FMODB

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

Last updated: 2024-07-23

All entries: 37450

Number of unique PDB entries: 7783

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FMODB ID: 8222Y

Calculation Name: 5RUR-A-Xray89

Preferred Name:

Target Type:

Ligand Name: 6-fluoro-1,3-benzothiazol-2-amine

ligand 3-letter code: FBB

PDB ID: 5RUR

Chain ID: A

ChEMBL ID:

UniProt ID:

Base Structure: X-ray

Registration Date: 2021-10-07

Reference: T. Ohyama, K. Kamisaka, C. Watanabe, T. Honma et. al., FMO-based interaction energy analysis of SARS-Cov-2 related protein and ligand complexes, To be published.

DOI:


IFIE MAP

IFIE Diagram


Modeling method
Optimization MOE:Amber10:EHT
Restraint OptHLSideSolv
Protonation MOE:Protonate 3D
Complement MOE:Structure Preparation
Water Waters within average of the temperature factors of receptor.
Procedure Auto-FMO protocol ver. 1.20200406
FMO calculation
FMO method FMO2-MP2/6-31G(d)
Fragmentation Auto
Number of fragment 207
LigandCharge FBB=1
Software ABINIT-MP - Open Ver.1 Rev. 16 beta / 20190613
Total energy (hartree)
FMO2-HF: Electronic energy -1795052.569295
FMO2-HF: Nuclear repulsion 1728686.16522
FMO2-HF: Total energy -66366.404074
FMO2-MP2: Total energy -66559.815843


3D Structure
Snapshot
 
Ligand structure

FBB

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.
-78.593-69.87040.725-17.407-32.0440.133


Interactive mode: IFIE and PIEDA for fragment #207(A:201:FBB )


