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

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FMODB ID: P9892

Calculation Name: 3BZQ-A-Xray22

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 3BZQ

Chain ID: A

ChEMBL ID:

UniProt ID: P9WN31

Base Structure: X-ray

Registration Date: 2018-06-07

Reference:

DOI:


IFIE MAP

IFIE Diagram


Modeling method
Optimization MOE:Amber10:EHT
Restraint OptH
Protonation MOE:Protonate 3D
Complement Missing residues were capped by ACE, NME. Missing atoms were corrected by Structure prepareation by MOE.
Water Apo structure with with a 3 angstrom solvent shell.
Procedure Auto-FMO protocol ver. 1.20180227
FMO calculation
FMO method FMO2-MP2/6-31G(d)
Fragmentation Auto
Number of fragment 180
LigandCharge
Software MIZUHO/ABINIT-MP 3.0
Total energy (hartree)
FMO2-HF: Electronic energy -831662.598389
FMO2-HF: Nuclear repulsion 788185.666402
FMO2-HF: Total energy -43476.931987
FMO2-MP2: Total energy -43602.612327


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:-1:GLY)


Summations of interaction energy for fragment #1(A:-1:GLY)
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.
-13.367-5.6341.586-4.593-4.725-0.014
Interaction energy analysis for fragmet #1(A:-1:GLY)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : -0.015 / q_NPA : -0.013
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].
3A1MET0-0.0450.0092.787-3.570-0.6890.220-1.526-1.5760.008
4A2LYS10.8850.9274.2080.2490.327-0.001-0.042-0.0360.000
5A3LEU00.0270.0286.9780.3180.3180.0000.0000.0000.000
6A4ILE0-0.0100.0009.882-0.135-0.1350.0000.0000.0000.000
7A5THR00.000-0.00613.2340.0650.0650.0000.0000.0000.000
8A6ALA00.0020.00116.073-0.025-0.0250.0000.0000.0000.000
9A7ILE0-0.056-0.01819.5660.0140.0140.0000.0000.0000.000
10A8VAL00.0300.01322.684-0.008-0.0080.0000.0000.0000.000
11A9LYS10.8360.89825.5670.0540.0540.0000.0000.0000.000
12A10PRO00.0440.02928.5850.0030.0030.0000.0000.0000.000
13A11PHE00.0070.00529.8300.0030.0030.0000.0000.0000.000
14A12THR0-0.034-0.00727.3980.0020.0020.0000.0000.0000.000
15A13LEU00.0150.01324.8620.0010.0010.0000.0000.0000.000
16A14ASP-1-0.863-0.93026.3350.0260.0260.0000.0000.0000.000
17A15ASP-1-0.816-0.87927.9180.0050.0050.0000.0000.0000.000
18A16VAL0-0.023-0.02122.0590.0020.0020.0000.0000.0000.000
19A17LYS10.8980.93023.250-0.061-0.0610.0000.0000.0000.000
20A18THR0-0.007-0.00223.9990.0130.0130.0000.0000.0000.000
21A19SER00.0030.00223.6580.0030.0030.0000.0000.0000.000
22A20LEU0-0.040-0.00517.9850.0020.0020.0000.0000.0000.000
23A21GLU-1-0.875-0.93420.8700.1040.1040.0000.0000.0000.000
24A22ASP-1-0.821-0.88723.0030.0630.0630.0000.0000.0000.000
25A23ALA0-0.072-0.02020.3830.0020.0020.0000.0000.0000.000
26A24GLY00.0170.01419.7600.0160.0160.0000.0000.0000.000
27A25VAL0-0.039-0.00515.4090.0430.0430.0000.0000.0000.000
28A26LEU00.0340.02116.935-0.032-0.0320.0000.0000.0000.000
29A27GLY00.0370.00716.1530.0280.0280.0000.0000.0000.000
30A28MET0-0.0230.00716.974-0.010-0.0100.0000.0000.0000.000
