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: Z2M5N

Calculation Name: 1UUN-A-Xray315

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 1UUN

Chain ID: A

ChEMBL ID:

UniProt ID: A0QR29

Base Structure: X-ray

Registration Date: 2021-09-06

Reference: C. Watanabe, S. Koyama, K. Kamisaka, D. Takaya, T. Honma et. al., Interaction energy analysis of Apo structure dataset on FMODB, To be pubulished.

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. 1.20200129
FMO calculation
FMO method FMO2-MP2/6-31G(d)
Fragmentation Auto
Number of fragment 184
LigandCharge
Software ABINIT-MP - Open Ver.1 Rev. 15 / 20190524
Total energy (hartree)
FMO2-HF: Electronic energy -1456446.793024
FMO2-HF: Nuclear repulsion 1389131.398402
FMO2-HF: Total energy -67315.394621
FMO2-MP2: Total energy -67516.000883


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.
-236.607-238.06216.539-9.069-6.014-0.102
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 : 1 / q_Mulliken : 0.770 / q_NPA : 0.863
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].
3A3ASP -1-0.832-0.9183.815-61.865-61.074-0.002-0.298-0.492-0.001
4A4ASN 0-0.0140.0076.0997.5557.5550.0000.0000.0000.000
5A5GLU -1-0.847-0.9269.308-28.585-28.5850.0000.0000.0000.000
6A6LEU 0-0.013-0.00911.5671.4591.4590.0000.0000.0000.000
7A7SER 0-0.024-0.02815.349-0.424-0.4240.0000.0000.0000.000
8A8LEU 0-0.028-0.01518.0100.5070.5070.0000.0000.0000.000
9A9VAL 0-0.0270.00121.668-0.151-0.1510.0000.0000.0000.000
10A10ASP -1-0.789-0.88224.564-11.915-11.9150.0000.0000.0000.000
11A11GLY 00.006-0.00926.2480.3220.3220.0000.0000.0000.000
12A12GLN 0-0.116-0.06428.8250.4420.4420.0000.0000.0000.000
13A13ASP -1-0.948-0.97128.180-10.345-10.3450.0000.0000.0000.000
14A14ARG 10.8480.92824.07911.88811.8880.0000.0000.0000.000
15A15THR 0-0.054-0.02719.461-0.070-0.0700.0000.0000.0000.000
16A16LEU 00.0110.01119.551-0.473-0.4730.0000.0000.0000.000
17A17THR 00.0290.02313.3300.2860.2860.0000.0000.0000.000
18A18VAL 00.0220.03113.786-0.350-0.3500.0000.0000.0000.000
19A19GLN 0-0.025-0.0468.953-2.955-2.9550.0000.0000.0000.000
20A20GLN 0-0.015-0.0048.2180.7010.7010.0000.0000.0000.000
21A21TRP 0-0.042-0.0352.799-10.023-9.2750.320-0.404-0.664-0.004
22A22ASP -1-0.864-0.9441.695-109.924-113.32716.194-8.221-4.569-0.095
23A23THR 0-0.074-0.0233.43113.22713.6360.027-0.146-0.289-0.002
24A24PHE 0-0.013-0.0126.868-0.003-0.0030.0000.0000.0000.000
25A25LEU 00.0110.0099.1771.9501.9500.0000.0000.0000.000
26A26ASN 0-0.031-0.01412.8351.0681.0680.0000.0000.0000.000
27A27GLY 00.0670.02114.7881.0551.0550.0000.0000.0000.000
28A28VAL 0-0.049-0.01518.299-0.057-0.0570.0000.0000.0000.000
29A29PHE 0-0.043-0.03321.0410.5730.5730.0000.0000.0000.000
30A30PRO 00.0250.02424.757-0.073-0.0730.0000.0000.0000.000
31A31LEU 00.0700.03726.4840.5930.5930.0000.0000.0000.000
32A32ASP -1-0.830-0.88928.364-10.224-10.2240.0000.0000.0000.000
33A33ARG 10.8130.89430.18810.09910.0990.0000.0000.0000.000
34A34ASN 00.0400.04530.9320.3300.3300.0000.0000.0000.000
35A35ARG 10.9780.96130.3338.8668.8660.0000.0000.0000.000
