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: 98ZN2

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 OptH
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 -2082085.729222
FMO2-HF: Nuclear repulsion 2009642.91854
FMO2-HF: Total energy -72442.810683
FMO2-MP2: Total energy -72659.430038


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.
-3.0381.8480.207-2.038-3.0560.01
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 : 0.012 / q_NPA : -0.003
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-3TYR0-0.043-0.0123.162-2.5740.6680.080-1.536-1.7860.007
4A-2PHE00.059-0.0013.054-2.288-0.9540.128-0.450-1.0120.003
5A-1GLN00.0260.0294.323-1.271-0.961-0.001-0.052-0.2580.000
6A0SER0-0.054-0.0166.050-0.093-0.0930.0000.0000.0000.000
7A1MET0-0.049-0.0208.347-0.056-0.0560.0000.0000.0000.000
8A2THR00.0290.0259.1430.1800.1800.0000.0000.0000.000
9A3THR0-0.0200.0066.2740.0070.0070.0000.0000.0000.000
10A4TYR00.0590.0169.586-0.146-0.1460.0000.0000.0000.000
11A5ALA00.0050.00211.3820.0770.0770.0000.0000.0000.000
12A6ILE0-0.025-0.01013.009-0.091-0.0910.0000.0000.0000.000
13A7ILE00.0280.01614.957-0.006-0.0060.0000.0000.0000.000
14A8GLY00.0310.01217.775-0.036-0.0360.0000.0000.0000.000
15A9ALA00.0080.00220.170-0.008-0.0080.0000.0000.0000.000
16A10GLY0-0.003-0.00322.923-0.004-0.0040.0000.0000.0000.000
17A11ALA00.019-0.00724.6690.0130.0130.0000.0000.0000.000
18A12ILE00.0530.02624.1060.0020.0020.0000.0000.0000.000
19A13GLY00.0440.02721.1590.0190.0190.0000.0000.0000.000
20A14SER00.015-0.00120.5240.0190.0190.0000.0000.0000.000
21A15ALA0-0.037-0.00922.3150.0050.0050.0000.0000.0000.000
22A16LEU00.0280.01319.5950.0010.0010.0000.0000.0000.000
23A17ALA00.0320.01917.8910.0240.0240.0000.0000.0000.000
24A18GLU-1-0.927-0.96218.8710.2320.2320.0000.0000.0000.000
25A19ARG10.8710.93021.690-0.250-0.2500.0000.0000.0000.000
26A20PHE00.017-0.00415.283-0.008-0.0080.0000.0000.0000.000
27A21THR00.004-0.01117.6410.0190.0190.0000.0000.0000.000
28A22ALA0-0.080-0.03418.568-0.014-0.0140.0000.0000.0000.000
29A23ALA0-0.0060.00619.768-0.023-0.0230.0000.0000.0000.000
30A24GLN0-0.049-0.01917.1660.0020.0020.0000.0000.0000.000
31A25ILE0-0.0140.00614.3730.0360.0360.0000.0000.0000.000
32A26PRO0-0.031-0.02010.0550.0230.0230.0000.0000.0000.000
33A27ALA00.0160.01311.0130.0610.0610.0000.0000.0000.000
34A28ILE0-0.0320.0067.382-0.020-0.0200.0000.0000.0000.000
35A29ILE0-0.0050.00310.670-0.071-0.0710.0000.0000.0000.000
36A30ALA00.0240.00913.357-0.021-0.0210.0000.0000.0000.000
37A31ASN00.004-0.01915.273-0.028-0.0280.0000.0000.0000.000
38A32SER00.0600.00818.3830.0080.0080.0000.0000.0000.000
39A33ARG10.8910.95720.983-0.200-0.2000.0000.0000.0000.000
40A34GLY00.0650.05817.665-0.026-0.0260.0000.0000.0000.000
41A35PRO00.0390.02614.0490.0000.0000.0000.0000.0000.000
42A36ALA00.0250.01216.080-0.002-0.0020.0000.0000.0000.000
43A37SER0-0.070-0.05319.099-0.007-0.0070.0000.0000.0000.000
44A38LEU0-0.026-0.00816.232-0.007-0.0070.0000.0000.0000.000
45A39SER00.0420.01118.8720.0150.0150.0000.0000.0000.000
46A40SER0-0.0200.00620.2360.0010.0010.0000.0000.0000.000
47A41VAL00.0100.00117.562-0.006-0.0060.0000.0000.0000.000
