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: 66QMZ

Calculation Name: 5FWH-A-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 5FWH

Chain ID: A

ChEMBL ID:

UniProt ID: A4IKE7

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 OptAll
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 195
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -2133761.532375
FMO2-HF: Nuclear repulsion 2056287.30201
FMO2-HF: Total energy -77474.230365
FMO2-MP2: Total energy -77699.137843


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:1:MET)


Summations of interaction energy for fragment #1(A:1:MET)
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.
-14.969-12.34821.092-9.612-14.101-0.061
Interaction energy analysis for fragmet #1(A:1:MET)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : -0.020 / q_NPA : 0.001
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].
3A3GLN00.0460.0162.968-0.3392.1172.647-1.682-3.4220.000
4A4LEU0-0.028-0.0075.483-0.976-0.944-0.001-0.016-0.0150.000
5A5TRP0-0.005-0.0076.8900.2450.2450.0000.0000.0000.000
6A6VAL00.012-0.00811.339-0.045-0.0450.0000.0000.0000.000
7A7LEU00.0020.00514.488-0.003-0.0030.0000.0000.0000.000
8A8TYR00.0330.00916.8000.0030.0030.0000.0000.0000.000
9A9GLU-1-0.834-0.90120.613-0.030-0.0300.0000.0000.0000.000
10A10THR0-0.0020.02022.206-0.003-0.0030.0000.0000.0000.000
11A11TYR0-0.038-0.01917.536-0.007-0.0070.0000.0000.0000.000
12A12CYS0-0.018-0.01112.519-0.003-0.0030.0000.0000.0000.000
13A13GLN0-0.033-0.01712.3130.0050.0050.0000.0000.0000.000
14A14LEU0-0.027-0.0156.270-0.019-0.0190.0000.0000.0000.000
15A15PHE00.0240.0097.012-0.095-0.0950.0000.0000.0000.000
16A16SER00.022-0.0012.380-4.117-3.8124.181-1.960-2.526-0.014
17A17LEU0-0.047-0.0184.853-0.744-0.624-0.001-0.034-0.0850.000
18A18THR0-0.021-0.0465.2560.0860.0860.0000.0000.0000.000
19A19ASN0-0.061-0.0636.964-0.004-0.0040.0000.0000.0000.000
20A20GLU-1-0.874-0.8798.9760.5100.5100.0000.0000.0000.000
21A21GLU-1-0.827-0.89810.8590.1570.1570.0000.0000.0000.000
22A22LYS10.8090.90111.997-0.131-0.1310.0000.0000.0000.000
23A23VAL0-0.007-0.01614.309-0.043-0.0430.0000.0000.0000.000
24A24ILE0-0.0100.01911.8380.0090.0090.0000.0000.0000.000
25A25VAL0-0.031-0.03215.162-0.036-0.0360.0000.0000.0000.000
26A26ILE00.0030.00515.0790.0110.0110.0000.0000.0000.000
27A27GLY00.041-0.00417.555-0.013-0.0130.0000.0000.0000.000
28A28ASN0-0.0120.00619.9290.0050.0050.0000.0000.0000.000
29A29GLN0-0.015-0.00821.746-0.006-0.0060.0000.0000.0000.000
30A30LEU0-0.006-0.01719.3840.0050.0050.0000.0000.0000.000
31A31GLU-1-0.930-0.94818.6740.0470.0470.0000.0000.0000.000
32A32HIS0-0.076-0.03817.7670.0100.0100.0000.0000.0000.000
33A33HIS00.0080.00212.409-0.027-0.0270.0000.0000.0000.000
34A34VAL0-0.005-0.00411.7550.0140.0140.0000.0000.0000.000
35A35THR00.001-0.00414.343-0.014-0.0140.0000.0000.0000.000
36A36VAL00.0130.00217.344-0.008-0.0080.0000.0000.0000.000
37A37SER00.006-0.01319.635-0.002-0.0020.0000.0000.0000.000
38A38SER0-0.050-0.03722.7900.0010.0010.0000.0000.0000.000
39A39PHE0-0.0090.00322.941-0.002-0.0020.0000.0000.0000.000
