.0000.0000.000
11H14ASP-1-0.856-0.90917.965-13.763-13.7630.0000.0000.0000.000
12H15MET0-0.044-0.02520.744-0.060-0.0600.0000.0000.0000.000
13H16GLU-1-0.811-0.87723.322-10.538-10.5380.0000.0000.0000.000
14H17GLY00.0340.00226.382-0.245-0.2450.0000.0000.0000.000
15H18THR0-0.052-0.01829.0430.3590.3590.0000.0000.0000.000
16H19VAL00.0130.02131.941-0.136-0.1360.0000.0000.0000.000
17H20ASN0-0.028-0.03434.5330.0560.0560.0000.0000.0000.000
18H21GLY0-0.0050.00637.0220.2160.2160.0000.0000.0000.000
19H22HIS0-0.038-0.02234.9020.2070.2070.0000.0000.0000.000
20H23TYR0-0.058-0.05529.871-0.219-0.2190.0000.0000.0000.000
21H24PHE0-0.010-0.02227.8460.1150.1150.0000.0000.0000.000
22H25LYS10.8400.90227.3729.6889.6880.0000.0000.0000.000
23H26CYS0-0.072-0.03125.1840.4020.4020.0000.0000.0000.000
24H27GLU-1-0.824-0.89122.609-12.688-12.6880.0000.0000.0000.000
25H28GLY0-0.002-0.02020.8850.4230.4230.0000.0000.0000.000
26H29GLU-1-0.823-0.87718.026-16.249-16.2490.0000.0000.0000.000
27H30GLY00.0350.00716.8190.8010.8010.0000.0000.0000.000
28H31ASP-1-0.926-0.95214.556-18.185-18.1850.0000.0000.0000.000
29H32GLY00.0990.03914.0621.2071.2070.0000.0000.0000.000
30H33ASN00.0470.03312.113-3.340-3.3400.0000.0000.0000.000
31H34PRO0-0.022-0.0198.3321.2471.2470.0000.0000.0000.000
32H35PHE0-0.001-0.0065.2370.1040.1040.0000.0000.0000.000
33H36THR00.0150.00911.3980.9790.9790.0000.0000.0000.000
34H37GLY00.0000.02614.0261.2551.2550.0000.0000.0000.000
35H38THR0-0.033-0.01815.4461.4651.4650.0000.0000.0000.000
36H39GLN00.0280.01315.269-2.056-2.0560.0000.0000.0000.000
37H40SER0-0.047-0.02317.4461.2281.2280.0000.0000.0000.000
38H41MET0-0.017-0.00617.670-0.858-0.8580.0000.0000.0000.000
39H42ARG10.8100.89919.65715.36115.3610.0000.0000.0000.000
40H43ILE0-0.005-0.00621.738-0.466-0.4660.0000.0000.0000.000
41H44HIS0-0.051-0.03924.6370.1830.1830.0000.0000.0000.000
42H45VAL0-0.006-0.01826.853-0.282-0.2820.0000.0000.0000.000
43H46THR0-0.034-0.00726.9790.4000.4000.0000.0000.0000.000
44H47GLU-1-0.813-0.89829.686-9.061-9.0610.0000.0000.0000.000
45H48GLY00.0470.02431.804-0.154-0.1540.0000.0000.0000.000
46H49ALA00.0080.03433.2340.0360.0360.0000.0000.0000.000
47H50PRO0-0.054-0.03034.9570.1860.1860.0000.0000.0000.000
48H51LEU00.0190.00130.6980.0750.0750.0000.0000.0000.000
49H52PRO0-0.055-0.01535.4290.0680.0680.0000.0000.0000.000
50H53PHE0-0.001-0.02431.6920.1250.1250.0000.0000.0000.000
51H54ALA00.0040.01234.448-0.163-0.1630.0000.0000.0000.000
52H55PHE00.0590.01025.446-0.162-0.1620.0000.0000.0000.000
53H56ASP-1-0.782-0.87829.073-10.048-10.0480.0000.0000.0000.000
54H57ILE0-0.003-0.01128.884-0.350-0.3500.0000.0000.0000.000
55H58LEU0-0.003-0.00326.586-0.222-0.2220.0000.0000.0000.000
56H59ALA00.0330.03824.557-0.535-0.5350.0000.0000.0000.000
57H60PRO00.0210.00223.010-0.740-0.7400.0000.0000.0000.000
58H61CYS0-0.061-0.02622.350-0.205-0.2050.0000.0000.0000.000
59H62CYS0-0.037-0.01219.573-0.437-0.4370.0000.0000.0000.000
60H63ILE0-0.054-0.01817.846-0.852-0.8520.0000.0000.0000.000
61H66SER00.0730.05514.047-1.048-1.0480.0000.0000.0000.000
62H67ARG10.8760.90414.28015.12415.1240.0000.0000.0000.000
