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: N15MQ

Calculation Name: 4L7A-A-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 4L7A

Chain ID: A

ChEMBL ID:

UniProt ID: A5ZEW7

Base Structure: X-ray

Registration Date: 2023-06-20

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 261
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -3685654.218285
FMO2-HF: Nuclear repulsion 3579505.078797
FMO2-HF: Total energy -106149.139488
FMO2-MP2: Total energy -106458.461416


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:37:SER)


Summations of interaction energy for fragment #1(A:37:SER)
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.
-30.547-19.7183.236-7.068-6.997-0.022
Interaction energy analysis for fragmet #1(A:37:SER)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : -0.017 / q_NPA : -0.022
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].
3A39PHE00.009-0.0032.478-5.903-0.2061.178-3.262-3.6130.023
4A40ASP-1-0.934-0.9452.202-25.168-20.0382.059-3.797-3.393-0.045
5A41ALA00.0010.0084.5380.1860.188-0.001-0.0090.0090.000
6A42SER0-0.022-0.0178.197-0.114-0.1140.0000.0000.0000.000
7A43GLU-1-0.862-0.96410.554-0.690-0.6900.0000.0000.0000.000
8A44LYS10.9090.95613.9040.5010.5010.0000.0000.0000.000
9A45GLU-1-0.805-0.90310.098-0.908-0.9080.0000.0000.0000.000
10A46LYS10.9630.98310.5751.1291.1290.0000.0000.0000.000
11A47SER0-0.0120.00414.6060.0760.0760.0000.0000.0000.000
12A48GLU-1-0.938-0.98017.027-0.205-0.2050.0000.0000.0000.000
13A49PHE00.0230.00415.3620.0510.0510.0000.0000.0000.000
14A50ASP-1-0.776-0.87717.907-0.302-0.3020.0000.0000.0000.000
15A51ARG10.9000.95720.2050.2010.2010.0000.0000.0000.000
16A52TRP00.0690.03420.6030.0220.0220.0000.0000.0000.000
17A53LEU00.0050.00519.0670.0250.0250.0000.0000.0000.000
18A54LEU0-0.017-0.01123.0370.0170.0170.0000.0000.0000.000
19A55GLU-1-0.867-0.90425.726-0.112-0.1120.0000.0000.0000.000
20A56ASN0-0.037-0.02724.8420.0240.0240.0000.0000.0000.000
21A57TYR0-0.038-0.04223.3960.0120.0120.0000.0000.0000.000
22A58VAL0-0.0030.01026.3790.0070.0070.0000.0000.0000.000
23A59ASN0-0.027-0.03128.9500.0060.0060.0000.0000.0000.000
24A60PRO00.0060.01829.8980.0050.0050.0000.0000.0000.000
25A61TYR0-0.074-0.07429.4890.0040.0040.0000.0000.0000.000
26A62ASN0-0.074-0.01231.7030.0080.0080.0000.0000.0000.000
27A63ILE0-0.0110.00826.6570.0010.0010.0000.0000.0000.000
28A64ASP-1-0.887-0.94825.003-0.154-0.1540.0000.0000.0000.000
29A65PHE00.000-0.01318.6250.0070.0070.0000.0000.0000.000
30A66LYS10.9290.96720.4020.1430.1430.0000.0000.0000.000
31A67TYR00.038-0.00713.549-0.001-0.0010.0000.0000.0000.000
32A68ARG10.8230.91914.8680.4290.4290.0000.0000.0000.000
33A69MET00.0370.04310.5680.0560.0560.0000.0000.0000.000
34A70GLU-1-0.899-0.94215.956-0.495-0.4950.0000.0000.0000.000