48A42THR0-0.016-0.01015.7510.0270.0270.0000.0000.0000.000
49A43ASP-1-0.921-0.96317.6600.1560.1560.0000.0000.0000.000
50A44ARG10.8630.94320.799-0.209-0.2090.0000.0000.0000.000
51A45PHE00.003-0.01318.074-0.011-0.0110.0000.0000.0000.000
52A46GLY00.0570.03615.0620.0570.0570.0000.0000.0000.000
53A47ALA0-0.079-0.03213.8330.0440.0440.0000.0000.0000.000
54A48SER0-0.015-0.00313.4230.0330.0330.0000.0000.0000.000
55A49VAL0-0.046-0.00612.7470.1140.1140.0000.0000.0000.000
56A50LYS10.9650.9846.902-0.579-0.5790.0000.0000.0000.000
57A51ALA00.0040.00211.0780.0640.0640.0000.0000.0000.000
58A52VAL0-0.035-0.0217.783-0.052-0.0520.0000.0000.0000.000
59A53GLU-1-0.876-0.95511.0120.2240.2240.0000.0000.0000.000
60A54LEU0-0.001-0.00811.9780.0950.0950.0000.0000.0000.000
61A55LYS10.9450.96113.357-0.341-0.3410.0000.0000.0000.000
62A56ASP-1-0.871-0.9198.0430.7940.7940.0000.0000.0000.000
63A57ALA0-0.013-0.0209.6000.2200.2200.0000.0000.0000.000
64A58LEU0-0.068-0.03911.2460.0530.0530.0000.0000.0000.000
65A59GLN00.000-0.0018.9800.2300.2300.0000.0000.0000.000
66A60ALA0-0.057-0.0069.3350.2060.2060.0000.0000.0000.000
67A61ASP-1-0.778-0.89010.2591.3401.3400.0000.0000.0000.000
68A62VAL0-0.043-0.01912.097-0.180-0.1800.0000.0000.0000.000
69A63VAL0-0.0060.00313.8180.0340.0340.0000.0000.0000.000
70A64ILE00.0060.00215.952-0.079-0.0790.0000.0000.0000.000
71A65LEU00.009-0.00218.857-0.001-0.0010.0000.0000.0000.000
72A66ALA0-0.007-0.00420.913-0.036-0.0360.0000.0000.0000.000
73A67VAL0-0.031-0.01821.552-0.015-0.0150.0000.0000.0000.000
74A68PRO0-0.006-0.01724.257-0.006-0.0060.0000.0000.0000.000
75A69TYR00.0830.03027.2290.0090.0090.0000.0000.0000.000
76A70ASP-1-0.787-0.88328.8440.1840.1840.0000.0000.0000.000
77A71SER0-0.080-0.03825.219-0.005-0.0050.0000.0000.0000.000
78A72ILE0-0.0010.00823.9630.0140.0140.0000.0000.0000.000
79A73ALA00.0320.02224.2030.0220.0220.0000.0000.0000.000
80A74ASP-1-0.872-0.94025.2810.2330.2330.0000.0000.0000.000
81A75ILE0-0.086-0.04319.3160.0130.0130.0000.0000.0000.000
82A76VAL00.006-0.01720.3610.0310.0310.0000.0000.0000.000
83A77THR00.0110.02121.2710.0120.0120.0000.0000.0000.000
84A78GLN0-0.113-0.06218.7260.0180.0180.0000.0000.0000.000
85A79VAL0-0.0210.00615.8350.0200.0200.0000.0000.0000.000
86A80SER0-0.032-0.01718.375-0.018-0.0180.0000.0000.0000.000
87A81ASP-1-0.904-0.96017.3800.4470.4470.0000.0000.0000.000
88A82TRP00.0240.01916.1920.0920.0920.0000.0000.0000.000
89A83GLY00.0050.00117.6440.0100.0100.0000.0000.0000.000
90A84GLY0-0.072-0.04015.4760.0820.0820.0000.0000.0000.000
91A85GLN0-0.040-0.01313.253-0.006-0.0060.0000.0000.0000.000
92A86ILE0-0.049-0.02216.029-0.109-0.1090.0000.0000.0000.000
93A87VAL00.0070.01317.1550.0520.0520.0000.0000.0000.000
94A88VAL00.006-0.01319.390-0.045-0.0450.0000.0000.0000.000
95A89ASP-1-0.773-0.86921.5440.2920.2920.0000.0000.0000.000
96A90ALA0-0.007-0.00623.794-0.020-0.0200.0000.0000.0000.000
97A91SER0-0.097-0.05125.564-0.028-0.0280.0000.0000.0000.000
98A92ASN0-0.003-0.02627.902-0.008-0.0080.0000.0000.0000.000
99A93ALA00.0100.01231.699-0.002-0.0020.0000.0000.0000.000
100A94ILE0-0.049-0.01933.897-0.009-0.0090.0000.0000.0000.000
