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: PGQ21

Calculation Name: 1ES9-A-Xray13

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 1ES9

Chain ID: A

ChEMBL ID:

UniProt ID: Q29460

Base Structure: X-ray

Registration Date: 2018-03-01

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 No
Procedure Auto-FMO protocol ver. 1.20181228
FMO calculation
FMO method FMO2-MP2/6-31G(d)
Fragmentation Auto
Number of fragment 214
LigandCharge
Software MIZUHO/ABINIT-MP 3.0
Total energy (hartree)
FMO2-HF: Electronic energy -2597909.877966
FMO2-HF: Nuclear repulsion 2514730.041837
FMO2-HF: Total energy -83179.836129
FMO2-MP2: Total energy -83426.237751


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:4:ACE)


Summations of interaction energy for fragment #1(A:4:ACE)
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.
3.1063.739-0.008-0.278-0.3460.001
Interaction energy analysis for fragmet #1(A:4:ACE)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.006 / q_NPA : -0.005
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].
3A6ASN0-0.028-0.0133.8591.5862.219-0.008-0.278-0.3460.001
4A7PRO0-0.025-0.0186.574-0.064-0.0640.0000.0000.0000.000
5A8ALA0-0.0030.0058.3760.0510.0510.0000.0000.0000.000
6A9SER00.0400.0209.7960.0690.0690.0000.0000.0000.000
7A10LYS10.8700.9435.0021.3791.3790.0000.0000.0000.000
8A11PRO00.0300.0419.9560.1040.1040.0000.0000.0000.000
9A12THR0-0.020-0.01712.381-0.004-0.0040.0000.0000.0000.000
10A13PRO00.0180.01314.4030.0130.0130.0000.0000.0000.000
11A14VAL0-0.022-0.02116.7910.0010.0010.0000.0000.0000.000
12A15GLN0-0.054-0.03317.5590.0090.0090.0000.0000.0000.000
13A16ASP-1-0.751-0.86319.446-0.017-0.0170.0000.0000.0000.000
14A17VAL0-0.047-0.02520.6510.0050.0050.0000.0000.0000.000
15A18GLN0-0.080-0.04323.5980.0030.0030.0000.0000.0000.000
16A19GLY00.012-0.00527.2250.0040.0040.0000.0000.0000.000
17A20ASP-1-0.887-0.93928.704-0.025-0.0250.0000.0000.0000.000
18A21GLY00.0220.02427.042-0.003-0.0030.0000.0000.0000.000
19A22LYS10.9210.94827.2030.0250.0250.0000.0000.0000.000
20A23TRP0-0.041-0.03420.417-0.004-0.0040.0000.0000.0000.000
21A24MET00.0390.00921.578-0.010-0.0100.0000.0000.0000.000
22A25SER00.0060.01425.874-0.003-0.0030.0000.0000.0000.000
23A26LEU0-0.076-0.03927.6980.0010.0010.0000.0000.0000.000
24A27HIS10.8230.90424.3450.1140.1140.0000.0000.0000.000
25A28HIS00.0250.00126.196-0.007-0.0070.0000.0000.0000.000
26A29ARG10.9420.97929.2600.0540.0540.0000.0000.0000.000
27A30PHE0-0.0080.00327.2840.0030.0030.0000.0000.0000.000
28A31VAL0-0.023-0.01327.158-0.002-0.0020.0000.0000.0000.000
29A32ALA0-0.0160.00929.8900.0010.0010.0000.0000.0000.000
30A33ASP-1-0.889-0.96333.063-0.060-0.0600.0000.0000.0000.000
31A34SER0-0.063-0.05730.1990.0040.0040.0000.0000.0000.000
