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: 5J7QZ

Calculation Name: 2UWM-A-Xray372

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: 2023-09-24

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 OptHSide
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 193
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -2126684.381903
FMO2-HF: Nuclear repulsion 2050412.525659
FMO2-HF: Total energy -76271.856244
FMO2-MP2: Total energy -76502.012742


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:441:GLN)


Summations of interaction energy for fragment #1(A:441:GLN)
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.
-8.275-10.9389.3441.47-8.1490.005
Interaction energy analysis for fragmet #1(A:441:GLN)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : -0.019 / q_NPA : -0.024
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].
3A443TRP0-0.020-0.0012.3631.617-4.4788.7562.791-5.452-0.009
4A444TRP00.1360.0603.257-1.382-0.4570.029-0.248-0.7050.000
5A445GLN00.0330.0214.874-0.382-0.270-0.001-0.010-0.1010.000
6A446ALA0-0.058-0.0216.109-0.001-0.0010.0000.0000.0000.000
7A447VAL00.0170.0047.405-0.227-0.2270.0000.0000.0000.000
8A448THR00.0580.0238.787-0.147-0.1470.0000.0000.0000.000
9A449ARG10.9751.00810.536-1.168-1.1680.0000.0000.0000.000
10A450ALA0-0.053-0.03311.769-0.095-0.0950.0000.0000.0000.000
11A451LEU00.0090.00112.108-0.100-0.1000.0000.0000.0000.000
12A452GLU-1-0.921-0.95914.4920.2770.2770.0000.0000.0000.000
13A453GLU-1-0.876-0.90416.2640.6750.6750.0000.0000.0000.000
14A454PHE0-0.019-0.01717.623-0.057-0.0570.0000.0000.0000.000
15A455HIS00.008-0.00517.1240.0150.0150.0000.0000.0000.000
16A456SER0-0.0100.00020.616-0.049-0.0490.0000.0000.0000.000
17A457ARG10.9410.98522.403-0.448-0.4480.0000.0000.0000.000
18A458TYR0-0.096-0.06822.549-0.042-0.0420.0000.0000.0000.000
19A459PRO00.0930.05524.2120.0260.0260.0000.0000.0000.000
20A460LEU00.0030.01625.624-0.008-0.0080.0000.0000.0000.000
21A461ARG10.8700.94124.009-0.426-0.4260.0000.0000.0000.000
22A462PRO00.0210.02222.3930.0030.0030.0000.0000.0000.000
23A463GLY00.0440.00719.1990.0220.0220.0000.0000.0000.000
24A464LEU0-0.059-0.00315.011-0.047-0.0470.0000.0000.0000.000
25A465ALA00.0570.01417.3530.0620.0620.0000.0000.0000.000
26A466ARG10.9280.95315.123-0.845-0.8450.0000.0000.0000.000
27A467GLU-1-0.900-0.96915.0581.2191.2190.0000.0000.0000.000
28A468GLU-1-0.929-0.95317.4870.7290.7290.0000.0000.0000.000
29A469LEU0-0.021-0.01510.7280.0540.0540.0000.0000.0000.000
30A470ARG10.8550.92812.535-0.989-0.9890.0000.0000.0000.000
31A471SER0-0.027-0.02413.5450.0850.0850.0000.0000.0000.000
32A472ARG10.8490.91814.098-0.978-0.9780.0000.0000.0000.000
33A473TYR0-0.038-0.0249.472-0.040-0.0400.0000.0000.0000.000
34A474PHE0-0.045-0.0145.431-0.056-0.0560.0000.0000.0000.000
35A475SER00.0410.02310.572-0.103-0.1030.0000.0000.0000.000
36A476ARG10.9350.96312.176-0.925-0.9250.0000.0000.0000.000
37A477LEU00.0120.0218.138-0.170-0.1700.0000.0000.0000.000
38A478PRO00.0400.02611.375-0.046-0.0460.0000.0000.0000.000
39A479ALA00.0500.02412.6100.1830.1830.0000.0000.0000.000