Summations of interaction energy for fragment #207(A:201:FBB )
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.
-78.593-69.8740.725-17.407-32.044-0.133
Interaction energy analysis for fragmet #207(A:201:FBB )
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 1 / q_Mulliken : 0.868 / q_NPA : 0.939
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].
1A3VAL 00.012-0.00624.3140.0030.0030.0000.0000.0000.000
2A4ASN 0-0.011-0.01519.536-0.460-0.4600.0000.0000.0000.000
3A5SER 00.0300.00417.4930.2240.2240.0000.0000.0000.000
4A6PHE 0-0.0460.00112.655-1.004-1.0040.0000.0000.0000.000
5A7SER 00.0270.01015.6830.8750.8750.0000.0000.0000.000
6A8GLY 00.013-0.00615.426-1.460-1.4600.0000.0000.0000.000
7A9TYR 0-0.061-0.04111.403-1.121-1.1210.0000.0000.0000.000
8A10LEU 00.0050.01415.6251.0461.0460.0000.0000.0000.000
9A11LYS 10.8080.89816.79812.17912.1790.0000.0000.0000.000
10A12LEU 0-0.062-0.02515.1120.2140.2140.0000.0000.0000.000
11A13THR 00.025-0.00119.3270.4580.4580.0000.0000.0000.000
12A14ASP -1-0.864-0.90821.625-11.552-11.5520.0000.0000.0000.000
13A15ASN 0-0.007-0.00619.6000.2060.2060.0000.0000.0000.000
14A16VAL 00.0060.01515.075-0.819-0.8190.0000.0000.0000.000
15A17TYR 00.0410.02915.4920.6720.6720.0000.0000.0000.000
16A18ILE 00.0200.00710.949-1.382-1.3820.0000.0000.0000.000
17A19LYS 10.8340.90210.77025.82925.8290.0000.0000.0000.000
18A20ASN 0-0.055-0.0288.432-0.537-0.5370.0000.0000.0000.000
19A21ALA 00.018-0.0037.5621.2201.2200.0000.0000.0000.000
20A22ASP -1-0.780-0.8801.934-135.465-141.70226.370-9.935-10.199-0.122
21A23ILE 00.039-0.0022.7641.5412.0772.496-0.740-2.292-0.004
22A24VAL 00.0250.0202.4255.7807.6171.566-0.941-2.463-0.005
23A25GLU -1-0.836-0.9024.079-34.592-34.4100.000-0.045-0.1370.000
24A26GLU -1-0.772-0.8516.108-20.641-20.6410.0000.0000.0000.000
25A27ALA 0-0.018-0.0167.4133.9163.9160.0000.0000.0000.000
26A28LYS 10.8360.9076.43440.33640.3360.0000.0000.0000.000
27A29LYS 10.8290.9159.93427.02627.0260.0000.0000.0000.000
28A30VAL 0-0.041-0.02811.8701.6301.6300.0000.0000.0000.000
29A31LYS 10.8760.96312.64821.53921.5390.0000.0000.0000.000
30A32PRO 00.0030.01712.2421.3371.3370.0000.0000.0000.000
31A33THR 00.032-0.00415.294-0.187-0.1870.0000.0000.0000.000
32A34VAL 0-0.016-0.01314.4160.1790.1790.0000.0000.0000.000
33A35VAL 00.0070.0118.759-0.640-0.6400.0000.0000.0000.000
34A36VAL 00.004-0.0019.9170.9820.9820.0000.0000.0000.000
35A37ASN 0-0.006-0.0268.353-5.483-5.4830.0000.0000.0000.000
36A38ALA 0-0.0120.0156.8902.2142.2140.0000.0000.0000.000
37A39ALA 00.0430.0408.721-0.990-0.9900.0000.0000.0000.000
38A40ASN 00.000-0.01711.9201.7061.7060.0000.0000.0000.000
39A41VAL 00.0440.02114.315-0.112-0.1120.0000.0000.0000.000
40A42TYR 00.0100.00617.5280.4410.4410.0000.0000.0000.000
41A43LEU 0-0.0020.01215.360-0.076-0.0760.0000.0000.0000.000
42A44LYS 10.9851.00715.77716.24816.2480.0000.0000.0000.000
43A45HIS 00.0210.01410.922-2.249-2.2490.0000.0000.0000.000
44A46GLY 00.0460.03511.389-1.086-1.0860.0000.0000.0000.000
45A47GLY 00.0400.0067.366-0.805-0.8050.0000.0000.0000.000
46A48GLY 0-0.0070.0053.7921.1021.4650.017-0.117-0.2630.001
47A49VAL 00.004-0.0162.188-8.514-6.9812.328-0.757-3.103-0.001
48A50ALA 00.0240.0284.382-1.951-1.6750.010-0.023-0.2640.000
