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: PZ7YN

Calculation Name: 4BOU-A-Xray42

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 4BOU

Chain ID: A

ChEMBL ID:

UniProt ID: Q5T2D3

Base Structure: X-ray

Registration Date: 2019-02-15

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 222
LigandCharge
Software MIZUHO/ABINIT-MP 3.0
Total energy (hartree)
FMO2-HF: Electronic energy -1561345.030893
FMO2-HF: Nuclear repulsion 1499328.125847
FMO2-HF: Total energy -62016.905047
FMO2-MP2: Total energy -62198.771164


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:50:GLY)


Summations of interaction energy for fragment #1(A:50: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.
-2.304-0.498-0.007-0.794-1.0050.003
Interaction energy analysis for fragmet #1(A:50:GLY)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.049 / q_NPA : 0.023
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].
3A52GLU-1-0.888-0.9403.833-4.653-2.877-0.007-0.788-0.9810.003
4A53PHE0-0.038-0.0195.9500.9240.9240.0000.0000.0000.000
5A54VAL00.0410.0069.600-0.076-0.0760.0000.0000.0000.000
6A55SER0-0.035-0.00911.9920.1330.1330.0000.0000.0000.000
7A56PHE00.029-0.00713.537-0.044-0.0440.0000.0000.0000.000
8A57ALA00.0340.00914.8580.0400.0400.0000.0000.0000.000
9A58ASN00.0530.02714.2010.1560.1560.0000.0000.0000.000
10A59GLN0-0.0160.00510.653-0.146-0.1460.0000.0000.0000.000
11A60LEU0-0.026-0.01713.6160.0890.0890.0000.0000.0000.000
12A61GLN00.0190.01416.9290.0300.0300.0000.0000.0000.000
13A62ALA0-0.0200.00314.0540.0560.0560.0000.0000.0000.000
14A63LEU0-0.036-0.01314.1040.0590.0590.0000.0000.0000.000
15A64GLY00.0130.01517.4380.0480.0480.0000.0000.0000.000
16A65LEU0-0.088-0.05318.4650.0410.0410.0000.0000.0000.000
17A66LYS10.9770.97720.6560.1750.1750.0000.0000.0000.000
18A67LEU0-0.002-0.00619.2560.0250.0250.0000.0000.0000.000
19A68ARG10.8350.91622.7930.1700.1700.0000.0000.0000.000
20A69GLU-1-0.866-0.91424.333-0.271-0.2710.0000.0000.0000.000
21A70VAL0-0.039-0.00826.5160.0230.0230.0000.0000.0000.000
22A71PRO00.0250.00628.092-0.013-0.0130.0000.0000.0000.000
23A72GLY00.0370.03128.1850.0000.0000.0000.0000.0000.000
24A73ASP-1-0.678-0.79029.066-0.120-0.1200.0000.0000.0000.000
25A74GLY00.0940.02529.926-0.007-0.0070.0000.0000.0000.000
26A75ASN0-0.092-0.05031.4870.0130.0130.0000.0000.0000.000
27A76CYS0-0.0360.03127.1170.0020.0020.0000.0000.0000.000
28A77LEU00.0570.03625.495-0.005-0.0050.0000.0000.0000.000
29A78PHE00.0400.01528.0780.0010.0010.0000.0000.0000.000
30A79ARG10.6670.80730.7290.1240.1240.0000.0000.0000.000
31A80ALA0-0.0100.00226.0710.0000.0000.0000.0000.0000.000
32A81LEU00.010-0.00426.8920.0000.0000.0000.0000.0000.000
33A82GLY00.0330.02229.3500.0070.0070.0000.0000.0000.000
34A83ASP-1-0.756-0.82629.405-0.146-0.1460.0000.0000.0000.000
35A84GLN0-0.053-0.02625.9920.0130.0130.0000.0000.0000.000