101A95ASP-1-0.814-0.90036.1960.1380.1380.0000.0000.0000.000
102A96PHE0-0.0180.00437.734-0.003-0.0030.0000.0000.0000.000
103A97PRO00.008-0.01339.734-0.002-0.0020.0000.0000.0000.000
104A98ALA0-0.004-0.01942.035-0.001-0.0010.0000.0000.0000.000
105A99PHE0-0.015-0.01237.980-0.001-0.0010.0000.0000.0000.000
106A100LYS10.9310.97240.509-0.104-0.1040.0000.0000.0000.000
107A101PRO0-0.007-0.01838.7880.0040.0040.0000.0000.0000.000
108A102ARG10.7880.88734.290-0.168-0.1680.0000.0000.0000.000
109A103ASP-1-0.900-0.93639.2430.1200.1200.0000.0000.0000.000
110A104LEU0-0.033-0.02935.1950.0040.0040.0000.0000.0000.000
111A105GLY00.0340.01639.2260.0030.0030.0000.0000.0000.000
112A106GLY0-0.072-0.03541.601-0.002-0.0020.0000.0000.0000.000
113A107ARG10.8110.89933.974-0.179-0.1790.0000.0000.0000.000
114A108LEU0-0.0220.00334.273-0.001-0.0010.0000.0000.0000.000
115A109SER0-0.019-0.01732.0570.0110.0110.0000.0000.0000.000
116A110THR00.016-0.01327.4380.0020.0020.0000.0000.0000.000
117A111GLU-1-0.921-0.94428.8140.2010.2010.0000.0000.0000.000
118A112ILE0-0.0020.00330.5620.0040.0040.0000.0000.0000.000
119A113VAL00.003-0.00725.2230.0070.0070.0000.0000.0000.000
120A114SER0-0.027-0.05325.8190.0230.0230.0000.0000.0000.000
121A115GLU-1-0.861-0.90626.2450.2150.2150.0000.0000.0000.000
122A116LEU0-0.052-0.02125.871-0.002-0.0020.0000.0000.0000.000
123A117VAL0-0.047-0.00621.1710.0200.0200.0000.0000.0000.000
124A118PRO00.0420.03023.0360.0090.0090.0000.0000.0000.000
125A119GLY00.018-0.00721.3350.0260.0260.0000.0000.0000.000
126A120ALA00.0010.01319.8750.0260.0260.0000.0000.0000.000
127A121LYS10.8040.89720.397-0.449-0.4490.0000.0000.0000.000
128A122VAL00.0080.00521.3020.0310.0310.0000.0000.0000.000
129A123VAL0-0.042-0.01622.660-0.027-0.0270.0000.0000.0000.000
130A124LYS10.9040.96624.362-0.218-0.2180.0000.0000.0000.000
131A125ALA00.031-0.00624.365-0.015-0.0150.0000.0000.0000.000
132A126PHE00.0410.01621.2730.0100.0100.0000.0000.0000.000
133A127ASN00.0080.01826.2580.0020.0020.0000.0000.0000.000
134A128THR0-0.007-0.00229.002-0.010-0.0100.0000.0000.0000.000
135A129LEU00.0230.01829.704-0.016-0.0160.0000.0000.0000.000
136A130PRO00.0250.01430.2870.0090.0090.0000.0000.0000.000
137A131ALA00.0510.01827.9680.0030.0030.0000.0000.0000.000
138A132ALA0-0.0010.00128.8240.0050.0050.0000.0000.0000.000
139A133VAL0-0.059-0.02531.387-0.005-0.0050.0000.0000.0000.000
140A134LEU0-0.015-0.01024.3980.0000.0000.0000.0000.0000.000
141A135ALA00.0420.00826.0170.0120.0120.0000.0000.0000.000
142A136ALA0-0.0400.00227.0480.0000.0000.0000.0000.0000.000
143A137ASP-1-0.851-0.92828.1880.1920.1920.0000.0000.0000.000
144A138PRO0-0.070-0.03226.623-0.015-0.0150.0000.0000.0000.000
145A139ASP-1-0.881-0.93129.8280.1370.1370.0000.0000.0000.000
146A140LYS10.8640.92131.883-0.158-0.1580.0000.0000.0000.000
147A141GLY00.0250.03135.303-0.009-0.0090.0000.0000.0000.000
148A142THR0-0.057-0.03737.294-0.004-0.0040.0000.0000.0000.000
149A143GLY00.0450.00736.298-0.002-0.0020.0000.0000.0000.000
150A144SER00.0110.02930.8890.0000.0000.0000.0000.0000.000
151A145ARG10.8520.92730.533-0.162-0.1620.0000.0000.0000.000
152A146VAL0-0.0050.00330.7790.0120.0120.0000.0000.0000.000
