Manual

About

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: MN46Z

Calculation Name: 4HUJ-A-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 4HUJ

Chain ID: A

ChEMBL ID:

UniProt ID: Q930K7

Base Structure: X-ray

Registration Date: 2023-09-23

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 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 204
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -2083756.648494
FMO2-HF: Nuclear repulsion 2011313.390634
FMO2-HF: Total energy -72443.25786
FMO2-MP2: Total energy -72659.884289


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:-5:ASN)


Summations of interaction energy for fragment #1(A:-5: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.
-2.2732.6530.338-2.062-3.2020.004
Interaction energy analysis for fragmet #1(A:-5:ASN)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.022 / q_NPA : -0.005
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].
3A-3TYR0-0.042-0.0142.998-3.216-0.0860.093-1.466-1.7570.005
4A-2PHE00.051-0.0042.565-1.1670.2650.246-0.547-1.131-0.001
5A-1GLN00.0140.0264.6700.0130.377-0.001-0.049-0.3140.000
6A0SER0-0.050-0.0136.0720.0890.0890.0000.0000.0000.000
7A1MET0-0.051-0.0207.720-0.002-0.0020.0000.0000.0000.000
8A2THR00.0150.0159.1750.0970.0970.0000.0000.0000.000
9A3THR0-0.036-0.0406.258-0.084-0.0840.0000.0000.0000.000
10A4TYR00.0540.0149.5850.0420.0420.0000.0000.0000.000
11A5ALA00.0070.00511.033-0.031-0.0310.0000.0000.0000.000
12A6ILE0-0.028-0.01212.901-0.010-0.0100.0000.0000.0000.000
13A7ILE00.0290.01515.243-0.002-0.0020.0000.0000.0000.000
14A8GLY00.0300.01117.972-0.014-0.0140.0000.0000.0000.000
15A9ALA00.0050.00020.353-0.001-0.0010.0000.0000.0000.000
16A10GLY00.003-0.00123.108-0.003-0.0030.0000.0000.0000.000
17A11ALA00.021-0.00624.6510.0030.0030.0000.0000.0000.000
18A12ILE00.0480.02224.201-0.002-0.0020.0000.0000.0000.000
19A13GLY00.0450.02821.0500.0040.0040.0000.0000.0000.000
20A14SER00.0260.00620.3220.0030.0030.0000.0000.0000.000
21A15ALA0-0.045-0.01621.959-0.002-0.0020.0000.0000.0000.000
22A16LEU00.0250.01219.231-0.003-0.0030.0000.0000.0000.000
23A17ALA00.0370.01917.4480.0010.0010.0000.0000.0000.000
24A18GLU-1-0.840-0.90218.3470.0800.0800.0000.0000.0000.000
25A19ARG10.8380.91321.024-0.084-0.0840.0000.0000.0000.000
26A20PHE00.020-0.00414.396-0.001-0.0010.0000.0000.0000.000
27A21THR0-0.008-0.02216.819-0.003-0.0030.0000.0000.0000.000
28A22ALA0-0.078-0.02917.773-0.005-0.0050.0000.0000.0000.000
29A23ALA0-0.0110.00418.793-0.006-0.0060.0000.0000.0000.000
30A24GLN0-0.053-0.02016.198-0.008-0.0080.0000.0000.0000.000