36A36LEU 0-0.0260.00530.324-0.206-0.2060.0000.0000.0000.000
37A37THR 0-0.024-0.01527.074-0.054-0.0540.0000.0000.0000.000
38A38ARG 10.7600.87123.08811.99311.9930.0000.0000.0000.000
39A39GLU -1-0.773-0.88322.306-12.870-12.8700.0000.0000.0000.000
40A40TRP 00.0180.01217.0740.0210.0210.0000.0000.0000.000
41A41PHE 0-0.023-0.01215.7990.5310.5310.0000.0000.0000.000
42A42HIS 00.0200.03011.4160.3010.3010.0000.0000.0000.000
43A43SER 0-0.010-0.0039.5261.5401.5400.0000.0000.0000.000
44A44GLY 00.0460.0287.029-1.847-1.8470.0000.0000.0000.000
45A45ARG 10.8580.9255.65242.86242.8620.0000.0000.0000.000
46A46ALA 00.0570.0418.226-2.433-2.4330.0000.0000.0000.000
47A47LYS 10.8630.9266.71838.21838.2180.0000.0000.0000.000
48A48TYR 0-0.016-0.02211.517-0.440-0.4400.0000.0000.0000.000
49A49ILE 00.0150.00812.039-0.245-0.2450.0000.0000.0000.000
50A50VAL 0-0.0080.00616.0730.3080.3080.0000.0000.0000.000
51A51ALA 0-0.0050.00419.8200.2830.2830.0000.0000.0000.000
52A52GLY 00.0170.00921.8060.2490.2490.0000.0000.0000.000
53A53PRO 0-0.004-0.02125.574-0.055-0.0550.0000.0000.0000.000
54A54GLY 00.0470.02327.834-0.135-0.1350.0000.0000.0000.000
55A55ALA 0-0.046-0.01022.892-0.153-0.1530.0000.0000.0000.000
56A56ASP -1-0.929-0.97423.843-13.123-13.1230.0000.0000.0000.000
57A57GLU -1-0.948-0.97925.300-10.752-10.7520.0000.0000.0000.000
58A58PHE 0-0.062-0.02121.1220.2160.2160.0000.0000.0000.000
59A59GLU -1-0.903-0.95524.684-11.769-11.7690.0000.0000.0000.000
60A60GLY 0-0.015-0.01222.7980.0770.0770.0000.0000.0000.000
61A61THR 00.0050.01821.4020.2560.2560.0000.0000.0000.000
62A62LEU 0-0.022-0.01513.976-0.599-0.5990.0000.0000.0000.000
63A63GLU -1-0.842-0.90117.293-14.732-14.7320.0000.0000.0000.000
64A64LEU 0-0.027-0.00810.573-1.497-1.4970.0000.0000.0000.000
65A65GLY 00.0100.00414.6861.2661.2660.0000.0000.0000.000
66A66TYR 00.0150.00914.996-1.056-1.0560.0000.0000.0000.000
67A67GLN 00.0250.02817.2580.6690.6690.0000.0000.0000.000
68A68ILE 00.001-0.00119.406-0.757-0.7570.0000.0000.0000.000
69A69GLY 00.0070.00422.0040.6280.6280.0000.0000.0000.000
70A70PHE 00.007-0.00624.210-0.411-0.4110.0000.0000.0000.000
71A71PRO 0-0.0300.00326.9880.2950.2950.0000.0000.0000.000
72A72TRP 00.002-0.00530.3350.4260.4260.0000.0000.0000.000
73A73SER 00.0630.02631.910-0.428-0.4280.0000.0000.0000.000
74A74LEU 0-0.058-0.02634.2120.2380.2380.0000.0000.0000.000
75A75GLY 00.0370.02635.877-0.155-0.1550.0000.0000.0000.000
76A76VAL 0-0.027-0.02938.5210.1280.1280.0000.0000.0000.000
77A77GLY 00.0300.02640.900-0.034-0.0340.0000.0000.0000.000
78A78ILE 0-0.031-0.02543.5750.1020.1020.0000.0000.0000.000
79A79ASN 0-0.013-0.00546.6970.1080.1080.0000.0000.0000.000
80A80PHE 00.0170.00650.2010.0550.0550.0000.0000.0000.000
81A81SER 0-0.035-0.01552.8860.0660.0660.0000.0000.0000.000
82A82TYR 00.0650.00756.3730.0400.0400.0000.0000.0000.000
83A83THR 0-0.051-0.01259.942-0.018-0.0180.0000.0000.0000.000
84A84THR 00.0120.01063.1410.0270.0270.0000.0000.0000.000
85A85PRO 00.0050.00566.3620.0150.0150.0000.0000.0000.000
86A86ASN 00.002-0.01569.3800.0890.0890.0000.0000.0000.000
