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: YQ2L2

Calculation Name: 2UWM-A-Xray316

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 2UWM

Chain ID: A

ChEMBL ID:

UniProt ID: Q46455

Base Structure: X-ray

Registration Date: 2021-09-06

Reference: C. Watanabe, S. Koyama, K. Kamisaka, D. Takaya, T. Honma et. al., Interaction energy analysis of Apo structure dataset on FMODB, To be pubulished.

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. 1.20200129
FMO calculation
FMO method FMO2-MP2/6-31G(d)
Fragmentation Auto
Number of fragment 195
LigandCharge
Software ABINIT-MP - Open Ver.1 Rev. 15 / 20190524
Total energy (hartree)
FMO2-HF: Electronic energy -2132678.133266
FMO2-HF: Nuclear repulsion 2056236.581586
FMO2-HF: Total energy -76441.55168
FMO2-MP2: Total energy -76672.201943


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:440:ACE )


Summations of interaction energy for fragment #1(A:440: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.
1.9753.0530.014-0.461-0.630
Interaction energy analysis for fragmet #1(A:440:ACE )
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.033 / 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].
3A442ALA 00.0730.0293.5810.9251.9220.014-0.439-0.5720.000
4A443TRP 00.0010.0085.382-0.356-0.2750.000-0.022-0.0580.000
5A444TRP 00.1340.0597.5560.3290.3290.0000.0000.0000.000
6A445GLN 00.0400.0238.7600.1680.1680.0000.0000.0000.000
7A446ALA 0-0.080-0.0309.6120.1330.1330.0000.0000.0000.000
8A447VAL 00.0420.01511.3740.1060.1060.0000.0000.0000.000
9A448THR 00.0520.02013.1630.0550.0550.0000.0000.0000.000
10A449ARG 10.9801.00512.2490.3450.3450.0000.0000.0000.000
11A450ALA 0-0.031-0.01415.4180.0430.0430.0000.0000.0000.000
12A451LEU 0-0.031-0.01917.2510.0380.0380.0000.0000.0000.000
13A452GLU -1-0.915-0.96418.750-0.175-0.1750.0000.0000.0000.000
14A453GLU -1-0.953-0.96919.944-0.142-0.1420.0000.0000.0000.000
15A454PHE 0-0.040-0.03521.4110.0210.0210.0000.0000.0000.000
16A455HIS 00.025-0.00422.0810.0010.0010.0000.0000.0000.000
17A456SER 0-0.0030.01624.7470.0160.0160.0000.0000.0000.000
18A457ARG 10.9630.99426.1440.1070.1070.0000.0000.0000.000
19A458TYR 0-0.114-0.07426.2990.0140.0140.0000.0000.0000.000
20A459PRO 00.0960.05728.626-0.007-0.0070.0000.0000.0000.000
21A460LEU 00.0060.01730.1720.0000.0000.0000.0000.0000.000
22A461ARG 10.8690.93728.5580.1050.1050.0000.0000.0000.000
23A462PRO 00.0280.02928.050-0.003-0.0030.0000.0000.0000.000
24A463GLY 00.0410.00924.476-0.010-0.0100.0000.0000.0000.000
25A464LEU 0-0.070-0.00519.0760.0130.0130.0000.0000.0000.000
26A465ALA 00.0630.01722.394-0.010-0.0100.0000.0000.0000.000
27A466ARG 10.9780.98420.3290.1790.1790.0000.0000.0000.000
28A467GLU -1-0.918-0.96919.511-0.214-0.2140.0000.0000.0000.000
29A468GLU -1-0.944-0.96421.081-0.146-0.1460.0000.0000.0000.000
30A469LEU 0-0.033-0.00914.854-0.013-0.0130.0000.0000.0000.000
31A470ARG 10.8900.94915.8390.1700.1700.0000.0000.0000.000
32A471SER 0-0.026-0.02916.093-0.016-0.0160.0000.0000.0000.000
33A472ARG 10.9380.99916.9720.2240.2240.0000.0000.0000.000
34A473TYR 0-0.037-0.02211.9650.0000.0000.0000.0000.0000.000
35A474PHE 0-0.036-0.0168.9690.0160.0160.0000.0000.0000.000
36A475SER 00.0230.01812.8200.0310.0310.0000.0000.0000.000
