FMODB

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

Last updated: 2024-05-02

All entries: 37386

Number of unique PDB entries: 7781

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FMODB ID: 7GQ5K

Calculation Name: 3HN5-A-Xray372

Preferred Name:
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Target Type:
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Ligand Name:
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ligand 3-letter code:
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PDB ID: 3HN5

Chain ID: A

ChEMBL ID:
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UniProt ID: Q5LIG1

Base Structure: X-ray

Registration Date: 2023-06-19

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

DOI:


IFIE MAP

IFIE Diagram


Modeling method
Optimization MOE:Amber10:EHT
Restraint OptAll
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 206
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -2332633.623326
FMO2-HF: Nuclear repulsion 2250275.093947
FMO2-HF: Total energy -82358.529379
FMO2-MP2: Total energy -82596.77058


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:30:GLU)


Summations of interaction energy for fragment #1(A:30:GLU)
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.
39.56951.1356.184-6.647-11.1060.026
Interaction energy analysis for fragmet #1(A:30:GLU)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : -1 / q_Mulliken : -0.955 / q_NPA : -0.979
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].
3A32MET0-0.031-0.0223.7102.6914.831-0.006-1.047-1.0870.003
4A33LEU00.0370.0336.006-4.234-4.2340.0000.0000.0000.000
5A34THR0-0.058-0.0418.5340.2870.2870.0000.0000.0000.000
6A35GLY00.0640.03211.735-0.733-0.7330.0000.0000.0000.000
7A36ARG10.8190.89515.454-14.081-14.0810.0000.0000.0000.000
8A37VAL00.0290.02218.7540.1340.1340.0000.0000.0000.000
9A38MET0-0.101-0.04820.998-0.358-0.3580.0000.0000.0000.000
10A39TYR00.0460.00224.285-0.032-0.0320.0000.0000.0000.000
11A40ASN0-0.045-0.02327.894-0.197-0.1970.0000.0000.0000.000
12A41GLY00.0080.00826.486-0.229-0.2290.0000.0000.0000.000
13A42GLU-1-0.852-0.89526.34810.33410.3340.0000.0000.0000.000
14A43ALA0-0.025-0.01622.7960.1580.1580.0000.0000.0000.000
15A44LEU00.0170.01124.107-0.480-0.4800.0000.0000.0000.000
16A45GLN0-0.026-0.01224.7210.1670.1670.0000.0000.0000.000
17A46LEU00.0090.01221.787-0.454-0.4540.0000.0000.0000.000
18A47ARG10.8510.90523.775-12.609-12.6090.0000.0000.0000.000
19A48GLY00.0160.01220.8390.3070.3070.0000.0000.0000.000
20A49ASN0-0.028-0.02719.319-0.787-0.7870.0000.0000.0000.000
21A50GLU-1-0.848-0.93216.35317.55917.5590.0000.0000.0000.000
22A51ALA0-0.039-0.00118.2900.0590.0590.0000.0000.0000.000