36A85LEU0-0.037-0.01629.5730.0060.0060.0000.0000.0000.000
37A86GLU-1-0.757-0.84832.646-0.065-0.0650.0000.0000.0000.000
38A87GLY0-0.043-0.00533.0060.0020.0020.0000.0000.0000.000
39A88HIS0-0.013-0.01534.000-0.010-0.0100.0000.0000.0000.000
40A89SER00.0210.01432.5260.0070.0070.0000.0000.0000.000
41A90ARG10.9790.97734.4370.0860.0860.0000.0000.0000.000
42A91ASN0-0.0250.00837.3540.0060.0060.0000.0000.0000.000
43A92HIS00.0440.02434.3370.0040.0040.0000.0000.0000.000
44A93LEU0-0.0020.01235.9890.0020.0020.0000.0000.0000.000
45A94LYS10.9230.97238.8130.0600.0600.0000.0000.0000.000
46A95HIS0-0.0090.00234.5190.0070.0070.0000.0000.0000.000
47A96ARG10.7970.91833.0650.0840.0840.0000.0000.0000.000
48A97GLN00.0240.01936.2720.0020.0020.0000.0000.0000.000
49A98GLU-1-0.860-0.91638.317-0.042-0.0420.0000.0000.0000.000
50A99THR00.000-0.01332.7540.0040.0040.0000.0000.0000.000
51A100VAL00.0230.01436.0840.0040.0040.0000.0000.0000.000
52A101ASP-1-0.826-0.91037.860-0.027-0.0270.0000.0000.0000.000
53A102TYR0-0.006-0.00234.9610.0060.0060.0000.0000.0000.000
54A103MET0-0.015-0.01633.6770.0010.0010.0000.0000.0000.000
55A104ILE00.0050.01037.1900.0040.0040.0000.0000.0000.000
56A105LYS10.8440.93940.2110.0110.0110.0000.0000.0000.000
57A106GLN0-0.026-0.00437.5470.0000.0000.0000.0000.0000.000
58A107ARG10.9250.94637.7560.0020.0020.0000.0000.0000.000
59A108GLU-1-0.885-0.94137.8900.0090.0090.0000.0000.0000.000
60A109ASP-1-0.830-0.90734.5440.0200.0200.0000.0000.0000.000
61A110PHE0-0.092-0.06931.3910.0000.0000.0000.0000.0000.000
62A111GLU-1-0.728-0.81233.6490.0020.0020.0000.0000.0000.000
63A112PRO0-0.014-0.01032.054-0.001-0.0010.0000.0000.0000.000
64A113PHE0-0.086-0.03526.8350.0020.0020.0000.0000.0000.000
65A114VAL0-0.088-0.03229.940-0.007-0.0070.0000.0000.0000.000
66A115GLU-1-0.933-0.95328.5220.0000.0000.0000.0000.0000.000
67A116ASP-1-0.827-0.92431.6480.0210.0210.0000.0000.0000.000
68A117ASP-1-0.965-0.97634.422-0.003-0.0030.0000.0000.0000.000
69A118ILE0-0.075-0.02133.911-0.005-0.0050.0000.0000.0000.000
70A119PRO0-0.038-0.01537.3480.0020.0020.0000.0000.0000.000
71A120PHE00.0660.01136.324-0.005-0.0050.0000.0000.0000.000
72A121GLU-1-0.872-0.95538.941-0.012-0.0120.0000.0000.0000.000
73A122LYS10.9300.96938.4900.0320.0320.0000.0000.0000.000
74A123HIS00.0140.01831.518-0.006-0.0060.0000.0000.0000.000
75A124VAL00.000-0.00936.360-0.007-0.0070.0000.0000.0000.000
76A125ALA00.0000.00538.066-0.004-0.0040.0000.0000.0000.000
77A126SER0-0.070-0.03535.564-0.005-0.0050.0000.0000.0000.000
78A127LEU0-0.0010.01232.580-0.007-0.0070.0000.0000.0000.000
79A128ALA00.0090.02035.941-0.005-0.0050.0000.0000.0000.000
80A129LYS10.8720.94338.6330.0540.0540.0000.0000.0000.000
81A130PRO00.0210.00337.313-0.005-0.0050.0000.0000.0000.000
82A131GLY0-0.014-0.01034.9590.0020.0020.0000.0000.0000.000
