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: G5591

Calculation Name: 2ISB-A-Xray372

Preferred Name:
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Target Type:
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Ligand Name:
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ligand 3-letter code:
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PDB ID: 2ISB

Chain ID: A

ChEMBL ID:
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UniProt ID: O29167

Base Structure: X-ray

Registration Date: 2023-09-21

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 OptHSide
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 184
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -1996885.814438
FMO2-HF: Nuclear repulsion 1923706.910506
FMO2-HF: Total energy -73178.903932
FMO2-MP2: Total energy -73387.268239


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:HIS)


Summations of interaction energy for fragment #1(A:-3:HIS)
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.
-16.555-14.994-0.009-0.55-1.0020.001
Interaction energy analysis for fragmet #1(A:-3:HIS)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 1 / q_Mulliken : 0.968 / q_NPA : 0.963
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].
3A-1HIS00.0370.0333.832-0.2821.279-0.009-0.550-1.0020.001
4A0HIS00.0520.0165.7631.0981.0980.0000.0000.0000.000
5A1MET0-0.042-0.0268.0011.1561.1560.0000.0000.0000.000
6A2VAL0-0.013-0.00311.7290.3130.3130.0000.0000.0000.000
7A3MET0-0.0200.00714.320-0.626-0.6260.0000.0000.0000.000
8A4GLU-1-0.835-0.91416.976-12.422-12.4220.0000.0000.0000.000
9A5TYR0-0.018-0.01917.503-0.497-0.4970.0000.0000.0000.000
10A6GLU-1-0.769-0.86022.543-10.449-10.4490.0000.0000.0000.000
11A7LEU0-0.029-0.01424.153-0.104-0.1040.0000.0000.0000.000
12A8ARG10.8980.93827.36711.02011.0200.0000.0000.0000.000
13A9THR0-0.044-0.01030.411-0.153-0.1530.0000.0000.0000.000
14A10PRO00.034-0.00333.2930.0880.0880.0000.0000.0000.000
15A11LEU0-0.055-0.01329.199-0.283-0.2830.0000.0000.0000.000
16A12VAL00.0240.01326.2570.1410.1410.0000.0000.0000.000
17A13LYS10.9300.95526.90010.38910.3890.0000.0000.0000.000
18A14ASP-1-0.871-0.94422.577-13.021-13.0210.0000.0000.0000.000
19A15GLN0-0.093-0.05622.219-0.794-0.7940.0000.0000.0000.000
20A16ILE00.000-0.00122.944-0.497-0.4970.0000.0000.0000.000
21A17LEU0-0.008-0.00222.183-0.316-0.3160.0000.0000.0000.000
22A18LYS10.8530.95317.48314.96914.9690.0000.0000.0000.000
23A19LEU0-0.091-0.01917.967-0.858-0.8580.0000.0000.0000.000
24A20LYS10.8680.92412.78919.79519.7950.0000.0000.0000.000
25A21VAL00.011-0.00117.7200.4260.4260.0000.0000.0000.000
26A22GLY0-0.034-0.02317.193-0.847-0.8470.0000.0000.0000.000
27A23ASP-1-0.800-0.88616.634-18.245-18.2450.0000.0000.0000.000
28A24VAL00.0160.00819.1150.8330.8330.0000.0000.0000.000
29A25VAL0-0.022-0.01222.119-0.335-0.3350.0000.0000.0000.000
30A26TYR0-0.029-0.01024.9630.5700.5700.0000.0000.0000.000
31A27ILE0-0.009-0.00728.024-0.255-0.2550.0000.0000.0000.000
32A28THR0-0.051-0.04630.7650.2440.2440.0000.0000.0000.000