23A52VAL00.0190.01419.967-0.472-0.4720.0000.0000.0000.000
24A53GLN0-0.003-0.00616.7660.6100.6100.0000.0000.0000.000
25A54LEU0-0.008-0.00214.799-1.176-1.1760.0000.0000.0000.000
26A55GLN0-0.013-0.00414.5770.3540.3540.0000.0000.0000.000
27A56LEU00.0570.0279.423-0.876-0.8760.0000.0000.0000.000
28A57TYR0-0.028-0.02812.5420.8650.8650.0000.0000.0000.000
29A58GLN00.0630.0288.9741.2441.2440.0000.0000.0000.000
30A59HIS0-0.087-0.05714.107-0.164-0.1640.0000.0000.0000.000
31A60GLY00.0500.03417.512-1.080-1.0800.0000.0000.0000.000
32A61TYR00.0570.03019.6730.1120.1120.0000.0000.0000.000
33A62ALA00.007-0.00320.998-0.011-0.0110.0000.0000.0000.000
34A63LYS10.9070.96719.200-15.822-15.8220.0000.0000.0000.000
35A64HIS10.7910.90019.983-13.842-13.8420.0000.0000.0000.000
36A65ASP-1-0.821-0.90316.15418.03318.0330.0000.0000.0000.000
37A66PRO0-0.042-0.00114.1211.1401.1400.0000.0000.0000.000
38A67ILE00.0450.0237.280-0.247-0.2470.0000.0000.0000.000
39A68ASN0-0.022-0.02311.127-2.673-2.6730.0000.0000.0000.000
40A69VAL00.0040.0059.8482.6812.6810.0000.0000.0000.000
41A70TYR0-0.0010.00912.138-1.519-1.5190.0000.0000.0000.000
42A71VAL0-0.0070.00214.3940.8060.8060.0000.0000.0000.000
43A72ASN00.0180.01017.222-1.153-1.1530.0000.0000.0000.000
44A73GLN00.006-0.02618.987-0.089-0.0890.0000.0000.0000.000
45A74ASP-1-0.874-0.91821.67312.27912.2790.0000.0000.0000.000
46A75GLY00.0410.03321.320-0.120-0.1200.0000.0000.0000.000
47A76MET0-0.039-0.02716.1550.0460.0460.0000.0000.0000.000
48A77TYR0-0.012-0.01611.4860.5970.5970.0000.0000.0000.000
49A78SER0-0.065-0.0519.2250.3740.3740.0000.0000.0000.000
50A79ALA00.0140.0047.287-0.795-0.7950.0000.0000.0000.000
51A80ASN0-0.043-0.0012.465-18.311-15.8271.886-2.189-2.1830.029
52A81LEU00.0180.0122.6890.0472.4290.661-0.980-2.0630.003
53A82PHE00.0320.0132.718-5.115-0.6313.640-2.413-5.712-0.009
54A83ASP-1-0.782-0.8593.91727.42827.5040.003-0.018-0.0610.000
55A84GLY0-0.028-0.0106.653-0.277-0.2770.0000.0000.0000.000
56A85GLU-1-0.869-0.90610.25718.69918.6990.0000.0000.0000.000
57A86TYR0-0.036-0.0406.6271.7261.7260.0000.0000.0000.000
58A87GLN0-0.049-0.02913.290-1.405-1.4050.0000.0000.0000.000
59A88MET0-0.0060.00412.6870.6500.6500.0000.0000.0000.000
60A89ILE0-0.018-0.00215.976-1.169-1.1690.0000.0000.0000.000
61A90THR00.0920.04317.8450.8440.8440.0000.0000.0000.000
62A91LYS10.8750.95219.188-14.875-14.8750.0000.0000.0000.000
63A92SER0-0.026-0.02020.679-0.605-0.6050.0000.0000.0000.000
64A93GLY00.000-0.00924.3410.1130.1130.0000.0000.0000.000
65A94ASN0-0.073-0.05621.3770.5200.5200.0000.0000.0000.000
66A95GLY00.0600.02423.6940.4800.4800.0000.0000.0000.000
67A96PRO0-0.046-0.00125.252-0.371-0.3710.0000.0000.0000.000