63H68THR00.0490.0167.816-0.169-0.1690.0000.0000.0000.000
64H69PHE0-0.084-0.02810.431-2.487-2.4870.0000.0000.0000.000
65H70ILE0-0.0090.00912.4231.7871.7870.0000.0000.0000.000
66H71HIS0-0.035-0.02112.983-0.782-0.7820.0000.0000.0000.000
67H72HIS0-0.018-0.02312.6202.3482.3480.0000.0000.0000.000
68H73THR0-0.010-0.01715.422-0.129-0.1290.0000.0000.0000.000
69H74ALA00.009-0.01718.292-0.173-0.1730.0000.0000.0000.000
70H75GLY00.0240.01816.8490.4300.4300.0000.0000.0000.000
71H76ILE0-0.060-0.00616.590-0.137-0.1370.0000.0000.0000.000
72H77PRO0-0.006-0.00613.491-1.184-1.1840.0000.0000.0000.000
73H78ASP-1-0.761-0.8659.992-26.132-26.1320.0000.0000.0000.000
74H79PHE00.0360.0079.932-2.077-2.0770.0000.0000.0000.000
75H80PHE00.0270.0279.823-0.649-0.6490.0000.0000.0000.000
76H81LYS10.7910.8776.08726.52426.5240.0000.0000.0000.000
78H83SER0-0.0200.0006.1150.6580.6580.0000.0000.0000.000
82H87GLY00.0160.0146.5291.7281.7280.0000.0000.0000.000
83H88PHE0-0.048-0.0387.9390.8160.8160.0000.0000.0000.000
84H89THR0-0.0070.00511.4460.5900.5900.0000.0000.0000.000
85H90TRP0-0.025-0.01315.0950.1300.1300.0000.0000.0000.000
86H91GLU-1-0.817-0.89418.035-12.252-12.2520.0000.0000.0000.000
87H92ARG10.8650.91520.60613.27713.2770.0000.0000.0000.000
88H93THR00.0190.02624.6140.2810.2810.0000.0000.0000.000
89H94THR0-0.009-0.01127.785-0.227-0.2270.0000.0000.0000.000
90H95THR00.0040.00230.0560.1550.1550.0000.0000.0000.000
91H96TYR00.024-0.01631.215-0.207-0.2070.0000.0000.0000.000
92H97GLU-1-0.854-0.92436.093-7.974-7.9740.0000.0000.0000.000
93H98ASP-1-0.902-0.96439.084-7.803-7.8030.0000.0000.0000.000
94H99GLY00.0110.01139.8780.1760.1760.0000.0000.0000.000
95H100GLY00.0190.02737.030-0.025-0.0250.0000.0000.0000.000
96H101ILE0-0.020-0.01132.488-0.171-0.1710.0000.0000.0000.000
97H102LEU0-0.014-0.00527.6190.0740.0740.0000.0000.0000.000
98H103THR00.006-0.00127.499-0.203-0.2030.0000.0000.0000.000
99H104ALA0-0.003-0.00823.7360.0350.0350.0000.0000.0000.000
100H105HIS00.0050.00518.7800.2250.2250.0000.0000.0000.000
101H106GLN00.0190.02914.554-0.146-0.1460.0000.0000.0000.000
102H107ASP-1-0.841-0.89813.566-19.049-19.0490.0000.0000.0000.000
103H108THR00.003-0.0099.527-0.148-0.1480.0000.0000.0000.000
104H109SER00.0140.0038.730-0.597-0.5970.0000.0000.0000.000
106H111GLU-1-0.906-0.9376.819-22.565-22.5650.0000.0000.0000.000
107H112GLY0-0.013-0.0136.4621.3731.3730.0000.0000.0000.000
108H113ASN0-0.044-0.0385.829-9.234-9.2340.0000.0000.0000.000
109H114CYS0-0.037-0.0137.8932.6472.6470.0000.0000.0000.000
110H115LEU00.0020.0096.606-1.799-1.7990.0000.0000.0000.000
111H116ILE00.0190.0059.4561.9251.9250.0000.0000.0000.000
112H117TYR0-0.043-0.05111.595-1.083-1.0830.0000.0000.0000.000
113H118LYS10.9860.99515.07014.53414.5340.0000.0000.0000.000
114H119VAL00.014-0.00418.029-0.110-0.1100.0000.0000.0000.000
115H120LYS10.8160.90720.70812.35612.3560.0000.0000.0000.000
116H121VAL00.0220.00124.132-0.129-0.1290.0000.0000.0000.000
117H122LEU00.0050.00426.9450.2800.2800.0000.0000.0000.000
118H123GLY0-0.0010.00030.492-0.062-0.0620.0000.0000.0000.000
119H124THR0-0.035-0.02933.0290.2820.2820.0000.0000.0000.000