33A29GLY00.0540.04432.657-0.214-0.2140.0000.0000.0000.000
34A30GLU-1-0.905-0.94635.593-7.660-7.6600.0000.0000.0000.000
35A31ILE0-0.051-0.02434.884-0.291-0.2910.0000.0000.0000.000
36A32PHE00.0120.00837.8300.2370.2370.0000.0000.0000.000
37A33THR00.0020.01339.214-0.175-0.1750.0000.0000.0000.000
38A34ALA00.0340.00740.7540.1570.1570.0000.0000.0000.000
39A35ARG10.8210.87940.8096.6696.6690.0000.0000.0000.000
40A36ASP-1-0.722-0.82142.799-7.090-7.0900.0000.0000.0000.000
41A37GLU-1-0.870-0.93045.051-6.182-6.1820.0000.0000.0000.000
42A38ALA00.0000.00544.9310.0440.0440.0000.0000.0000.000
43A39HIS0-0.073-0.05739.867-0.221-0.2210.0000.0000.0000.000
44A40ALA00.0140.00544.418-0.009-0.0090.0000.0000.0000.000
45A41ARG10.8780.92447.5296.0636.0630.0000.0000.0000.000
46A42ALA0-0.028-0.01944.8820.0350.0350.0000.0000.0000.000
47A43LEU0-0.019-0.01742.947-0.025-0.0250.0000.0000.0000.000
48A44GLU-1-0.814-0.89946.807-5.936-5.9360.0000.0000.0000.000
49A45TRP00.005-0.02149.3580.0600.0600.0000.0000.0000.000
50A46MET0-0.069-0.03842.305-0.041-0.0410.0000.0000.0000.000
51A47GLU-1-1.004-0.99048.003-6.329-6.3290.0000.0000.0000.000
52A48GLU-1-0.887-0.93049.981-5.682-5.6820.0000.0000.0000.000
53A49GLY0-0.055-0.01450.6280.0860.0860.0000.0000.0000.000
54A50LYS10.7490.87251.6665.9385.9380.0000.0000.0000.000
55A51GLU-1-0.957-0.98148.335-6.722-6.7220.0000.0000.0000.000
56A52LEU0-0.032-0.01644.4050.0760.0760.0000.0000.0000.000
57A53PRO0-0.022-0.00448.037-0.036-0.0360.0000.0000.0000.000
58A54PHE00.0150.00242.332-0.047-0.0470.0000.0000.0000.000
59A55SER00.0250.00840.6750.0410.0410.0000.0000.0000.000
60A56PHE00.0590.00837.895-0.145-0.1450.0000.0000.0000.000
61A57ASP-1-0.814-0.90636.063-9.168-9.1680.0000.0000.0000.000
62A58LYS10.8170.90933.4979.3319.3310.0000.0000.0000.000
63A59GLY00.0470.04234.525-0.085-0.0850.0000.0000.0000.000
64A60VAL0-0.011-0.02131.814-0.269-0.2690.0000.0000.0000.000
65A61VAL00.0100.02134.5200.2330.2330.0000.0000.0000.000
66A62TYR0-0.052-0.06335.094-0.325-0.3250.0000.0000.0000.000
67A63HIS00.0830.04135.6800.1720.1720.0000.0000.0000.000
68A64CYS0-0.061-0.03338.035-0.050-0.0500.0000.0000.0000.000
69A65GLY00.0140.01740.4860.1010.1010.0000.0000.0000.000
70A66PRO0-0.049-0.01043.3190.0110.0110.0000.0000.0000.000
71A67LEU00.0000.01244.6780.1610.1610.0000.0000.0000.000
72A68VAL0-0.009-0.01746.830-0.125-0.1250.0000.0000.0000.000
73A69LYS10.9120.95749.0826.3996.3990.0000.0000.0000.000
74A70LYS10.9280.96351.7075.7345.7340.0000.0000.0000.000
75A71ASN0-0.047-0.01453.652-0.007-0.0070.0000.0000.0000.000
76A72ASP-1-0.806-0.88353.307-6.036-6.0360.0000.0000.0000.000
77A73GLU-1-0.833-0.91548.942-6.571-6.5710.0000.0000.0000.000
78A74TRP00.0250.00049.7550.0670.0670.0000.0000.0000.000
79A75ARG10.8170.88347.7826.3706.3700.0000.0000.0000.000
80A76VAL00.0570.02843.0210.1030.1030.0000.0000.0000.000
81A77VAL0-0.055-0.02145.077-0.057-0.0570.0000.0000.0000.000
82A78SER0-0.031-0.02942.837-0.162-0.1620.0000.0000.0000.000
83A79ALA00.0580.02039.7810.1150.1150.0000.0000.0000.000