37A476ARG 10.9480.96712.3960.1140.1140.0000.0000.0000.000
38A477LEU 00.0170.0209.2550.0300.0300.0000.0000.0000.000
39A478PRO 00.0220.01312.6590.0230.0230.0000.0000.0000.000
40A479ALA 00.0450.01915.441-0.031-0.0310.0000.0000.0000.000
41A480ARG 10.9900.97717.4280.1450.1450.0000.0000.0000.000
42A481VAL 00.0430.02011.146-0.005-0.0050.0000.0000.0000.000
43A482TYR 00.0410.00713.194-0.068-0.0680.0000.0000.0000.000
44A483GLN 0-0.041-0.02814.343-0.008-0.0080.0000.0000.0000.000
45A484ALA 0-0.012-0.01114.5610.0060.0060.0000.0000.0000.000
46A485LEU 00.0180.0168.9110.0020.0020.0000.0000.0000.000
47A486LEU 0-0.027-0.00813.015-0.012-0.0120.0000.0000.0000.000
48A487GLU -1-0.860-0.95115.988-0.190-0.1900.0000.0000.0000.000
49A488GLU -1-0.929-0.94212.411-0.301-0.3010.0000.0000.0000.000
50A489TRP 00.032-0.0038.8410.0160.0160.0000.0000.0000.000
51A490SER 0-0.077-0.02715.1690.0380.0380.0000.0000.0000.000
52A491ARG 10.8750.93316.9100.2610.2610.0000.0000.0000.000
53A492GLU -1-0.905-0.94613.163-0.438-0.4380.0000.0000.0000.000
54A493GLY 0-0.0210.00017.7420.0140.0140.0000.0000.0000.000
55A494ARG 10.8640.93913.9820.3730.3730.0000.0000.0000.000
56A495LEU 0-0.051-0.03115.353-0.006-0.0060.0000.0000.0000.000
57A496GLN 0-0.052-0.03019.0830.0280.0280.0000.0000.0000.000
58A497LEU 0-0.014-0.02418.814-0.008-0.0080.0000.0000.0000.000
59A498ALA 00.0550.04622.8380.0160.0160.0000.0000.0000.000
60A499ALA 0-0.083-0.04125.006-0.009-0.0090.0000.0000.0000.000
61A500ASN 0-0.018-0.02725.314-0.005-0.0050.0000.0000.0000.000
62A501THR 00.0110.02223.715-0.008-0.0080.0000.0000.0000.000
63A502VAL 0-0.016-0.00418.003-0.003-0.0030.0000.0000.0000.000
64A503ALA 00.0430.01921.4150.0090.0090.0000.0000.0000.000
65A504LEU 00.0360.02216.864-0.022-0.0220.0000.0000.0000.000
66A505ALA 0-0.0010.01520.1410.0270.0270.0000.0000.0000.000
67A506GLY 00.0190.00722.180-0.001-0.0010.0000.0000.0000.000
68A507PHE 0-0.056-0.01324.3670.0120.0120.0000.0000.0000.000
69A508THR 00.004-0.00825.9520.0040.0040.0000.0000.0000.000
70A509PRO 0-0.0020.01229.6360.0010.0010.0000.0000.0000.000
71A510SER 0-0.036-0.03231.3420.0060.0060.0000.0000.0000.000
72A511PHE 0-0.019-0.00833.8710.0030.0030.0000.0000.0000.000
73A512SER 00.0360.02436.9740.0010.0010.0000.0000.0000.000
74A513GLU -1-0.797-0.92238.448-0.067-0.0670.0000.0000.0000.000
75A514THR 0-0.007-0.00140.9320.0010.0010.0000.0000.0000.000
76A515GLN 00.0680.02239.769-0.003-0.0030.0000.0000.0000.000
77A516LYS 10.8400.92834.8450.0730.0730.0000.0000.0000.000
78A517LYS 10.8630.94038.5600.0500.0500.0000.0000.0000.000
79A518LEU 00.0790.03741.4480.0000.0000.0000.0000.0000.000
80A519LEU 0-0.0150.00735.5770.0000.0000.0000.0000.0000.000
81A520LYS 10.9420.97735.6930.0740.0740.0000.0000.0000.000
82A521ASP -1-0.819-0.91139.245-0.051-0.0510.0000.0000.0000.000
83A522LEU 0-0.031-0.02340.8100.0020.0020.0000.0000.0000.000
84A523GLU -1-0.957-0.97335.446-0.082-0.0820.0000.0000.0000.000
85A524ASP -1-0.828-0.92139.434-0.058-0.0580.0000.0000.0000.000
86A525LYS 10.9160.97242.0090.0460.0460.0000.0000.0000.000
87A526TYR 00.004-0.01341.2710.0020.0020.0000.0000.0000.000
88A527ARG 10.8370.91438.8340.0630.0630.0000.0000.0000.000
89A528VAL 0-0.032-0.01341.6890.0010.0010.0000.0000.0000.000
90A529SER 0-0.052-0.01845.2030.0030.0030.0000.0000.0000.000
