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: 3QZKL

Calculation Name: 2AZO-A-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 2AZO

Chain ID: A

ChEMBL ID:

UniProt ID: P06722

Base Structure: X-ray

Registration Date: 2023-03-13

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 227
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -2643981.328095
FMO2-HF: Nuclear repulsion 2556794.563442
FMO2-HF: Total energy -87186.764654
FMO2-MP2: Total energy -87446.587736


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:3:GLN)


Summations of interaction energy for fragment #1(A:3:GLN)
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.
-4.3091.7741.691-3.31-4.462-0.005
Interaction energy analysis for fragmet #1(A:3:GLN)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : -0.026 / q_NPA : -0.027
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].
3A5ARG10.9640.9702.954-1.6870.7680.153-1.352-1.256-0.007
4A6PRO00.0010.0155.6600.9140.9140.0000.0000.0000.000
5A7LEU0-0.0240.0319.334-0.247-0.2470.0000.0000.0000.000
6A8LEU0-0.010-0.02611.396-0.019-0.0190.0000.0000.0000.000
7A9SER0-0.021-0.01214.054-0.005-0.0050.0000.0000.0000.000
8A10PRO0-0.0270.00616.4260.0160.0160.0000.0000.0000.000
9A11PRO0-0.019-0.00916.345-0.006-0.0060.0000.0000.0000.000
10A12GLU-1-0.878-0.93918.185-0.044-0.0440.0000.0000.0000.000
11A13THR0-0.025-0.02719.5330.0190.0190.0000.0000.0000.000
12A14GLU-1-0.736-0.86319.0640.4020.4020.0000.0000.0000.000
13A15GLU-1-0.908-0.96017.6750.4690.4690.0000.0000.0000.000
14A16GLN0-0.028-0.01314.9190.0940.0940.0000.0000.0000.000
15A17LEU00.0170.01414.1020.0690.0690.0000.0000.0000.000
16A18LEU0-0.018-0.00714.9220.1170.1170.0000.0000.0000.000
17A19ALA00.0090.00511.5040.2240.2240.0000.0000.0000.000
18A20GLN0-0.023-0.0189.1500.6450.6450.0000.0000.0000.000
19A21ALA00.0060.00010.0260.3840.3840.0000.0000.0000.000
20A22GLN0-0.028-0.04011.1030.2680.2680.0000.0000.0000.000
21A23GLN0-0.065-0.0134.7101.5501.539-0.001-0.0060.0190.000
22A24LEU00.002-0.0096.0481.5571.5570.0000.0000.0000.000
23A25SER0-0.036-0.0548.320-0.254-0.2540.0000.0000.0000.000
24A26GLY0-0.072-0.0338.4610.8140.8140.0000.0000.0000.000
25A27TYR00.0120.0202.364-7.250-4.4531.402-1.693-2.5050.001
26A28THR0-0.012-0.0198.474-0.855-0.8550.0000.0000.0000.000
27A29LEU0-0.017-0.02510.221-0.039-0.0390.0000.0000.0000.000
28A30GLY00.018-0.00411.606-0.199-0.1990.0000.0000.0000.000
29A31GLU-1-0.917-0.9576.1982.7072.7070.0000.0000.0000.000
30A32LEU00.0340.0116.730-0.685-0.6850.0000.0000.0000.000
31A33ALA00.0010.0028.540-0.465-0.4650.0000.0000.0000.000
32A34ALA00.0020.0137.594-0.265-0.2650.0000.0000.0000.000
33A35LEU0-0.072-0.0342.888-1.844-1.0020.137-0.259-0.7200.001