68A97TRP0-0.016-0.02921.754-0.194-0.1940.0000.0000.0000.000
69A98THR0-0.0010.00728.6610.0400.0400.0000.0000.0000.000
70A99SER0-0.026-0.02927.9760.3180.3180.0000.0000.0000.000
71A100GLU-1-0.897-0.94229.0329.6979.6970.0000.0000.0000.000
72A101GLY00.0290.01328.3510.2270.2270.0000.0000.0000.000
73A102ARG10.7610.87621.579-13.065-13.0650.0000.0000.0000.000
74A103ASP-1-0.834-0.90924.52912.05712.0570.0000.0000.0000.000
75A104THR0-0.151-0.09220.2160.6190.6190.0000.0000.0000.000
76A105ILE00.0370.02918.055-0.457-0.4570.0000.0000.0000.000
77A106ASN0-0.016-0.01317.3511.1191.1190.0000.0000.0000.000
78A107VAL0-0.004-0.00912.224-0.446-0.4460.0000.0000.0000.000
79A108THR0-0.010-0.02412.1380.7710.7710.0000.0000.0000.000
80A109VAL0-0.074-0.0266.420-0.426-0.4260.0000.0000.0000.000
81A110ALA0-0.002-0.0138.8380.1670.1670.0000.0000.0000.000
82A111GLY00.0340.0236.153-1.698-1.6980.0000.0000.0000.000
83A112ASN0-0.025-0.0156.8023.1403.1400.0000.0000.0000.000
84A113THR0-0.015-0.0078.569-2.367-2.3670.0000.0000.0000.000
85A114VAL0-0.013-0.01510.9540.7220.7220.0000.0000.0000.000
86A115GLN0-0.017-0.01413.836-0.706-0.7060.0000.0000.0000.000
87A116ASP-1-0.765-0.86215.71515.99415.9940.0000.0000.0000.000
88A117VAL0-0.017-0.00817.677-0.112-0.1120.0000.0000.0000.000
89A118GLU-1-0.795-0.88720.46211.12511.1250.0000.0000.0000.000
90A119VAL0-0.041-0.01923.5100.1720.1720.0000.0000.0000.000
91A120THR00.0460.01626.256-0.360-0.3600.0000.0000.0000.000
92A121PRO0-0.002-0.00228.840-0.055-0.0550.0000.0000.0000.000
93A122TYR00.0220.02130.213-0.404-0.4040.0000.0000.0000.000
94A123TYR0-0.055-0.06133.043-0.305-0.3050.0000.0000.0000.000
95A124LEU0-0.0040.00130.1530.4100.4100.0000.0000.0000.000
96A125VAL0-0.0210.00033.161-0.346-0.3460.0000.0000.0000.000
97A126ARG10.7630.85232.433-9.117-9.1170.0000.0000.0000.000
98A127ASP-1-0.826-0.91737.1887.6487.6480.0000.0000.0000.000
99A128ALA0-0.0080.00936.017-0.161-0.1610.0000.0000.0000.000
100A129GLN0-0.057-0.02838.057-0.025-0.0250.0000.0000.0000.000
101A130MET0-0.034-0.01437.4700.0430.0430.0000.0000.0000.000
102A131THR0-0.059-0.04040.7910.1030.1030.0000.0000.0000.000
103A132LEU00.017-0.00242.4490.0550.0550.0000.0000.0000.000
104A133GLU-1-0.808-0.87645.0716.6866.6860.0000.0000.0000.000
105A134GLY0-0.012-0.00748.584-0.114-0.1140.0000.0000.0000.000
106A135ASN00.003-0.02047.2400.2410.2410.0000.0000.0000.000
107A136LYS10.8840.93047.326-6.151-6.1510.0000.0000.0000.000
108A137VAL0-0.011-0.00541.5580.0850.0850.0000.0000.0000.000
109A138ASN00.0180.02945.027-0.072-0.0720.0000.0000.0000.000
110A139ALA00.0120.00740.7910.1660.1660.0000.0000.0000.000
111A140SER0-0.0020.00541.890-0.148-0.1480.0000.0000.0000.000
112A141PHE00.0200.00638.9050.2380.2380.0000.0000.0000.000