120H125ASN00.001-0.02036.5150.0600.0600.0000.0000.0000.000
121H126PHE00.0390.03733.3830.0500.0500.0000.0000.0000.000
122H127PRO00.0410.04139.4080.1180.1180.0000.0000.0000.000
123H128ALA00.021-0.00542.353-0.094-0.0940.0000.0000.0000.000
124H129ASP-1-0.946-0.98344.237-6.719-6.7190.0000.0000.0000.000
125H130GLY00.0560.03842.3150.0260.0260.0000.0000.0000.000
126H131PRO00.006-0.01339.172-0.046-0.0460.0000.0000.0000.000
127H132VAL00.0280.02335.248-0.073-0.0730.0000.0000.0000.000
128H133MET00.0190.01637.731-0.171-0.1710.0000.0000.0000.000
129H134LYS10.8850.95940.0056.9726.9720.0000.0000.0000.000
130H135ASN0-0.058-0.02136.753-0.026-0.0260.0000.0000.0000.000
131H136LYS10.7940.88338.9507.5747.5740.0000.0000.0000.000
132H137SER00.035-0.00534.9200.1340.1340.0000.0000.0000.000
133H138GLU-1-0.918-0.95335.548-8.128-8.1280.0000.0000.0000.000
134H139GLY00.0000.01231.608-0.172-0.1720.0000.0000.0000.000
135H140TRP0-0.040-0.03828.3280.2750.2750.0000.0000.0000.000
136H141GLU-1-0.772-0.86530.966-9.135-9.1350.0000.0000.0000.000
137H142PRO0-0.094-0.04427.655-0.331-0.3310.0000.0000.0000.000
138H143CYS0-0.0540.01426.1880.2380.2380.0000.0000.0000.000
139H144THR00.047-0.00725.300-0.343-0.3430.0000.0000.0000.000
140H145GLU-1-0.778-0.84120.931-13.948-13.9480.0000.0000.0000.000
141H146VAL00.0280.01123.646-0.389-0.3890.0000.0000.0000.000
142H147VAL0-0.027-0.02518.449-0.133-0.1330.0000.0000.0000.000
143H148TYR00.004-0.00221.6340.0320.0320.0000.0000.0000.000
144H149PRO0-0.023-0.00219.142-0.237-0.2370.0000.0000.0000.000
145H150ASP-1-0.910-0.95820.607-10.943-10.9430.0000.0000.0000.000
146H151ASN00.012-0.00621.215-0.454-0.4540.0000.0000.0000.000
147H152GLY0-0.006-0.00817.297-0.119-0.1190.0000.0000.0000.000
148H153VAL0-0.026-0.00816.375-0.985-0.9850.0000.0000.0000.000
149H154LEU0-0.025-0.00715.3460.2120.2120.0000.0000.0000.000
150H155CYS0-0.0100.00618.2770.1660.1660.0000.0000.0000.000
151H156GLY00.004-0.00421.417-0.368-0.3680.0000.0000.0000.000
152H157ARG10.8860.94422.69311.67111.6710.0000.0000.0000.000
153H158ASN00.0550.00324.9480.1040.1040.0000.0000.0000.000
154H159VAL00.0320.03227.4670.2350.2350.0000.0000.0000.000
155H160MET0-0.033-0.01426.450-0.298-0.2980.0000.0000.0000.000
156H161ALA00.0420.01330.7850.2970.2970.0000.0000.0000.000
157H162LEU0-0.009-0.00232.899-0.171-0.1710.0000.0000.0000.000
158H163LYS10.8020.88633.6149.5629.5620.0000.0000.0000.000
159H164VAL00.0190.00636.694-0.048-0.0480.0000.0000.0000.000
160H165GLY00.0220.01340.1000.2230.2230.0000.0000.0000.000
161H166ASP-1-0.925-0.96141.095-7.169-7.1690.0000.0000.0000.000
162H167ARG10.9340.97642.3156.9036.9030.0000.0000.0000.000
163H168ARG10.7780.86336.5328.0948.0940.0000.0000.0000.000
164H169LEU0-0.0340.01136.9020.1810.1810.0000.0000.0000.000
165H170ILE00.0220.01434.900-0.302-0.3020.0000.0000.0000.000
166H171CYS0-0.040-0.00931.2380.0370.0370.0000.0000.0000.000
167H172HIS0-0.028-0.02131.382-0.445-0.4450.0000.0000.0000.000
168H173LEU0-0.029-0.01325.171-0.045-0.0450.0000.0000.0000.000
169H174TYR0-0.001-0.01527.000-0.190-0.1900.0000.0000.0000.000
