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: 5NJNZ

Calculation Name: 1WLH-A-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 1WLH

Chain ID: A

ChEMBL ID:

UniProt ID: P13466

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 311
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -3096096.093688
FMO2-HF: Nuclear repulsion 2981959.788751
FMO2-HF: Total energy -114136.304937
FMO2-MP2: Total energy -114472.693136


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:547:PRO)


Summations of interaction energy for fragment #1(A:547:PRO)
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.
-13.061-8.2766.097-3.575-7.306-0.024
Interaction energy analysis for fragmet #1(A:547:PRO)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : -0.089 / 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].
3A549ALA00.0510.0353.845-2.778-1.313-0.008-0.700-0.7560.002
4A550ASP-1-0.760-0.8606.682-0.284-0.2840.0000.0000.0000.000
5A551PRO00.0140.0218.341-0.021-0.0210.0000.0000.0000.000
6A552GLU-1-0.909-0.95911.603-0.302-0.3020.0000.0000.0000.000
7A553LYS10.7370.8558.8910.7470.7470.0000.0000.0000.000
8A554SER0-0.049-0.01310.031-0.017-0.0170.0000.0000.0000.000
9A555TYR0-0.027-0.01911.7210.1250.1250.0000.0000.0000.000
10A556ALA00.017-0.00315.439-0.052-0.0520.0000.0000.0000.000
11A557GLU-1-0.912-0.93418.245-0.362-0.3620.0000.0000.0000.000
12A558GLY00.1020.05821.479-0.015-0.0150.0000.0000.0000.000
13A559PRO0-0.050-0.04824.3310.0160.0160.0000.0000.0000.000
14A560GLY00.0420.01927.6430.0090.0090.0000.0000.0000.000
15A561LEU0-0.0120.02122.5130.0080.0080.0000.0000.0000.000
16A562ASP-1-0.853-0.93426.787-0.235-0.2350.0000.0000.0000.000
17A563GLY0-0.0160.00229.5270.0130.0130.0000.0000.0000.000
18A564GLY00.0480.02131.534-0.011-0.0110.0000.0000.0000.000
19A565GLU-1-0.773-0.85134.002-0.107-0.1070.0000.0000.0000.000
20A566CYS0-0.0610.01436.499-0.005-0.0050.0000.0000.0000.000
21A567PHE0-0.0120.00237.9530.0060.0060.0000.0000.0000.000
22A568GLN0-0.042-0.02135.031-0.004-0.0040.0000.0000.0000.000
23A569PRO0-0.044-0.01730.609-0.003-0.0030.0000.0000.0000.000
24A570SER0-0.0020.00429.715-0.004-0.0040.0000.0000.0000.000
25A571LYS10.8210.88025.3970.2120.2120.0000.0000.0000.000
26A572PHE0-0.064-0.03020.8380.0060.0060.0000.0000.0000.000
27A573LYS10.8800.94017.1890.5270.5270.0000.0000.0000.000
28A574ILE0-0.015-0.01814.0700.0140.0140.0000.0000.0000.000
29A575HIS0-0.037-0.04013.399-0.089-0.0890.0000.0000.0000.000
30A576ALA00.0180.0068.9730.0110.0110.0000.0000.0000.000
31A577VAL0-0.032-0.0017.468-0.039-0.0390.0000.0000.0000.000
32A578ASP-1-0.750-0.8832.611-8.370-6.9772.532-1.631-2.294-0.020
33A579PRO0-0.122-0.0554.5720.5800.657-0.001-0.005-0.0700.000
