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: 49G9N

Calculation Name: 1OSP-H-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 1OSP

Chain ID: H

ChEMBL ID:

UniProt ID: P01867

Base Structure: X-ray

Registration Date: 2023-06-26

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 218
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 22 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -2209945.264256
FMO2-HF: Nuclear repulsion 2127317.028384
FMO2-HF: Total energy -82628.235872
FMO2-MP2: Total energy -82868.561769


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(H:1:GLU)


Summations of interaction energy for fragment #1(H:1:GLU)
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.
15.75320.715.415-3.966-6.4040.025
Interaction energy analysis for fragmet #1(H:1:GLU)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : -1 / q_Mulliken : -0.957 / q_NPA : -0.999
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].
3H3GLN0-0.0010.0292.8459.57112.1790.300-1.191-1.716-0.006
4H4LEU00.018-0.0325.689-3.259-3.2590.0000.0000.0000.000
5H5GLN00.0160.0108.7310.5560.5560.0000.0000.0000.000
6H6GLU-1-0.772-0.88912.15720.76020.7600.0000.0000.0000.000
7H7SER0-0.0100.00715.451-0.632-0.6320.0000.0000.0000.000
8H8GLY00.0450.00318.700-0.180-0.1800.0000.0000.0000.000
9H9PRO0-0.025-0.01322.2750.0770.0770.0000.0000.0000.000
10H10SER00.0900.04825.2510.0290.0290.0000.0000.0000.000
11H11LEU0-0.057-0.02026.265-0.138-0.1380.0000.0000.0000.000
12H12VAL00.0020.01428.474-0.139-0.1390.0000.0000.0000.000
13H13LYS10.9680.98030.974-8.367-8.3670.0000.0000.0000.000
14H14PRO00.0520.02334.1600.0660.0660.0000.0000.0000.000
15H15SER0-0.085-0.03935.442-0.265-0.2650.0000.0000.0000.000
16H16GLN0-0.005-0.00233.2160.0270.0270.0000.0000.0000.000
17H17THR00.008-0.01128.702-0.013-0.0130.0000.0000.0000.000
18H18LEU0-0.054-0.00224.377-0.066-0.0660.0000.0000.0000.000
19H19SER0-0.010-0.01924.5560.0440.0440.0000.0000.0000.000
20H20LEU0-0.0170.00219.589-0.070-0.0700.0000.0000.0000.000
21H21THR0-0.013-0.01717.087-0.300-0.3000.0000.0000.0000.000
22H22CYS0-0.071-0.00612.3290.9430.9430.0000.0000.0000.000
23H23SER0-0.011-0.00913.327-0.564-0.5640.0000.0000.0000.000
24H24VAL0-0.0010.0087.7891.1381.1380.0000.0000.0000.000
25H25THR0-0.012-0.0126.957-1.096-1.0960.0000.0000.0000.000
26H26GLY00.0520.0143.5361.9792.0880.003-0.070-0.0420.000
27H27GLU-1-0.804-0.9124.32740.33940.7520.002-0.049-0.3660.000
28H28PRO0-0.0270.0136.452-1.592-1.5920.0000.0000.0000.000
29H29ILE00.0320.00510.0960.3420.3420.0000.0000.0000.000
30H30THR0-0.072-0.04912.049-0.713-0.7130.0000.0000.0000.000
31H31SER0-0.0060.00111.204-1.578-1.5780.0000.0000.0000.000
32H32GLY00.0400.03011.6141.3461.3460.0000.0000.0000.000
