Manual

About

FMODB

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

Last updated: 2024-04-05

All entries: 36946

Number of unique PDB entries: 7781

tag_button

FMODB ID: 2N2ZR

Calculation Name: 2HQV-A-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 2HQV

Chain ID: A

ChEMBL ID:

UniProt ID: Q7CX01

Base Structure: X-ray

Registration Date: 2023-09-21

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 176
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 22 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -1694108.603833
FMO2-HF: Nuclear repulsion 1626585.11042
FMO2-HF: Total energy -67523.493413
FMO2-MP2: Total energy -67719.277243


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:11:ALA)


Summations of interaction energy for fragment #1(A:11:ALA)
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.
-0.5490.733-0.008-0.652-0.6230.002
Interaction energy analysis for fragmet #1(A:11:ALA)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.021 / q_NPA : -0.007
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].
3A13PRO0-0.010-0.0143.762-1.430-0.148-0.008-0.652-0.6230.002
4A14MET00.0330.0375.2140.7260.7260.0000.0000.0000.000
5A15SER00.0050.0047.362-0.013-0.0130.0000.0000.0000.000
6A16ILE00.0560.00911.1350.0100.0100.0000.0000.0000.000
7A17ALA00.0030.00713.8650.0150.0150.0000.0000.0000.000
8A18ALA0-0.009-0.0019.5000.0390.0390.0000.0000.0000.000
9A19GLN0-0.046-0.0399.681-0.065-0.0650.0000.0000.0000.000
10A20LYS10.8480.91211.5800.0750.0750.0000.0000.0000.000
11A21ASN0-0.001-0.01413.4990.0000.0000.0000.0000.0000.000
12A22ASP-1-0.814-0.86110.689-0.076-0.0760.0000.0000.0000.000
13A23ASP-1-0.823-0.91412.876-0.170-0.1700.0000.0000.0000.000
14A24ASP-1-0.798-0.89215.672-0.009-0.0090.0000.0000.0000.000
15A25ARG10.7550.8679.855-0.095-0.0950.0000.0000.0000.000
16A26GLN0-0.018-0.02412.8140.0030.0030.0000.0000.0000.000
17A27ALA0-0.012-0.00517.3410.0030.0030.0000.0000.0000.000
18A28ARG10.8540.92117.728-0.081-0.0810.0000.0000.0000.000
19A29ALA00.0460.03819.0640.0020.0020.0000.0000.0000.000
20A30LEU0-0.021-0.02520.0520.0000.0000.0000.0000.0000.000
21A31ALA0-0.054-0.01623.0790.0000.0000.0000.0000.0000.000
22A32ALA00.0260.00824.0290.0010.0010.0000.0000.0000.000
23A33LEU0-0.0180.00124.6070.0000.0000.0000.0000.0000.000
24A34ALA00.0070.00826.562-0.006-0.0060.0000.0000.0000.000
25A35GLU-1-0.924-0.95129.9180.0310.0310.0000.0000.0000.000
26A36LYS10.8090.89527.9650.0010.0010.0000.0000.0000.000
27A37PRO0-0.005-0.00530.2330.0020.0020.0000.0000.0000.000
28A38ASP-1-0.795-0.89432.1750.0290.0290.0000.0000.0000.000
29A39GLY0-0.008-0.01833.0840.0020.0020.0000.0000.0000.000
30A40ILE00.0050.01032.4010.0040.0040.0000.0000.0000.000
31A41VAL0-0.031-0.02831.1140.0050.0050.0000.0000.0000.000
32A42GLU-1-0.814-0.88728.3760.0750.0750.0000.0000.0000.000
33A43ALA00.000-0.01824.1720.0020.0020.0000.0000.0000.000