83A132THR0-0.019-0.00133.317-0.008-0.0080.0000.0000.0000.000
84A133PHE0-0.0070.01427.6080.0010.0010.0000.0000.0000.000
85A134ALA00.0040.02029.2140.0110.0110.0000.0000.0000.000
86A135GLY00.0610.02525.807-0.015-0.0150.0000.0000.0000.000
87A136ASN00.0690.00121.140-0.013-0.0130.0000.0000.0000.000
88A137ASP-1-0.719-0.81825.283-0.036-0.0360.0000.0000.0000.000
89A138ALA00.0440.01928.7550.0040.0040.0000.0000.0000.000
90A139ILE0-0.046-0.01923.683-0.001-0.0010.0000.0000.0000.000
91A140VAL0-0.0110.00026.5610.0030.0030.0000.0000.0000.000
92A141ALA00.0160.01428.6950.0040.0040.0000.0000.0000.000
93A142PHE0-0.024-0.00930.2920.0010.0010.0000.0000.0000.000
94A143ALA0-0.007-0.01928.2760.0010.0010.0000.0000.0000.000
95A144ARG10.9530.96829.976-0.009-0.0090.0000.0000.0000.000
96A145ASN0-0.0430.00433.0470.0070.0070.0000.0000.0000.000
97A146HIS10.7600.84533.2430.0480.0480.0000.0000.0000.000
98A147GLN0-0.040-0.00733.6940.0020.0020.0000.0000.0000.000
99A148LEU0-0.065-0.02429.0740.0000.0000.0000.0000.0000.000
100A149ASN00.0460.01325.2390.0090.0090.0000.0000.0000.000
101A150VAL00.004-0.00123.203-0.012-0.0120.0000.0000.0000.000
102A151VAL0-0.0060.00218.8940.0090.0090.0000.0000.0000.000
103A152ILE0-0.005-0.00417.758-0.021-0.0210.0000.0000.0000.000
104A153HIS10.7910.86715.5880.3020.3020.0000.0000.0000.000
105A154GLN00.0320.01812.7600.0980.0980.0000.0000.0000.000
106A155LEU0-0.040-0.01310.589-0.001-0.0010.0000.0000.0000.000
107A156ASN0-0.029-0.0176.428-0.095-0.0950.0000.0000.0000.000
108A157ALA00.0800.0527.208-0.091-0.0910.0000.0000.0000.000
109A158PRO00.0140.0098.825-0.019-0.0190.0000.0000.0000.000
110A159LEU0-0.0300.01110.796-0.036-0.0360.0000.0000.0000.000
111A160TRP00.0690.02912.7410.1140.1140.0000.0000.0000.000
112A161GLN0-0.016-0.02616.986-0.006-0.0060.0000.0000.0000.000
113A162ILE00.0090.01820.5210.0220.0220.0000.0000.0000.000
114A163ARG10.9050.93321.788-0.074-0.0740.0000.0000.0000.000
115A164GLY00.0540.03026.4740.0040.0040.0000.0000.0000.000
116A165THR0-0.066-0.02829.9100.0030.0030.0000.0000.0000.000
117A166GLU-1-0.851-0.92930.1750.0540.0540.0000.0000.0000.000
118A167LYS10.9140.96932.030-0.001-0.0010.0000.0000.0000.000
119A168SER00.0400.02229.8520.0000.0000.0000.0000.0000.000
120A169SER0-0.028-0.01729.225-0.002-0.0020.0000.0000.0000.000
121A170VAL0-0.0120.00829.292-0.002-0.0020.0000.0000.0000.000
122A171ARG10.8900.95629.6850.0670.0670.0000.0000.0000.000
123A172GLU-1-0.788-0.89324.116-0.037-0.0370.0000.0000.0000.000
124A173LEU0-0.069-0.02626.392-0.012-0.0120.0000.0000.0000.000
125A174HIS00.0290.01420.971-0.024-0.0240.0000.0000.0000.000
126A175ILE00.0060.00621.699-0.006-0.0060.0000.0000.0000.000
127A176ALA0-0.012-0.01818.822-0.019-0.0190.0000.0000.0000.000
128A177TYR00.0050.01716.6570.0140.0140.0000.0000.0000.000
129A178ARG10.8640.92117.1060.3420.3420.0000.0000.0000.000