33H33PHE0-0.067-0.03412.487-2.071-2.0710.0000.0000.0000.000
34H34TRP00.0480.0267.8311.8521.8520.0000.0000.0000.000
35H35ASP-1-0.765-0.92313.40818.51818.5180.0000.0000.0000.000
36H36TRP00.0090.01914.7430.9570.9570.0000.0000.0000.000
37H37ILE0-0.013-0.00714.784-0.825-0.8250.0000.0000.0000.000
38H38ARG10.8140.89218.197-11.941-11.9410.0000.0000.0000.000
39H39LYS10.9140.94618.869-15.398-15.3980.0000.0000.0000.000
40H40PHE0-0.009-0.01121.394-0.220-0.2200.0000.0000.0000.000
41H41PRO00.0620.01424.8800.2390.2390.0000.0000.0000.000
42H42GLY0-0.0170.01026.996-0.067-0.0670.0000.0000.0000.000
43H43ASN00.008-0.00122.2650.3710.3710.0000.0000.0000.000
44H44LYS10.9420.98423.586-10.919-10.9190.0000.0000.0000.000
45H45LEU00.0040.00217.8120.0160.0160.0000.0000.0000.000
46H46GLU-1-0.867-0.93921.23311.54011.5400.0000.0000.0000.000
47H47PHE0-0.0080.02217.9490.2280.2280.0000.0000.0000.000
48H48MET0-0.0050.01220.174-0.677-0.6770.0000.0000.0000.000
49H49GLY00.0490.00419.950-0.821-0.8210.0000.0000.0000.000
50H50TYR00.0040.01016.7970.5940.5940.0000.0000.0000.000
51H51ILE0-0.041-0.01116.794-1.035-1.0350.0000.0000.0000.000
52H52ARG10.9510.97916.449-13.852-13.8520.0000.0000.0000.000
53H53TYR00.0290.00817.279-0.618-0.6180.0000.0000.0000.000
54H54GLY0-0.012-0.01418.345-0.606-0.6060.0000.0000.0000.000
55H55GLY0-0.056-0.03819.689-0.572-0.5720.0000.0000.0000.000
56H56GLY00.0200.02821.154-0.438-0.4380.0000.0000.0000.000
57H57THR0-0.021-0.01820.9460.6960.6960.0000.0000.0000.000
58H58TYR00.0010.00721.894-0.393-0.3930.0000.0000.0000.000
59H59TYR00.0390.01322.4980.6210.6210.0000.0000.0000.000
60H60ASN00.001-0.00224.142-0.741-0.7410.0000.0000.0000.000
61H61PRO00.004-0.00625.756-0.224-0.2240.0000.0000.0000.000
62H62SER0-0.034-0.02328.734-0.454-0.4540.0000.0000.0000.000
63H63LEU0-0.066-0.00724.876-0.062-0.0620.0000.0000.0000.000
64H64LYS10.9260.97729.139-9.437-9.4370.0000.0000.0000.000
65H65SER00.0060.00230.435-0.410-0.4100.0000.0000.0000.000
66H66PRO00.0000.00529.3150.3850.3850.0000.0000.0000.000
67H67ILE00.015-0.00123.0750.0030.0030.0000.0000.0000.000
68H68SER0-0.056-0.02425.606-0.163-0.1630.0000.0000.0000.000
69H69ILE00.0160.01119.0670.2850.2850.0000.0000.0000.000
70H70THR0-0.0020.00421.335-0.140-0.1400.0000.0000.0000.000
71H71ARG10.9700.98217.476-14.194-14.1940.0000.0000.0000.000
72H72ASP-1-0.823-0.90818.29112.92312.9230.0000.0000.0000.000
73H73THR0-0.006-0.02816.2890.4380.4380.0000.0000.0000.000
74H74SER0-0.074-0.00816.2730.6250.6250.0000.0000.0000.000
75H75LYS10.9640.97716.698-13.101-13.1010.0000.0000.0000.000
76H76ASN0-0.034-0.0089.931-0.092-0.0920.0000.0000.0000.000
77H77HIS0-0.016-0.01113.2170.3590.3590.0000.0000.0000.000
78H78TYR0-0.017-0.02512.077-0.263-0.2630.0000.0000.0000.000