40A480ARG10.9850.97613.472-0.555-0.5550.0000.0000.0000.000
41A481VAL00.0380.0157.7380.0170.0170.0000.0000.0000.000
42A482TYR00.0460.0118.3650.6330.6330.0000.0000.0000.000
43A483GLN0-0.034-0.0279.7300.1400.1400.0000.0000.0000.000
44A484ALA0-0.001-0.0049.489-0.040-0.0400.0000.0000.0000.000
45A485LEU00.0030.0182.858-1.890-0.8100.267-0.441-0.9050.006
46A486LEU0-0.009-0.0046.7790.1300.1300.0000.0000.0000.000
47A487GLU-1-0.862-0.9269.4430.3310.3310.0000.0000.0000.000
48A488GLU-1-0.825-0.8795.771-0.266-0.2660.0000.0000.0000.000
49A489TRP00.020-0.0092.845-1.827-0.5120.293-0.622-0.9860.008
50A490SER0-0.028-0.0118.519-0.351-0.3510.0000.0000.0000.000
51A491ARG10.7470.8379.971-0.463-0.4630.0000.0000.0000.000
52A492GLU-1-0.850-0.8867.172-0.333-0.3330.0000.0000.0000.000
53A493GLY0-0.0170.00311.385-0.105-0.1050.0000.0000.0000.000
54A494ARG10.7940.8737.9990.2030.2030.0000.0000.0000.000
55A495LEU0-0.059-0.0359.3950.1120.1120.0000.0000.0000.000
56A496GLN0-0.036-0.02212.920-0.129-0.1290.0000.0000.0000.000
57A497LEU0-0.020-0.01912.2680.0960.0960.0000.0000.0000.000
58A498ALA00.0560.04316.367-0.101-0.1010.0000.0000.0000.000
59A499ALA0-0.056-0.02918.7570.0720.0720.0000.0000.0000.000
60A500ASN0-0.016-0.02419.6430.0370.0370.0000.0000.0000.000
61A501THR00.0070.02418.2610.0440.0440.0000.0000.0000.000
62A502VAL0-0.013-0.00112.2460.0140.0140.0000.0000.0000.000
63A503ALA00.0350.01515.608-0.051-0.0510.0000.0000.0000.000
64A504LEU00.0440.02811.7280.1090.1090.0000.0000.0000.000
65A505ALA00.0010.00814.640-0.076-0.0760.0000.0000.0000.000
66A506GLY00.0130.00616.638-0.041-0.0410.0000.0000.0000.000
67A507PHE0-0.049-0.01419.033-0.029-0.0290.0000.0000.0000.000
68A508THR00.004-0.00120.676-0.004-0.0040.0000.0000.0000.000
69A509PRO00.0080.01724.354-0.004-0.0040.0000.0000.0000.000
70A510SER0-0.036-0.03426.291-0.027-0.0270.0000.0000.0000.000
71A511PHE0-0.006-0.00428.672-0.009-0.0090.0000.0000.0000.000
72A512SER00.0320.00731.954-0.011-0.0110.0000.0000.0000.000
73A513GLU-1-0.798-0.91233.2140.1480.1480.0000.0000.0000.000
74A514THR00.006-0.00135.581-0.001-0.0010.0000.0000.0000.000
75A515GLN00.0510.02234.4090.0040.0040.0000.0000.0000.000
76A516LYS10.8350.91629.562-0.156-0.1560.0000.0000.0000.000
77A517LYS10.7910.88032.861-0.110-0.1100.0000.0000.0000.000
78A518LEU00.0620.02935.5070.0020.0020.0000.0000.0000.000
79A519LEU0-0.0030.01629.8560.0030.0030.0000.0000.0000.000
80A520LYS10.9410.97228.839-0.176-0.1760.0000.0000.0000.000
81A521ASP-1-0.770-0.86532.9820.1240.1240.0000.0000.0000.000
82A522LEU0-0.017-0.01534.864-0.003-0.0030.0000.0000.0000.000
83A523GLU-1-0.884-0.93829.0950.2500.2500.0000.0000.0000.000
84A524ASP-1-0.812-0.89533.0740.1470.1470.0000.0000.0000.000
85A525LYS10.9340.97735.487-0.133-0.1330.0000.0000.0000.000
86A526TYR0-0.014-0.00134.999-0.004-0.0040.0000.0000.0000.000
87A527ARG10.8060.88531.878-0.166-0.1660.0000.0000.0000.000
88A528VAL0-0.022-0.00835.127-0.004-0.0040.0000.0000.0000.000
89A529SER0-0.055-0.03838.574-0.009-0.0090.0000.0000.0000.000
90A530ARG10.8390.90135.977-0.149-0.1490.0000.0000.0000.000
91A531TRP0-0.014-0.01736.5430.0050.0050.0000.0000.0000.000