130A179TYR00.0320.02618.5930.0120.0120.0000.0000.0000.000
131A180GLY00.0330.01919.7900.0210.0210.0000.0000.0000.000
132A181GLU-1-0.885-0.93821.698-0.120-0.1200.0000.0000.0000.000
133A182HIS00.0300.01922.6990.0280.0280.0000.0000.0000.000
134A183TYR0-0.016-0.04321.554-0.024-0.0240.0000.0000.0000.000
135A184ASP-1-0.766-0.86522.374-0.266-0.2660.0000.0000.0000.000
136A185SER0-0.023-0.03623.4710.0060.0060.0000.0000.0000.000
137A186VAL00.0200.01819.966-0.023-0.0230.0000.0000.0000.000
138A187ARG10.8020.87923.0400.1720.1720.0000.0000.0000.000
139A188ARG10.9180.95123.9570.1390.1390.0000.0000.0000.000
140A189ILE0-0.0270.00121.6350.0040.0040.0000.0000.0000.000
141A190ASN0-0.0060.00025.6860.0070.0070.0000.0000.0000.000
142A0NME00.0090.00828.4690.0020.0020.0000.0000.0000.000
143A2003HOH0-0.053-0.0274.1890.0080.0380.000-0.006-0.0240.000
144A2004HOH00.0530.03612.0890.0050.0050.0000.0000.0000.000
145A2005HOH00.0360.03015.7120.0010.0010.0000.0000.0000.000
146A2006HOH00.0070.00217.4710.0010.0010.0000.0000.0000.000
147A2007HOH0-0.030-0.03218.3800.0130.0130.0000.0000.0000.000
148A2008HOH0-0.013-0.01319.3720.0110.0110.0000.0000.0000.000
149A2009HOH00.0520.04513.7070.0090.0090.0000.0000.0000.000
150A2010HOH0-0.036-0.0219.2830.0700.0700.0000.0000.0000.000
151A2013HOH00.0090.00620.6020.0060.0060.0000.0000.0000.000
152A2014HOH0-0.031-0.02326.6250.0070.0070.0000.0000.0000.000
153A2016HOH0-0.041-0.02529.1560.0060.0060.0000.0000.0000.000
154A2017HOH00.0270.01730.3110.0050.0050.0000.0000.0000.000
155A2018HOH0-0.053-0.04126.2860.0080.0080.0000.0000.0000.000
156A2019HOH0-0.054-0.04125.7030.0020.0020.0000.0000.0000.000
157A2022HOH0-0.015-0.02030.4470.0020.0020.0000.0000.0000.000
158A2024HOH00.0370.02630.4900.0010.0010.0000.0000.0000.000
159A2025HOH0-0.045-0.05426.913-0.001-0.0010.0000.0000.0000.000
160A2026HOH0-0.078-0.09235.1040.0010.0010.0000.0000.0000.000
161A2027HOH00.0070.00833.895-0.003-0.0030.0000.0000.0000.000
162A2028HOH0-0.014-0.02328.4630.0020.0020.0000.0000.0000.000
163A2030HOH0-0.012-0.01835.4890.0000.0000.0000.0000.0000.000
164A2031HOH00.0230.01337.6560.0000.0000.0000.0000.0000.000
165A2032HOH0-0.009-0.01526.2960.0030.0030.0000.0000.0000.000
166A2034HOH0-0.0080.00735.2600.0010.0010.0000.0000.0000.000
167A2035HOH00.0320.01639.073-0.001-0.0010.0000.0000.0000.000
168A2036HOH00.0850.07837.757-0.003-0.0030.0000.0000.0000.000
169A2038HOH00.0340.03631.228-0.003-0.0030.0000.0000.0000.000
170A2039HOH0-0.039-0.04231.4990.0040.0040.0000.0000.0000.000
171A2041HOH0-0.025-0.02735.4440.0000.0000.0000.0000.0000.000
172A2042HOH0-0.039-0.06238.8130.0000.0000.0000.0000.0000.000
173A2045HOH00.0390.02739.802-0.001-0.0010.0000.0000.0000.000
174A2046HOH00.0230.01434.4530.0040.0040.0000.0000.0000.000
175A2047HOH00.0330.01932.0020.0030.0030.0000.0000.0000.000
176A2048HOH00.0170.00939.7340.0010.0010.0000.0000.0000.000