79H79TYR0-0.032-0.02517.0510.3160.3160.0000.0000.0000.000
80H80LEU00.0310.03019.683-0.035-0.0350.0000.0000.0000.000
81H81GLN0-0.019-0.01521.505-0.483-0.4830.0000.0000.0000.000
82H82LEU00.0100.01525.270-0.051-0.0510.0000.0000.0000.000
83H83ASN00.0510.02727.6970.0430.0430.0000.0000.0000.000
84H84SER0-0.049-0.02131.365-0.014-0.0140.0000.0000.0000.000
85H85VAL00.0020.02329.121-0.072-0.0720.0000.0000.0000.000
86H86VAL0-0.015-0.02632.034-0.462-0.4620.0000.0000.0000.000
87H87THR00.0400.00032.0730.1980.1980.0000.0000.0000.000
88H88GLU-1-0.937-0.97631.7039.6429.6420.0000.0000.0000.000
89H89ASP-1-0.801-0.87928.04410.82010.8200.0000.0000.0000.000
90H90THR0-0.018-0.00926.9960.4250.4250.0000.0000.0000.000
91H91ALA0-0.008-0.01823.258-0.045-0.0450.0000.0000.0000.000
92H92THR0-0.0060.02218.256-0.108-0.1080.0000.0000.0000.000
93H93TYR0-0.038-0.03619.2450.0610.0610.0000.0000.0000.000
94H94TYR00.0240.00813.614-0.453-0.4530.0000.0000.0000.000
95H95CYS0-0.0420.00612.549-0.393-0.3930.0000.0000.0000.000
96H96ALA00.011-0.01410.0311.4521.4520.0000.0000.0000.000
97H97ARG10.8650.9775.027-39.321-39.3210.0000.0000.0000.000
98H98SER0-0.029-0.0369.7110.8120.8120.0000.0000.0000.000
99H99ARG10.9130.9529.289-23.866-23.8660.0000.0000.0000.000
100H100ASP-1-0.900-0.9539.52424.73624.7360.0000.0000.0000.000
101H101TYR0-0.065-0.0587.206-0.564-0.5640.0000.0000.0000.000
102H102TYR0-0.046-0.02713.159-1.182-1.1820.0000.0000.0000.000
103H103GLY00.0000.00216.4180.4640.4640.0000.0000.0000.000
104H104SER0-0.008-0.00217.7350.1860.1860.0000.0000.0000.000
105H105SER00.0030.01213.9870.5900.5900.0000.0000.0000.000
106H106GLY00.0280.01514.370-0.515-0.5150.0000.0000.0000.000
107H107PHE00.0010.00111.9150.5270.5270.0000.0000.0000.000
108H108ALA0-0.0060.0067.429-0.542-0.5420.0000.0000.0000.000
109H109PHE0-0.0070.0132.297-8.921-7.0945.110-2.656-4.2800.031
110H110TRP0-0.031-0.0296.583-6.234-6.2340.0000.0000.0000.000
111H111GLY00.0720.0488.1592.9062.9060.0000.0000.0000.000
112H112GLU-1-0.963-0.99210.61620.34420.3440.0000.0000.0000.000
113H113GLY0-0.022-0.01412.683-1.017-1.0170.0000.0000.0000.000
114H114THR0-0.002-0.00515.753-0.775-0.7750.0000.0000.0000.000
115H115LEU0-0.031-0.00919.245-0.189-0.1890.0000.0000.0000.000
116H116VAL0-0.008-0.00322.475-0.314-0.3140.0000.0000.0000.000
117H117THR0-0.016-0.02225.153-0.167-0.1670.0000.0000.0000.000
118H118VAL00.0040.01028.698-0.149-0.1490.0000.0000.0000.000
119H119SER00.009-0.01631.248-0.319-0.3190.0000.0000.0000.000
120H120ALA0-0.002-0.01434.6910.0390.0390.0000.0000.0000.000
121H121ALA0-0.038-0.00236.782-0.205-0.2050.0000.0000.0000.000
122H122LYS10.9720.98336.834-7.319-7.3190.0000.0000.0000.000
123H123THR00.0210.00033.6510.0440.0440.0000.0000.0000.000