35A71HIS0-0.059-0.03418.0560.0240.0240.0000.0000.0000.000
36A72ILE0-0.046-0.01518.2940.0320.0320.0000.0000.0000.000
37A73GLU-1-0.929-0.95321.031-0.159-0.1590.0000.0000.0000.000
38A74SER0-0.105-0.06322.4180.0220.0220.0000.0000.0000.000
39A75ASP-1-0.866-0.92123.720-0.093-0.0930.0000.0000.0000.000
40A76TYR0-0.035-0.01320.643-0.001-0.0010.0000.0000.0000.000
41A77THR0-0.006-0.01421.3160.0150.0150.0000.0000.0000.000
42A78HIS00.017-0.02120.293-0.016-0.0160.0000.0000.0000.000
43A79ASN0-0.021-0.01418.4040.0050.0050.0000.0000.0000.000
44A80LEU0-0.0350.01815.8100.0260.0260.0000.0000.0000.000
45A81VAL0-0.022-0.00111.405-0.005-0.0050.0000.0000.0000.000
46A82PRO00.001-0.0188.721-0.027-0.0270.0000.0000.0000.000
47A83THR00.026-0.03310.5740.1560.1560.0000.0000.0000.000
48A84ASP-1-0.885-0.9298.3700.5770.5770.0000.0000.0000.000
49A85PHE00.0510.0168.409-0.098-0.0980.0000.0000.0000.000
50A86TRP00.0890.0307.7110.0550.0550.0000.0000.0000.000
51A87LEU0-0.0190.00310.606-0.019-0.0190.0000.0000.0000.000
52A88SER0-0.008-0.02312.553-0.045-0.0450.0000.0000.0000.000
53A89VAL0-0.0140.00913.764-0.009-0.0090.0000.0000.0000.000
54A90LYS10.9150.96713.085-0.225-0.2250.0000.0000.0000.000
55A91LEU00.0430.01116.458-0.007-0.0070.0000.0000.0000.000
56A92ALA00.0040.01618.404-0.006-0.0060.0000.0000.0000.000
57A93LYS10.8640.94619.4620.0450.0450.0000.0000.0000.000
58A94ILE00.0260.01619.7790.0020.0020.0000.0000.0000.000
59A95VAL0-0.004-0.00922.5290.0000.0000.0000.0000.0000.000
60A96LYS10.8810.95824.4440.0420.0420.0000.0000.0000.000
61A97HIS00.0110.00825.695-0.005-0.0050.0000.0000.0000.000
62A98CYS0-0.007-0.00126.2020.0050.0050.0000.0000.0000.000
63A99TRP0-0.0130.00127.2440.0000.0000.0000.0000.0000.000
64A100LEU0-0.045-0.00927.418-0.001-0.0010.0000.0000.0000.000
65A101GLU-1-0.825-0.93828.890-0.018-0.0180.0000.0000.0000.000
66A102ALA0-0.0140.00832.0270.0020.0020.0000.0000.0000.000
67A103TYR0-0.018-0.05933.9920.0000.0000.0000.0000.0000.000
68A104ASP-1-0.775-0.83633.821-0.031-0.0310.0000.0000.0000.000
69A105GLU-1-0.838-0.90935.9770.0040.0040.0000.0000.0000.000
70A106VAL0-0.056-0.03137.8150.0010.0010.0000.0000.0000.000
71A107GLY0-0.011-0.00639.4700.0000.0000.0000.0000.0000.000
72A108GLY0-0.0060.01539.767-0.002-0.0020.0000.0000.0000.000
73A109LEU00.005-0.00835.0250.0000.0000.0000.0000.0000.000
74A110ASP-1-0.924-0.96737.946-0.035-0.0350.0000.0000.0000.000
75A111PHE0-0.0160.00038.200-0.001-0.0010.0000.0000.0000.000
76A112THR0-0.004-0.03433.5610.0010.0010.0000.0000.0000.000
77A113ARG10.8320.90035.2610.0520.0520.0000.0000.0000.000
78A114ALA0-0.068-0.01836.653-0.003-0.0030.0000.0000.0000.000
79A115CYS0-0.081-0.04637.0260.0010.0010.0000.0000.0000.000
80A116ALA00.0320.03932.2120.0020.0020.0000.0000.0000.000