92A532GLN0-0.0170.01240.1980.0000.0000.0000.0000.0000.000
93A533PRO0-0.0230.00438.748-0.005-0.0050.0000.0000.0000.000
94A534PRO0-0.029-0.00639.877-0.005-0.0050.0000.0000.0000.000
95A535SER00.002-0.02941.4490.0100.0100.0000.0000.0000.000
96A536PHE00.004-0.00238.871-0.006-0.0060.0000.0000.0000.000
97A537LYS10.9870.97442.245-0.126-0.1260.0000.0000.0000.000
98A538GLU-1-0.862-0.90545.1190.1170.1170.0000.0000.0000.000
99A539VAL0-0.0110.00139.577-0.005-0.0050.0000.0000.0000.000
100A540ALA00.0060.00343.077-0.002-0.0020.0000.0000.0000.000
101A541GLY00.0040.01144.163-0.004-0.0040.0000.0000.0000.000
102A542SER0-0.031-0.02543.917-0.003-0.0030.0000.0000.0000.000
103A543PHE0-0.065-0.04440.177-0.003-0.0030.0000.0000.0000.000
104A544ASN0-0.062-0.01543.853-0.003-0.0030.0000.0000.0000.000
105A545LEU0-0.0130.00039.8090.0010.0010.0000.0000.0000.000
106A546ASP-1-0.840-0.91543.6620.1200.1200.0000.0000.0000.000
107A547PRO0-0.029-0.04042.3870.0080.0080.0000.0000.0000.000
108A548SER00.0050.00040.3650.0070.0070.0000.0000.0000.000
109A549GLU-1-0.803-0.88838.1590.1620.1620.0000.0000.0000.000
110A550LEU0-0.007-0.00237.4440.0100.0100.0000.0000.0000.000
111A551GLU-1-0.872-0.95335.8440.2360.2360.0000.0000.0000.000
112A552GLU-1-0.953-0.97233.4800.2320.2320.0000.0000.0000.000
113A553LEU0-0.017-0.01132.6360.0200.0200.0000.0000.0000.000
114A554LEU00.013-0.00632.0840.0170.0170.0000.0000.0000.000
115A555HIS0-0.014-0.00629.9890.0350.0350.0000.0000.0000.000
116A556TYR0-0.061-0.04324.8180.0310.0310.0000.0000.0000.000
117A557LEU00.0650.02227.1290.0320.0320.0000.0000.0000.000
118A558VAL0-0.066-0.02527.7590.0190.0190.0000.0000.0000.000
119A559ARG10.8660.92925.051-0.326-0.3260.0000.0000.0000.000
120A560GLU-1-0.860-0.90322.9240.4230.4230.0000.0000.0000.000
121A561GLY0-0.012-0.01323.0060.0400.0400.0000.0000.0000.000
122A562VAL0-0.002-0.00125.236-0.012-0.0120.0000.0000.0000.000
123A563LEU0-0.026-0.00827.569-0.027-0.0270.0000.0000.0000.000
124A564VAL0-0.015-0.01329.0360.0260.0260.0000.0000.0000.000
125A565LYS10.8770.94931.455-0.233-0.2330.0000.0000.0000.000
126A566ILE0-0.061-0.02334.3770.0070.0070.0000.0000.0000.000
127A567ASN00.0430.00336.906-0.002-0.0020.0000.0000.0000.000
128A568ASP-1-0.855-0.93339.0620.1940.1940.0000.0000.0000.000
129A569GLU-1-0.963-0.96440.9770.1320.1320.0000.0000.0000.000
130A570PHE00.007-0.01540.064-0.003-0.0030.0000.0000.0000.000
131A571TYR00.0310.01134.0700.0120.0120.0000.0000.0000.000
132A572TRP00.024-0.00134.612-0.013-0.0130.0000.0000.0000.000
133A573HIS00.0510.02029.4050.0160.0160.0000.0000.0000.000
134A574ARG10.9670.98723.155-0.418-0.4180.0000.0000.0000.000
135A575GLN0-0.019-0.02027.934-0.007-0.0070.0000.0000.0000.000
136A576ALA00.0430.03930.547-0.011-0.0110.0000.0000.0000.000
137A577LEU00.0320.01730.890-0.008-0.0080.0000.0000.0000.000
138A578GLY0-0.045-0.02530.210-0.001-0.0010.0000.0000.0000.000
139A579GLU-1-0.812-0.89731.0260.1510.1510.0000.0000.0000.000
140A580ALA00.0220.01333.916-0.010-0.0100.0000.0000.0000.000
141A581ARG10.9050.95129.281-0.281-0.2810.0000.0000.0000.000
142A582GLU-1-0.835-0.89932.0980.1800.1800.0000.0000.0000.000