40A40SER0-0.023-0.04725.0240.0050.0050.0000.0000.0000.000
41A41PHE00.036-0.00220.6030.0040.0040.0000.0000.0000.000
42A42ARG10.8100.89526.3920.0110.0110.0000.0000.0000.000
43A43ASN0-0.097-0.06627.7380.0030.0030.0000.0000.0000.000
44A44GLY00.0080.01326.878-0.001-0.0010.0000.0000.0000.000
45A45TYR0-0.017-0.00921.612-0.002-0.0020.0000.0000.0000.000
46A46ILE0-0.0010.00518.752-0.004-0.0040.0000.0000.0000.000
47A47GLN0-0.018-0.00918.8370.0100.0100.0000.0000.0000.000
48A48ILE00.0190.00313.397-0.027-0.0270.0000.0000.0000.000
49A49GLU-1-0.929-0.96015.0270.0820.0820.0000.0000.0000.000
50A50LYS10.7910.8798.9750.0510.0510.0000.0000.0000.000
51A51LYN0-0.042-0.01913.2710.0370.0370.0000.0000.0000.000
52A52SER0-0.055-0.04012.7960.0390.0390.0000.0000.0000.000
53A53ASP-1-0.846-0.92314.515-0.040-0.0400.0000.0000.0000.000
54A54GLY0-0.0250.01610.7470.0230.0230.0000.0000.0000.000
55A55SER00.0560.00011.0180.0320.0320.0000.0000.0000.000
56A56THR0-0.081-0.03711.844-0.096-0.0960.0000.0000.0000.000
57A57LEU00.0170.01010.1210.0380.0380.0000.0000.0000.000
58A58ALA00.0360.02914.032-0.006-0.0060.0000.0000.0000.000
59A59VAL00.0120.00517.0420.0170.0170.0000.0000.0000.000
60A60LEU00.007-0.00619.246-0.005-0.0050.0000.0000.0000.000
61A61GLN0-0.0220.00321.6880.0010.0010.0000.0000.0000.000
62A62GLY00.0470.01724.3000.0030.0030.0000.0000.0000.000
63A63GLY0-0.0350.00525.366-0.001-0.0010.0000.0000.0000.000
64A64ARG10.9120.94625.8650.0060.0060.0000.0000.0000.000
65A65GLN0-0.022-0.02320.8670.0100.0100.0000.0000.0000.000
66A66ILE0-0.063-0.03922.7000.0010.0010.0000.0000.0000.000
67A67GLY00.0060.00221.431-0.006-0.0060.0000.0000.0000.000
68A68GLU-1-0.873-0.92417.192-0.090-0.0900.0000.0000.0000.000
69A69LEU0-0.057-0.00913.373-0.010-0.0100.0000.0000.0000.000
70A70LYS10.9680.96113.0010.2140.2140.0000.0000.0000.000
71A71PRO00.035-0.0088.772-0.012-0.0120.0000.0000.0000.000
72A72ARG10.8380.9299.1760.6880.6880.0000.0000.0000.000
73A73CYS0-0.0720.01211.1460.1300.1300.0000.0000.0000.000
74A74SER00.0490.00013.541-0.010-0.0100.0000.0000.0000.000
75A75ILE0-0.024-0.00416.2760.0060.0060.0000.0000.0000.000
76A76THR00.0120.01519.3660.0040.0040.0000.0000.0000.000
77A77ILE0-0.0200.00021.2670.0020.0020.0000.0000.0000.000
78A78ASP-1-0.886-0.94623.906-0.029-0.0290.0000.0000.0000.000
79A79VAL0-0.007-0.00423.6520.0050.0050.0000.0000.0000.000
80A80ASP-1-0.783-0.82927.069-0.010-0.0100.0000.0000.0000.000
81A81GLY0-0.0140.00728.9250.0000.0000.0000.0000.0000.000
82A82GLN0-0.057-0.03225.045-0.006-0.0060.0000.0000.0000.000
83A83GLN0-0.0100.00924.990-0.001-0.0010.0000.0000.0000.000
84A84MET00.0500.01718.7110.0040.0040.0000.0000.0000.000
85A85THR0-0.039-0.01917.249-0.003-0.0030.0000.0000.0000.000
86A86ILE0-0.0110.00414.3870.0150.0150.0000.0000.0000.000
87A87ALA00.0300.00312.684-0.032-0.0320.0000.0000.0000.000
88A88TRP0-0.003-0.0086.929-0.009-0.0090.0000.0000.0000.000
89A89SER00.0340.0114.8600.3870.3870.0000.0000.0000.000
90A90GLY00.0280.0036.7880.1040.1040.0000.0000.0000.000
91A91GLU-1-0.862-0.9204.054-1.850-1.4440.000-0.246-0.160-0.001
92A92GLU-1-0.862-0.8991.954-6.348-8.1509.020-4.050-3.168-0.035
93A93GLN0-0.076-0.0602.188-4.220-3.3185.246-1.822-4.326-0.011