31A25ILE0-0.0050.00813.393-0.005-0.0050.0000.0000.0000.000
32A26PRO0-0.034-0.0229.0520.0130.0130.0000.0000.0000.000
33A27ALA00.0160.01310.4370.0040.0040.0000.0000.0000.000
34A28ILE0-0.0340.0017.440-0.017-0.0170.0000.0000.0000.000
35A29ILE00.0000.00410.5550.0140.0140.0000.0000.0000.000
36A30ALA00.0210.01313.5570.0000.0000.0000.0000.0000.000
37A31ASN00.006-0.02015.505-0.010-0.0100.0000.0000.0000.000
38A32SER00.0650.01518.5550.0080.0080.0000.0000.0000.000
39A33ARG10.8940.95621.152-0.110-0.1100.0000.0000.0000.000
40A34GLY00.0690.05817.767-0.010-0.0100.0000.0000.0000.000
41A35PRO00.0380.02014.004-0.008-0.0080.0000.0000.0000.000
42A36ALA00.0270.01616.179-0.005-0.0050.0000.0000.0000.000
43A37SER0-0.064-0.03119.159-0.008-0.0080.0000.0000.0000.000
44A38LEU0-0.018-0.00616.616-0.006-0.0060.0000.0000.0000.000
45A39SER00.015-0.00919.0320.0030.0030.0000.0000.0000.000
46A40SER0-0.0130.00920.355-0.001-0.0010.0000.0000.0000.000
47A41VAL00.013-0.00117.733-0.004-0.0040.0000.0000.0000.000
48A42THR0-0.015-0.01715.4020.0040.0040.0000.0000.0000.000
49A43ASP-1-0.927-0.96317.6020.0970.0970.0000.0000.0000.000
50A44ARG10.7550.88220.666-0.088-0.0880.0000.0000.0000.000
51A45PHE0-0.005-0.01617.486-0.004-0.0040.0000.0000.0000.000
52A46GLY00.0540.03414.7600.0060.0060.0000.0000.0000.000
53A47ALA0-0.079-0.03313.3880.0220.0220.0000.0000.0000.000
54A48SER0-0.0120.00012.6160.0040.0040.0000.0000.0000.000
55A49VAL0-0.045-0.00912.085-0.002-0.0020.0000.0000.0000.000
56A50LYS10.9640.9857.015-0.321-0.3210.0000.0000.0000.000
57A51ALA00.0060.00411.150-0.001-0.0010.0000.0000.0000.000
58A52VAL0-0.046-0.0297.969-0.005-0.0050.0000.0000.0000.000
59A53GLU-1-0.861-0.94811.1010.1860.1860.0000.0000.0000.000
60A54LEU0-0.012-0.01012.1360.0390.0390.0000.0000.0000.000
61A55LYS10.9470.96213.423-0.253-0.2530.0000.0000.0000.000
62A56ASP-1-0.868-0.9088.1920.5560.5560.0000.0000.0000.000
63A57ALA0-0.018-0.0189.7730.1230.1230.0000.0000.0000.000
64A58LEU0-0.064-0.04011.5160.0170.0170.0000.0000.0000.000
65A59GLN0-0.003-0.0069.2690.2130.2130.0000.0000.0000.000
66A60ALA0-0.0450.0009.3280.1750.1750.0000.0000.0000.000
67A61ASP-1-0.772-0.8499.7910.8140.8140.0000.0000.0000.000
68A62VAL0-0.031-0.01212.099-0.087-0.0870.0000.0000.0000.000
69A63VAL0-0.0030.00513.795-0.019-0.0190.0000.0000.0000.000
70A64ILE00.0040.00215.944-0.031-0.0310.0000.0000.0000.000
71A65LEU00.0120.00118.749-0.003-0.0030.0000.0000.0000.000
72A66ALA0-0.010-0.00820.987-0.017-0.0170.0000.0000.0000.000
73A67VAL0-0.025-0.01621.902-0.008-0.0080.0000.0000.0000.000
74A68PRO0-0.003-0.01424.474-0.003-0.0030.0000.0000.0000.000
75A69TYR00.0710.02627.5170.0040.0040.0000.0000.0000.000