87A87ILE 0-0.014-0.00871.462-0.006-0.0060.0000.0000.0000.000
88A88LEU 00.0030.02471.0580.0090.0090.0000.0000.0000.000
89A89ILE 0-0.034-0.02074.8550.0050.0050.0000.0000.0000.000
90A90ASP -1-0.923-0.96675.042-4.384-4.3840.0000.0000.0000.000
91A91ASP -1-0.889-0.92977.165-4.154-4.1540.0000.0000.0000.000
92A92GLY 0-0.027-0.01180.2030.0420.0420.0000.0000.0000.000
93A93ASP -1-0.830-0.88682.473-3.653-3.6530.0000.0000.0000.000
94A94ILE 00.005-0.01484.1080.0140.0140.0000.0000.0000.000
95A95THR 0-0.082-0.06587.0080.0430.0430.0000.0000.0000.000
96A96ARG 10.8760.93389.8693.6583.6580.0000.0000.0000.000
97A97PRO 00.0000.03589.355-0.050-0.0500.0000.0000.0000.000
98A98PRO 0-0.034-0.02985.3180.0220.0220.0000.0000.0000.000
99A99PHE 0-0.001-0.04085.449-0.038-0.0380.0000.0000.0000.000
100A100GLY 00.0740.04482.982-0.036-0.0360.0000.0000.0000.000
101A101LEU 0-0.013-0.00780.298-0.060-0.0600.0000.0000.0000.000
102A102ASN 0-0.047-0.02980.826-0.043-0.0430.0000.0000.0000.000
103A103SER 0-0.035-0.01478.755-0.017-0.0170.0000.0000.0000.000
104A104VAL 00.0070.01174.967-0.005-0.0050.0000.0000.0000.000
105A105ILE 00.0180.02070.074-0.039-0.0390.0000.0000.0000.000
106A106THR 0-0.027-0.02068.7850.0360.0360.0000.0000.0000.000
107A107PRO 0-0.0150.00365.226-0.049-0.0490.0000.0000.0000.000
108A108ASN 00.009-0.01561.2480.0770.0770.0000.0000.0000.000
109A109LEU 00.0120.00764.277-0.006-0.0060.0000.0000.0000.000
110A110PHE 0-0.026-0.00561.6960.0250.0250.0000.0000.0000.000
111A111PRO 0-0.011-0.00858.078-0.029-0.0290.0000.0000.0000.000
112A112GLY 00.0080.01056.7010.0150.0150.0000.0000.0000.000
113A113VAL 0-0.017-0.01150.162-0.062-0.0620.0000.0000.0000.000
114A114SER 0-0.033-0.00351.1980.0290.0290.0000.0000.0000.000
115A115ILE 00.006-0.01043.211-0.094-0.0940.0000.0000.0000.000
116A116SER 00.0200.01545.9730.1440.1440.0000.0000.0000.000
117A117ALA 0-0.043-0.02340.766-0.146-0.1460.0000.0000.0000.000
118A118ASP -1-0.902-0.93341.213-7.279-7.2790.0000.0000.0000.000
119A119LEU 0-0.020-0.02535.413-0.259-0.2590.0000.0000.0000.000
120A120GLY 00.0190.01437.4150.2450.2450.0000.0000.0000.000
121A121ASN 0-0.025-0.02135.397-0.093-0.0930.0000.0000.0000.000
122A122GLY 00.0250.01631.8700.0960.0960.0000.0000.0000.000
123A123PRO 0-0.044-0.02129.7170.2170.2170.0000.0000.0000.000
124A124GLY 0-0.0050.01530.1050.0240.0240.0000.0000.0000.000
125A125ILE 0-0.060-0.03623.928-0.318-0.3180.0000.0000.0000.000
126A126GLN 00.0460.02425.1020.1370.1370.0000.0000.0000.000
127A127GLU -1-0.868-0.93421.006-15.422-15.4220.0000.0000.0000.000
128A128VAL 0-0.0270.00020.0450.6460.6460.0000.0000.0000.000
129A129ALA 00.0350.01219.144-0.913-0.9130.0000.0000.0000.000
130A130THR 0-0.053-0.05815.1360.8820.8820.0000.0000.0000.000
131A131PHE 0-0.036-0.02112.9760.2390.2390.0000.0000.0000.000
132A132SER 0-0.041-0.05918.096-0.463-0.4630.0000.0000.0000.000
133A133VAL 0-0.028-0.01618.3720.6360.6360.0000.0000.0000.000
134A134ASP -1-0.865-0.92320.763-12.927-12.9270.0000.0000.0000.000
135A135VAL 0-0.103-0.04717.888-0.597-0.5970.0000.0000.0000.000
