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: 16NNZ

Calculation Name: 1W26-A-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 1W26

Chain ID: A

ChEMBL ID:

UniProt ID: P0A850

Base Structure: X-ray

Registration Date: 2023-09-27

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 432
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -6074510.401729
FMO2-HF: Nuclear repulsion 5905761.554075
FMO2-HF: Total energy -168748.847653
FMO2-MP2: Total energy -169242.434239


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.
-27.994-27.33633.481-14.989-19.149-0.022
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 : -0.008 / q_NPA : 0.061
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].
3A3VAL00.010-0.0082.239-2.229-0.0832.123-1.508-2.7610.000
4A4SER00.0160.0085.3850.5750.655-0.001-0.007-0.0710.000
5A5VAL0-0.005-0.0038.541-0.063-0.0630.0000.0000.0000.000
6A6GLU-1-0.830-0.88910.720-1.016-1.0160.0000.0000.0000.000
7A7THR0-0.001-0.01014.4160.0320.0320.0000.0000.0000.000
8A8THR0-0.038-0.01317.2780.0220.0220.0000.0000.0000.000
9A9GLN00.0400.00419.7920.0350.0350.0000.0000.0000.000
10A10GLY00.0580.04321.972-0.002-0.0020.0000.0000.0000.000
11A11LEU00.0770.04720.417-0.036-0.0360.0000.0000.0000.000
12A12GLY0-0.0040.01318.517-0.031-0.0310.0000.0000.0000.000
13A13ARG10.8190.88613.6700.5260.5260.0000.0000.0000.000
14A14ARG10.7840.87212.2930.8370.8370.0000.0000.0000.000
15A15VAL0-0.022-0.0026.705-0.095-0.0950.0000.0000.0000.000
16A16THR00.003-0.0078.6160.2810.2810.0000.0000.0000.000
17A17ILE0-0.0070.0002.912-1.628-0.7730.134-0.202-0.787-0.002
18A18THR0-0.0130.0004.3291.2011.401-0.001-0.030-0.1690.000
19A19ILE0-0.030-0.0102.556-3.654-1.7301.142-1.501-1.565-0.017
20A20ALA00.0540.0284.170-0.817-0.740-0.001-0.013-0.0630.000
21A21ALA00.0610.0165.9290.4430.4430.0000.0000.0000.000
22A22ASP-1-0.894-0.9507.4631.7671.7670.0000.0000.0000.000
23A23SER00.0030.0006.2430.5500.5500.0000.0000.0000.000
24A24ILE00.0070.0138.378-0.039-0.0390.0000.0000.0000.000
25A25GLU-1-0.830-0.91210.4010.5080.5080.0000.0000.0000.000
26A26THR0-0.068-0.05011.115-0.221-0.2210.0000.0000.0000.000
27A27ALA00.0510.04210.335-0.112-0.1120.0000.0000.0000.000
28A28VAL00.0010.00912.405-0.181-0.1810.0000.0000.0000.000
29A29LYS10.7500.85715.464-0.891-0.8910.0000.0000.0000.000
30A30SER0-0.033-0.01514.544-0.060-0.0600.0000.0000.0000.000
31A31GLU-1-0.755-0.87316.3220.5250.5250.0000.0000.0000.000
32A32LEU0-0.029-0.00518.086-0.087-0.0870.0000.0000.0000.000
33A33VAL0-0.049-0.02919.725-0.066-0.0660.0000.0000.0000.000
34A34ASN00.0060.00017.681-0.057-0.0570.0000.0000.0000.000
35A35VAL0-0.020-0.02121.791-0.054-0.0540.0000.0000.0000.000