49A51GLY 0-0.0130.0047.6771.1011.1010.0000.0000.0000.000
50A52ALA 0-0.015-0.0072.735-0.4180.4731.799-0.659-2.0310.002
51A53LEU 00.012-0.0064.8720.8991.178-0.001-0.018-0.2600.000
52A54ASN 00.0670.0116.5753.8173.8170.0000.0000.0000.000
53A55LYS 10.9610.9916.87136.65936.6590.0000.0000.0000.000
54A56ALA 0-0.035-0.0085.8312.4652.4650.0000.0000.0000.000
55A57THR 0-0.043-0.0097.9112.9252.9250.0000.0000.0000.000
56A58ASN 0-0.036-0.02411.0381.7281.7280.0000.0000.0000.000
57A59ASN 0-0.0030.00112.3150.5430.5430.0000.0000.0000.000
58A60ALA 00.0420.03214.1361.0401.0400.0000.0000.0000.000
59A61MET 00.0020.01010.6240.1060.1060.0000.0000.0000.000
60A62GLN 0-0.062-0.03314.415-0.690-0.6900.0000.0000.0000.000
61A63VAL 00.0340.02916.0020.8510.8510.0000.0000.0000.000
62A64GLU -1-0.724-0.83917.382-16.444-16.4440.0000.0000.0000.000
63A65SER 00.004-0.00816.4120.3720.3720.0000.0000.0000.000
64A66ASP -1-0.814-0.89518.834-15.556-15.5560.0000.0000.0000.000
65A67ASP -1-0.816-0.85721.460-11.727-11.7270.0000.0000.0000.000
66A68TYR 00.0400.00921.0830.5220.5220.0000.0000.0000.000
67A69ILE 0-0.042-0.02720.0690.5210.5210.0000.0000.0000.000
68A70ALA 0-0.0250.00123.5660.4970.4970.0000.0000.0000.000
69A71THR 0-0.038-0.00826.4640.6300.6300.0000.0000.0000.000
70A72ASN 0-0.090-0.05324.8810.7270.7270.0000.0000.0000.000
71A73GLY 00.0140.02325.8930.2320.2320.0000.0000.0000.000
72A74PRO 0-0.062-0.03722.087-0.473-0.4730.0000.0000.0000.000
73A75LEU 0-0.010-0.00317.2050.4330.4330.0000.0000.0000.000
74A76LYS 10.9820.98421.15211.20611.2060.0000.0000.0000.000
75A77VAL 00.0340.00816.888-0.599-0.5990.0000.0000.0000.000
76A78GLY 00.0090.01517.3530.6400.6400.0000.0000.0000.000
77A79GLY 0-0.026-0.00518.6580.2470.2470.0000.0000.0000.000
78A80SER 0-0.017-0.04217.052-0.843-0.8430.0000.0000.0000.000
79A81CYS 0-0.0410.00717.4740.5780.5780.0000.0000.0000.000
80A82VAL 00.0130.00917.422-1.097-1.0970.0000.0000.0000.000
81A83LEU 00.0060.01117.0650.7120.7120.0000.0000.0000.000
82A84SER 00.0300.01217.628-0.499-0.4990.0000.0000.0000.000
83A85GLY 0-0.0080.00813.973-1.071-1.0710.0000.0000.0000.000
84A86HIS 0-0.032-0.03313.131-1.688-1.6880.0000.0000.0000.000
85A87ASN 0-0.023-0.02510.8710.5670.5670.0000.0000.0000.000
86A88LEU 0-0.020-0.0207.685-0.917-0.9170.0000.0000.0000.000
87A89ALA 0-0.006-0.00411.174-0.581-0.5810.0000.0000.0000.000
88A90LYS 10.8560.94813.99114.27014.2700.0000.0000.0000.000
89A91HIS 00.0350.01616.8561.0201.0200.0000.0000.0000.000
90A92CYS 0-0.019-0.00812.412-1.970-1.9700.0000.0000.0000.000
91A93LEU 0-0.0300.00813.8411.1731.1730.0000.0000.0000.000
92A94HIS 00.0510.00312.884-2.476-2.4760.0000.0000.0000.000
93A95VAL 00.0140.00212.4891.5631.5630.0000.0000.0000.000
94A96VAL 0-0.0390.00812.487-1.465-1.4650.0000.0000.0000.000
95A97GLY 00.0560.03312.5081.0421.0420.0000.0000.0000.000
96A98PRO 0-0.0040.00713.536-0.356-0.3560.0000.0000.0000.000
97A99ASN 0-0.031-0.01512.266-0.712-0.7120.0000.0000.0000.000
98A100VAL 00.0700.02813.3460.8730.8730.0000.0000.0000.000
99A101ASN 0-0.053-0.02611.3761.4921.4920.0000.0000.0000.000
100A102LYS 10.8130.90714.92517.02417.0240.0000.0000.0000.000
101A103GLY 00.0030.01017.7320.5620.5620.0000.0000.0000.000
102A104GLU -1-0.787-0.84216.501-15.011-15.0110.0000.0000.0000.000