76A70ASP-1-0.794-0.87229.0750.1040.1040.0000.0000.0000.000
77A71SER0-0.058-0.02925.567-0.002-0.0020.0000.0000.0000.000
78A72ILE0-0.0040.00724.1120.0100.0100.0000.0000.0000.000
79A73ALA00.0320.02124.3340.0150.0150.0000.0000.0000.000
80A74ASP-1-0.869-0.93525.3340.1470.1470.0000.0000.0000.000
81A75ILE0-0.078-0.03719.5880.0110.0110.0000.0000.0000.000
82A76VAL00.005-0.01320.3490.0230.0230.0000.0000.0000.000
83A77THR00.0140.01721.2600.0120.0120.0000.0000.0000.000
84A78GLN0-0.135-0.07519.0710.0140.0140.0000.0000.0000.000
85A79VAL0-0.0150.00815.8860.0210.0210.0000.0000.0000.000
86A80SER0-0.025-0.01318.430-0.015-0.0150.0000.0000.0000.000
87A81ASP-1-0.904-0.95917.4730.3160.3160.0000.0000.0000.000
88A82TRP00.0180.01516.6520.0660.0660.0000.0000.0000.000
89A83GLY00.0090.00217.631-0.002-0.0020.0000.0000.0000.000
90A84GLY0-0.073-0.04015.4460.0670.0670.0000.0000.0000.000
91A85GLN0-0.037-0.01613.081-0.003-0.0030.0000.0000.0000.000
92A86ILE0-0.048-0.02316.032-0.070-0.0700.0000.0000.0000.000
93A87VAL00.0120.01617.1520.0210.0210.0000.0000.0000.000
94A88VAL00.002-0.01419.193-0.026-0.0260.0000.0000.0000.000
95A89ASP-1-0.757-0.83821.5380.1430.1430.0000.0000.0000.000
96A90ALA0-0.009-0.00623.592-0.012-0.0120.0000.0000.0000.000
97A91SER0-0.075-0.04725.435-0.013-0.0130.0000.0000.0000.000
98A92ASN0-0.014-0.03427.923-0.003-0.0030.0000.0000.0000.000
99A93ALA00.0230.02031.7140.0000.0000.0000.0000.0000.000
100A94ILE0-0.045-0.01834.034-0.005-0.0050.0000.0000.0000.000
101A95ASP-1-0.788-0.87736.4170.0760.0760.0000.0000.0000.000
102A96PHE0-0.0170.00538.025-0.002-0.0020.0000.0000.0000.000
103A97PRO00.018-0.00640.0070.0000.0000.0000.0000.0000.000
104A98ALA00.015-0.00742.284-0.001-0.0010.0000.0000.0000.000
105A99PHE00.002-0.00237.525-0.001-0.0010.0000.0000.0000.000
106A100LYS10.8670.93340.602-0.055-0.0550.0000.0000.0000.000
107A101PRO00.003-0.01138.8480.0020.0020.0000.0000.0000.000
108A102ARG10.7610.85134.606-0.091-0.0910.0000.0000.0000.000
109A103ASP-1-0.894-0.93539.3630.0660.0660.0000.0000.0000.000
110A104LEU0-0.035-0.02735.2430.0030.0030.0000.0000.0000.000
111A105GLY00.0300.01339.2160.0020.0020.0000.0000.0000.000
112A106GLY0-0.071-0.03541.596-0.001-0.0010.0000.0000.0000.000
113A107ARG10.7800.86533.958-0.103-0.1030.0000.0000.0000.000
114A108LEU0-0.0200.00034.296-0.001-0.0010.0000.0000.0000.000
115A109SER00.027-0.00331.1010.0030.0030.0000.0000.0000.000
116A110THR0-0.020-0.04727.4220.0020.0020.0000.0000.0000.000
117A111GLU-1-0.894-0.93328.8080.1090.1090.0000.0000.0000.000
118A112ILE00.0030.00330.5570.0050.0050.0000.0000.0000.000