84A80GLY00.0430.04938.180-0.258-0.2580.0000.0000.0000.000
85A81PRO00.0390.04134.7920.1550.1550.0000.0000.0000.000
86A82THR0-0.004-0.01037.4340.2150.2150.0000.0000.0000.000
87A83THR0-0.024-0.03336.688-0.213-0.2130.0000.0000.0000.000
88A84SER00.0630.02234.1660.1110.1110.0000.0000.0000.000
89A85ALA00.0190.01935.9350.0780.0780.0000.0000.0000.000
90A86ARG10.7500.82837.0327.3667.3660.0000.0000.0000.000
91A87MET00.0400.03238.1920.2190.2190.0000.0000.0000.000
92A88ASN0-0.011-0.00135.361-0.264-0.2640.0000.0000.0000.000
93A89PRO00.0090.00137.914-0.087-0.0870.0000.0000.0000.000
94A90PHE00.0350.02540.6640.0350.0350.0000.0000.0000.000
95A91THR0-0.017-0.02234.824-0.043-0.0430.0000.0000.0000.000
96A92PRO00.0400.01835.858-0.149-0.1490.0000.0000.0000.000
97A93LYS10.8740.93237.0287.2597.2590.0000.0000.0000.000
98A94ILE0-0.016-0.00237.7220.0090.0090.0000.0000.0000.000
99A95LEU0-0.002-0.01632.282-0.074-0.0740.0000.0000.0000.000
100A96GLU-1-0.828-0.87835.628-7.814-7.8140.0000.0000.0000.000
101A97LYS10.9460.97237.3587.7927.7920.0000.0000.0000.000
102A98VAL0-0.083-0.01833.8380.0160.0160.0000.0000.0000.000
103A99GLU-1-0.841-0.91531.992-9.982-9.9820.0000.0000.0000.000
104A100CYS0-0.058-0.03929.898-0.464-0.4640.0000.0000.0000.000
105A101MET00.0040.01830.7820.4040.4040.0000.0000.0000.000
106A102GLY00.0200.01130.043-0.464-0.4640.0000.0000.0000.000
107A103ILE0-0.0080.00430.4450.3740.3740.0000.0000.0000.000
108A104ILE00.0200.01730.647-0.345-0.3450.0000.0000.0000.000
109A105GLY00.0320.00831.8120.3960.3960.0000.0000.0000.000
110A106LYS10.8660.94032.0997.8477.8470.0000.0000.0000.000
111A107GLY00.002-0.00931.5940.2530.2530.0000.0000.0000.000
112A108GLY00.0320.02430.295-0.056-0.0560.0000.0000.0000.000
113A109MET0-0.064-0.02830.5200.2650.2650.0000.0000.0000.000
114A110SER0-0.0010.00030.964-0.292-0.2920.0000.0000.0000.000
115A111GLU-1-0.730-0.85728.095-10.823-10.8230.0000.0000.0000.000
116A112GLU-1-0.943-0.95830.995-8.304-8.3040.0000.0000.0000.000
117A113VAL00.017-0.00431.288-0.062-0.0620.0000.0000.0000.000
118A114VAL0-0.017-0.01126.094-0.253-0.2530.0000.0000.0000.000
119A115GLU-1-0.826-0.87728.143-11.050-11.0500.0000.0000.0000.000
120A116ALA0-0.0050.00829.826-0.098-0.0980.0000.0000.0000.000
121A117MET0-0.035-0.01427.917-0.059-0.0590.0000.0000.0000.000
122A118ARG10.7950.87623.50111.28211.2820.0000.0000.0000.000
123A119GLY0-0.010-0.01425.5890.2950.2950.0000.0000.0000.000
124A120LYS10.7550.84426.7389.4579.4570.0000.0000.0000.000
125A121ALA00.0010.01127.7920.1670.1670.0000.0000.0000.000
126A122ALA00.0370.02225.010-0.414-0.4140.0000.0000.0000.000
127A123TYR00.012-0.01326.4350.4210.4210.0000.0000.0000.000
128A124PHE00.018-0.01025.212-0.521-0.5210.0000.0000.0000.000
129A125ALA00.007-0.00126.7880.4810.4810.0000.0000.0000.000
130A126PHE00.0310.00628.127-0.270-0.2700.0000.0000.0000.000
131A127THR0-0.042-0.03126.9010.0070.0070.0000.0000.0000.000
132A128GLY00.0550.02929.908-0.123-0.1230.0000.0000.0000.000
133A129GLY0-0.022-0.00832.3670.2580.2580.0000.0000.0000.000
134A130ALA0-0.012-0.03135.0290.0160.0160.0000.0000.0000.000