91A530ARG 10.9560.98442.8040.0500.0500.0000.0000.0000.000
92A531TRP 0-0.033-0.02842.6890.0000.0000.0000.0000.0000.000
93A532GLN 0-0.0160.00446.4240.0010.0010.0000.0000.0000.000
94A533PRO 0-0.0350.00044.9990.0010.0010.0000.0000.0000.000
95A534PRO 0-0.024-0.00446.0690.0020.0020.0000.0000.0000.000
96A535SER 00.033-0.00247.471-0.002-0.0020.0000.0000.0000.000
97A536PHE 00.0210.00144.3810.0010.0010.0000.0000.0000.000
98A537LYS 10.9850.97247.9370.0340.0340.0000.0000.0000.000
99A538GLU -1-0.908-0.93451.172-0.036-0.0360.0000.0000.0000.000
100A539VAL 0-0.017-0.00145.5640.0000.0000.0000.0000.0000.000
101A540ALA 0-0.0010.00249.0310.0000.0000.0000.0000.0000.000
102A541GLY 00.0110.01549.8630.0010.0010.0000.0000.0000.000
103A542SER 0-0.039-0.02950.0820.0010.0010.0000.0000.0000.000
104A543PHE 0-0.066-0.04646.3050.0000.0000.0000.0000.0000.000
105A544ASN 0-0.043-0.00349.7690.0000.0000.0000.0000.0000.000
106A545LEU 0-0.015-0.00345.344-0.001-0.0010.0000.0000.0000.000
107A546ASP -1-0.837-0.91548.666-0.037-0.0370.0000.0000.0000.000
108A547PRO 0-0.042-0.04647.604-0.002-0.0020.0000.0000.0000.000
109A548SER 00.007-0.00145.188-0.002-0.0020.0000.0000.0000.000
110A549GLU -1-0.815-0.91043.472-0.052-0.0520.0000.0000.0000.000
111A550LEU 0-0.014-0.00342.702-0.003-0.0030.0000.0000.0000.000
112A551GLU -1-0.936-0.97540.711-0.061-0.0610.0000.0000.0000.000
113A552GLU -1-0.935-0.97038.324-0.068-0.0680.0000.0000.0000.000
114A553LEU 0-0.025-0.01437.811-0.006-0.0060.0000.0000.0000.000
115A554LEU 00.010-0.01037.687-0.004-0.0040.0000.0000.0000.000
116A555HIS 00.0110.00934.854-0.007-0.0070.0000.0000.0000.000
117A556TYR 0-0.0080.00230.839-0.008-0.0080.0000.0000.0000.000
118A557LEU 00.0730.01932.702-0.007-0.0070.0000.0000.0000.000
119A558VAL 0-0.058-0.01933.629-0.004-0.0040.0000.0000.0000.000
120A559ARG 10.8570.92030.2410.0850.0850.0000.0000.0000.000
121A560GLU -1-0.920-0.95128.838-0.120-0.1200.0000.0000.0000.000
122A561GLY 0-0.021-0.02028.994-0.008-0.0080.0000.0000.0000.000
123A562VAL 00.0340.01431.1940.0030.0030.0000.0000.0000.000
124A563LEU 0-0.033-0.01333.7920.0060.0060.0000.0000.0000.000
125A564VAL 0-0.012-0.01134.697-0.004-0.0040.0000.0000.0000.000
126A565LYS 10.9340.98437.1570.0580.0580.0000.0000.0000.000
127A566ILE 0-0.071-0.02439.805-0.001-0.0010.0000.0000.0000.000
128A567ASN 00.0400.00542.2670.0010.0010.0000.0000.0000.000
129A568ASP -1-0.886-0.95644.380-0.047-0.0470.0000.0000.0000.000
130A569GLU -1-0.977-0.96846.134-0.038-0.0380.0000.0000.0000.000
131A570PHE 00.009-0.01245.7320.0000.0000.0000.0000.0000.000
132A571TYR 00.0730.03039.598-0.003-0.0030.0000.0000.0000.000
133A572TRP 00.015-0.00540.4740.0020.0020.0000.0000.0000.000
134A573HIS 00.0950.04536.163-0.003-0.0030.0000.0000.0000.000
135A574ARG 10.9660.98329.3320.1060.1060.0000.0000.0000.000
136A575GLN 0-0.018-0.01734.6280.0030.0030.0000.0000.0000.000
137A576ALA 00.0340.03136.9610.0030.0030.0000.0000.0000.000
138A577LEU 00.0230.01736.5030.0030.0030.0000.0000.0000.000
139A578GLY 0-0.046-0.02336.2620.0010.0010.0000.0000.0000.000
140A579GLU -1-0.887-0.95936.998-0.058-0.0580.0000.0000.0000.000
141A580ALA 00.0030.00840.0000.0030.0030.0000.0000.0000.000
142A581ARG 10.9070.94734.0820.0710.0710.0000.0000.0000.000