136A136SER 00.0330.01121.3450.3620.3620.0000.0000.0000.000
137A137GLY 00.0180.02621.778-0.448-0.4480.0000.0000.0000.000
138A138ALA 00.0390.00820.403-0.568-0.5680.0000.0000.0000.000
139A139GLU -1-0.980-0.98814.790-20.238-20.2380.0000.0000.0000.000
140A140GLY 00.0510.03414.8380.8130.8130.0000.0000.0000.000
141A141GLY 00.0260.00612.724-1.218-1.2180.0000.0000.0000.000
142A142VAL 0-0.079-0.01912.8210.4800.4800.0000.0000.0000.000
143A143ALA 0-0.025-0.01110.008-2.427-2.4270.0000.0000.0000.000
144A144VAL 00.0210.02110.6652.4812.4810.0000.0000.0000.000
145A145SER 0-0.027-0.02410.824-2.712-2.7120.0000.0000.0000.000
146A146ASN 0-0.007-0.01812.6100.8860.8860.0000.0000.0000.000
147A147ALA 00.0440.03314.9001.5181.5180.0000.0000.0000.000
148A148HIS 0-0.062-0.04116.888-0.662-0.6620.0000.0000.0000.000
149A149GLY 00.0150.02019.6690.1730.1730.0000.0000.0000.000
150A150THR 0-0.066-0.04821.0170.2220.2220.0000.0000.0000.000
151A151VAL 00.0150.01123.9770.1670.1670.0000.0000.0000.000
152A152THR 0-0.014-0.04426.5720.0790.0790.0000.0000.0000.000
153A153GLY 00.0130.02229.8720.1130.1130.0000.0000.0000.000
154A154ALA 0-0.0120.00228.1960.1310.1310.0000.0000.0000.000
155A155ALA 00.010-0.01330.1990.0570.0570.0000.0000.0000.000
156A156GLY 0-0.026-0.02629.665-0.025-0.0250.0000.0000.0000.000
157A157GLY 00.0190.00925.620-0.165-0.1650.0000.0000.0000.000
158A158VAL 0-0.041-0.01621.6380.1630.1630.0000.0000.0000.000
159A159LEU 00.0200.01619.529-0.608-0.6080.0000.0000.0000.000
160A160LEU 00.0170.00516.3750.5030.5030.0000.0000.0000.000
161A161ARG 10.8960.94815.82915.21815.2180.0000.0000.0000.000
162A162PRO 00.0150.02011.3791.0891.0890.0000.0000.0000.000
163A163PHE 00.0170.00413.793-0.389-0.3890.0000.0000.0000.000
164A164ALA 00.0220.00812.001-0.741-0.7410.0000.0000.0000.000
165A165ARG 10.7920.88514.07216.07716.0770.0000.0000.0000.000
166A166LEU 00.0180.01717.424-0.427-0.4270.0000.0000.0000.000
167A167ILE 0-0.028-0.02318.9880.4350.4350.0000.0000.0000.000
168A168ALA 00.0600.03322.770-0.017-0.0170.0000.0000.0000.000
169A169SER 0-0.031-0.01124.9060.3320.3320.0000.0000.0000.000
170A170THR 0-0.053-0.03227.8400.4750.4750.0000.0000.0000.000
171A171GLY 0-0.034-0.01828.1830.3680.3680.0000.0000.0000.000
172A172ASP -1-0.830-0.91925.626-11.749-11.7490.0000.0000.0000.000
173A173SER 0-0.031-0.01122.673-0.467-0.4670.0000.0000.0000.000
174A174VAL 00.0360.03117.8100.2150.2150.0000.0000.0000.000
175A175THR 0-0.035-0.03217.339-0.177-0.1770.0000.0000.0000.000
176A176THR 0-0.010-0.00312.1690.8510.8510.0000.0000.0000.000
177A177TYR 0-0.003-0.01714.487-0.156-0.1560.0000.0000.0000.000
178A178GLY 0-0.005-0.00511.296-1.215-1.2150.0000.0000.0000.000
179A179GLU -1-0.957-0.98211.242-20.647-20.6470.0000.0000.0000.000
180A180PRO 0-0.063-0.03612.583-0.898-0.8980.0000.0000.0000.000
181A181TRP 00.0570.0308.4440.4370.4370.0000.0000.0000.000
182A182ASN 0-0.004-0.02315.1941.2601.2600.0000.0000.0000.000
183A183MET 0-0.0240.00215.992-0.110-0.1100.0000.0000.0000.000
184A184ASN -1-0.927-0.93520.373-12.269-12.2690.0000.0000.0000.000