32A35LYS10.8940.95433.0500.0640.0640.0000.0000.0000.000
33A36ASP-1-0.910-0.94134.683-0.056-0.0560.0000.0000.0000.000
34A37LYS10.8330.91936.7270.0560.0560.0000.0000.0000.000
35A38GLU-1-0.885-0.95436.994-0.073-0.0730.0000.0000.0000.000
36A39PRO0-0.0570.00534.1120.0020.0020.0000.0000.0000.000
37A40GLU-1-0.895-0.97336.338-0.061-0.0610.0000.0000.0000.000
38A41VAL0-0.026-0.01733.677-0.004-0.0040.0000.0000.0000.000
39A42VAL00.0090.01029.0330.0030.0030.0000.0000.0000.000
40A43PHE00.0110.00829.999-0.004-0.0040.0000.0000.0000.000
41A44ILE0-0.002-0.00723.9160.0010.0010.0000.0000.0000.000
42A45GLY00.028-0.04624.067-0.004-0.0040.0000.0000.0000.000
43A46ASP-1-0.790-0.89223.561-0.073-0.0730.0000.0000.0000.000
44A47SER0-0.005-0.02125.3990.0050.0050.0000.0000.0000.000
45A48LEU00.0000.01027.4260.0050.0050.0000.0000.0000.000
46A49VAL00.0500.05627.7660.0030.0030.0000.0000.0000.000
47A50GLN00.0200.01429.5490.0050.0050.0000.0000.0000.000
48A51LEU0-0.031-0.01531.2980.0030.0030.0000.0000.0000.000
49A52MET00.0300.03133.2650.0040.0040.0000.0000.0000.000
50A53HIS0-0.015-0.02935.2040.0030.0030.0000.0000.0000.000
51A54GLN0-0.0420.00636.8260.0040.0040.0000.0000.0000.000
52A55CYS0-0.029-0.02437.3530.0030.0030.0000.0000.0000.000
53A56GLU-1-0.827-0.94838.236-0.034-0.0340.0000.0000.0000.000
54A57ILE0-0.205-0.03540.053-0.001-0.0010.0000.0000.0000.000
55A58TRP00.2250.05434.7490.0010.0010.0000.0000.0000.000
56A59ARG10.9480.96140.5040.0290.0290.0000.0000.0000.000
57A60GLU-1-0.968-0.97943.627-0.031-0.0310.0000.0000.0000.000
58A61LEU0-0.026-0.01441.0050.0000.0000.0000.0000.0000.000
59A62PHE00.016-0.01437.627-0.002-0.0020.0000.0000.0000.000
60A63SER0-0.071-0.02240.121-0.002-0.0020.0000.0000.0000.000
61A64PRO00.0200.00641.843-0.001-0.0010.0000.0000.0000.000
62A65LEU0-0.0140.00338.8060.0000.0000.0000.0000.0000.000
63A66HIS0-0.0080.01239.907-0.003-0.0030.0000.0000.0000.000
64A67ALA00.0200.00735.891-0.004-0.0040.0000.0000.0000.000
65A68LEU00.0000.00833.1480.0040.0040.0000.0000.0000.000
66A69ASN0-0.050-0.03931.620-0.007-0.0070.0000.0000.0000.000
67A70PHE00.0380.02927.5280.0030.0030.0000.0000.0000.000
68A71GLY00.011-0.01327.020-0.009-0.0090.0000.0000.0000.000
69A72ILE0-0.028-0.01924.3920.0080.0080.0000.0000.0000.000
70A73GLY0-0.034-0.02225.241-0.003-0.0030.0000.0000.0000.000
71A74GLY0-0.022-0.01523.6940.0010.0010.0000.0000.0000.000
72A75ASP-1-0.759-0.85220.660-0.109-0.1090.0000.0000.0000.000
73A76SER0-0.026-0.02316.3820.0140.0140.0000.0000.0000.000
74A77THR0-0.023-0.03614.6250.0040.0040.0000.0000.0000.000
75A78GLN00.0840.03912.730-0.012-0.0120.0000.0000.0000.000
76A79HIS00.0430.02914.724-0.010-0.0100.0000.0000.0000.000
77A80VAL00.0320.01017.7060.0060.0060.0000.0000.0000.000
78A81LEU0-0.0030.00313.9350.0080.0080.0000.0000.0000.000