103A105ASP -1-0.812-0.91118.601-11.851-11.8510.0000.0000.0000.000
104A106ILE 00.0460.01115.048-0.455-0.4550.0000.0000.0000.000
105A107GLN 00.0050.00418.155-0.494-0.4940.0000.0000.0000.000
106A108LEU 0-0.042-0.02618.652-0.042-0.0420.0000.0000.0000.000
107A109LEU 0-0.027-0.02012.784-0.464-0.4640.0000.0000.0000.000
108A110LYS 10.8900.93716.60911.54711.5470.0000.0000.0000.000
109A111SER 00.0300.01019.238-0.064-0.0640.0000.0000.0000.000
110A112ALA 00.0240.01015.098-0.109-0.1090.0000.0000.0000.000
111A113TYR 00.020-0.00611.650-0.833-0.8330.0000.0000.0000.000
112A114GLU -1-0.809-0.86116.635-11.671-11.6710.0000.0000.0000.000
113A115ASN 0-0.066-0.02417.1130.6050.6050.0000.0000.0000.000
114A116PHE 00.036-0.00811.428-0.278-0.2780.0000.0000.0000.000
115A117ASN 0-0.0150.00117.4650.0860.0860.0000.0000.0000.000
116A118GLN 0-0.0310.01120.6360.6960.6960.0000.0000.0000.000
117A119HIS 0-0.044-0.03018.386-0.094-0.0940.0000.0000.0000.000
118A120GLU -1-0.871-0.93120.007-12.172-12.1720.0000.0000.0000.000
119A121VAL 00.011-0.00817.075-0.060-0.0600.0000.0000.0000.000
120A122LEU 0-0.0380.02313.736-0.345-0.3450.0000.0000.0000.000
121A123LEU 0-0.0120.0188.8190.0260.0260.0000.0000.0000.000
122A124ALA 00.023-0.0078.884-0.453-0.4530.0000.0000.0000.000
123A125PRO 0-0.048-0.0054.478-1.389-1.273-0.001-0.011-0.1040.000
124A126LEU 00.0550.0236.3352.3662.3660.0000.0000.0000.000
125A127LEU 0-0.0040.0167.243-1.526-1.5260.0000.0000.0000.000
126A128SER 00.036-0.0119.3530.9690.9690.0000.0000.0000.000
127A129ALA 00.0040.0246.0440.7060.7060.0000.0000.0000.000
128A130GLY 00.0300.0224.304-1.509-1.322-0.001-0.020-0.1660.000
129A131ILE 00.010-0.0145.0921.6031.6030.0000.0000.0000.000
130A132PHE 0-0.061-0.0177.3771.6301.6300.0000.0000.0000.000
131A133GLY 00.0260.0199.0751.4501.4500.0000.0000.0000.000
132A134ALA 00.0070.00910.5771.1711.1710.0000.0000.0000.000
133A135ASP -1-0.795-0.90010.630-17.344-17.3440.0000.0000.0000.000
134A136PRO 0-0.019-0.0218.3740.1400.1400.0000.0000.0000.000
135A137ILE 00.0300.01310.452-0.138-0.1380.0000.0000.0000.000
136A138HIS 00.0380.02413.8950.4770.4770.0000.0000.0000.000
137A139SER 0-0.014-0.02610.7040.3700.3700.0000.0000.0000.000
138A140LEU 0-0.019-0.00712.486-0.032-0.0320.0000.0000.0000.000
139A141ARG 10.8560.92513.76813.08413.0840.0000.0000.0000.000
140A142VAL 00.0140.01415.9630.4680.4680.0000.0000.0000.000
141A143CYS 0-0.0330.00113.2030.4780.4780.0000.0000.0000.000
142A144VAL 00.0130.01416.1080.3880.3880.0000.0000.0000.000
143A145ASP -1-0.800-0.89518.735-11.727-11.7270.0000.0000.0000.000
144A146THR 0-0.123-0.06618.8800.7910.7910.0000.0000.0000.000
145A147VAL 0-0.049-0.01215.9380.3100.3100.0000.0000.0000.000
146A148ARG 10.9180.96419.38911.64111.6410.0000.0000.0000.000
147A149THR 0-0.0350.00519.4770.2470.2470.0000.0000.0000.000
148A150ASN 0-0.0160.00019.007-0.248-0.2480.0000.0000.0000.000
149A151VAL 00.0130.00112.850-0.633-0.6330.0000.0000.0000.000
150A152TYR 00.0260.02612.9680.7060.7060.0000.0000.0000.000
151A153LEU 00.022-0.0059.564-1.887-1.8870.0000.0000.0000.000
152A154ALA 0-0.008-0.0066.1550.5010.5010.0000.0000.0000.000
153A155VAL 00.0020.0125.420-2.703-2.7030.0000.0000.0000.000
154A156PHE 00.001-0.0172.873-10.404-3.9144.730-2.367-8.853-0.014