34A44ILE00.0000.00823.8590.0110.0110.0000.0000.0000.000
35A45ALA0-0.016-0.00425.5260.0080.0080.0000.0000.0000.000
36A46ALA0-0.0080.00524.6820.0000.0000.0000.0000.0000.000
37A47LYS10.9070.95122.094-0.099-0.0990.0000.0000.0000.000
38A48ALA0-0.0140.00323.0700.0070.0070.0000.0000.0000.000
39A49GLU-1-0.925-0.98418.2110.0900.0900.0000.0000.0000.000
40A50VAL0-0.053-0.02214.4020.0310.0310.0000.0000.0000.000
41A51ALA00.0160.02215.914-0.014-0.0140.0000.0000.0000.000
42A52PRO00.0530.00417.852-0.017-0.0170.0000.0000.0000.000
43A53ALA0-0.021-0.00515.983-0.019-0.0190.0000.0000.0000.000
44A54GLU-1-0.848-0.91513.5360.1710.1710.0000.0000.0000.000
45A55ILE00.0380.02416.756-0.027-0.0270.0000.0000.0000.000
46A56LEU0-0.023-0.02620.225-0.016-0.0160.0000.0000.0000.000
47A57ALA0-0.041-0.01316.965-0.012-0.0120.0000.0000.0000.000
48A58ILE0-0.018-0.00717.809-0.021-0.0210.0000.0000.0000.000
49A59LEU0-0.054-0.01221.103-0.003-0.0030.0000.0000.0000.000
50A60PRO0-0.013-0.01023.940-0.008-0.0080.0000.0000.0000.000
51A61GLN00.0560.02523.9000.0100.0100.0000.0000.0000.000
52A62GLY00.006-0.00424.931-0.001-0.0010.0000.0000.0000.000
53A63ALA0-0.0050.00826.6920.0040.0040.0000.0000.0000.000
54A64ALA00.0130.00222.5430.0090.0090.0000.0000.0000.000
55A65VAL0-0.027-0.00223.065-0.009-0.0090.0000.0000.0000.000
56A66SER0-0.015-0.00318.6980.0110.0110.0000.0000.0000.000
57A67ALA00.0430.04820.894-0.011-0.0110.0000.0000.0000.000
58A68PRO00.005-0.00118.7570.0130.0130.0000.0000.0000.000
59A69ALA00.0690.02318.869-0.003-0.0030.0000.0000.0000.000
60A70ASP-1-0.830-0.90120.5560.0560.0560.0000.0000.0000.000
61A71ARG10.8110.88822.335-0.054-0.0540.0000.0000.0000.000
62A72PHE00.0430.01424.276-0.004-0.0040.0000.0000.0000.000
63A73ASP-1-0.810-0.90226.0140.0750.0750.0000.0000.0000.000
64A74ALA0-0.024-0.00528.898-0.004-0.0040.0000.0000.0000.000
65A75ILE00.0210.00725.688-0.004-0.0040.0000.0000.0000.000
66A76TRP00.001-0.01129.7810.0000.0000.0000.0000.0000.000
67A77ASN0-0.023-0.02231.499-0.002-0.0020.0000.0000.0000.000
68A78GLU-1-0.935-0.96433.0460.0250.0250.0000.0000.0000.000
69A79MET0-0.049-0.02630.100-0.001-0.0010.0000.0000.0000.000
70A80ARG10.8020.88734.759-0.043-0.0430.0000.0000.0000.000
71A81GLY00.0140.02437.760-0.002-0.0020.0000.0000.0000.000
72A82TRP0-0.028-0.01931.811-0.002-0.0020.0000.0000.0000.000
73A83GLY0-0.0070.02238.992-0.002-0.0020.0000.0000.0000.000
74A84GLU-1-0.833-0.89140.0610.0370.0370.0000.0000.0000.000
75A85ILE00.0270.03035.691-0.002-0.0020.0000.0000.0000.000
76A86LEU0-0.004-0.01436.480-0.001-0.0010.0000.0000.0000.000
77A87MET0-0.0010.02230.9320.0020.0020.0000.0000.0000.000
78A88ILE0-0.016-0.00731.773-0.001-0.0010.0000.0000.0000.000
79A89VAL00.0170.00429.3010.0060.0060.0000.0000.0000.000
80A90GLN0-0.028-0.02428.528-0.005-0.0050.0000.0000.0000.000
81A91THR0-0.028-0.04728.0920.0080.0080.0000.0000.0000.000