79A82TRP00.0470.01315.8490.0190.0190.0000.0000.0000.000
80A83ARG10.7350.85717.8550.1280.1280.0000.0000.0000.000
81A84LEU0-0.046-0.02620.9560.0130.0130.0000.0000.0000.000
82A85GLU-1-0.909-0.94716.614-0.348-0.3480.0000.0000.0000.000
83A86ASN0-0.110-0.04418.5400.0210.0210.0000.0000.0000.000
84A87GLY00.0610.00422.4510.0160.0160.0000.0000.0000.000
85A88GLU-1-0.756-0.86625.182-0.105-0.1050.0000.0000.0000.000
86A89LEU00.0220.02724.2560.0070.0070.0000.0000.0000.000
87A90GLU-1-0.857-0.92026.413-0.134-0.1340.0000.0000.0000.000
88A91HIS0-0.010-0.00629.5670.0060.0060.0000.0000.0000.000
89A92ILE00.0420.05430.0540.0050.0050.0000.0000.0000.000
90A93ARG10.9510.97832.7250.0760.0760.0000.0000.0000.000
91A94PRO0-0.0280.01231.0080.0050.0050.0000.0000.0000.000
92A95LYS10.9340.95333.4910.0600.0600.0000.0000.0000.000
93A96ILE0-0.054-0.02232.095-0.003-0.0030.0000.0000.0000.000
94A97VAL00.0240.02426.5220.0020.0020.0000.0000.0000.000
95A98VAL0-0.025-0.01028.881-0.002-0.0020.0000.0000.0000.000
96A99VAL00.0310.01422.596-0.001-0.0010.0000.0000.0000.000
97A100TRP0-0.054-0.04425.5570.0050.0050.0000.0000.0000.000
98A101VAL00.0500.06620.6790.0040.0040.0000.0000.0000.000
99A102GLY00.0720.03219.271-0.010-0.0100.0000.0000.0000.000
100A103THR00.0060.01419.9010.0120.0120.0000.0000.0000.000
101A104ASN0-0.007-0.00920.6620.0230.0230.0000.0000.0000.000
102A105ASN00.0100.01014.5970.0220.0220.0000.0000.0000.000
103A106HIS0-0.052-0.04616.3570.0040.0040.0000.0000.0000.000
104A107GLY00.0420.02114.6070.0030.0030.0000.0000.0000.000
105A108HIS0-0.0090.02411.6440.0030.0030.0000.0000.0000.000
106A109THR00.0680.01812.121-0.009-0.0090.0000.0000.0000.000
107A110ALA00.0510.01014.294-0.037-0.0370.0000.0000.0000.000
108A111GLU-1-0.866-0.93613.554-0.081-0.0810.0000.0000.0000.000
109A112GLN00.0120.0167.774-0.010-0.0100.0000.0000.0000.000
110A113VAL00.0160.00612.191-0.057-0.0570.0000.0000.0000.000
111A114THR00.0260.00615.352-0.010-0.0100.0000.0000.0000.000
112A115GLY0-0.031-0.01613.001-0.004-0.0040.0000.0000.0000.000
113A116GLY00.0030.00314.050-0.042-0.0420.0000.0000.0000.000
114A117ILE00.014-0.00214.7610.0070.0070.0000.0000.0000.000
115A118LYS10.9430.96916.4190.2720.2720.0000.0000.0000.000
116A119ALA00.0080.00714.1140.0080.0080.0000.0000.0000.000
117A120ILE0-0.0060.00016.2410.0170.0170.0000.0000.0000.000
118A121VAL0-0.015-0.00419.1980.0160.0160.0000.0000.0000.000
119A122GLN0-0.062-0.03717.9970.0290.0290.0000.0000.0000.000
120A123LEU00.0490.02918.6050.0150.0150.0000.0000.0000.000
121A124VAL0-0.025-0.01920.4570.0210.0210.0000.0000.0000.000
122A125ASN0-0.033-0.02823.4060.0270.0270.0000.0000.0000.000
123A126GLU-1-0.895-0.92819.868-0.269-0.2690.0000.0000.0000.000
124A127ARG10.8090.89224.0140.1480.1480.0000.0000.0000.000