119A113VAL0-0.005-0.01225.1970.0060.0060.0000.0000.0000.000
120A114SER0-0.021-0.04225.8160.0150.0150.0000.0000.0000.000
121A115GLU-1-0.852-0.87826.2410.1280.1280.0000.0000.0000.000
122A116LEU0-0.052-0.02125.9020.0010.0010.0000.0000.0000.000
123A117VAL0-0.038-0.00421.2910.0130.0130.0000.0000.0000.000
124A118PRO00.0430.02823.0270.0040.0040.0000.0000.0000.000
125A119GLY00.014-0.00621.3430.0210.0210.0000.0000.0000.000
126A120ALA00.0000.01819.9500.0170.0170.0000.0000.0000.000
127A121LYS10.7840.87720.402-0.252-0.2520.0000.0000.0000.000
128A122VAL0-0.004-0.00221.3030.0130.0130.0000.0000.0000.000
129A123VAL0-0.039-0.01522.672-0.016-0.0160.0000.0000.0000.000
130A124LYS10.8610.94924.357-0.114-0.1140.0000.0000.0000.000
131A125ALA00.028-0.00124.224-0.009-0.0090.0000.0000.0000.000
132A126PHE00.0400.00921.2470.0050.0050.0000.0000.0000.000
133A127ASN00.0030.00925.8830.0000.0000.0000.0000.0000.000
134A128THR00.0000.01028.756-0.004-0.0040.0000.0000.0000.000
135A129LEU00.0330.02328.917-0.007-0.0070.0000.0000.0000.000
136A130PRO00.0250.01029.9580.0040.0040.0000.0000.0000.000
137A131ALA00.0440.01727.7330.0000.0000.0000.0000.0000.000
138A132ALA00.0020.00128.4220.0000.0000.0000.0000.0000.000
139A133VAL0-0.051-0.02030.899-0.003-0.0030.0000.0000.0000.000
140A134LEU0-0.013-0.00923.993-0.001-0.0010.0000.0000.0000.000
141A135ALA00.0450.01125.4790.0020.0020.0000.0000.0000.000
142A136ALA0-0.0320.00126.425-0.002-0.0020.0000.0000.0000.000
143A137ASP-1-0.820-0.92026.8040.0650.0650.0000.0000.0000.000
144A138PRO0-0.0150.01025.783-0.004-0.0040.0000.0000.0000.000
145A139ASP-1-0.836-0.90028.9870.0440.0440.0000.0000.0000.000
146A140LYS10.7480.85430.930-0.054-0.0540.0000.0000.0000.000
147A141GLY00.0350.03734.303-0.002-0.0020.0000.0000.0000.000
148A142THR0-0.050-0.03536.288-0.002-0.0020.0000.0000.0000.000
149A143GLY00.0500.01335.3450.0000.0000.0000.0000.0000.000
150A144SER0-0.0040.01929.9380.0000.0000.0000.0000.0000.000
151A145ARG10.8670.92229.805-0.062-0.0620.0000.0000.0000.000
152A146VAL0-0.012-0.00129.9850.0030.0030.0000.0000.0000.000
153A147LEU0-0.037-0.01225.3430.0010.0010.0000.0000.0000.000
154A148PHE00.016-0.00729.1730.0000.0000.0000.0000.0000.000
155A149LEU0-0.036-0.00925.3270.0060.0060.0000.0000.0000.000
156A150SER00.0250.01828.203-0.007-0.0070.0000.0000.0000.000
157A151GLY00.0620.02327.3720.0110.0110.0000.0000.0000.000
158A152ASN00.004-0.00828.272-0.013-0.0130.0000.0000.0000.000
159A153HIS00.0350.03224.909-0.001-0.0010.0000.0000.0000.000
160A154SER00.0430.01725.8010.0080.0080.0000.0000.0000.000
161A155ASP-1-0.842-0.91622.2970.1880.1880.0000.0000.0000.000