34A580ASP-1-0.900-0.9636.431-1.021-1.0210.0000.0000.0000.000
35A581GLY0-0.005-0.0196.667-0.452-0.4520.0000.0000.0000.000
36A582VAL00.0110.0215.4450.2520.2520.0000.0000.0000.000
37A583HIS00.0700.0574.178-0.672-0.466-0.001-0.038-0.1670.000
38A584ARG10.7410.8442.2203.1064.0193.458-1.342-3.029-0.005
39A585THR0-0.106-0.0812.6500.2810.9110.1180.145-0.894-0.001
40A586ASP-1-0.892-0.9475.227-1.542-1.441-0.001-0.004-0.0960.000
41A587GLY00.0670.0388.3470.3090.3090.0000.0000.0000.000
42A588GLY0-0.030-0.0028.1220.2610.2610.0000.0000.0000.000
43A589ASP-1-0.925-0.9589.050-0.470-0.4700.0000.0000.0000.000
44A590GLY00.0630.04211.3730.1280.1280.0000.0000.0000.000
45A591PHE0-0.050-0.02210.9300.0430.0430.0000.0000.0000.000
46A592VAL00.0030.00414.9990.0570.0570.0000.0000.0000.000
47A593VAL00.0200.00218.765-0.008-0.0080.0000.0000.0000.000
48A594THR0-0.104-0.06521.8710.0200.0200.0000.0000.0000.000
49A595ILE00.0250.01125.539-0.013-0.0130.0000.0000.0000.000
50A596GLU-1-0.823-0.87728.452-0.131-0.1310.0000.0000.0000.000
51A597GLY00.0570.01231.877-0.006-0.0060.0000.0000.0000.000
52A598PRO0-0.092-0.04135.2300.0060.0060.0000.0000.0000.000
53A599ALA00.0030.00936.9800.0060.0060.0000.0000.0000.000
54A600PRO0-0.050-0.01534.829-0.004-0.0040.0000.0000.0000.000
55A601VAL00.004-0.01730.2430.0010.0010.0000.0000.0000.000
56A602ASP-1-0.912-0.94829.358-0.125-0.1250.0000.0000.0000.000
57A603PRO0-0.055-0.01224.890-0.001-0.0010.0000.0000.0000.000
58A604VAL0-0.009-0.01524.7080.0000.0000.0000.0000.0000.000
59A605MET0-0.0400.00117.021-0.011-0.0110.0000.0000.0000.000
60A606VAL0-0.024-0.03020.5990.0320.0320.0000.0000.0000.000
61A607ASP-1-0.868-0.93516.150-0.409-0.4090.0000.0000.0000.000
62A608ASN0-0.031-0.01913.259-0.016-0.0160.0000.0000.0000.000
63A609GLY0-0.036-0.02213.7190.1080.1080.0000.0000.0000.000
64A610ASP-1-0.871-0.90611.758-0.825-0.8250.0000.0000.0000.000
65A611GLY0-0.010-0.0159.322-0.057-0.0570.0000.0000.0000.000
66A612THR0-0.089-0.05710.0300.0410.0410.0000.0000.0000.000
67A613TYR00.009-0.01910.385-0.071-0.0710.0000.0000.0000.000
68A614ASP-1-0.884-0.92516.016-0.424-0.4240.0000.0000.0000.000
69A615VAL00.0090.00419.8270.0130.0130.0000.0000.0000.000
70A616GLU-1-0.873-0.92022.401-0.200-0.2000.0000.0000.0000.000
71A617PHE00.0350.00526.1880.0110.0110.0000.0000.0000.000
72A618GLU-1-0.788-0.88729.198-0.120-0.1200.0000.0000.0000.000
73A619PRO0-0.0370.00232.3340.0090.0090.0000.0000.0000.000
74A620LYS10.8270.88834.5420.1170.1170.0000.0000.0000.000
75A621GLU-1-0.842-0.93137.942-0.084-0.0840.0000.0000.0000.000
76A622ALA00.002-0.00138.0720.0060.0060.0000.0000.0000.000
77A623GLY00.0430.02038.491-0.004-0.0040.0000.0000.0000.000
78A624ASP-1-0.929-0.97335.719-0.117-0.1170.0000.0000.0000.000