113A142LYS10.8830.93440.053-7.486-7.4860.0000.0000.0000.000
114A143VAL00.0220.02239.0140.2860.2860.0000.0000.0000.000
115A144GLU-1-0.779-0.87235.3258.8138.8130.0000.0000.0000.000
116A145LYS10.7890.87637.044-7.135-7.1350.0000.0000.0000.000
117A146VAL0-0.021-0.00632.904-0.101-0.1010.0000.0000.0000.000
118A147ALA0-0.0130.00034.149-0.165-0.1650.0000.0000.0000.000
119A148GLY0-0.031-0.00736.079-0.225-0.2250.0000.0000.0000.000
120A149GLY00.024-0.00337.0060.2310.2310.0000.0000.0000.000
121A150GLY00.0160.01039.316-0.149-0.1490.0000.0000.0000.000
122A151ILE0-0.033-0.02738.2240.2460.2460.0000.0000.0000.000
123A152ASP-1-0.877-0.92437.4358.0948.0940.0000.0000.0000.000
124A153ARG10.8030.87735.936-8.458-8.4580.0000.0000.0000.000
125A154VAL00.0130.01837.9100.2440.2440.0000.0000.0000.000
126A155PHE00.008-0.01032.481-0.109-0.1090.0000.0000.0000.000
127A156PHE00.0040.01036.5210.1940.1940.0000.0000.0000.000
128A157MET0-0.064-0.01532.7050.0770.0770.0000.0000.0000.000
129A158LEU00.0100.00435.715-0.014-0.0140.0000.0000.0000.000
130A159SER00.016-0.00130.5050.0580.0580.0000.0000.0000.000
131A160THR0-0.006-0.00732.773-0.185-0.1850.0000.0000.0000.000
132A161THR0-0.077-0.04328.7370.1950.1950.0000.0000.0000.000
133A162GLN00.0210.00624.656-0.419-0.4190.0000.0000.0000.000
134A163PHE00.0290.01522.5610.1080.1080.0000.0000.0000.000
135A164VAL0-0.012-0.01226.833-0.343-0.3430.0000.0000.0000.000
136A165ASN0-0.007-0.01725.520-0.082-0.0820.0000.0000.0000.000
137A166ASP-1-0.736-0.87828.76510.93710.9370.0000.0000.0000.000
138A167ALA0-0.0150.01328.178-0.420-0.4200.0000.0000.0000.000
139A168GLU-1-0.870-0.90124.89812.72112.7210.0000.0000.0000.000
140A169HIS10.9170.93429.265-9.678-9.6780.0000.0000.0000.000
141A170ASN0-0.0090.00132.507-0.181-0.1810.0000.0000.0000.000
142A171VAL0-0.048-0.01334.246-0.215-0.2150.0000.0000.0000.000
143A172ASP-1-0.731-0.83236.8227.6097.6090.0000.0000.0000.000
144A173ARG10.7850.85833.470-8.770-8.7700.0000.0000.0000.000
145A174TYR0-0.079-0.04837.716-0.186-0.1860.0000.0000.0000.000
146A175ASP-1-0.766-0.86638.0528.6738.6730.0000.0000.0000.000
147A176GLU-1-0.753-0.82740.6506.8706.8700.0000.0000.0000.000
148A177THR00.024-0.02042.0300.2140.2140.0000.0000.0000.000
149A178ASP-1-0.879-0.91544.0406.6306.6300.0000.0000.0000.000
150A179ASN0-0.041-0.03947.250-0.046-0.0460.0000.0000.0000.000
151A180LEU00.0330.03341.534-0.024-0.0240.0000.0000.0000.000
152A181ASP-1-0.800-0.88944.6877.1977.1970.0000.0000.0000.000
153A182ALA0-0.0110.00346.110-0.039-0.0390.0000.0000.0000.000
154A183TYR0-0.010-0.00744.369-0.082-0.0820.0000.0000.0000.000
155A184ASP-1-0.792-0.87041.8737.7527.7520.0000.0000.0000.000
156A185GLU-1-0.878-0.93143.5947.1347.1340.0000.0000.0000.000