162A156ALA00.0900.04721.2580.0060.0060.0000.0000.0000.000
163A157ASN0-0.024-0.03122.1570.0120.0120.0000.0000.0000.000
164A158ARG10.9080.96823.293-0.128-0.1280.0000.0000.0000.000
165A159GLN00.0640.03916.656-0.009-0.0090.0000.0000.0000.000
166A160VAL00.0210.01120.001-0.001-0.0010.0000.0000.0000.000
167A161ALA0-0.009-0.01221.445-0.010-0.0100.0000.0000.0000.000
168A162GLU-1-0.882-0.95020.2200.1270.1270.0000.0000.0000.000
169A163LEU0-0.0050.02416.573-0.010-0.0100.0000.0000.0000.000
170A164ILE0-0.016-0.02419.679-0.010-0.0100.0000.0000.0000.000
171A165SER0-0.039-0.03622.954-0.010-0.0100.0000.0000.0000.000
172A166SER0-0.058-0.02919.190-0.010-0.0100.0000.0000.0000.000
173A167LEU0-0.048-0.01418.302-0.005-0.0050.0000.0000.0000.000
174A168GLY00.0120.01221.588-0.004-0.0040.0000.0000.0000.000
175A169PHE0-0.048-0.03624.129-0.005-0.0050.0000.0000.0000.000
176A170ALA00.002-0.00427.020-0.001-0.0010.0000.0000.0000.000
177A171PRO0-0.0110.00926.4530.0010.0010.0000.0000.0000.000
178A172VAL0-0.063-0.04128.508-0.006-0.0060.0000.0000.0000.000
179A173ASP-1-0.820-0.91529.2630.1090.1090.0000.0000.0000.000
180A174LEU0-0.058-0.03030.959-0.006-0.0060.0000.0000.0000.000
181A175GLY00.0130.02132.103-0.005-0.0050.0000.0000.0000.000
182A176THR00.021-0.00431.5030.0060.0060.0000.0000.0000.000
183A177LEU00.0430.01528.767-0.004-0.0040.0000.0000.0000.000
184A178ALA00.0070.00232.664-0.004-0.0040.0000.0000.0000.000
185A179ALA0-0.025-0.00535.650-0.005-0.0050.0000.0000.0000.000
186A180SER00.026-0.01132.220-0.005-0.0050.0000.0000.0000.000
187A181GLY00.0660.05135.402-0.001-0.0010.0000.0000.0000.000
188A182PRO0-0.067-0.04636.789-0.001-0.0010.0000.0000.0000.000
189A183ILE0-0.015-0.02636.786-0.004-0.0040.0000.0000.0000.000
190A184GLN00.0270.01329.392-0.003-0.0030.0000.0000.0000.000
191A185GLN00.0340.03433.7580.0090.0090.0000.0000.0000.000
192A186PHE00.057-0.00134.601-0.004-0.0040.0000.0000.0000.000
193A187GLY0-0.008-0.00636.132-0.001-0.0010.0000.0000.0000.000
194A188ARG10.8480.95938.261-0.070-0.0700.0000.0000.0000.000
195A189PRO00.029-0.00439.1410.0010.0010.0000.0000.0000.000
196A190LEU0-0.0030.01035.920-0.002-0.0020.0000.0000.0000.000
197A191VAL0-0.059-0.01834.1860.0030.0030.0000.0000.0000.000
198A192ALA0-0.055-0.03134.621-0.003-0.0030.0000.0000.0000.000
199A193LEU0-0.0210.01436.036-0.004-0.0040.0000.0000.0000.000
200A194ASN0-0.022-0.02034.9930.0050.0050.0000.0000.0000.000
201A195LEU00.0350.01335.326-0.003-0.0030.0000.0000.0000.000
202A196LEU0-0.023-0.00134.2540.0040.0040.0000.0000.0000.000
203A197LYS10.9620.98532.348-0.060-0.0600.0000.0000.0000.000
204A198ASP-1-0.900-0.94634.8760.0400.0400.0000.0000.0000.000