81A117PRO0-0.013-0.00229.139-0.001-0.0010.0000.0000.0000.000
82A118LYS10.9370.95731.2530.0570.0570.0000.0000.0000.000
83A119VAL0-0.0170.00125.570-0.009-0.0090.0000.0000.0000.000
84A120ILE00.0270.01622.5560.0120.0120.0000.0000.0000.000
85A121HIS0-0.054-0.01621.197-0.023-0.0230.0000.0000.0000.000
86A122LEU00.0110.00816.6170.0240.0240.0000.0000.0000.000
87A123ILE0-0.0020.00016.670-0.033-0.0330.0000.0000.0000.000
88A124GLY00.0350.01713.6080.0370.0370.0000.0000.0000.000
89A125SER0-0.013-0.02914.610-0.041-0.0410.0000.0000.0000.000
90A126ALA00.0100.00414.7060.0510.0510.0000.0000.0000.000
91A127SER0-0.026-0.00915.7670.0390.0390.0000.0000.0000.000
92A128TRP00.0230.01618.461-0.018-0.0180.0000.0000.0000.000
93A129ASP-1-0.911-0.97021.4690.0600.0600.0000.0000.0000.000
94A130LYS10.8880.95822.680-0.031-0.0310.0000.0000.0000.000
95A131GLY0-0.0090.00624.646-0.011-0.0110.0000.0000.0000.000
96A132THR00.009-0.03122.0770.0010.0010.0000.0000.0000.000
97A133TYR00.0060.00122.962-0.004-0.0040.0000.0000.0000.000
98A134THR0-0.019-0.00525.087-0.002-0.0020.0000.0000.0000.000
99A135LEU00.0200.01727.225-0.002-0.0020.0000.0000.0000.000
100A136GLY00.0180.00629.920-0.002-0.0020.0000.0000.0000.000
101A137THR0-0.035-0.00931.3530.0010.0010.0000.0000.0000.000
102A138ALA00.021-0.01130.066-0.007-0.0070.0000.0000.0000.000
103A139GLU-1-0.935-0.96632.092-0.088-0.0880.0000.0000.0000.000
104A140GLY0-0.005-0.00334.3100.0030.0030.0000.0000.0000.000
105A141GLY0-0.032-0.01035.0520.0050.0050.0000.0000.0000.000
106A142LEU00.0270.02131.233-0.004-0.0040.0000.0000.0000.000
107A143LYS10.9500.98026.4390.0840.0840.0000.0000.0000.000
108A144VAL00.0220.00625.7760.0060.0060.0000.0000.0000.000
109A145THR0-0.016-0.00321.874-0.014-0.0140.0000.0000.0000.000
110A146LEU0-0.0010.00120.7260.0120.0120.0000.0000.0000.000
111A147TYR00.0030.01118.861-0.009-0.0090.0000.0000.0000.000
112A148MET0-0.0470.00612.7180.0160.0160.0000.0000.0000.000
113A149GLY00.1020.03312.914-0.010-0.0100.0000.0000.0000.000
114A150ASN0-0.024-0.0168.915-0.118-0.1180.0000.0000.0000.000
115A151TRP00.0050.00512.6790.0050.0050.0000.0000.0000.000
116A152LEU0-0.058-0.02915.701-0.032-0.0320.0000.0000.0000.000
117A153ASP-1-0.853-0.92316.6250.1990.1990.0000.0000.0000.000
118A154LEU0-0.025-0.04015.899-0.023-0.0230.0000.0000.0000.000
119A155THR0-0.0100.00119.872-0.019-0.0190.0000.0000.0000.000
120A156ASN0-0.0120.01122.472-0.021-0.0210.0000.0000.0000.000
121A157VAL00.0870.02924.492-0.003-0.0030.0000.0000.0000.000
122A158ASP-1-0.918-0.96027.3280.0590.0590.0000.0000.0000.000
123A159ARG10.8040.89723.707-0.093-0.0930.0000.0000.0000.000
124A160MET00.0130.02521.298-0.001-0.0010.0000.0000.0000.000
125A161ASN00.013-0.00624.903-0.014-0.0140.0000.0000.0000.000
126A162GLU-1-0.917-0.94527.4030.0620.0620.0000.0000.0000.000