34A36VAL0-0.020-0.0186.819-0.339-0.3390.0000.0000.0000.000
35A37GLY0-0.0260.01310.3390.1650.1650.0000.0000.0000.000
36A38LEU0-0.036-0.01312.1570.2090.2090.0000.0000.0000.000
37A39VAL00.0230.00613.113-0.040-0.0400.0000.0000.0000.000
38A40THR0-0.030-0.01814.2070.0620.0620.0000.0000.0000.000
39A41PRO0-0.039-0.00516.280-0.008-0.0080.0000.0000.0000.000
40A42GLU-1-0.869-0.95119.3360.0300.0300.0000.0000.0000.000
41A43ASN0-0.053-0.05121.4330.0570.0570.0000.0000.0000.000
42A44LEU00.0820.04420.746-0.030-0.0300.0000.0000.0000.000
43A45LYS10.9100.94223.441-0.187-0.1870.0000.0000.0000.000
44A46ARG10.8890.96422.9700.0050.0050.0000.0000.0000.000
45A47ASP-1-0.854-0.91522.389-0.081-0.0810.0000.0000.0000.000
46A48LYS10.9260.95023.324-0.113-0.1130.0000.0000.0000.000
47A49GLY00.011-0.00323.9380.0380.0380.0000.0000.0000.000
48A50TRP00.0680.03314.0430.0630.0630.0000.0000.0000.000
49A51ILE00.004-0.01116.880-0.023-0.0230.0000.0000.0000.000
50A52GLY00.0030.00517.6760.0490.0490.0000.0000.0000.000
51A53VAL00.0890.05218.1140.0030.0030.0000.0000.0000.000
52A54LEU0-0.0150.00211.778-0.056-0.0560.0000.0000.0000.000
53A55LEU0-0.015-0.02414.092-0.005-0.0050.0000.0000.0000.000
54A56GLU-1-0.910-0.95615.1960.0650.0650.0000.0000.0000.000
55A57ILE0-0.0350.00612.345-0.058-0.0580.0000.0000.0000.000
56A58TRP0-0.036-0.0275.469-0.054-0.0540.0000.0000.0000.000
57A59LEU0-0.079-0.02512.0550.0250.0250.0000.0000.0000.000
58A60GLY00.045-0.01813.8960.0090.0090.0000.0000.0000.000
59A61ALA0-0.007-0.02115.1970.0230.0230.0000.0000.0000.000
60A62SER00.0230.03717.1810.0260.0260.0000.0000.0000.000
61A63ALA00.0130.00218.4660.0490.0490.0000.0000.0000.000
62A64GLY00.0050.00921.4160.0200.0200.0000.0000.0000.000
63A65SER0-0.039-0.02923.4740.0260.0260.0000.0000.0000.000
64A66LYS10.9030.94526.5150.1560.1560.0000.0000.0000.000
65A67PRO0-0.0010.02124.4920.0150.0150.0000.0000.0000.000
66A68GLU-1-0.906-0.96126.686-0.044-0.0440.0000.0000.0000.000
67A69GLN0-0.038-0.01824.1170.0210.0210.0000.0000.0000.000
68A70ASP-1-0.796-0.88621.255-0.029-0.0290.0000.0000.0000.000
69A71PHE0-0.033-0.04918.2390.0470.0470.0000.0000.0000.000
70A72ALA0-0.012-0.00223.3720.0210.0210.0000.0000.0000.000
71A73ALA0-0.033-0.01825.1570.0040.0040.0000.0000.0000.000
72A74LEU0-0.0100.00420.6350.0150.0150.0000.0000.0000.000
73A75GLY0-0.0320.00624.9480.0160.0160.0000.0000.0000.000
74A76VAL0-0.042-0.02922.1080.0240.0240.0000.0000.0000.000
75A77GLU-1-0.927-0.96124.2580.1980.1980.0000.0000.0000.000
76A78LEU00.0180.01718.3480.0600.0600.0000.0000.0000.000
77A79LYS10.8680.93421.907-0.376-0.3760.0000.0000.0000.000
78A80THR00.0170.02019.6680.0680.0680.0000.0000.0000.000
79A81ILE0-0.049-0.01920.655-0.069-0.0690.0000.0000.0000.000