36A36ALA0-0.0060.00223.984-0.036-0.0360.0000.0000.0000.000
37A37LYS10.9560.98623.197-0.537-0.5370.0000.0000.0000.000
38A38LYS10.8650.93922.031-0.469-0.4690.0000.0000.0000.000
39A39VAL0-0.002-0.00427.044-0.024-0.0240.0000.0000.0000.000
40A40ARG10.8790.95129.536-0.307-0.3070.0000.0000.0000.000
41A41ILE00.0320.00629.758-0.016-0.0160.0000.0000.0000.000
42A42ASP-1-0.887-0.95626.9110.3550.3550.0000.0000.0000.000
43A43GLY00.0020.00228.6300.0000.0000.0000.0000.0000.000
44A44PHE0-0.021-0.00431.748-0.019-0.0190.0000.0000.0000.000
45A45ARG10.8390.91826.104-0.372-0.3720.0000.0000.0000.000
46A46LYS10.9870.98230.574-0.192-0.1920.0000.0000.0000.000
47A47GLY00.0070.01328.876-0.011-0.0110.0000.0000.0000.000
48A48LYS10.9290.95028.877-0.164-0.1640.0000.0000.0000.000
49A49VAL00.0320.03126.140-0.016-0.0160.0000.0000.0000.000
50A50PRO00.0560.04523.1220.0200.0200.0000.0000.0000.000
51A51MET00.0560.01020.647-0.031-0.0310.0000.0000.0000.000
52A52ASN00.0990.02918.4720.0200.0200.0000.0000.0000.000
53A53ILE0-0.041-0.01319.818-0.022-0.0220.0000.0000.0000.000
54A54VAL0-0.021-0.01722.897-0.027-0.0270.0000.0000.0000.000
55A55ALA00.0420.02618.418-0.024-0.0240.0000.0000.0000.000
56A56GLN00.0400.01420.023-0.041-0.0410.0000.0000.0000.000
57A57ARG10.8580.93920.901-0.252-0.2520.0000.0000.0000.000
58A58TYR0-0.006-0.01523.389-0.026-0.0260.0000.0000.0000.000
59A59GLY00.0450.02619.6110.0060.0060.0000.0000.0000.000
60A60ALA00.0150.01019.6050.0180.0180.0000.0000.0000.000
61A61SER0-0.011-0.00521.165-0.008-0.0080.0000.0000.0000.000
62A62VAL0-0.028-0.01617.2080.0070.0070.0000.0000.0000.000
63A63ARG10.9190.96313.884-0.428-0.4280.0000.0000.0000.000
64A64GLN0-0.0060.00315.2990.0020.0020.0000.0000.0000.000
65A65ASP-1-0.827-0.90715.7070.3160.3160.0000.0000.0000.000
66A66VAL0-0.021-0.01912.2150.0500.0500.0000.0000.0000.000
67A67LEU0-0.0060.00010.7890.1980.1980.0000.0000.0000.000
68A68GLY00.0290.02811.135-0.049-0.0490.0000.0000.0000.000
69A69ASP-1-0.820-0.89311.5761.2871.2870.0000.0000.0000.000
70A70LEU0-0.037-0.0196.7140.1530.1530.0000.0000.0000.000
71A71MET0-0.0040.0116.9820.0810.0810.0000.0000.0000.000
72A72SER0-0.0080.0177.354-0.365-0.3650.0000.0000.0000.000
73A73ARG10.8480.8817.186-2.465-2.4650.0000.0000.0000.000
74A74ASN0-0.001-0.0322.527-4.472-5.7577.020-2.434-3.300-0.002
75A75PHE00.0420.0282.506-5.484-4.7991.754-0.996-1.444-0.015
76A76ILE00.0180.0065.140-0.339-0.304-0.001-0.003-0.0310.000
77A77ASP-1-0.803-0.9092.8087.47410.2571.350-1.665-2.468-0.023
78A78ALA0-0.010-0.0082.465-1.935-0.6341.772-1.013-2.060-0.013
79A79ILE0-0.0060.0033.1311.3550.9050.1430.557-0.2500.000
80A80ILE00.0190.0296.2300.2740.2740.0000.0000.0000.000
81A81LYS10.7030.8212.204-14.500-22.19318.047-6.174-4.1800.050