127A163TYR0-0.0080.00021.7010.0010.0010.0000.0000.0000.000
128A164TYR0-0.002-0.02619.675-0.002-0.0020.0000.0000.0000.000
129A165PHE00.0380.01125.142-0.009-0.0090.0000.0000.0000.000
130A166LYS10.8560.93228.793-0.022-0.0220.0000.0000.0000.000
131A167VAL00.0290.00129.635-0.004-0.0040.0000.0000.0000.000
132A168MET0-0.0170.00526.492-0.003-0.0030.0000.0000.0000.000
133A169HIS00.0730.04630.805-0.007-0.0070.0000.0000.0000.000
134A170HIS0-0.078-0.03833.972-0.004-0.0040.0000.0000.0000.000
135A171GLU-1-0.895-0.96932.479-0.022-0.0220.0000.0000.0000.000
136A172PHE0-0.019-0.01829.828-0.004-0.0040.0000.0000.0000.000
137A173ALA00.0280.01735.812-0.002-0.0020.0000.0000.0000.000
138A174HIS00.0520.02238.2430.0010.0010.0000.0000.0000.000
139A175ILE0-0.032-0.00435.312-0.002-0.0020.0000.0000.0000.000
140A176LEU0-0.024-0.01639.631-0.001-0.0010.0000.0000.0000.000
141A177HIS0-0.026-0.02941.8720.0010.0010.0000.0000.0000.000
142A178GLN0-0.0180.00040.597-0.001-0.0010.0000.0000.0000.000
143A179LYS10.8770.95840.0230.0340.0340.0000.0000.0000.000
144A180LYS10.8730.95045.1840.0200.0200.0000.0000.0000.000
145A181ASN00.0370.04947.2730.0010.0010.0000.0000.0000.000
146A182TYR0-0.050-0.02846.5550.0000.0000.0000.0000.0000.000
147A183PRO0-0.029-0.02849.3840.0000.0000.0000.0000.0000.000
148A184VAL00.0770.02952.5140.0010.0010.0000.0000.0000.000
149A185ASP-1-0.921-0.97054.418-0.004-0.0040.0000.0000.0000.000
150A186TYR0-0.020-0.02946.6770.0010.0010.0000.0000.0000.000
151A187ASP-1-0.830-0.91050.905-0.006-0.0060.0000.0000.0000.000
152A188LYS10.8810.93752.7370.0050.0050.0000.0000.0000.000
153A189ILE0-0.0530.00352.4270.0010.0010.0000.0000.0000.000
154A190SER00.0250.01251.4030.0010.0010.0000.0000.0000.000
155A191ALA0-0.0040.00753.4670.0000.0000.0000.0000.0000.000
156A192GLY0-0.017-0.01155.0710.0010.0010.0000.0000.0000.000
157A193ASN00.0060.00052.1420.0000.0000.0000.0000.0000.000
158A194TYR0-0.065-0.05047.5040.0010.0010.0000.0000.0000.000
159A195THR0-0.033-0.02246.7400.0000.0000.0000.0000.0000.000
160A196PRO00.0290.01046.5600.0000.0000.0000.0000.0000.000
161A197THR0-0.001-0.00245.356-0.001-0.0010.0000.0000.0000.000
162A198GLY00.012-0.00744.8600.0010.0010.0000.0000.0000.000
163A199TRP00.0190.02337.4210.0030.0030.0000.0000.0000.000
164A200GLN0-0.001-0.00239.7600.0020.0020.0000.0000.0000.000
165A201ASN0-0.065-0.03441.6080.0040.0040.0000.0000.0000.000
166A202ARG10.9020.99244.080-0.006-0.0060.0000.0000.0000.000
167A203LYS10.9810.97740.651-0.027-0.0270.0000.0000.0000.000
168A204LEU00.0510.01240.055-0.001-0.0010.0000.0000.0000.000
169A205ALA0-0.010-0.01143.122-0.001-0.0010.0000.0000.0000.000
170A206GLU-1-0.910-0.95246.0490.0120.0120.0000.0000.0000.000
171A207VAL0-0.007-0.01344.110-0.001-0.0010.0000.0000.0000.000
172A208ALA00.0360.03845.504-0.001-0.0010.0000.0000.0000.000