79A625TYR0-0.007-0.01331.6750.0060.0060.0000.0000.0000.000
80A626VAL0-0.048-0.02228.049-0.004-0.0040.0000.0000.0000.000
81A627ILE00.0230.02023.9480.0020.0020.0000.0000.0000.000
82A628ASN0-0.057-0.03823.577-0.008-0.0080.0000.0000.0000.000
83A629LEU00.0260.00616.838-0.005-0.0050.0000.0000.0000.000
84A630THR0-0.042-0.01517.7200.0120.0120.0000.0000.0000.000
85A631LEU00.009-0.00710.149-0.050-0.0500.0000.0000.0000.000
86A632ASP-1-0.913-0.97310.901-0.395-0.3950.0000.0000.0000.000
87A633GLY0-0.078-0.03514.0340.0880.0880.0000.0000.0000.000
88A634ASP-1-0.931-0.95414.816-0.173-0.1730.0000.0000.0000.000
89A635ASN0-0.052-0.04116.769-0.036-0.0360.0000.0000.0000.000
90A636VAL00.0200.02114.301-0.022-0.0220.0000.0000.0000.000
91A637ASN0-0.037-0.03015.5020.1060.1060.0000.0000.0000.000
92A638GLY0-0.042-0.02117.299-0.019-0.0190.0000.0000.0000.000
93A639PHE0-0.080-0.02019.1920.0250.0250.0000.0000.0000.000
94A640PRO00.013-0.01021.8520.0040.0040.0000.0000.0000.000
95A641LYS10.8040.90524.4250.2460.2460.0000.0000.0000.000
96A642THR0-0.013-0.00126.2380.0040.0040.0000.0000.0000.000
97A643VAL0-0.041-0.01228.360-0.007-0.0070.0000.0000.0000.000
98A644THR0-0.017-0.00431.2640.0070.0070.0000.0000.0000.000
99A645VAL0-0.040-0.00434.041-0.007-0.0070.0000.0000.0000.000
100A646LYS10.8160.89136.3730.1180.1180.0000.0000.0000.000
101A647PRO00.009-0.04339.817-0.002-0.0020.0000.0000.0000.000
102A648ALA00.0130.02541.386-0.001-0.0010.0000.0000.0000.000
103A649PRO0-0.0060.00442.6990.0060.0060.0000.0000.0000.000
104A650SER0-0.005-0.00645.715-0.002-0.0020.0000.0000.0000.000
105A651ALA00.0740.04148.4220.0020.0020.0000.0000.0000.000
106A652GLU-1-0.834-0.92550.592-0.055-0.0550.0000.0000.0000.000
107A653HIS0-0.150-0.08151.2630.0030.0030.0000.0000.0000.000
108A654SER00.0400.01650.3760.0010.0010.0000.0000.0000.000
109A655TYR0-0.024-0.01452.9780.0010.0010.0000.0000.0000.000
110A656ALA00.0140.00855.552-0.002-0.0020.0000.0000.0000.000
111A657GLU-1-0.947-0.96757.957-0.048-0.0480.0000.0000.0000.000
112A658GLY00.0540.01560.675-0.002-0.0020.0000.0000.0000.000
113A659GLU-1-0.882-0.95563.381-0.042-0.0420.0000.0000.0000.000
114A660GLY00.0340.02562.9480.0010.0010.0000.0000.0000.000
115A661LEU0-0.031-0.00859.647-0.001-0.0010.0000.0000.0000.000
116A662VAL0-0.0300.00064.0440.0010.0010.0000.0000.0000.000
117A663LYS10.7820.86367.8360.0410.0410.0000.0000.0000.000
118A664VAL00.0570.04665.884-0.001-0.0010.0000.0000.0000.000
119A665PHE0-0.007-0.02369.1240.0020.0020.0000.0000.0000.000
120A666ASP-1-0.829-0.91669.548-0.040-0.0400.0000.0000.0000.000
121A667ASN0-0.029-0.01869.963-0.001-0.0010.0000.0000.0000.000
122A668ALA0-0.047-0.02268.3550.0000.0000.0000.0000.0000.000
123A669PRO00.0060.02063.0460.0000.0000.0000.0000.0000.000