94A94ARG10.7870.8963.3042.3142.5160.0000.198-0.3990.000
95A95LYS10.9330.9606.3310.0000.0000.0000.0000.0000.000
96A96TYR00.0170.0038.2740.1150.1150.0000.0000.0000.000
97A97VAL0-0.034-0.04112.074-0.059-0.0590.0000.0000.0000.000
98A98TYR00.0260.00614.7560.0180.0180.0000.0000.0000.000
99A99TYR0-0.016-0.00818.180-0.006-0.0060.0000.0000.0000.000
100A100VAL00.003-0.01220.4760.0050.0050.0000.0000.0000.000
101A101GLY00.0050.00223.0020.0020.0020.0000.0000.0000.000
102A102GLN0-0.048-0.02525.6390.0020.0020.0000.0000.0000.000
103A103GLN0-0.047-0.00724.1150.0080.0080.0000.0000.0000.000
104A104SER00.012-0.01027.151-0.001-0.0010.0000.0000.0000.000
105A105GLU-1-0.811-0.87826.727-0.084-0.0840.0000.0000.0000.000
106A106VAL00.0270.01420.2830.0010.0010.0000.0000.0000.000
107A107LEU0-0.036-0.01322.806-0.005-0.0050.0000.0000.0000.000
108A108VAL0-0.024-0.00617.218-0.005-0.0050.0000.0000.0000.000
109A109SER00.031-0.01420.4800.0020.0020.0000.0000.0000.000
110A110ASN00.0220.00821.230-0.017-0.0170.0000.0000.0000.000
111A111ASP-1-0.797-0.83722.855-0.089-0.0890.0000.0000.0000.000
112A112PRO0-0.013-0.02725.394-0.002-0.0020.0000.0000.0000.000
113A113GLN0-0.071-0.03427.3800.0050.0050.0000.0000.0000.000
114A114ALA0-0.0050.01522.4890.0030.0030.0000.0000.0000.000
115A115ASP-1-0.814-0.89922.508-0.092-0.0920.0000.0000.0000.000
116A116ILE0-0.053-0.01916.056-0.005-0.0050.0000.0000.0000.000
117A117GLU-1-0.915-0.95219.355-0.117-0.1170.0000.0000.0000.000
118A118THR0-0.049-0.05614.978-0.025-0.0250.0000.0000.0000.000
119A119THR00.0250.00517.0960.0170.0170.0000.0000.0000.000
120A120ASN0-0.073-0.02913.0920.0390.0390.0000.0000.0000.000
121A121ALA0-0.008-0.01316.6600.0040.0040.0000.0000.0000.000
122A122ARG10.8100.88318.5390.1030.1030.0000.0000.0000.000
123A123PHE0-0.019-0.00616.7340.0040.0040.0000.0000.0000.000
124A124SER0-0.047-0.03222.562-0.001-0.0010.0000.0000.0000.000
125A125LEU00.0090.01218.674-0.002-0.0020.0000.0000.0000.000
126A126ARG10.8270.88823.2510.0860.0860.0000.0000.0000.000
127A127LYS10.8100.92825.3350.0780.0780.0000.0000.0000.000
128A128HIS00.009-0.00527.2480.0100.0100.0000.0000.0000.000
129A129ARG10.8750.92229.4830.0520.0520.0000.0000.0000.000
130A130GLY00.0290.02328.2490.0030.0030.0000.0000.0000.000
131A131GLN0-0.030-0.00825.359-0.001-0.0010.0000.0000.0000.000
132A132TRP00.002-0.00121.7450.0030.0030.0000.0000.0000.000
133A133VAL0-0.043-0.02323.210-0.002-0.0020.0000.0000.0000.000
134A134VAL00.0310.02120.049-0.002-0.0020.0000.0000.0000.000
135A135ILE0-0.048-0.03722.7960.0100.0100.0000.0000.0000.000
136A136PRO00.0170.00922.707-0.006-0.0060.0000.0000.0000.000
137A137ASP-1-0.859-0.94824.217-0.079-0.0790.0000.0000.0000.000
138A138ASP-1-0.925-0.96125.316-0.072-0.0720.0000.0000.0000.000
139A139ASP-1-0.942-0.97625.101-0.101-0.1010.0000.0000.0000.000
140A140ALA0-0.026-0.00120.894-0.006-0.0060.0000.0000.0000.000
141A141PRO0-0.033-0.01319.6840.0010.0010.0000.0000.0000.000
142A142LEU0-0.0100.00816.741-0.012-0.0120.0000.0000.0000.000
143A143PHE0-0.006-0.02015.3110.0180.0180.0000.0000.0000.000
144A144LEU00.0140.00015.729-0.021-0.0210.0000.0000.0000.000