82A82GLU-1-0.893-0.9585.533-1.488-1.4880.0000.0000.0000.000
83A83LYS10.7720.8788.1620.0730.0730.0000.0000.0000.000
84A84ILE0-0.0030.0198.4040.0380.0380.0000.0000.0000.000
85A85ASN00.0420.00811.1320.0630.0630.0000.0000.0000.000
86A86PRO0-0.025-0.00911.745-0.002-0.0020.0000.0000.0000.000
87A87ALA00.0270.00514.5520.0620.0620.0000.0000.0000.000
88A88GLY00.0340.00317.0890.0190.0190.0000.0000.0000.000
89A89ALA0-0.038-0.01516.160-0.017-0.0170.0000.0000.0000.000
90A90PRO0-0.0170.00111.990-0.027-0.0270.0000.0000.0000.000
91A91THR00.0070.00314.4810.0840.0840.0000.0000.0000.000
92A92TYR0-0.028-0.0218.989-0.056-0.0560.0000.0000.0000.000
93A93VAL00.0110.00312.5970.0960.0960.0000.0000.0000.000
94A94PRO0-0.009-0.00412.789-0.117-0.1170.0000.0000.0000.000
95A95GLY00.0490.03912.813-0.010-0.0100.0000.0000.0000.000
96A96GLU-1-0.870-0.93314.350-0.181-0.1810.0000.0000.0000.000
97A97TYR0-0.035-0.03811.6760.0240.0240.0000.0000.0000.000
98A98LYS10.8720.94314.5740.2840.2840.0000.0000.0000.000
99A99LEU0-0.026-0.02615.1260.0410.0410.0000.0000.0000.000
100A100GLY0-0.048-0.02515.173-0.012-0.0120.0000.0000.0000.000
101A101GLU-1-0.916-0.95112.917-0.158-0.1580.0000.0000.0000.000
102A102ASP-1-0.841-0.9337.5710.0100.0100.0000.0000.0000.000
103A103PHE0-0.047-0.0387.623-0.020-0.0200.0000.0000.0000.000
104A104THR00.002-0.0017.1710.0050.0050.0000.0000.0000.000
105A105TYR0-0.081-0.0555.4170.1260.1260.0000.0000.0000.000
106A106SER00.0470.0089.059-0.361-0.3610.0000.0000.0000.000
107A107VAL0-0.043-0.0178.5740.1960.1960.0000.0000.0000.000
108A108GLU-1-0.825-0.88811.200-0.725-0.7250.0000.0000.0000.000
109A109PHE0-0.002-0.01410.8570.0700.0700.0000.0000.0000.000
110A110GLU-1-0.779-0.87815.714-0.313-0.3130.0000.0000.0000.000
111A111VAL0-0.054-0.02014.593-0.014-0.0140.0000.0000.0000.000
112A112TYR00.0340.00617.1940.0370.0370.0000.0000.0000.000
113A113PRO0-0.039-0.00419.844-0.033-0.0330.0000.0000.0000.000
114A114GLU-1-0.904-0.95321.311-0.210-0.2100.0000.0000.0000.000
115A115VAL0-0.049-0.03923.5600.0050.0050.0000.0000.0000.000
116A116GLU-1-0.911-0.94826.992-0.140-0.1400.0000.0000.0000.000
117A117LEU0-0.034-0.02629.6860.0040.0040.0000.0000.0000.000
118A118GLN0-0.035-0.01432.3270.0040.0040.0000.0000.0000.000
119A119GLY0-0.016-0.01735.5440.0040.0040.0000.0000.0000.000
120A120LEU00.0530.02435.0100.0050.0050.0000.0000.0000.000
121A121GLU-1-0.818-0.90739.261-0.054-0.0540.0000.0000.0000.000
122A122ALA0-0.084-0.04942.0470.0030.0030.0000.0000.0000.000
123A123ILE00.0120.03238.9920.0010.0010.0000.0000.0000.000
124A124GLU-1-0.891-0.92643.610-0.044-0.0440.0000.0000.0000.000
125A125VAL0-0.011-0.01344.482-0.001-0.0010.0000.0000.0000.000