170H175SER0-0.0080.00021.3610.0610.0610.0000.0000.0000.000
171H176SER00.0110.00520.9750.2510.2510.0000.0000.0000.000
172H177TYR0-0.059-0.05915.540-0.267-0.2670.0000.0000.0000.000
173H178LYS10.8490.91315.90513.28413.2840.0000.0000.0000.000
174H179SER00.037-0.0079.942-0.763-0.7630.0000.0000.0000.000
175H180LYS10.8190.89510.13621.95721.9570.0000.0000.0000.000
176H181LYS10.8070.9135.21733.53533.5350.0000.0000.0000.000
177H182ALA00.0120.00310.3311.3921.3920.0000.0000.0000.000
178H183ILE00.0690.02612.757-0.662-0.6620.0000.0000.0000.000
179H184ARG10.8920.94214.94715.26515.2650.0000.0000.0000.000
180H185ALA0-0.027-0.00910.6010.2840.2840.0000.0000.0000.000
181H186LEU0-0.0060.0089.163-2.175-2.1750.0000.0000.0000.000
182H187THR0-0.016-0.00111.5202.0062.0060.0000.0000.0000.000
183H188MET0-0.0120.00513.489-1.112-1.1120.0000.0000.0000.000
184H189PRO0-0.0160.00214.6240.4770.4770.0000.0000.0000.000
185H190GLY00.0710.03017.3990.5470.5470.0000.0000.0000.000
186H191PHE0-0.005-0.00720.876-0.450-0.4500.0000.0000.0000.000
187H192HIS10.8340.91817.87415.59715.5970.0000.0000.0000.000
188H193PHE00.0530.03222.9630.2340.2340.0000.0000.0000.000
189H194THR0-0.032-0.03218.513-1.190-1.1900.0000.0000.0000.000
190H195ASP-1-0.789-0.83221.247-11.719-11.7190.0000.0000.0000.000
191H196ILE00.002-0.01420.587-0.793-0.7930.0000.0000.0000.000
192H197ARG10.9380.96822.85511.90111.9010.0000.0000.0000.000
193H198LEU00.0350.02422.481-0.392-0.3920.0000.0000.0000.000
194H199GLN0-0.027-0.02524.6720.4020.4020.0000.0000.0000.000
195H200MET00.0490.02525.720-0.325-0.3250.0000.0000.0000.000
196H201PRO0-0.050-0.01226.2590.4150.4150.0000.0000.0000.000
197H202ARG10.8830.93728.85310.96410.9640.0000.0000.0000.000
198H203LYS10.9971.00829.7578.6188.6180.0000.0000.0000.000
199H204LYS10.9520.96932.2179.3669.3660.0000.0000.0000.000
200H205LYS10.9380.95533.9117.6917.6910.0000.0000.0000.000
201H206ASP-1-0.837-0.89434.344-8.414-8.4140.0000.0000.0000.000
202H207GLU-1-0.860-0.92332.273-9.079-9.0790.0000.0000.0000.000
203H208TYR0-0.005-0.00228.765-0.224-0.2240.0000.0000.0000.000
204H209PHE00.007-0.01227.3090.3680.3680.0000.0000.0000.000
205H210GLU-1-0.850-0.91625.220-12.118-12.1180.0000.0000.0000.000
206H211LEU0-0.015-0.02222.4340.3920.3920.0000.0000.0000.000
207H212TYR00.003-0.00721.081-0.546-0.5460.0000.0000.0000.000
208H213GLU-1-0.850-0.92218.526-15.518-15.5180.0000.0000.0000.000
209H214ALA0-0.0010.00819.534-0.691-0.6910.0000.0000.0000.000
210H215SER0-0.021-0.02517.2491.0731.0730.0000.0000.0000.000
211H216VAL00.005-0.00117.484-1.150-1.1500.0000.0000.0000.000
212H217ALA0-0.0190.00916.8340.7760.7760.0000.0000.0000.000
213H218ARG10.8080.88618.90211.57111.5710.0000.0000.0000.000
214H219TYR00.0460.00921.2390.0550.0550.0000.0000.0000.000
215H220SER0-0.006-0.01224.7120.0520.0520.0000.0000.0000.000
216H221ASP-1-0.843-0.91427.763-11.397-11.3970.0000.0000.0000.000
217H222LEU0-0.062-0.01929.9740.2850.2850.0000.0000.0000.000
218H223PRO0-0.001-0.00332.039-0.255-0.2550.0000.0000.0000.000
219H224GLU-1-0.947-0.97032.228-9.580-9.5800.0000.0000.0000.000
220H225LYS0-0.009-0.00134.467-0.231-0.2310.0000.0000.0000.000