153A147LEU0-0.042-0.01525.9440.0000.0000.0000.0000.0000.000
154A148PHE00.020-0.00429.5230.0020.0020.0000.0000.0000.000
155A149LEU0-0.038-0.00825.3450.0140.0140.0000.0000.0000.000
156A150SER00.0220.01728.204-0.018-0.0180.0000.0000.0000.000
157A151GLY00.0660.02427.3710.0220.0220.0000.0000.0000.000
158A152ASN0-0.003-0.01228.276-0.021-0.0210.0000.0000.0000.000
159A153HIS00.0370.03124.867-0.004-0.0040.0000.0000.0000.000
160A154SER00.0340.01225.7950.0190.0190.0000.0000.0000.000
161A155ASP-1-0.845-0.91722.6210.3530.3530.0000.0000.0000.000
162A156ALA00.0850.04021.2520.0200.0200.0000.0000.0000.000
163A157ASN0-0.015-0.01922.1530.0340.0340.0000.0000.0000.000
164A158ARG10.9280.97423.600-0.273-0.2730.0000.0000.0000.000
165A159GLN00.0450.02616.581-0.038-0.0380.0000.0000.0000.000
166A160VAL00.0180.01019.9970.0210.0210.0000.0000.0000.000
167A161ALA0-0.012-0.01321.443-0.009-0.0090.0000.0000.0000.000
168A162GLU-1-0.904-0.96620.1040.3490.3490.0000.0000.0000.000
169A163LEU0-0.0210.00717.137-0.006-0.0060.0000.0000.0000.000
170A164ILE0-0.014-0.02220.072-0.014-0.0140.0000.0000.0000.000
171A165SER0-0.027-0.02523.488-0.024-0.0240.0000.0000.0000.000
172A166SER0-0.042-0.00819.982-0.021-0.0210.0000.0000.0000.000
173A167LEU0-0.055-0.01918.983-0.007-0.0070.0000.0000.0000.000
174A168GLY00.0170.01522.506-0.017-0.0170.0000.0000.0000.000
175A169PHE0-0.050-0.03324.746-0.025-0.0250.0000.0000.0000.000
176A170ALA00.012-0.00327.7320.0020.0020.0000.0000.0000.000
177A171PRO0-0.0260.00426.683-0.004-0.0040.0000.0000.0000.000
178A172VAL0-0.049-0.03328.849-0.016-0.0160.0000.0000.0000.000
179A173ASP-1-0.835-0.92729.2920.2370.2370.0000.0000.0000.000
180A174LEU0-0.059-0.03530.957-0.014-0.0140.0000.0000.0000.000
181A175GLY00.0180.02632.112-0.013-0.0130.0000.0000.0000.000
182A176THR00.0250.00231.5010.0120.0120.0000.0000.0000.000
183A177LEU00.0410.01528.775-0.006-0.0060.0000.0000.0000.000
184A178ALA00.0200.00932.665-0.008-0.0080.0000.0000.0000.000
185A179ALA0-0.030-0.00935.680-0.009-0.0090.0000.0000.0000.000
186A180SER00.012-0.01432.230-0.009-0.0090.0000.0000.0000.000
187A181GLY00.0660.05135.405-0.002-0.0020.0000.0000.0000.000
188A182PRO0-0.060-0.04236.793-0.002-0.0020.0000.0000.0000.000
189A183ILE0-0.011-0.02836.814-0.007-0.0070.0000.0000.0000.000
190A184GLN00.0300.01629.417-0.007-0.0070.0000.0000.0000.000
191A185GLN00.0430.02733.8720.0200.0200.0000.0000.0000.000
192A186PHE00.0620.00834.694-0.008-0.0080.0000.0000.0000.000
193A187GLY0-0.014-0.00936.256-0.004-0.0040.0000.0000.0000.000
194A188ARG10.8450.95438.401-0.140-0.1400.0000.0000.0000.000
195A189PRO00.032-0.00339.4330.0030.0030.0000.0000.0000.000
196A190LEU00.0030.01136.192-0.003-0.0030.0000.0000.0000.000
197A191VAL0-0.057-0.01534.5050.0090.0090.0000.0000.0000.000
198A192ALA0-0.053-0.02934.990-0.008-0.0080.0000.0000.0000.000
199A193LEU0-0.0130.01736.446-0.009-0.0090.0000.0000.0000.000
200A194ASN0-0.017-0.02235.6530.0150.0150.0000.0000.0000.000
201A195LEU00.0220.00335.995-0.009-0.0090.0000.0000.0000.000
202A196LEU0-0.025-0.00735.1350.0100.0100.0000.0000.0000.000
203A197LYS10.9680.99133.326-0.163-0.1630.0000.0000.0000.000
204A198ASP-1-0.911-0.95035.6870.1140.1140.0000.0000.0000.000