125A128GLN0-0.028-0.02225.6220.0200.0200.0000.0000.0000.000
126A129PRO00.0370.04127.9740.0050.0050.0000.0000.0000.000
127A130GLN0-0.104-0.08029.0330.0020.0020.0000.0000.0000.000
128A131ALA0-0.045-0.01229.5590.0070.0070.0000.0000.0000.000
129A132ARG10.8610.92230.0240.0740.0740.0000.0000.0000.000
130A133VAL00.0370.02024.9980.0010.0010.0000.0000.0000.000
131A134VAL0-0.007-0.00628.4330.0030.0030.0000.0000.0000.000
132A135VAL0-0.007-0.00623.565-0.005-0.0050.0000.0000.0000.000
133A136LEU00.0190.01326.6580.0060.0060.0000.0000.0000.000
134A137GLY0-0.050-0.03226.071-0.007-0.0070.0000.0000.0000.000
135A138LEU0-0.043-0.01221.1860.0040.0040.0000.0000.0000.000
136A139LEU00.0380.02325.8880.0040.0040.0000.0000.0000.000
137A140PRO0-0.0150.00327.6730.0000.0000.0000.0000.0000.000
138A141ARG10.9920.99324.2550.0220.0220.0000.0000.0000.000
139A142GLY0-0.023-0.01329.8370.0030.0030.0000.0000.0000.000
140A143GLN00.0570.04231.3330.0000.0000.0000.0000.0000.000
141A144HIS00.0780.04133.618-0.002-0.0020.0000.0000.0000.000
142A145PRO0-0.002-0.01131.822-0.001-0.0010.0000.0000.0000.000
143A146ASN0-0.026-0.02127.3310.0040.0040.0000.0000.0000.000
144A147PRO00.1030.02823.652-0.005-0.0050.0000.0000.0000.000
145A148LEU0-0.012-0.00121.693-0.005-0.0050.0000.0000.0000.000
146A149ARG10.7930.90924.308-0.001-0.0010.0000.0000.0000.000
147A150GLU-1-0.917-0.95424.779-0.012-0.0120.0000.0000.0000.000
148A151LYS10.8710.94916.7830.0310.0310.0000.0000.0000.000
149A152ASN0-0.028-0.03321.678-0.015-0.0150.0000.0000.0000.000
150A153ARG10.9310.96523.5480.0180.0180.0000.0000.0000.000
151A154ARG10.9190.96920.2350.0490.0490.0000.0000.0000.000
152A155VAL00.0090.00318.633-0.011-0.0110.0000.0000.0000.000
153A156ASN00.0230.01220.983-0.021-0.0210.0000.0000.0000.000
154A157GLU-1-0.915-0.94123.934-0.048-0.0480.0000.0000.0000.000
155A158LEU0-0.020-0.01017.914-0.004-0.0040.0000.0000.0000.000
156A159VAL00.004-0.00120.328-0.013-0.0130.0000.0000.0000.000
157A160ARG10.9470.98922.1960.0620.0620.0000.0000.0000.000
158A161ALA0-0.019-0.01423.4210.0000.0000.0000.0000.0000.000
159A162ALA0-0.063-0.03320.660-0.003-0.0030.0000.0000.0000.000
160A163LEU00.027-0.01022.633-0.006-0.0060.0000.0000.0000.000
161A164ALA0-0.0270.01125.4010.0060.0060.0000.0000.0000.000
162A165GLY0-0.012-0.00526.9410.0070.0070.0000.0000.0000.000
163A166HIS0-0.028-0.04022.377-0.023-0.0230.0000.0000.0000.000
164A167PRO00.0200.03228.1880.0040.0040.0000.0000.0000.000
165A168ARG10.8370.92429.8530.1140.1140.0000.0000.0000.000
166A169ALA00.0700.05826.378-0.005-0.0050.0000.0000.0000.000
167A170HIS00.001-0.00428.4570.0070.0070.0000.0000.0000.000
168A171PHE00.0500.02725.485-0.002-0.0020.0000.0000.0000.000
169A172LEU0-0.009-0.00528.8970.0060.0060.0000.0000.0000.000