157A186THR00.0430.01040.5830.1360.1360.0000.0000.0000.000
158A187GLY0-0.033-0.01142.087-0.180-0.1800.0000.0000.0000.000
159A188LYS10.7810.89343.876-6.914-6.9140.0000.0000.0000.000
160A189LEU0-0.004-0.00343.7440.1790.1790.0000.0000.0000.000
161A190TYR0-0.016-0.03642.807-0.128-0.1280.0000.0000.0000.000
162A191THR0-0.071-0.05944.3300.0620.0620.0000.0000.0000.000
163A192PHE0-0.0170.01239.273-0.056-0.0560.0000.0000.0000.000
164A193ALA0-0.009-0.00245.140-0.116-0.1160.0000.0000.0000.000
165A194THR0-0.062-0.05746.3800.0900.0900.0000.0000.0000.000
166A195ARG10.8330.92542.063-7.528-7.5280.0000.0000.0000.000
167A196ASP-1-0.796-0.88046.5466.3906.3900.0000.0000.0000.000
168A197TYR0-0.032-0.05541.7120.0660.0660.0000.0000.0000.000
169A198THR0-0.029-0.03046.1690.0570.0570.0000.0000.0000.000
170A199ASP-1-0.875-0.93448.5176.4286.4280.0000.0000.0000.000
171A200ASN0-0.044-0.00940.8500.1680.1680.0000.0000.0000.000
172A201SER00.0640.01442.8440.0660.0660.0000.0000.0000.000
173A202MET0-0.0170.00937.0130.1600.1600.0000.0000.0000.000
174A203PHE00.0750.03539.7620.1650.1650.0000.0000.0000.000
175A204GLN0-0.005-0.01141.4920.0620.0620.0000.0000.0000.000
176A205THR0-0.109-0.06438.986-0.044-0.0440.0000.0000.0000.000
177A206ALA00.0010.00238.3450.0830.0830.0000.0000.0000.000
178A207LEU00.0210.01239.4640.0460.0460.0000.0000.0000.000
179A208LYS10.9100.97142.747-7.283-7.2830.0000.0000.0000.000
180A209ARG10.9440.97135.198-8.939-8.9390.0000.0000.0000.000
181A210GLY00.0090.02439.3190.0560.0560.0000.0000.0000.000
182A211THR0-0.083-0.04534.8310.1630.1630.0000.0000.0000.000
183A212LEU00.0220.01636.3260.0840.0840.0000.0000.0000.000
184A213PHE0-0.025-0.01331.437-0.023-0.0230.0000.0000.0000.000
185A214GLY00.0440.01334.417-0.146-0.1460.0000.0000.0000.000
186A215ARG10.7380.87026.168-11.265-11.2650.0000.0000.0000.000
187A216ILE00.0590.01933.759-0.189-0.1890.0000.0000.0000.000
188A217CYS0-0.081-0.02631.6340.3940.3940.0000.0000.0000.000
189A218ILE00.0520.03533.770-0.356-0.3560.0000.0000.0000.000
190A219TRP00.010-0.00329.7690.4000.4000.0000.0000.0000.000
191A220PRO00.0000.00632.325-0.322-0.3220.0000.0000.0000.000
192A221LYS10.7820.87835.034-7.276-7.2760.0000.0000.0000.000
193A222GLY00.0260.01535.020-0.056-0.0560.0000.0000.0000.000
194A223SER0-0.037-0.02229.9160.3150.3150.0000.0000.0000.000
195A224ASP-1-0.776-0.86925.80312.02112.0210.0000.0000.0000.000
196A225GLN0-0.036-0.02824.8780.4820.4820.0000.0000.0000.000
197A226GLY00.0440.04328.365-0.270-0.2700.0000.0000.0000.000
198A227ILE0-0.022-0.01428.2700.4640.4640.0000.0000.0000.000
199A228TYR00.002-0.01128.097-0.425-0.4250.0000.0000.0000.000
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