177A2049HOH0-0.075-0.06841.6500.0010.0010.0000.0000.0000.000
178A2050HOH0-0.051-0.04139.865-0.001-0.0010.0000.0000.0000.000
179A2051HOH00.0500.03640.7840.0000.0000.0000.0000.0000.000
180A2057HOH0-0.005-0.02136.6240.0000.0000.0000.0000.0000.000
181A2059HOH0-0.018-0.02640.108-0.001-0.0010.0000.0000.0000.000
182A2062HOH0-0.018-0.00442.7580.0010.0010.0000.0000.0000.000
183A2063HOH0-0.045-0.04439.8190.0010.0010.0000.0000.0000.000
184A2064HOH0-0.015-0.01935.1090.0020.0020.0000.0000.0000.000
185A2065HOH0-0.039-0.03442.6470.0010.0010.0000.0000.0000.000
186A2068HOH0-0.043-0.02935.427-0.001-0.0010.0000.0000.0000.000
187A2069HOH0-0.035-0.01843.7390.0000.0000.0000.0000.0000.000
188A2070HOH0-0.037-0.01944.106-0.001-0.0010.0000.0000.0000.000
189A2071HOH0-0.028-0.03040.311-0.002-0.0020.0000.0000.0000.000
190A2072HOH0-0.010-0.01632.641-0.001-0.0010.0000.0000.0000.000
191A2073HOH0-0.049-0.03932.4120.0020.0020.0000.0000.0000.000
192A2074HOH00.007-0.00233.040-0.001-0.0010.0000.0000.0000.000
193A2075HOH0-0.041-0.03633.6560.0010.0010.0000.0000.0000.000
194A2076HOH0-0.032-0.02137.9020.0020.0020.0000.0000.0000.000
195A2078HOH00.000-0.00332.9930.0020.0020.0000.0000.0000.000
196A2079HOH00.0320.01842.4990.0000.0000.0000.0000.0000.000
197A2080HOH00.0510.03737.9010.0030.0030.0000.0000.0000.000
198A2081HOH0-0.048-0.03436.9240.0000.0000.0000.0000.0000.000
199A2084HOH0-0.028-0.02139.9280.0020.0020.0000.0000.0000.000
200A2085HOH00.0150.01431.9420.0000.0000.0000.0000.0000.000
201A2086HOH0-0.005-0.00630.8040.0030.0030.0000.0000.0000.000
202A2087HOH00.019-0.00130.5600.0030.0030.0000.0000.0000.000
203A2088HOH00.0260.01329.963-0.005-0.0050.0000.0000.0000.000
204A2089HOH00.0410.02623.5070.0050.0050.0000.0000.0000.000
205A2091HOH0-0.0010.00519.983-0.008-0.0080.0000.0000.0000.000
206A2093HOH0-0.059-0.03737.0520.0020.0020.0000.0000.0000.000
207A2094HOH00.0040.00139.2360.0020.0020.0000.0000.0000.000
208A2095HOH00.0350.03136.869-0.001-0.0010.0000.0000.0000.000
209A2096HOH00.015-0.01513.795-0.035-0.0350.0000.0000.0000.000
210A2097HOH00.0110.00812.1400.0080.0080.0000.0000.0000.000
211A2098HOH0-0.022-0.02511.3310.0780.0780.0000.0000.0000.000
212A2099HOH00.000-0.00914.736-0.028-0.0280.0000.0000.0000.000
213A2100HOH00.0430.0258.7220.0700.0700.0000.0000.0000.000
214A2102HOH0-0.032-0.02113.559-0.013-0.0130.0000.0000.0000.000
215A2103HOH0-0.037-0.01514.1770.0270.0270.0000.0000.0000.000
216A2104HOH00.0200.01724.5050.0010.0010.0000.0000.0000.000
217A2105HOH0-0.038-0.03133.106-0.001-0.0010.0000.0000.0000.000
218A2107HOH0-0.0010.00524.098-0.009-0.0090.0000.0000.0000.000
219A2108HOH0-0.035-0.01824.1640.0030.0030.0000.0000.0000.000
220A2110HOH0-0.015-0.00923.629-0.001-0.0010.0000.0000.0000.000
221A2111HOH00.0570.03315.9010.0180.0180.0000.0000.0000.000
222A2113HOH00.0420.03028.083-0.007-0.0070.0000.0000.0000.000