126A126GLU-1-0.801-0.88247.673-0.024-0.0240.0000.0000.0000.000
127A127LYS10.8280.90249.8440.0120.0120.0000.0000.0000.000
128A128PRO0-0.024-0.00351.1720.0000.0000.0000.0000.0000.000
129A129ILE0-0.029-0.01754.1410.0020.0020.0000.0000.0000.000
130A130VAL0-0.010-0.01856.411-0.001-0.0010.0000.0000.0000.000
131A131GLU-1-0.945-0.96758.130-0.001-0.0010.0000.0000.0000.000
132A132VAL0-0.017-0.00659.385-0.001-0.0010.0000.0000.0000.000
133A133THR0-0.007-0.02561.9160.0010.0010.0000.0000.0000.000
134A134ASP-1-0.801-0.91765.6190.0020.0020.0000.0000.0000.000
135A135ALA00.0210.02068.3010.0000.0000.0000.0000.0000.000
136A136ASP-1-0.815-0.88063.802-0.007-0.0070.0000.0000.0000.000
137A137VAL00.0100.00264.7530.0000.0000.0000.0000.0000.000
138A138ASP-1-0.864-0.92166.5990.0000.0000.0000.0000.0000.000
139A139GLY00.0210.01468.0470.0000.0000.0000.0000.0000.000
140A140MET00.0140.01663.002-0.001-0.0010.0000.0000.0000.000
141A141LEU00.000-0.00666.0610.0010.0010.0000.0000.0000.000
142A142ASP-1-0.833-0.90268.942-0.004-0.0040.0000.0000.0000.000
143A143THR0-0.016-0.02164.6790.0000.0000.0000.0000.0000.000
144A144LEU0-0.011-0.00563.8170.0000.0000.0000.0000.0000.000
145A145ARG10.8050.89067.552-0.001-0.0010.0000.0000.0000.000
146A146LYS10.8300.88970.0970.0060.0060.0000.0000.0000.000
147A147GLN0-0.057-0.01762.8610.0000.0000.0000.0000.0000.000
148A148GLN0-0.066-0.03267.3680.0000.0000.0000.0000.0000.000
149A149ALA00.0360.02870.3540.0010.0010.0000.0000.0000.000
150A150THR0-0.080-0.05573.6950.0010.0010.0000.0000.0000.000
151A151TRP0-0.055-0.01773.6440.0000.0000.0000.0000.0000.000
152A152LYS10.8110.91078.6400.0030.0030.0000.0000.0000.000
153A153GLU-1-0.811-0.89882.121-0.005-0.0050.0000.0000.0000.000
154A154LYS10.7070.83481.9760.0070.0070.0000.0000.0000.000
155A155ASP-1-0.804-0.90387.126-0.006-0.0060.0000.0000.0000.000
156A156GLY0-0.085-0.04589.4540.0000.0000.0000.0000.0000.000
157A157ALA0-0.006-0.02086.3750.0000.0000.0000.0000.0000.000
158A158VAL00.0040.03281.4280.0000.0000.0000.0000.0000.000
159A159GLU-1-0.888-0.94980.906-0.007-0.0070.0000.0000.0000.000
160A160ALA0-0.054-0.04476.455-0.001-0.0010.0000.0000.0000.000
161A161GLU-1-0.898-0.95174.255-0.009-0.0090.0000.0000.0000.000
162A162ASP-1-0.721-0.83975.864-0.007-0.0070.0000.0000.0000.000
163A163ARG10.7390.83075.3360.0050.0050.0000.0000.0000.000
164A164VAL00.0340.00878.0330.0000.0000.0000.0000.0000.000
165A165THR0-0.016-0.00979.3130.0000.0000.0000.0000.0000.000
166A166ILE0-0.013-0.01379.8110.0000.0000.0000.0000.0000.000
167A167ASP-1-0.807-0.87481.384-0.010-0.0100.0000.0000.0000.000
168A168PHE0-0.024-0.02576.6470.0000.0000.0000.0000.0000.000
169A169THR0-0.037-0.02281.8930.0000.0000.0000.0000.0000.000