170A173ASP-1-0.883-0.94230.263-0.052-0.0520.0000.0000.0000.000
171A174ALA0-0.055-0.04931.7290.0030.0030.0000.0000.0000.000
172A175ASP-1-0.810-0.89432.390-0.031-0.0310.0000.0000.0000.000
173A176PRO0-0.040-0.00234.3530.0000.0000.0000.0000.0000.000
174A177GLY00.001-0.01336.5860.0020.0020.0000.0000.0000.000
175A178PHE0-0.048-0.03434.0040.0020.0020.0000.0000.0000.000
176A179VAL0-0.085-0.04332.9730.0030.0030.0000.0000.0000.000
177A180HIS0-0.001-0.00536.2520.0000.0000.0000.0000.0000.000
178A181SER00.0230.00938.9260.0010.0010.0000.0000.0000.000
179A182ASP-1-0.862-0.91640.799-0.004-0.0040.0000.0000.0000.000
180A183GLY00.0200.02836.8220.0020.0020.0000.0000.0000.000
181A184THR0-0.052-0.06736.0350.0000.0000.0000.0000.0000.000
182A185ILE00.0020.01532.694-0.002-0.0020.0000.0000.0000.000
183A186SER00.0430.02137.1220.0030.0030.0000.0000.0000.000
184A187HIS00.025-0.00238.827-0.002-0.0020.0000.0000.0000.000
185A188HIS0-0.013-0.01339.881-0.002-0.0020.0000.0000.0000.000
186A189ASP-1-0.851-0.89438.123-0.022-0.0220.0000.0000.0000.000
187A190MET0-0.038-0.02232.418-0.002-0.0020.0000.0000.0000.000
188A191TYR0-0.0140.00834.5970.0010.0010.0000.0000.0000.000
189A192ASP-1-0.758-0.85032.847-0.016-0.0160.0000.0000.0000.000
190A193TYR0-0.024-0.01532.9620.0020.0020.0000.0000.0000.000
191A194LEU0-0.021-0.01527.0500.0000.0000.0000.0000.0000.000
192A195HIS10.7970.86528.6550.0230.0230.0000.0000.0000.000
193A196LEU00.0020.01932.6350.0030.0030.0000.0000.0000.000
194A197SER00.007-0.01835.476-0.001-0.0010.0000.0000.0000.000
195A198ARG10.9550.98138.9780.0270.0270.0000.0000.0000.000
196A199LEU00.000-0.01341.276-0.002-0.0020.0000.0000.0000.000
197A200GLY00.0710.02938.146-0.001-0.0010.0000.0000.0000.000
198A201TYR0-0.019-0.05332.844-0.001-0.0010.0000.0000.0000.000
199A202THR0-0.0270.01738.258-0.002-0.0020.0000.0000.0000.000
200A203PRO0-0.017-0.02839.044-0.002-0.0020.0000.0000.0000.000
201A204VAL00.0200.03133.862-0.002-0.0020.0000.0000.0000.000
202A205CYS0-0.036-0.01336.625-0.004-0.0040.0000.0000.0000.000
203A206ARG10.9841.00138.1860.0300.0300.0000.0000.0000.000
204A207ALA0-0.0020.00536.794-0.001-0.0010.0000.0000.0000.000
205A208LEU00.0110.00433.240-0.002-0.0020.0000.0000.0000.000
206A209HIS0-0.011-0.01036.263-0.002-0.0020.0000.0000.0000.000
207A210SER00.0090.00939.481-0.001-0.0010.0000.0000.0000.000
208A211LEU0-0.028-0.00433.351-0.001-0.0010.0000.0000.0000.000
209A212LEU00.010-0.02634.183-0.002-0.0020.0000.0000.0000.000
210A213LEU00.0190.01837.751-0.001-0.0010.0000.0000.0000.000
211A214ARG10.9130.96137.0500.0580.0580.0000.0000.0000.000
212A215LEU0-0.109-0.03634.341-0.001-0.0010.0000.0000.0000.000
213A216LEU0-0.017-0.02438.103-0.002-0.0020.0000.0000.0000.000
214A217NME0-0.0110.01840.3830.0020.0020.0000.0000.0000.000