143A583VAL00.0130.02634.708-0.009-0.0090.0000.0000.0000.000
144A584ILE0-0.024-0.01137.317-0.007-0.0070.0000.0000.0000.000
145A585LYS10.8320.89530.966-0.217-0.2170.0000.0000.0000.000
146A586ASN0-0.013-0.01636.890-0.013-0.0130.0000.0000.0000.000
147A587LEU00.0030.03139.634-0.007-0.0070.0000.0000.0000.000
148A588ALA0-0.010-0.01539.663-0.005-0.0050.0000.0000.0000.000
149A589SER0-0.094-0.04539.733-0.005-0.0050.0000.0000.0000.000
150A590THR0-0.026-0.00741.464-0.006-0.0060.0000.0000.0000.000
151A591GLY00.0190.01244.336-0.006-0.0060.0000.0000.0000.000
152A592PRO0-0.038-0.02844.9200.0040.0040.0000.0000.0000.000
153A593PHE00.0370.02741.090-0.005-0.0050.0000.0000.0000.000
154A594GLY00.0300.00246.5890.0040.0040.0000.0000.0000.000
155A595LEU0-0.027-0.02146.5670.0010.0010.0000.0000.0000.000
156A596ALA0-0.042-0.02247.7210.0020.0020.0000.0000.0000.000
157A597GLU-1-0.707-0.86147.8890.1000.1000.0000.0000.0000.000
158A598ALA00.0240.01343.5270.0010.0010.0000.0000.0000.000
159A599ARG10.7810.86644.541-0.090-0.0900.0000.0000.0000.000
160A600ASP-1-0.834-0.89746.8490.0890.0890.0000.0000.0000.000
161A601ALA0-0.016-0.00243.291-0.001-0.0010.0000.0000.0000.000
162A602LEU0-0.047-0.02239.6260.0030.0030.0000.0000.0000.000
163A603GLY00.0010.01843.3670.0010.0010.0000.0000.0000.000
164A604SER0-0.013-0.01544.3050.0000.0000.0000.0000.0000.000
165A605SER00.004-0.02246.427-0.005-0.0050.0000.0000.0000.000
166A606ARG10.9980.97646.968-0.095-0.0950.0000.0000.0000.000
167A607LYS10.9210.98346.799-0.113-0.1130.0000.0000.0000.000
168A608TYR00.0500.03043.2320.0010.0010.0000.0000.0000.000
169A609VAL00.0120.00642.7250.0080.0080.0000.0000.0000.000
170A610LEU0-0.027-0.01042.9510.0050.0050.0000.0000.0000.000
171A611PRO00.0550.02341.9570.0060.0060.0000.0000.0000.000
172A612LEU00.0090.02236.6610.0110.0110.0000.0000.0000.000
173A613LEU0-0.028-0.03038.6490.0100.0100.0000.0000.0000.000
174A614GLU-1-0.921-0.96640.2230.1540.1540.0000.0000.0000.000
175A615TYR00.0400.02231.1220.0100.0100.0000.0000.0000.000
176A616LEU0-0.044-0.03034.2860.0170.0170.0000.0000.0000.000
177A617ASP-1-0.749-0.82436.1370.1750.1750.0000.0000.0000.000
178A618GLN00.0170.01135.3400.0000.0000.0000.0000.0000.000
179A619VAL0-0.087-0.04731.3730.0130.0130.0000.0000.0000.000
180A620LYS10.8380.93232.234-0.228-0.2280.0000.0000.0000.000
181A621PHE0-0.0060.00032.0070.0080.0080.0000.0000.0000.000
182A622THR0-0.007-0.02734.125-0.007-0.0070.0000.0000.0000.000
183A623ARG10.9580.96937.912-0.157-0.1570.0000.0000.0000.000
184A624ARG10.8780.93440.540-0.135-0.1350.0000.0000.0000.000
185A625VAL0-0.045-0.03344.0870.0020.0020.0000.0000.0000.000
186A626GLY00.0380.03146.977-0.005-0.0050.0000.0000.0000.000
187A627ASP-1-0.870-0.92349.2500.1120.1120.0000.0000.0000.000
188A628LYS10.8240.90347.646-0.103-0.1030.0000.0000.0000.000
189A629ARG10.8370.91141.816-0.147-0.1470.0000.0000.0000.000
190A630VAL00.0440.03240.773-0.006-0.0060.0000.0000.0000.000
191A631VAL00.0380.01035.3420.0070.0070.0000.0000.0000.000
192A632VAL0-0.053-0.01634.218-0.007-0.0070.0000.0000.0000.000
193A633GLY0-0.015-0.00434.1240.0020.0020.0000.0000.0000.000