170A170GLY00.026-0.00281.1580.0000.0000.0000.0000.0000.000
171A171SER0-0.014-0.00882.2260.0000.0000.0000.0000.0000.000
172A172VAL0-0.032-0.01680.1170.0000.0000.0000.0000.0000.000
173A173ASP-1-0.893-0.96782.656-0.020-0.0200.0000.0000.0000.000
174A174GLY0-0.035-0.02086.1630.0000.0000.0000.0000.0000.000
175A175GLU-1-0.991-0.97381.736-0.021-0.0210.0000.0000.0000.000
176A176GLU-1-0.880-0.91782.988-0.016-0.0160.0000.0000.0000.000
177A177PHE00.0270.01577.9580.0000.0000.0000.0000.0000.000
178A178GLU-1-0.878-0.94772.206-0.024-0.0240.0000.0000.0000.000
179A179GLY00.0230.02575.7720.0010.0010.0000.0000.0000.000
180A180GLY0-0.009-0.00976.3640.0000.0000.0000.0000.0000.000
181A181LYS10.8390.90578.1380.0180.0180.0000.0000.0000.000
182A182ALA0-0.0110.01678.5400.0000.0000.0000.0000.0000.000
183A183SER0-0.006-0.01279.8650.0000.0000.0000.0000.0000.000
184A184ASP-1-0.872-0.93580.378-0.008-0.0080.0000.0000.0000.000
185A185PHE0-0.0250.00173.1000.0000.0000.0000.0000.0000.000
186A186VAL00.0280.01074.7250.0000.0000.0000.0000.0000.000
187A187LEU00.0040.01073.8030.0000.0000.0000.0000.0000.000
188A188ALA0-0.028-0.03072.3980.0010.0010.0000.0000.0000.000
189A189MET0-0.0130.01372.831-0.001-0.0010.0000.0000.0000.000
190A190GLY00.0340.01772.6850.0010.0010.0000.0000.0000.000
191A191GLN0-0.053-0.03967.9440.0000.0000.0000.0000.0000.000
192A192GLY00.0110.02768.115-0.001-0.0010.0000.0000.0000.000
193A193ARG10.8450.92568.6490.0110.0110.0000.0000.0000.000
194A194MET0-0.055-0.00970.0680.0000.0000.0000.0000.0000.000
195A195ILE00.0100.01271.432-0.001-0.0010.0000.0000.0000.000
196A196PRO00.0310.01270.7760.0010.0010.0000.0000.0000.000
197A197GLY00.0350.01273.2910.0000.0000.0000.0000.0000.000
198A198PHE0-0.027-0.01776.1680.0010.0010.0000.0000.0000.000
199A199GLU-1-0.794-0.92973.376-0.014-0.0140.0000.0000.0000.000
200A200ASP-1-0.882-0.95175.839-0.014-0.0140.0000.0000.0000.000
201A201GLY0-0.018-0.01178.8030.0010.0010.0000.0000.0000.000
202A202ILE00.0160.00980.0210.0000.0000.0000.0000.0000.000
203A203LYS10.8440.94277.0320.0140.0140.0000.0000.0000.000
204A204GLY0-0.012-0.01682.7810.0000.0000.0000.0000.0000.000
205A205HIS0-0.089-0.03185.3910.0000.0000.0000.0000.0000.000
206A206LYS10.8120.89287.5440.0090.0090.0000.0000.0000.000
207A207ALA00.025-0.00787.5150.0000.0000.0000.0000.0000.000
208A208GLY0-0.016-0.00588.5160.0000.0000.0000.0000.0000.000
209A209GLU-1-0.877-0.90690.349-0.009-0.0090.0000.0000.0000.000
210A210GLU-1-0.897-0.93989.691-0.010-0.0100.0000.0000.0000.000
211A211PHE0-0.041-0.02588.5100.0000.0000.0000.0000.0000.000
212A212THR0-0.053-0.03487.0770.0000.0000.0000.0000.0000.000
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