173A209PRO0-0.030-0.01247.297-0.001-0.0010.0000.0000.0000.000
174A210LEU0-0.058-0.02550.106-0.001-0.0010.0000.0000.0000.000
175A211GLY00.014-0.00449.719-0.002-0.0020.0000.0000.0000.000
176A212PHE0-0.0430.00545.320-0.001-0.0010.0000.0000.0000.000
177A213VAL00.0450.01041.5560.0020.0020.0000.0000.0000.000
178A214THR0-0.027-0.04038.1680.0020.0020.0000.0000.0000.000
179A215PRO00.002-0.01639.613-0.002-0.0020.0000.0000.0000.000
180A216TYR00.0310.02437.781-0.002-0.0020.0000.0000.0000.000
181A217ALA00.0270.04840.774-0.003-0.0030.0000.0000.0000.000
182A218GLY00.0450.01743.072-0.001-0.0010.0000.0000.0000.000
183A219SER0-0.045-0.05342.722-0.001-0.0010.0000.0000.0000.000
184A220LYS10.8900.93443.7320.0110.0110.0000.0000.0000.000
185A221PRO00.0290.03145.7140.0010.0010.0000.0000.0000.000
186A222SER00.018-0.00943.7750.0010.0010.0000.0000.0000.000
187A223GLU-1-0.809-0.91040.211-0.011-0.0110.0000.0000.0000.000
188A224ASP-1-0.795-0.84941.8070.0060.0060.0000.0000.0000.000
189A225ILE00.0260.01643.5820.0020.0020.0000.0000.0000.000
190A226ALA00.0230.02939.0460.0010.0010.0000.0000.0000.000
191A227GLU-1-0.759-0.85937.3810.0120.0120.0000.0000.0000.000
192A228VAL0-0.038-0.01139.8840.0030.0030.0000.0000.0000.000
193A229THR0-0.008-0.01239.2960.0020.0020.0000.0000.0000.000
194A230ALA00.0130.01335.4380.0020.0020.0000.0000.0000.000
195A231CYS0-0.073-0.02136.1800.0030.0030.0000.0000.0000.000
196A232PHE0-0.020-0.00538.0280.0030.0030.0000.0000.0000.000
197A233LEU0-0.055-0.03636.2200.0020.0020.0000.0000.0000.000
198A234THR0-0.022-0.01232.4990.0030.0030.0000.0000.0000.000
199A235TYR0-0.036-0.03033.9840.0050.0050.0000.0000.0000.000
200A236PRO00.0570.03433.817-0.003-0.0030.0000.0000.0000.000
201A237GLU-1-0.921-0.96936.6090.0290.0290.0000.0000.0000.000
202A238ALA00.0440.01938.296-0.001-0.0010.0000.0000.0000.000
203A239GLN00.0030.00534.7300.0010.0010.0000.0000.0000.000
204A240TRP00.006-0.00538.747-0.002-0.0020.0000.0000.0000.000
205A241GLU-1-0.859-0.94341.3480.0220.0220.0000.0000.0000.000
206A242ASN0-0.0180.00140.646-0.001-0.0010.0000.0000.0000.000
207A243VAL0-0.027-0.01041.009-0.001-0.0010.0000.0000.0000.000
208A244MET00.0380.02443.726-0.002-0.0020.0000.0000.0000.000
209A245THR0-0.079-0.04646.121-0.001-0.0010.0000.0000.0000.000
210A246LEU0-0.047-0.03043.039-0.001-0.0010.0000.0000.0000.000
211A247ALA0-0.0090.00747.311-0.001-0.0010.0000.0000.0000.000
212A248GLY00.0120.00349.347-0.001-0.0010.0000.0000.0000.000
213A249GLU-1-0.953-0.99552.4140.0140.0140.0000.0000.0000.000
214A250LYS10.9170.96154.869-0.011-0.0110.0000.0000.0000.000
215A251GLY00.0970.04451.406-0.001-0.0010.0000.0000.0000.000
216A252LYS10.9120.96850.347-0.020-0.0200.0000.0000.0000.000
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