31A29THR0-0.018-0.01817.358-0.005-0.0050.0000.0000.0000.000
32A30VAL0-0.005-0.02419.757-0.017-0.0170.0000.0000.0000.000
33A31SER0-0.030-0.00121.0550.0060.0060.0000.0000.0000.000
34A32GLU-1-0.837-0.90823.688-0.018-0.0180.0000.0000.0000.000
35A33ILE0-0.060-0.02622.765-0.009-0.0090.0000.0000.0000.000
36A34GLN00.0360.03526.5760.0020.0020.0000.0000.0000.000
37A35GLY00.0130.00727.965-0.010-0.0100.0000.0000.0000.000
38A36TYR00.0080.00628.9640.0070.0070.0000.0000.0000.000
39A37GLY0-0.032-0.02431.158-0.002-0.0020.0000.0000.0000.000
40A38ARG10.9200.98233.8680.0430.0430.0000.0000.0000.000
41A39NME00.0850.05237.2370.0020.0020.0000.0000.0000.000
42A53ACE00.048-0.01835.580-0.001-0.0010.0000.0000.0000.000
43A54ASP-1-0.858-0.88235.217-0.040-0.0400.0000.0000.0000.000
44A55PHE0-0.045-0.02931.174-0.005-0.0050.0000.0000.0000.000
45A56VAL0-0.0230.00331.7860.0050.0050.0000.0000.0000.000
46A57PRO00.0300.00831.206-0.005-0.0050.0000.0000.0000.000
47A58LYS10.8100.91326.8360.0710.0710.0000.0000.0000.000
48A59VAL00.0670.04524.7590.0040.0040.0000.0000.0000.000
49A60ARG10.8070.88816.9950.0970.0970.0000.0000.0000.000
50A61ILE00.0390.01919.0200.0130.0130.0000.0000.0000.000
51A62GLU-1-0.798-0.89214.882-0.091-0.0910.0000.0000.0000.000
52A63VAL00.0400.02813.8300.0300.0300.0000.0000.0000.000
53A64VAL00.0080.0038.028-0.073-0.0730.0000.0000.0000.000
54A65VAL00.0300.0199.4620.0760.0760.0000.0000.0000.000
55A66ASP-1-0.707-0.8417.7470.7230.7230.0000.0000.0000.000
56A67ASP-1-0.856-0.9316.873-1.231-1.2310.0000.0000.0000.000
57A68SER0-0.036-0.0148.991-0.051-0.0510.0000.0000.0000.000
58A69ILE0-0.029-0.03111.866-0.033-0.0330.0000.0000.0000.000
59A70VAL00.0000.01110.6530.0000.0000.0000.0000.0000.000
60A71ASP-1-0.865-0.93112.814-0.297-0.2970.0000.0000.0000.000
61A72LYS10.9520.97915.8960.0240.0240.0000.0000.0000.000
62A73VAL00.0510.03915.2240.0100.0100.0000.0000.0000.000
63A74VAL00.0290.02315.0540.0090.0090.0000.0000.0000.000
64A75ASP-1-0.801-0.89417.722-0.120-0.1200.0000.0000.0000.000
65A76SER0-0.097-0.04219.9710.0170.0170.0000.0000.0000.000
66A77ILE00.0620.02917.7790.0050.0050.0000.0000.0000.000
67A78VAL0-0.032-0.01821.1370.0030.0030.0000.0000.0000.000
68A79ARG10.8530.92223.5250.0400.0400.0000.0000.0000.000
69A80ALA00.0400.04925.0820.0030.0030.0000.0000.0000.000
70A81ALA00.0480.02925.1820.0040.0040.0000.0000.0000.000
71A82ARG10.8360.92426.5860.0730.0730.0000.0000.0000.000
72A83THR00.019-0.02129.1240.0060.0060.0000.0000.0000.000
73A84GLY0-0.008-0.00131.9760.0030.0030.0000.0000.0000.000
74A85LYS10.8530.93333.5290.0330.0330.0000.0000.0000.000
75A86ILE00.0380.00132.580-0.004-0.0040.0000.0000.0000.000
76A87GLY00.032-0.00930.6720.0060.0060.0000.0000.0000.000
77A88ASP-1-0.690-0.80028.239-0.054-0.0540.0000.0000.0000.000
78A89GLY0-0.0010.01725.6060.0020.0020.0000.0000.0000.000
79A90LYS10.8350.91220.9990.1480.1480.0000.0000.0000.000
80A91VAL00.0650.03217.0730.0120.0120.0000.0000.0000.000
81A92TRP0-0.070-0.03713.9380.0200.0200.0000.0000.0000.000