82A92GLY0-0.026-0.01129.108-0.004-0.0040.0000.0000.0000.000
83A93ASP-1-0.894-0.91430.0140.1050.1050.0000.0000.0000.000
84A94ILE0-0.039-0.01932.792-0.007-0.0070.0000.0000.0000.000
85A95VAL00.0060.00232.5860.0060.0060.0000.0000.0000.000
86A96LEU0-0.024-0.00733.965-0.004-0.0040.0000.0000.0000.000
87A97GLU-1-0.896-0.95734.8510.0550.0550.0000.0000.0000.000
88A98VAL0-0.016-0.01737.056-0.002-0.0020.0000.0000.0000.000
89A99PRO0-0.0160.00138.3580.0000.0000.0000.0000.0000.000
90A100GLY00.0570.00340.3440.0000.0000.0000.0000.0000.000
91A101HIS00.0400.02539.7980.0000.0000.0000.0000.0000.000
92A102LEU00.0440.03733.6460.0020.0020.0000.0000.0000.000
93A103PRO00.0070.02736.960-0.003-0.0030.0000.0000.0000.000
94A104GLU-1-0.810-0.90536.9420.0440.0440.0000.0000.0000.000
95A105GLY00.004-0.00134.0640.0030.0030.0000.0000.0000.000
96A106THR0-0.050-0.01634.278-0.002-0.0020.0000.0000.0000.000
97A107GLU-1-0.840-0.90826.7460.1020.1020.0000.0000.0000.000
98A108SER00.000-0.00230.082-0.003-0.0030.0000.0000.0000.000
99A109HIS0-0.042-0.03326.9540.0050.0050.0000.0000.0000.000
100A110GLY00.0400.03124.4920.0090.0090.0000.0000.0000.000
101A111TRP0-0.023-0.01025.2110.0040.0040.0000.0000.0000.000
102A112PHE00.0300.01328.179-0.007-0.0070.0000.0000.0000.000
103A113ASN0-0.043-0.02530.1070.0050.0050.0000.0000.0000.000
104A114ILE0-0.0110.00532.882-0.004-0.0040.0000.0000.0000.000
105A115HIS00.0280.00235.801-0.002-0.0020.0000.0000.0000.000
106A116GLY00.005-0.00439.567-0.001-0.0010.0000.0000.0000.000
107A117ASP-1-0.949-0.95942.5770.0370.0370.0000.0000.0000.000
108A118SER0-0.015-0.03540.429-0.001-0.0010.0000.0000.0000.000
109A119PRO0-0.029-0.00241.8460.0020.0020.0000.0000.0000.000
110A120ILE0-0.060-0.01735.9250.0040.0040.0000.0000.0000.000
111A121GLY00.0430.01437.304-0.002-0.0020.0000.0000.0000.000
112A122GLY0-0.025-0.01435.1110.0020.0020.0000.0000.0000.000
113A123HIS0-0.058-0.04331.760-0.005-0.0050.0000.0000.0000.000
114A124ILE00.0370.02326.6340.0050.0050.0000.0000.0000.000
115A125LYS10.8140.89621.333-0.215-0.2150.0000.0000.0000.000
116A126LYS10.8180.88723.534-0.078-0.0780.0000.0000.0000.000
117A127ASP-1-0.824-0.89620.6460.2010.2010.0000.0000.0000.000
118A128ASN0-0.0100.00219.0010.0350.0350.0000.0000.0000.000
119A129CYS0-0.063-0.02818.4330.0150.0150.0000.0000.0000.000
120A130ALA0-0.017-0.01114.6660.0100.0100.0000.0000.0000.000
121A131ALA0-0.037-0.01916.738-0.021-0.0210.0000.0000.0000.000
122A132ILE00.0030.00918.7240.0090.0090.0000.0000.0000.000
123A133THR0-0.033-0.01920.543-0.007-0.0070.0000.0000.0000.000
124A134PHE00.0400.01323.0970.0040.0040.0000.0000.0000.000
125A135VAL0-0.0140.00024.731-0.007-0.0070.0000.0000.0000.000
126A136ASP-1-0.757-0.85427.2140.0170.0170.0000.0000.0000.000
127A137ARG10.9110.95727.841-0.038-0.0380.0000.0000.0000.000
128A138GLY0-0.014-0.00531.4320.0010.0010.0000.0000.0000.000
129A139PHE00.0200.00130.0110.0030.0030.0000.0000.0000.000