124A670ALA0-0.029-0.01163.0240.0010.0010.0000.0000.0000.000
125A671GLU-1-0.946-0.97660.902-0.054-0.0540.0000.0000.0000.000
126A672PHE0-0.052-0.03957.0460.0020.0020.0000.0000.0000.000
127A673THR0-0.036-0.01655.377-0.002-0.0020.0000.0000.0000.000
128A674ILE00.0080.01152.0180.0020.0020.0000.0000.0000.000
129A675PHE00.008-0.00653.595-0.001-0.0010.0000.0000.0000.000
130A676ALA00.0270.01848.5330.0010.0010.0000.0000.0000.000
131A677VAL0-0.036-0.01550.3130.0010.0010.0000.0000.0000.000
132A678ASP-1-0.729-0.87046.169-0.077-0.0770.0000.0000.0000.000
133A679THR0-0.051-0.03544.4300.0030.0030.0000.0000.0000.000
134A680LYS10.7580.86144.8100.0800.0800.0000.0000.0000.000
135A681GLY0-0.0200.00249.9680.0030.0030.0000.0000.0000.000
136A682VAL0-0.064-0.02449.4630.0030.0030.0000.0000.0000.000
137A683ALA0-0.0020.00350.404-0.002-0.0020.0000.0000.0000.000
138A684ARG10.7700.85143.9920.0920.0920.0000.0000.0000.000
139A685THR00.001-0.01146.0000.0020.0020.0000.0000.0000.000
140A686ASP-1-0.816-0.88741.962-0.103-0.1030.0000.0000.0000.000
141A687GLY00.0540.05244.7100.0010.0010.0000.0000.0000.000
142A688GLY0-0.022-0.02941.310-0.004-0.0040.0000.0000.0000.000
143A689ASP-1-0.805-0.87141.311-0.099-0.0990.0000.0000.0000.000
144A690PRO0-0.044-0.01940.9310.0030.0030.0000.0000.0000.000
145A691PHE00.006-0.01443.7480.0020.0020.0000.0000.0000.000
146A692GLU-1-0.863-0.89645.825-0.092-0.0920.0000.0000.0000.000
147A693VAL0-0.002-0.01249.0470.0030.0030.0000.0000.0000.000
148A694ALA0-0.0260.00052.708-0.001-0.0010.0000.0000.0000.000
149A695ILE00.0270.01054.9170.0020.0020.0000.0000.0000.000
150A696ASN0-0.074-0.03958.382-0.002-0.0020.0000.0000.0000.000
151A697GLY00.0430.02561.0650.0010.0010.0000.0000.0000.000
152A698PRO0-0.021-0.01064.5760.0000.0000.0000.0000.0000.000
153A699ASP-1-0.971-1.00266.384-0.045-0.0450.0000.0000.0000.000
154A700GLY0-0.0240.00063.907-0.001-0.0010.0000.0000.0000.000
155A701LEU0-0.047-0.00161.833-0.002-0.0020.0000.0000.0000.000
156A702VAL00.0270.00855.5310.0000.0000.0000.0000.0000.000
157A703VAL0-0.015-0.01358.4420.0010.0010.0000.0000.0000.000
158A704ASP-1-0.928-0.96254.349-0.069-0.0690.0000.0000.0000.000
159A705ALA0-0.0060.00154.9800.0010.0010.0000.0000.0000.000
160A706LYS10.8420.91650.9940.0720.0720.0000.0000.0000.000
161A707VAL00.0370.01549.8540.0020.0020.0000.0000.0000.000
162A708THR0-0.063-0.03650.172-0.003-0.0030.0000.0000.0000.000
163A709ASP-1-0.788-0.87645.126-0.092-0.0920.0000.0000.0000.000
164A710ASN0-0.0190.00448.3930.0000.0000.0000.0000.0000.000
165A711ASN0-0.021-0.02144.806-0.003-0.0030.0000.0000.0000.000
166A712ASP-1-0.899-0.95547.226-0.072-0.0720.0000.0000.0000.000
167A713GLY00.0250.03148.2920.0010.0010.0000.0000.0000.000