135A131GLY00.0510.01838.0160.1450.1450.0000.0000.0000.000
136A132ALA0-0.0030.01239.2430.0420.0420.0000.0000.0000.000
137A133LEU00.0400.00037.5610.0310.0310.0000.0000.0000.000
138A134ALA00.0260.02436.054-0.054-0.0540.0000.0000.0000.000
139A135ALA00.0230.01537.192-0.092-0.0920.0000.0000.0000.000
140A136MET0-0.0120.00539.3210.1650.1650.0000.0000.0000.000
141A137SER0-0.023-0.01034.4840.0460.0460.0000.0000.0000.000
142A138ILE0-0.044-0.01537.581-0.111-0.1110.0000.0000.0000.000
143A139LYS10.8040.91637.5948.5108.5100.0000.0000.0000.000
144A140LYS10.8680.91941.7707.0107.0100.0000.0000.0000.000
145A141VAL0-0.0230.00143.533-0.145-0.1450.0000.0000.0000.000
146A142LYN00.0290.03743.4350.2300.2300.0000.0000.0000.000
147A143GLY00.008-0.00246.4120.1690.1690.0000.0000.0000.000
148A144VAL0-0.047-0.01547.483-0.146-0.1460.0000.0000.0000.000
149A145VAL00.0150.01347.6370.1370.1370.0000.0000.0000.000
150A146TRP00.007-0.00746.844-0.103-0.1030.0000.0000.0000.000
151A147GLU-1-0.856-0.94751.739-5.961-5.9610.0000.0000.0000.000
152A148ASP-1-0.876-0.90453.239-5.821-5.8210.0000.0000.0000.000
153A149LEU00.0090.01349.5330.0580.0580.0000.0000.0000.000
154A150GLY00.0160.02052.446-0.007-0.0070.0000.0000.0000.000
155A151MET0-0.016-0.00849.580-0.125-0.1250.0000.0000.0000.000
156A152PRO0-0.044-0.02447.243-0.122-0.1220.0000.0000.0000.000
157A153GLU-1-0.758-0.88046.149-6.896-6.8960.0000.0000.0000.000
158A154ALA0-0.0350.01747.575-0.050-0.0500.0000.0000.0000.000
159A155VAL0-0.017-0.00743.879-0.172-0.1720.0000.0000.0000.000
160A156TRP00.000-0.02644.2420.1160.1160.0000.0000.0000.000
161A157LEU00.0110.00743.057-0.228-0.2280.0000.0000.0000.000
162A158LEU0-0.048-0.03740.3670.1520.1520.0000.0000.0000.000
163A159GLU-1-0.862-0.93438.273-8.483-8.4830.0000.0000.0000.000
164A160VAL0-0.046-0.03134.9130.0890.0890.0000.0000.0000.000
165A161GLU-1-0.833-0.93034.354-8.774-8.7740.0000.0000.0000.000
166A162ARG10.8080.87425.72311.55311.5530.0000.0000.0000.000
167A163PHE00.0210.01031.6970.0400.0400.0000.0000.0000.000
168A164GLY0-0.0160.00629.971-0.343-0.3430.0000.0000.0000.000
169A165PRO0-0.008-0.00626.6020.3010.3010.0000.0000.0000.000
170A166CYS0-0.017-0.01227.0030.5440.5440.0000.0000.0000.000
171A167ILE00.0010.01721.748-0.485-0.4850.0000.0000.0000.000
172A168VAL0-0.014-0.00221.1490.5700.5700.0000.0000.0000.000
173A169ALA00.0230.00021.955-0.467-0.4670.0000.0000.0000.000
174A170ILE0-0.042-0.01324.1170.0660.0660.0000.0000.0000.000
175A171ASP-1-0.768-0.86719.502-14.381-14.3810.0000.0000.0000.000
176A172ALA00.0430.03022.6710.4420.4420.0000.0000.0000.000
177A173HIS0-0.039-0.03319.5230.3750.3750.0000.0000.0000.000
178A174GLY00.0060.01321.608-0.161-0.1610.0000.0000.0000.000
179A175ASN0-0.074-0.03918.4450.3390.3390.0000.0000.0000.000
180A176SER00.0670.01021.8550.2440.2440.0000.0000.0000.000
181A177LEU0-0.017-0.01220.467-0.093-0.0930.0000.0000.0000.000
182A178TYR00.0020.01323.3380.1240.1240.0000.0000.0000.000
183A179ARG10.7670.86023.04512.06812.0680.0000.0000.0000.000
184A180ARG10.9320.97225.14110.80210.8020.0000.0000.0000.000