124H124THR0-0.054-0.02035.942-0.290-0.2900.0000.0000.0000.000
125H125PRO00.0370.02835.4630.2330.2330.0000.0000.0000.000
126H126PRO00.0030.00933.808-0.210-0.2100.0000.0000.0000.000
127H127SER0-0.032-0.00436.809-0.175-0.1750.0000.0000.0000.000
128H128VAL00.012-0.00136.3520.0240.0240.0000.0000.0000.000
129H129TYR0-0.061-0.04738.581-0.217-0.2170.0000.0000.0000.000
130H130PRO00.0970.04839.7230.1530.1530.0000.0000.0000.000
131H131LEU0-0.092-0.03738.551-0.201-0.2010.0000.0000.0000.000
132H132ALA00.0340.00941.1910.1580.1580.0000.0000.0000.000
133H133PRO0-0.030-0.07443.305-0.112-0.1120.0000.0000.0000.000
134H134GLY00.0760.11446.139-0.074-0.0740.0000.0000.0000.000
135H135CYS0-0.096-0.07248.9970.0590.0590.0000.0000.0000.000
136H136GLY0-0.0050.00451.450-0.036-0.0360.0000.0000.0000.000
137H137ASP-1-0.918-0.94451.6785.8815.8810.0000.0000.0000.000
138H138THR0-0.020-0.00850.4060.0750.0750.0000.0000.0000.000
139H139THR00.024-0.00944.761-0.041-0.0410.0000.0000.0000.000
140H140GLY00.0360.03546.467-0.087-0.0870.0000.0000.0000.000
141H141SER0-0.0140.00443.001-0.017-0.0170.0000.0000.0000.000
142H142SER00.0300.02339.3420.0490.0490.0000.0000.0000.000
143H143VAL0-0.071-0.04040.447-0.204-0.2040.0000.0000.0000.000
144H144THR0-0.022-0.01037.2860.1760.1760.0000.0000.0000.000
145H145LEU0-0.0130.00537.996-0.242-0.2420.0000.0000.0000.000
146H146GLY0-0.003-0.03336.3650.2720.2720.0000.0000.0000.000
147H147CYS-1-0.784-0.90035.2318.4088.4080.0000.0000.0000.000
148H148LEU0-0.108-0.04735.6810.2100.2100.0000.0000.0000.000
149H149VAL00.0240.00932.974-0.139-0.1390.0000.0000.0000.000
150H150LYS10.9660.95135.805-7.328-7.3280.0000.0000.0000.000
151H151GLY0-0.0010.00238.275-0.089-0.0890.0000.0000.0000.000
152H152TYR00.0530.04130.452-0.209-0.2090.0000.0000.0000.000
153H153PHE00.004-0.02733.5940.0350.0350.0000.0000.0000.000
154H154PRO0-0.051-0.00330.5480.1120.1120.0000.0000.0000.000
155H155GLU-1-0.762-0.89427.36411.13611.1360.0000.0000.0000.000
156H156SER0-0.078-0.03724.8150.4740.4740.0000.0000.0000.000
157H157VAL00.0080.00526.806-0.193-0.1930.0000.0000.0000.000
158H158THR0-0.055-0.03124.5680.5510.5510.0000.0000.0000.000
159H159VAL00.0320.01726.935-0.275-0.2750.0000.0000.0000.000
160H160THR0-0.035-0.00926.9540.5400.5400.0000.0000.0000.000
161H161TRP00.0340.01828.801-0.407-0.4070.0000.0000.0000.000
162H162ASN0-0.043-0.01530.4300.1740.1740.0000.0000.0000.000
163H163SER00.0280.01733.055-0.235-0.2350.0000.0000.0000.000
164H164GLY00.0290.02234.9710.1150.1150.0000.0000.0000.000
165H165SER0-0.066-0.04535.1220.0780.0780.0000.0000.0000.000
166H166LEU00.0250.01231.0570.1860.1860.0000.0000.0000.000
167H167SER0-0.054-0.01730.6380.3310.3310.0000.0000.0000.000