130A140HIS0-0.030-0.02234.6500.0010.0010.0000.0000.0000.000
131A141GLY00.0250.01637.007-0.001-0.0010.0000.0000.0000.000
132A142ARG10.8930.94538.135-0.027-0.0270.0000.0000.0000.000
133A143ARG10.7460.83334.014-0.011-0.0110.0000.0000.0000.000
134A144SER0-0.0040.00233.3880.0010.0010.0000.0000.0000.000
135A145CYS0-0.010-0.00132.225-0.002-0.0020.0000.0000.0000.000
136A146SER00.0040.01129.7340.0040.0040.0000.0000.0000.000
137A147VAL00.0290.01526.804-0.002-0.0020.0000.0000.0000.000
138A148TRP00.000-0.01323.6260.0080.0080.0000.0000.0000.000
139A149PHE00.0640.02123.2700.0000.0000.0000.0000.0000.000
140A150MET0-0.0150.01718.5290.0080.0080.0000.0000.0000.000
141A151ASN00.0880.02417.9740.0220.0220.0000.0000.0000.000
142A152ALA00.009-0.00613.517-0.002-0.0020.0000.0000.0000.000
143A153ALA0-0.043-0.01213.0200.0760.0760.0000.0000.0000.000
144A154GLY00.0310.01815.018-0.009-0.0090.0000.0000.0000.000
145A155GLY00.0220.00116.193-0.031-0.0310.0000.0000.0000.000
146A156ALA0-0.014-0.01419.9430.0040.0040.0000.0000.0000.000
147A157MET0-0.087-0.03421.8300.0080.0080.0000.0000.0000.000
148A158PHE00.0130.00124.206-0.005-0.0050.0000.0000.0000.000
149A159LYS10.8560.93426.429-0.085-0.0850.0000.0000.0000.000
150A160ILE00.0300.02028.901-0.001-0.0010.0000.0000.0000.000
151A161PHE0-0.012-0.01730.718-0.002-0.0020.0000.0000.0000.000
152A162VAL0-0.007-0.00333.870-0.001-0.0010.0000.0000.0000.000
153A163ARG10.7750.87336.551-0.036-0.0360.0000.0000.0000.000
154A164ARG10.8260.89237.750-0.029-0.0290.0000.0000.0000.000
155A165ASP-1-0.769-0.88842.8250.0200.0200.0000.0000.0000.000
156A166GLU-1-0.872-0.92646.6290.0220.0220.0000.0000.0000.000
157A167ASN0-0.039-0.02848.4590.0000.0000.0000.0000.0000.000
158A168LYS10.7320.86845.060-0.022-0.0220.0000.0000.0000.000
159A169GLU-1-0.902-0.93243.3740.0150.0150.0000.0000.0000.000
160A170LEU0-0.023-0.02437.4140.0020.0020.0000.0000.0000.000
161A171LEU00.0350.01341.422-0.002-0.0020.0000.0000.0000.000
162A172ALA00.0570.03841.6570.0010.0010.0000.0000.0000.000
163A173GLY0-0.014-0.01242.070-0.001-0.0010.0000.0000.0000.000
164A174GLN0-0.066-0.05438.1310.0020.0020.0000.0000.0000.000
165A175LEU00.027-0.00236.3650.0010.0010.0000.0000.0000.000
166A176ALA00.0050.00437.0460.0000.0000.0000.0000.0000.000
167A177LYS10.9590.98037.156-0.024-0.0240.0000.0000.0000.000
168A178PHE0-0.029-0.00830.0500.0010.0010.0000.0000.0000.000
169A179GLU-1-0.801-0.88232.6210.0090.0090.0000.0000.0000.000
170A180GLU-1-0.923-0.95233.1390.0110.0110.0000.0000.0000.000
171A181LEU0-0.010-0.00429.847-0.001-0.0010.0000.0000.0000.000
172A182ARG10.7440.85828.201-0.008-0.0080.0000.0000.0000.000
173A183ASP-1-0.860-0.95028.421-0.003-0.0030.0000.0000.0000.000
174A184GLY0-0.046-0.00729.611-0.005-0.0050.0000.0000.0000.000
175A185PHE0-0.025-0.02124.6820.0010.0010.0000.0000.0000.000
176A186ARG10.8330.92624.8560.0050.0050.0000.0000.0000.000