168A714THR0-0.089-0.06449.2030.0030.0030.0000.0000.0000.000
169A715TYR00.002-0.02846.072-0.004-0.0040.0000.0000.0000.000
170A716GLY00.0490.04451.8800.0030.0030.0000.0000.0000.000
171A717VAL0-0.053-0.03853.740-0.003-0.0030.0000.0000.0000.000
172A718VAL00.0190.01356.0420.0030.0030.0000.0000.0000.000
173A719TYR0-0.040-0.02557.615-0.002-0.0020.0000.0000.0000.000
174A720ASP-1-0.844-0.92260.078-0.051-0.0510.0000.0000.0000.000
175A721ALA00.016-0.00863.278-0.001-0.0010.0000.0000.0000.000
176A722PRO00.0140.01465.3500.0020.0020.0000.0000.0000.000
177A723VAL0-0.026-0.01168.2920.0010.0010.0000.0000.0000.000
178A724GLU-1-0.863-0.91169.664-0.037-0.0370.0000.0000.0000.000
179A725GLY0-0.016-0.02270.6610.0000.0000.0000.0000.0000.000
180A726ASN0-0.098-0.07466.3860.0000.0000.0000.0000.0000.000
181A727TYR0-0.005-0.02463.412-0.001-0.0010.0000.0000.0000.000
182A728ASN0-0.055-0.02960.800-0.002-0.0020.0000.0000.0000.000
183A729VAL00.0230.01458.438-0.002-0.0020.0000.0000.0000.000
184A730ASN00.028-0.01153.9420.0010.0010.0000.0000.0000.000
185A731VAL00.0300.01352.534-0.002-0.0020.0000.0000.0000.000
186A732THR0-0.059-0.06149.0900.0020.0020.0000.0000.0000.000
187A733LEU00.0220.00845.225-0.002-0.0020.0000.0000.0000.000
188A734ARG10.7980.86739.6580.1110.1110.0000.0000.0000.000
189A735GLY00.0130.00344.7580.0010.0010.0000.0000.0000.000
190A736ASN0-0.104-0.05346.7270.0060.0060.0000.0000.0000.000
191A737PRO0-0.004-0.00549.698-0.001-0.0010.0000.0000.0000.000
192A738ILE0-0.0120.00851.0860.0000.0000.0000.0000.0000.000
193A739LYS10.8350.92253.6760.0580.0580.0000.0000.0000.000
194A740ASN0-0.107-0.05756.9210.0020.0020.0000.0000.0000.000
195A741MET00.0110.05655.9790.0010.0010.0000.0000.0000.000
196A742PRO0-0.016-0.03057.510-0.001-0.0010.0000.0000.0000.000
197A743ILE0-0.040-0.00759.2910.0020.0020.0000.0000.0000.000
198A744ASP-1-0.844-0.88762.623-0.047-0.0470.0000.0000.0000.000
199A745VAL00.0020.01063.8680.0010.0010.0000.0000.0000.000
200A746LYS10.8660.94266.8580.0360.0360.0000.0000.0000.000
201A747CYS0-0.0270.01368.4790.0000.0000.0000.0000.0000.000
202A748ILE0-0.075-0.06270.4670.0010.0010.0000.0000.0000.000
203A749GLU-1-0.889-0.94373.486-0.034-0.0340.0000.0000.0000.000
204A750GLY0-0.015-0.01174.1650.0000.0000.0000.0000.0000.000
205A751ALA0-0.065-0.02375.1640.0000.0000.0000.0000.0000.000
206A752ASN00.0270.00274.760-0.001-0.0010.0000.0000.0000.000
207A753GLY00.0190.01676.4910.0010.0010.0000.0000.0000.000
208A754GLU-1-0.962-0.98875.065-0.035-0.0350.0000.0000.0000.000
209A755ASP-1-0.905-0.93778.314-0.033-0.0330.0000.0000.0000.000
210A756SER0-0.061-0.03680.8630.0010.0010.0000.0000.0000.000
211A757SER0-0.068-0.02583.1900.0000.0000.0000.0000.0000.000
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