155A157ASP -1-0.841-0.9144.942-28.214-28.0080.000-0.027-0.1790.000
156A158LYS 10.8800.9177.21422.22122.2210.0000.0000.0000.000
157A159ASN 0-0.001-0.00310.8592.0032.0030.0000.0000.0000.000
158A160LEU 0-0.005-0.0106.5841.4001.4000.0000.0000.0000.000
159A161TYR 0-0.013-0.0059.9081.3631.3630.0000.0000.0000.000
160A162ASP -1-0.769-0.86011.145-17.840-17.8400.0000.0000.0000.000
161A163LYS 10.9541.00213.21117.77717.7770.0000.0000.0000.000
162A164LEU 0-0.035-0.0119.4690.7250.7250.0000.0000.0000.000
163A165VAL 00.0030.00513.9230.7460.7460.0000.0000.0000.000
164A166SER 0-0.065-0.04716.5680.8730.8730.0000.0000.0000.000
165A167SER 0-0.073-0.05816.5400.6270.6270.0000.0000.0000.000
166A168PHE 0-0.020-0.01017.2060.1370.1370.0000.0000.0000.000
167A169LEU -1-0.882-0.92619.211-11.658-11.6580.0000.0000.0000.000
168A302HOH 0-0.064-0.05026.917-0.019-0.0190.0000.0000.0000.000
169A319HOH 0-0.007-0.02024.304-0.079-0.0790.0000.0000.0000.000
170A323HOH 0-0.029-0.00912.4400.1850.1850.0000.0000.0000.000
171A326HOH 0-0.075-0.06222.173-0.052-0.0520.0000.0000.0000.000
172A337HOH 0-0.013-0.0154.315-0.415-0.3780.000-0.003-0.0340.000
173A338HOH 0-0.048-0.03613.2720.4300.4300.0000.0000.0000.000
174A342HOH 0-0.038-0.03522.1540.1070.1070.0000.0000.0000.000
175A343HOH 00.007-0.0058.4030.1750.1750.0000.0000.0000.000
176A347HOH 0-0.021-0.02324.503-0.008-0.0080.0000.0000.0000.000
177A353HOH 0-0.014-0.03515.316-0.415-0.4150.0000.0000.0000.000
178A356HOH 0-0.028-0.0228.408-0.574-0.5740.0000.0000.0000.000
179A360HOH 0-0.024-0.00910.329-0.023-0.0230.0000.0000.0000.000
180A362HOH 0-0.012-0.01511.052-0.229-0.2290.0000.0000.0000.000
181A364HOH 00.0160.00319.750-0.020-0.0200.0000.0000.0000.000
182A365HOH 0-0.057-0.03825.3810.1660.1660.0000.0000.0000.000
183A366HOH 0-0.064-0.04810.1830.2100.2100.0000.0000.0000.000
184A370HOH 0-0.028-0.01820.896-0.085-0.0850.0000.0000.0000.000
185A371HOH 0-0.030-0.03714.214-0.244-0.2440.0000.0000.0000.000
186A379HOH 0-0.032-0.0314.5831.3801.4150.000-0.004-0.0310.000
187A384HOH 0-0.007-0.01618.7720.3040.3040.0000.0000.0000.000
188A387HOH 0-0.020-0.02715.4030.1150.1150.0000.0000.0000.000
189A390HOH 0-0.047-0.0379.2001.1051.1050.0000.0000.0000.000
190A393HOH 0-0.020-0.02121.6840.2130.2130.0000.0000.0000.000
191A395HOH 00.0240.01313.746-0.752-0.7520.0000.0000.0000.000
192A398HOH 00.0260.0167.277-1.371-1.3710.0000.0000.0000.000
193A400HOH 0-0.002-0.0105.345-0.274-0.2740.0000.0000.0000.000
194A402HOH 00.004-0.00220.540-0.185-0.1850.0000.0000.0000.000
195A408HOH 0-0.029-0.01924.162-0.029-0.0290.0000.0000.0000.000
196A410HOH 0-0.024-0.04025.321-0.146-0.1460.0000.0000.0000.000
197A413HOH 0-0.061-0.05915.935-0.093-0.0930.0000.0000.0000.000
198A417HOH 00.013-0.01012.6090.0170.0170.0000.0000.0000.000
199A418HOH 0-0.019-0.01916.1190.1120.1120.0000.0000.0000.000
200A421HOH 00.0300.01321.0630.0060.0060.0000.0000.0000.000
201A427HOH 00.0340.01924.897-0.167-0.1670.0000.0000.0000.000
202A449HOH 0-0.034-0.0354.950-1.835-1.7890.000-0.001-0.0450.000
203A453HOH 0-0.036-0.02819.025-0.303-0.3030.0000.0000.0000.000
204A456HOH 0-0.001-0.00323.3590.1090.1090.0000.0000.0000.000
205A463HOH 00.0330.0232.231-1.0570.8891.412-1.739-1.6200.010
206A487HOH 00.0110.00610.562-0.764-0.7640.0000.0000.0000.000