82A93VAL00.0600.0259.9790.0320.0320.0000.0000.0000.000
83A94SER0-0.044-0.0099.789-0.034-0.0340.0000.0000.0000.000
84A95PRO0-0.0090.0045.2580.1540.1540.0000.0000.0000.000
85A96VAL00.0320.0314.2460.3170.443-0.001-0.025-0.0990.000
86A97ASP-1-0.829-0.8882.587-4.651-3.1590.836-1.115-1.213-0.011
87A98THR0-0.037-0.0212.781-0.2900.9800.355-0.727-0.898-0.009
88A99ILE00.0090.0075.444-0.411-0.4110.0000.0000.0000.000
89A100VAL0-0.015-0.0138.5970.1390.1390.0000.0000.0000.000
90A101ARG10.8100.91711.906-0.557-0.5570.0000.0000.0000.000
91A102VAL00.001-0.01415.075-0.019-0.0190.0000.0000.0000.000
92A103ARG10.9090.94517.856-0.252-0.2520.0000.0000.0000.000
93A104THR0-0.012-0.03417.605-0.021-0.0210.0000.0000.0000.000
94A105GLY00.0010.02116.131-0.010-0.0100.0000.0000.0000.000
95A106GLU-1-0.720-0.81714.2040.4910.4910.0000.0000.0000.000
96A107ARG10.9500.9639.369-0.606-0.6060.0000.0000.0000.000
97A108GLY00.0290.0207.0150.0160.0160.0000.0000.0000.000
98A109HIS00.0770.0397.950-0.060-0.0600.0000.0000.0000.000
99A110ASP-1-0.798-0.8699.9200.5170.5170.0000.0000.0000.000
100A111ALA0-0.085-0.04210.800-0.173-0.1730.0000.0000.0000.000
101A112LEU-1-0.812-0.8678.9840.3930.3930.0000.0000.0000.000
102A113HOH00.0110.02012.3160.0000.0000.0000.0000.0000.000
103A114HOH0-0.043-0.0438.3470.0800.0800.0000.0000.0000.000
104A115HOH0-0.022-0.01318.827-0.003-0.0030.0000.0000.0000.000
105A116HOH00.0140.01012.2880.0070.0070.0000.0000.0000.000
106A117HOH0-0.015-0.01827.5450.0020.0020.0000.0000.0000.000
107A118HOH0-0.026-0.01826.8770.0030.0030.0000.0000.0000.000
108A119HOH0-0.035-0.01936.5220.0010.0010.0000.0000.0000.000
109A120HOH0-0.018-0.02514.974-0.010-0.0100.0000.0000.0000.000
110A122HOH00.011-0.0032.9760.4460.7710.015-0.175-0.164-0.001
111A123HOH0-0.034-0.01818.8860.0010.0010.0000.0000.0000.000
112A124HOH00.0170.0095.483-0.417-0.4170.0000.0000.0000.000
113A125HOH00.0390.02426.097-0.001-0.0010.0000.0000.0000.000
114A126HOH0-0.061-0.0435.9150.0580.0580.0000.0000.0000.000
115A127HOH0-0.008-0.00913.1960.0130.0130.0000.0000.0000.000
116A129HOH00.0040.00330.7750.0000.0000.0000.0000.0000.000
117A130HOH0-0.009-0.01419.4020.0030.0030.0000.0000.0000.000
118A131HOH00.0060.00212.8110.0310.0310.0000.0000.0000.000
119A134HOH0-0.061-0.05029.5920.0020.0020.0000.0000.0000.000
120A135HOH00.0250.01327.7890.0030.0030.0000.0000.0000.000
121A136HOH00.0630.04037.1570.0000.0000.0000.0000.0000.000
122A137HOH0-0.039-0.02824.975-0.001-0.0010.0000.0000.0000.000
123A139HOH00.0410.03121.3040.0020.0020.0000.0000.0000.000
124A140HOH0-0.014-0.0157.3710.0340.0340.0000.0000.0000.000
125A141HOH0-0.025-0.02413.532-0.023-0.0230.0000.0000.0000.000
126A142HOH0-0.007-0.00415.598-0.016-0.0160.0000.0000.0000.000
127A144HOH0-0.032-0.01912.108-0.015-0.0150.0000.0000.0000.000
128A145HOH0-0.002-0.0143.126-2.168-1.3430.072-0.522-0.374-0.005
129A146HOH0-0.024-0.02132.6060.0000.0000.0000.0000.0000.000
130A147HOH0-0.061-0.05429.059-0.001-0.0010.0000.0000.0000.000
131A148HOH00.0530.03033.5990.0010.0010.0000.0000.0000.000