168H168SER00.0390.02530.788-0.274-0.2740.0000.0000.0000.000
169H169SER0-0.029-0.00430.3450.4180.4180.0000.0000.0000.000
170H170VAL00.0420.01328.145-0.330-0.3300.0000.0000.0000.000
171H171HIS0-0.0180.00728.6860.4850.4850.0000.0000.0000.000
172H172THR00.0170.01526.671-0.342-0.3420.0000.0000.0000.000
173H173PHE0-0.041-0.03028.5300.2180.2180.0000.0000.0000.000
174H174PRO0-0.001-0.01627.645-0.003-0.0030.0000.0000.0000.000
175H175ALA00.0250.03929.220-0.411-0.4110.0000.0000.0000.000
176H176LEU0-0.016-0.01431.0170.0960.0960.0000.0000.0000.000
177H177LEU0-0.042-0.01133.805-0.199-0.1990.0000.0000.0000.000
178H178GLN00.001-0.00535.834-0.211-0.2110.0000.0000.0000.000
179H179SER0-0.036-0.03439.662-0.015-0.0150.0000.0000.0000.000
180H180GLY0-0.0010.00938.661-0.091-0.0910.0000.0000.0000.000
181H181LEU0-0.046-0.01137.2700.1180.1180.0000.0000.0000.000
182H182TYR00.0230.01131.2420.0020.0020.0000.0000.0000.000
183H183THR0-0.038-0.02635.080-0.271-0.2710.0000.0000.0000.000
184H184MET00.0230.02929.333-0.020-0.0200.0000.0000.0000.000
185H185SER0-0.0010.00532.987-0.295-0.2950.0000.0000.0000.000
186H186SER00.0170.01530.6040.3680.3680.0000.0000.0000.000
187H187SER00.0070.00332.541-0.232-0.2320.0000.0000.0000.000
188H188VAL00.0610.02132.0880.3640.3640.0000.0000.0000.000
189H189THR0-0.025-0.00434.170-0.389-0.3890.0000.0000.0000.000
190H190VAL00.017-0.00235.0190.3110.3110.0000.0000.0000.000
191H191PRO00.0320.02436.835-0.225-0.2250.0000.0000.0000.000
192H192SER00.0880.00640.0650.0490.0490.0000.0000.0000.000
193H193SER0-0.057-0.02643.178-0.041-0.0410.0000.0000.0000.000
194H194THR0-0.074-0.06739.3400.0620.0620.0000.0000.0000.000
195H195TRP00.0680.04240.7960.0770.0770.0000.0000.0000.000
196H196PRO0-0.0070.00642.064-0.010-0.0100.0000.0000.0000.000
197H197SER0-0.084-0.03744.251-0.037-0.0370.0000.0000.0000.000
198H198GLN0-0.012-0.01239.8470.1530.1530.0000.0000.0000.000
199H199THR00.0130.00039.4460.0210.0210.0000.0000.0000.000
200H200VAL00.013-0.00535.9410.2130.2130.0000.0000.0000.000
201H201THR0-0.089-0.05035.721-0.348-0.3480.0000.0000.0000.000
202H202CYS-1-0.752-0.82333.4439.1749.1740.0000.0000.0000.000
203H203SER00.0250.00830.884-0.113-0.1130.0000.0000.0000.000
204H204VAL00.028-0.00730.7580.3730.3730.0000.0000.0000.000
205H205ALA00.0000.01627.889-0.245-0.2450.0000.0000.0000.000
206H206HIS00.004-0.00129.0320.0400.0400.0000.0000.0000.000
207H207PRO00.0480.01125.515-0.305-0.3050.0000.0000.0000.000
208H208ALA0-0.0070.00528.402-0.165-0.1650.0000.0000.0000.000
209H209SER0-0.055-0.04930.091-0.296-0.2960.0000.0000.0000.000
210H210SER0-0.056-0.02331.232-0.222-0.2220.0000.0000.0000.000
211H211THR0-0.011-0.00532.245-0.243-0.2430.0000.0000.0000.000
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