80A82PRO00.0190.01821.2410.0790.0790.0000.0000.0000.000
81A83VAL0-0.012-0.01119.903-0.040-0.0400.0000.0000.0000.000
82A84ASP-1-0.697-0.85121.9810.6570.6570.0000.0000.0000.000
83A85SER00.006-0.00319.9860.0450.0450.0000.0000.0000.000
84A86LEU0-0.079-0.04620.4000.0600.0600.0000.0000.0000.000
85A87GLY0-0.0200.00420.5550.0210.0210.0000.0000.0000.000
86A88ARG10.8670.91521.240-0.600-0.6000.0000.0000.0000.000
87A89PRO0-0.0070.00524.854-0.004-0.0040.0000.0000.0000.000
88A90LEU0-0.0090.01224.218-0.033-0.0330.0000.0000.0000.000
89A91GLU-1-0.988-1.00627.6000.2860.2860.0000.0000.0000.000
90A92THR0-0.077-0.02629.6130.0080.0080.0000.0000.0000.000
91A93THR00.0550.02327.6650.0150.0150.0000.0000.0000.000
92A94PHE0-0.018-0.00929.610-0.024-0.0240.0000.0000.0000.000
93A95VAL00.0210.01529.7490.0150.0150.0000.0000.0000.000
94A96CYS0-0.030-0.01731.570-0.010-0.0100.0000.0000.0000.000
95A97VAL0-0.008-0.00534.1630.0040.0040.0000.0000.0000.000
96A98ALA0-0.0090.01137.2880.0000.0000.0000.0000.0000.000
97A99PRO0-0.035-0.01240.543-0.004-0.0040.0000.0000.0000.000
98A100LEU00.024-0.02043.3560.0030.0030.0000.0000.0000.000
99A101THR0-0.0020.01546.791-0.002-0.0020.0000.0000.0000.000
100A102GLY00.014-0.00147.1320.0010.0010.0000.0000.0000.000
101A103ASN00.0080.01045.216-0.005-0.0050.0000.0000.0000.000
102A104SER00.0490.01946.9860.0050.0050.0000.0000.0000.000
103A105GLY0-0.026-0.01548.789-0.002-0.0020.0000.0000.0000.000
104A106VAL0-0.0210.01143.1430.0010.0010.0000.0000.0000.000
105A107THR00.0320.02044.5250.0020.0020.0000.0000.0000.000
106A108TRP00.0660.02536.7510.0000.0000.0000.0000.0000.000
107A109GLU-1-0.873-0.95740.1620.1230.1230.0000.0000.0000.000
108A110THR0-0.046-0.02839.7820.0020.0020.0000.0000.0000.000
109A111SER0-0.0070.02338.947-0.002-0.0020.0000.0000.0000.000
110A112HIS00.029-0.02235.5710.0140.0140.0000.0000.0000.000
111A113VAL00.0150.00634.3680.0110.0110.0000.0000.0000.000
112A114ARG11.0321.02633.803-0.139-0.1390.0000.0000.0000.000
113A115HIS0-0.025-0.01431.4920.0060.0060.0000.0000.0000.000
114A116LYS10.9050.93430.320-0.135-0.1350.0000.0000.0000.000
115A117LEU0-0.016-0.01029.2080.0250.0250.0000.0000.0000.000
116A118LYS10.9120.98930.321-0.157-0.1570.0000.0000.0000.000
117A119ARG10.8530.92923.856-0.375-0.3750.0000.0000.0000.000
118A120VAL0-0.0310.00324.028-0.019-0.0190.0000.0000.0000.000
119A121LEU00.0440.03417.1820.0390.0390.0000.0000.0000.000
120A122TRP0-0.026-0.01920.963-0.031-0.0310.0000.0000.0000.000
121A123ILE00.0520.01415.3930.1000.1000.0000.0000.0000.000
122A124PRO0-0.006-0.01516.943-0.074-0.0740.0000.0000.0000.000
123A125VAL00.0310.01316.0130.1360.1360.0000.0000.0000.000
124A126GLU-1-0.783-0.85016.9270.9580.9580.0000.0000.0000.000
125A127GLY00.005-0.01719.345-0.041-0.0410.0000.0000.0000.000