143A582GLU -1-0.890-0.94237.881-0.053-0.0530.0000.0000.0000.000
144A583VAL 00.0090.01640.3160.0030.0030.0000.0000.0000.000
145A584ILE 0-0.032-0.01742.5690.0020.0020.0000.0000.0000.000
146A585LYS 10.8740.93036.3820.0610.0610.0000.0000.0000.000
147A586ASN 00.0450.02642.2950.0020.0020.0000.0000.0000.000
148A587LEU 0-0.0200.02944.8540.0020.0020.0000.0000.0000.000
149A588ALA 0-0.014-0.01644.3760.0020.0020.0000.0000.0000.000
150A589SER 0-0.084-0.05144.3770.0020.0020.0000.0000.0000.000
151A590THR 0-0.0120.00046.0930.0010.0010.0000.0000.0000.000
152A591GLY 0-0.0020.00048.8750.0020.0020.0000.0000.0000.000
153A592PRO 0-0.047-0.03349.359-0.001-0.0010.0000.0000.0000.000
154A593PHE 00.0210.02446.0200.0010.0010.0000.0000.0000.000
155A594GLY 00.0410.00851.3210.0000.0000.0000.0000.0000.000
156A595LEU 0-0.021-0.02351.712-0.001-0.0010.0000.0000.0000.000
157A596ALA 0-0.039-0.02153.095-0.001-0.0010.0000.0000.0000.000
158A597GLU -1-0.783-0.90053.251-0.028-0.0280.0000.0000.0000.000
159A598ALA 00.0220.01148.857-0.001-0.0010.0000.0000.0000.000
160A599ARG 10.8020.89350.1910.0280.0280.0000.0000.0000.000
161A600ASP -1-0.847-0.91852.542-0.028-0.0280.0000.0000.0000.000
162A601ALA 0-0.024-0.00748.9590.0000.0000.0000.0000.0000.000
163A602LEU 0-0.056-0.02945.474-0.002-0.0020.0000.0000.0000.000
164A603GLY 00.0030.01749.329-0.001-0.0010.0000.0000.0000.000
165A604SER 0-0.007-0.00550.3780.0000.0000.0000.0000.0000.000
166A605SER 00.002-0.02552.4900.0020.0020.0000.0000.0000.000
167A606ARG 10.9820.97052.7640.0260.0260.0000.0000.0000.000
168A607LYS 10.9680.99952.9270.0330.0330.0000.0000.0000.000
169A608TYR 00.0290.02549.1340.0000.0000.0000.0000.0000.000
170A609VAL 00.0070.00448.409-0.002-0.0020.0000.0000.0000.000
171A610LEU 0-0.013-0.00648.362-0.001-0.0010.0000.0000.0000.000
172A611PRO 00.0570.02447.504-0.001-0.0010.0000.0000.0000.000
173A612LEU 00.0180.02742.296-0.002-0.0020.0000.0000.0000.000
174A613LEU 0-0.033-0.03943.840-0.002-0.0020.0000.0000.0000.000
175A614GLU -1-0.931-0.96345.042-0.038-0.0380.0000.0000.0000.000
176A615TYR 00.0460.02436.174-0.002-0.0020.0000.0000.0000.000
177A616LEU 0-0.050-0.03939.494-0.003-0.0030.0000.0000.0000.000
178A617ASP -1-0.763-0.84540.690-0.041-0.0410.0000.0000.0000.000
179A618GLN 0-0.022-0.00338.9810.0030.0030.0000.0000.0000.000
180A619VAL 0-0.098-0.04335.964-0.002-0.0020.0000.0000.0000.000
181A620LYS 10.8830.95036.4380.0460.0460.0000.0000.0000.000
182A621PHE 0-0.0080.00336.781-0.002-0.0020.0000.0000.0000.000
183A622THR 0-0.006-0.03738.6150.0010.0010.0000.0000.0000.000
184A623ARG 10.9520.96542.3410.0330.0330.0000.0000.0000.000
185A624ARG 10.8970.95744.6030.0310.0310.0000.0000.0000.000
186A625VAL 0-0.029-0.02448.2160.0000.0000.0000.0000.0000.000
187A626GLY 00.0340.02950.8600.0010.0010.0000.0000.0000.000
188A627ASP -1-0.887-0.94453.440-0.027-0.0270.0000.0000.0000.000
189A628LYS 10.8990.94051.8480.0260.0260.0000.0000.0000.000
190A629ARG 10.8740.94846.6430.0360.0360.0000.0000.0000.000
191A630VAL 00.0360.03044.7270.0010.0010.0000.0000.0000.000
192A631VAL 00.0420.01039.811-0.001-0.0010.0000.0000.0000.000
193A632VAL 0-0.057-0.02238.0760.0020.0020.0000.0000.0000.000
194A633GLY 0-0.004-0.00937.811-0.003-0.0030.0000.0000.0000.000
195A634NME 0-0.0080.01138.5890.0020.0020.0000.0000.0000.000