132A149HOH0-0.041-0.02613.205-0.009-0.0090.0000.0000.0000.000
133A150HOH0-0.062-0.04817.109-0.012-0.0120.0000.0000.0000.000
134A152HOH00.0480.03439.971-0.001-0.0010.0000.0000.0000.000
135A153HOH0-0.010-0.01621.0290.0050.0050.0000.0000.0000.000
136A154HOH0-0.025-0.01327.8220.0010.0010.0000.0000.0000.000
137A155HOH0-0.038-0.02414.6210.0160.0160.0000.0000.0000.000
138A156HOH0-0.026-0.02920.3470.0050.0050.0000.0000.0000.000
139A158HOH0-0.059-0.04115.355-0.018-0.0180.0000.0000.0000.000
140A160HOH0-0.049-0.03230.771-0.002-0.0020.0000.0000.0000.000
141A161HOH00.0250.02318.3470.0110.0110.0000.0000.0000.000
142A162HOH0-0.036-0.02213.869-0.032-0.0320.0000.0000.0000.000
143A163HOH00.0130.02415.0590.0120.0120.0000.0000.0000.000
144A164HOH0-0.020-0.00716.129-0.028-0.0280.0000.0000.0000.000
145A169HOH0-0.004-0.0148.3450.2530.2530.0000.0000.0000.000
146A171HOH00.0250.03024.6480.0050.0050.0000.0000.0000.000
147A172HOH0-0.074-0.05329.4640.0000.0000.0000.0000.0000.000
148A173HOH0-0.041-0.02934.452-0.002-0.0020.0000.0000.0000.000
149A175HOH0-0.026-0.0267.375-0.066-0.0660.0000.0000.0000.000
150A176HOH0-0.015-0.01921.7430.0070.0070.0000.0000.0000.000
151A177HOH0-0.047-0.03323.713-0.003-0.0030.0000.0000.0000.000
152A180HOH00.0380.0286.626-0.058-0.0580.0000.0000.0000.000
153A181HOH0-0.045-0.0328.7030.0180.0180.0000.0000.0000.000
154A182HOH00.0520.03720.082-0.005-0.0050.0000.0000.0000.000
155A184HOH0-0.027-0.01535.4260.0020.0020.0000.0000.0000.000
156A185HOH0-0.029-0.02229.675-0.001-0.0010.0000.0000.0000.000
157A187HOH0-0.030-0.01933.0720.0000.0000.0000.0000.0000.000
158A192HOH0-0.023-0.00835.231-0.002-0.0020.0000.0000.0000.000
159A193HOH0-0.049-0.03017.835-0.013-0.0130.0000.0000.0000.000
160A194HOH0-0.043-0.03013.222-0.026-0.0260.0000.0000.0000.000
161A196HOH0-0.041-0.02829.6860.0000.0000.0000.0000.0000.000
162A200HOH0-0.043-0.03414.773-0.002-0.0020.0000.0000.0000.000
163A205HOH0-0.022-0.01237.078-0.001-0.0010.0000.0000.0000.000
164A206HOH0-0.010-0.01636.5570.0010.0010.0000.0000.0000.000
165A207HOH0-0.047-0.03318.637-0.019-0.0190.0000.0000.0000.000
166A210HOH0-0.017-0.01615.813-0.019-0.0190.0000.0000.0000.000
167A211HOH0-0.037-0.03827.220-0.001-0.0010.0000.0000.0000.000
168A213HOH0-0.031-0.02039.8730.0010.0010.0000.0000.0000.000
169A216HOH0-0.039-0.02522.868-0.002-0.0020.0000.0000.0000.000
170A218HOH0-0.027-0.01840.3270.0010.0010.0000.0000.0000.000
171A220HOH00.0120.00336.476-0.001-0.0010.0000.0000.0000.000
172A225HOH0-0.016-0.02229.6860.0010.0010.0000.0000.0000.000
173A228HOH0-0.057-0.04937.4360.0000.0000.0000.0000.0000.000
174A231HOH0-0.050-0.02929.645-0.003-0.0030.0000.0000.0000.000
175A237HOH00.0300.01930.039-0.003-0.0030.0000.0000.0000.000
176A238HOH0-0.033-0.02020.6140.0090.0090.0000.0000.0000.000
177A239HOH0-0.004-0.0103.069-3.024-2.2880.090-0.461-0.3650.004
178A241HOH0-0.052-0.03216.592-0.015-0.0150.0000.0000.0000.000
179A245HOH0-0.028-0.01512.5550.0360.0360.0000.0000.0000.000
180A246HOH00.0330.01622.4420.0040.0040.0000.0000.0000.000