126A128GLU-1-0.868-0.93122.2750.3340.3340.0000.0000.0000.000
127A129ARG10.9550.96523.333-0.248-0.2480.0000.0000.0000.000
128A130SER0-0.127-0.06924.468-0.010-0.0100.0000.0000.0000.000
129A131ILE00.0600.04618.974-0.023-0.0230.0000.0000.0000.000
130A132PRO00.0380.03018.637-0.012-0.0120.0000.0000.0000.000
131A133LEU00.0140.00017.6110.0750.0750.0000.0000.0000.000
132A134ALA00.0470.01013.9950.0800.0800.0000.0000.0000.000
133A135GLN0-0.005-0.00913.3820.0100.0100.0000.0000.0000.000
134A136ARG10.8060.92715.248-0.377-0.3770.0000.0000.0000.000
135A137ARG10.8590.91212.529-1.396-1.3960.0000.0000.0000.000
136A138VAL0-0.0030.01811.511-0.360-0.3600.0000.0000.0000.000
137A139GLY0-0.0040.00612.8650.2640.2640.0000.0000.0000.000
138A140SER00.0100.02613.4320.2540.2540.0000.0000.0000.000
139A141PRO0-0.024-0.00313.602-0.199-0.1990.0000.0000.0000.000
140A142LEU0-0.0040.00016.4930.0180.0180.0000.0000.0000.000
141A143LEU00.0030.00919.838-0.049-0.0490.0000.0000.0000.000
142A144TRP0-0.037-0.04321.8720.0030.0030.0000.0000.0000.000
143A145SER00.007-0.03725.517-0.021-0.0210.0000.0000.0000.000
144A146PRO0-0.0650.00429.0730.0140.0140.0000.0000.0000.000
145A147ASN00.0520.03532.248-0.023-0.0230.0000.0000.0000.000
146A148GLU-1-0.840-0.94634.1240.1880.1880.0000.0000.0000.000
147A149GLU-1-0.988-1.00137.5370.2380.2380.0000.0000.0000.000
148A150GLU-1-0.954-0.98832.5580.3340.3340.0000.0000.0000.000
149A151ASP-1-0.893-0.98036.0660.1870.1870.0000.0000.0000.000
150A152ARG10.9660.99437.391-0.195-0.1950.0000.0000.0000.000
151A153GLN00.0040.00338.921-0.009-0.0090.0000.0000.0000.000
152A154LEU0-0.047-0.02834.004-0.002-0.0020.0000.0000.0000.000
153A155ARG10.8220.92138.587-0.142-0.1420.0000.0000.0000.000
154A156GLU-1-0.904-0.94941.4420.1580.1580.0000.0000.0000.000
155A157ASP-1-0.704-0.83939.9620.1940.1940.0000.0000.0000.000
156A158TRP0-0.063-0.04439.364-0.007-0.0070.0000.0000.0000.000
157A159GLU-1-0.872-0.95541.9140.1200.1200.0000.0000.0000.000
158A160GLU-1-0.863-0.90745.4720.1390.1390.0000.0000.0000.000
159A161LEU0-0.042-0.04441.265-0.007-0.0070.0000.0000.0000.000
160A162MET0-0.056-0.03343.224-0.007-0.0070.0000.0000.0000.000
161A163ASP-1-0.853-0.91246.0580.0980.0980.0000.0000.0000.000
162A164MET0-0.069-0.04848.137-0.004-0.0040.0000.0000.0000.000
163A165ILE0-0.079-0.03844.155-0.005-0.0050.0000.0000.0000.000
164A166VAL0-0.0120.00248.620-0.006-0.0060.0000.0000.0000.000
165A167LEU0-0.072-0.02551.104-0.006-0.0060.0000.0000.0000.000
166A168GLY00.0160.02152.714-0.002-0.0020.0000.0000.0000.000
167A169GLN0-0.080-0.03451.7200.0030.0030.0000.0000.0000.000
168A170VAL00.1140.03946.5750.0060.0060.0000.0000.0000.000
169A171GLU-1-0.890-0.95947.9410.0980.0980.0000.0000.0000.000