145A145ASN0-0.070-0.05613.486-0.008-0.0080.0000.0000.0000.000
146A146GLY00.0420.03414.1020.0120.0120.0000.0000.0000.000
147A147VAL0-0.027-0.01614.7140.0160.0160.0000.0000.0000.000
148A148GLN0-0.007-0.00118.555-0.008-0.0080.0000.0000.0000.000
149A149LEU0-0.045-0.01819.1050.0040.0040.0000.0000.0000.000
150A150SER0-0.028-0.03622.5490.0010.0010.0000.0000.0000.000
151A151ASP-1-0.904-0.93325.759-0.065-0.0650.0000.0000.0000.000
152A152ALA0-0.010-0.00325.254-0.006-0.0060.0000.0000.0000.000
153A153VAL00.0050.00722.3960.0050.0050.0000.0000.0000.000
154A154SER0-0.051-0.02723.612-0.003-0.0030.0000.0000.0000.000
155A155LEU0-0.028-0.00518.201-0.001-0.0010.0000.0000.0000.000
156A156ARG10.7840.84318.6030.1380.1380.0000.0000.0000.000
157A157ASN00.001-0.01117.489-0.015-0.0150.0000.0000.0000.000
158A158GLY0-0.024-0.01013.4270.0050.0050.0000.0000.0000.000
159A159ASP-1-0.779-0.83113.547-0.159-0.1590.0000.0000.0000.000
160A160VAL0-0.033-0.0239.364-0.025-0.0250.0000.0000.0000.000
161A161LEU00.0170.01412.5450.0350.0350.0000.0000.0000.000
162A162LEU0-0.032-0.0209.277-0.043-0.0430.0000.0000.0000.000
163A163CYS00.0480.03412.4420.0260.0260.0000.0000.0000.000
164A164PRO00.0260.00711.841-0.024-0.0240.0000.0000.0000.000
165A165TYR0-0.044-0.0258.856-0.003-0.0030.0000.0000.0000.000
166A166MET0-0.0130.0138.619-0.138-0.1380.0000.0000.0000.000
167A167GLN00.0020.0095.2490.1270.1270.0000.0000.0000.000
168A168PHE00.0230.0079.875-0.044-0.0440.0000.0000.0000.000
169A169VAL00.0060.0009.5760.0100.0100.0000.0000.0000.000
170A170PHE00.0490.03112.8330.0030.0030.0000.0000.0000.000
171A171ILE0-0.049-0.03011.808-0.016-0.0160.0000.0000.0000.000
172A172GLU-1-0.843-0.90515.532-0.093-0.0930.0000.0000.0000.000
173A173GLU-1-0.843-0.92519.373-0.082-0.0820.0000.0000.0000.000
174A174ASP-1-0.858-0.93722.046-0.082-0.0820.0000.0000.0000.000
175A175LEU0-0.034-0.00917.5420.0040.0040.0000.0000.0000.000
176A176LEU00.0370.02815.483-0.020-0.0200.0000.0000.0000.000
177A177ALA0-0.026-0.01511.1330.0110.0110.0000.0000.0000.000
178A178VAL00.0310.01411.282-0.013-0.0130.0000.0000.0000.000
179A179THR0-0.028-0.0224.850-0.014-0.0140.0000.0000.0000.000
180A180SER00.0200.0076.8550.0450.0450.0000.0000.0000.000
181A181SER00.0460.0175.863-0.088-0.0880.0000.0000.0000.000
182A182GLU-1-0.899-0.9326.903-0.269-0.2690.0000.0000.0000.000
183A183GLU-1-0.847-0.91110.232-0.055-0.0550.0000.0000.0000.000
184A184VAL0-0.0180.00111.673-0.013-0.0130.0000.0000.0000.000
185A185VAL00.0120.01514.2180.0340.0340.0000.0000.0000.000
186A186SER00.009-0.03118.033-0.009-0.0090.0000.0000.0000.000
187A187SER0-0.0040.00720.0060.0090.0090.0000.0000.0000.000
188A188LEU0-0.0160.00219.2850.0100.0100.0000.0000.0000.000
189A189THR0-0.027-0.02021.6750.0090.0090.0000.0000.0000.000
190A190GLU-1-0.843-0.91516.376-0.070-0.0700.0000.0000.0000.000
191A191THR0-0.037-0.02917.7220.0070.0070.0000.0000.0000.000
192A192MET0-0.093-0.05113.3380.0200.0200.0000.0000.0000.000
193A193PRO0-0.0060.00315.140-0.016-0.0160.0000.0000.0000.000
194A194PRO00.0540.03611.4820.0160.0160.0000.0000.0000.000
195A195LEU0-0.079-0.0256.5400.2200.2200.0000.0000.0000.000