170A172ARG10.8360.91750.146-0.093-0.0930.0000.0000.0000.000
171A173ILE00.0190.03044.2980.0040.0040.0000.0000.0000.000
172A174THR0-0.103-0.03745.1140.0030.0030.0000.0000.0000.000
173A175ALA0-0.015-0.03640.9760.0020.0020.0000.0000.0000.000
174A176ARG10.8820.92142.366-0.157-0.1570.0000.0000.0000.000
175A177HIS00.0880.07244.5960.0020.0020.0000.0000.0000.000
176A178GLY00.0670.04941.6240.0030.0030.0000.0000.0000.000
177A179GLU-1-0.920-0.96840.0610.2200.2200.0000.0000.0000.000
178A180TYR0-0.105-0.05235.5330.0200.0200.0000.0000.0000.000
179A181LEU0-0.025-0.03035.2660.0120.0120.0000.0000.0000.000
180A182GLN00.0510.01137.282-0.015-0.0150.0000.0000.0000.000
181A183ILE00.0390.04838.1020.0020.0020.0000.0000.0000.000
182A184ARG10.8730.94336.446-0.219-0.2190.0000.0000.0000.000
183A185PRO00.0360.00239.424-0.003-0.0030.0000.0000.0000.000
184A186LYS10.9210.97534.460-0.112-0.1120.0000.0000.0000.000
185A187ALA0-0.066-0.05736.233-0.010-0.0100.0000.0000.0000.000
186A188ALA00.0010.02536.3330.0140.0140.0000.0000.0000.000
187A189ASN0-0.045-0.02837.198-0.010-0.0100.0000.0000.0000.000
188A190ALA00.0610.02740.9930.0000.0000.0000.0000.0000.000
189A191LYS10.9380.95439.138-0.073-0.0730.0000.0000.0000.000
190A192ALA00.0040.02242.146-0.006-0.0060.0000.0000.0000.000
191A193LEU00.005-0.01244.0160.0060.0060.0000.0000.0000.000
192A194THR0-0.028-0.01244.741-0.006-0.0060.0000.0000.0000.000
193A195GLU-1-0.945-0.97046.8310.0460.0460.0000.0000.0000.000
194A196ALA0-0.002-0.01149.0510.0040.0040.0000.0000.0000.000
195A197ILE00.0530.03250.932-0.005-0.0050.0000.0000.0000.000
196A198GLY0-0.010-0.00353.3970.0050.0050.0000.0000.0000.000
197A199ALA00.0160.00355.9060.0000.0000.0000.0000.0000.000
198A200ARG10.8920.94757.908-0.052-0.0520.0000.0000.0000.000
199A201GLY00.0270.02157.878-0.003-0.0030.0000.0000.0000.000
200A202GLU-1-0.881-0.94858.1650.0580.0580.0000.0000.0000.000
201A203ARG11.0031.00754.553-0.039-0.0390.0000.0000.0000.000
202A204ILE0-0.037-0.00951.309-0.001-0.0010.0000.0000.0000.000
203A205LEU0-0.036-0.01650.900-0.001-0.0010.0000.0000.0000.000
204A206THR00.0490.02347.1270.0050.0050.0000.0000.0000.000
205A207LEU00.0060.01543.248-0.003-0.0030.0000.0000.0000.000
206A208PRO00.0400.00740.7990.0040.0040.0000.0000.0000.000
207A209ARG10.8750.94640.660-0.103-0.1030.0000.0000.0000.000
208A210GLY0-0.013-0.00836.997-0.006-0.0060.0000.0000.0000.000
209A211PHE00.0640.03936.3450.0040.0040.0000.0000.0000.000
210A212TYR0-0.058-0.05332.8470.0030.0030.0000.0000.0000.000
211A213LEU00.0520.03229.937-0.008-0.0080.0000.0000.0000.000
212A214LYS10.8890.95732.556-0.222-0.2220.0000.0000.0000.000
213A215LYS10.9700.98530.072-0.373-0.3730.0000.0000.0000.000
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