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: 4J2KN

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 OptH
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 -2125047.407651
FMO2-HF: Nuclear repulsion 2048776.75032
FMO2-HF: Total energy -76270.657331
FMO2-MP2: Total energy -76500.784311


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.
-5.815-10.5618.7682.176-6.198-0.009
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 : -0.032 / q_NPA : -0.030
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].
3A443TRP0-0.0140.0002.3632.301-4.7478.6972.979-4.628-0.013
4A444TRP00.1450.0653.229-1.193-0.3470.027-0.225-0.6480.000
5A445GLN00.0230.0114.861-0.116-0.006-0.001-0.009-0.0990.000
6A446ALA0-0.072-0.0276.1050.0630.0630.0000.0000.0000.000
7A447VAL00.0460.0177.399-0.158-0.1580.0000.0000.0000.000
8A448THR00.0410.0178.619-0.180-0.1800.0000.0000.0000.000
9A449ARG10.9801.0059.869-1.052-1.0520.0000.0000.0000.000
10A450ALA0-0.032-0.01511.756-0.076-0.0760.0000.0000.0000.000
11A451LEU0-0.026-0.01712.585-0.084-0.0840.0000.0000.0000.000
12A452GLU-1-0.922-0.96514.5840.1460.1460.0000.0000.0000.000
13A453GLU-1-0.950-0.96916.2490.5750.5750.0000.0000.0000.000
14A454PHE0-0.042-0.03517.602-0.046-0.0460.0000.0000.0000.000
15A455HIS00.026-0.00417.2640.0090.0090.0000.0000.0000.000
16A456SER0-0.0040.01620.694-0.053-0.0530.0000.0000.0000.000
17A457ARG10.9650.99522.391-0.437-0.4370.0000.0000.0000.000
18A458TYR0-0.113-0.07422.474-0.037-0.0370.0000.0000.0000.000
19A459PRO00.0970.05724.1970.0300.0300.0000.0000.0000.000
20A460LEU00.0030.01525.614-0.007-0.0070.0000.0000.0000.000
21A461ARG10.8710.93924.217-0.439-0.4390.0000.0000.0000.000
22A462PRO00.0290.02922.856-0.002-0.0020.0000.0000.0000.000
23A463GLY00.0400.00819.7040.0180.0180.0000.0000.0000.000
24A464LEU0-0.067-0.00315.323-0.046-0.0460.0000.0000.0000.000
25A465ALA00.0590.01617.8530.0720.0720.0000.0000.0000.000
26A466ARG10.9780.98315.561-1.001-1.0010.0000.0000.0000.000
27A467GLU-1-0.919-0.97015.4901.3751.3750.0000.0000.0000.000
28A468GLU-1-0.945-0.96417.8960.8240.8240.0000.0000.0000.000
29A469LEU0-0.028-0.00811.1950.0470.0470.0000.0000.0000.000
30A470ARG10.8900.94912.812-1.198-1.1980.0000.0000.0000.000
31A471SER0-0.025-0.02813.7060.0850.0850.0000.0000.0000.000
32A472ARG10.9360.99814.284-1.025-1.0250.0000.0000.0000.000
33A473TYR0-0.038-0.0239.476-0.070-0.0700.0000.0000.0000.000
34A474PHE0-0.034-0.0145.7580.0420.0420.0000.0000.0000.000
35A475SER00.0280.01810.724-0.068-0.0680.0000.0000.0000.000
36A476ARG10.9430.96612.329-1.106-1.1060.0000.0000.0000.000
37A477LEU00.0160.0208.038-0.164-0.1640.0000.0000.0000.000
38A478PRO00.0230.01311.451-0.121-0.1210.0000.0000.0000.000
39A479ALA00.0460.01912.7240.2160.2160.0000.0000.0000.000
40A480ARG10.9890.97713.589-0.908-0.9080.0000.0000.0000.000
41A481VAL00.0410.0197.8090.0040.0040.0000.0000.0000.000
42A482TYR00.0460.0098.3990.8090.8090.0000.0000.0000.000
43A483GLN0-0.043-0.0309.9520.1040.1040.0000.0000.0000.000
44A484ALA0-0.010-0.0109.392-0.101-0.1010.0000.0000.0000.000
45A485LEU00.0150.0153.574-0.954-0.4250.013-0.148-0.3940.001
46A486LEU0-0.019-0.0056.9130.0010.0010.0000.0000.0000.000
47A487GLU-1-0.865-0.9529.7200.6130.6130.0000.0000.0000.000
48A488GLU-1-0.929-0.9425.9260.2000.2000.0000.0000.0000.000
49A489TRP00.029-0.0043.399-1.175-0.3580.032-0.421-0.4290.003
50A490SER0-0.074-0.0278.733-0.504-0.5040.0000.0000.0000.000
51A491ARG10.8720.93310.366-0.955-0.9550.0000.0000.0000.000
52A492GLU-1-0.904-0.9466.913-0.180-0.1800.0000.0000.0000.000
53A493GLY0-0.0200.00011.654-0.163-0.1630.0000.0000.0000.000
54A494ARG10.8650.9408.6200.4460.4460.0000.0000.0000.000
55A495LEU0-0.052-0.0309.7350.0840.0840.0000.0000.0000.000
56A496GLN0-0.049-0.02813.304-0.114-0.1140.0000.0000.0000.000
57A497LEU0-0.016-0.02612.6590.1010.1010.0000.0000.0000.000
58A498ALA00.0540.04716.716-0.099-0.0990.0000.0000.0000.000
59A499ALA0-0.080-0.04119.1040.0820.0820.0000.0000.0000.000
60A500ASN0-0.016-0.02720.0280.0460.0460.0000.0000.0000.000
61A501THR00.0070.02218.7390.0500.0500.0000.0000.0000.000
62A502VAL0-0.016-0.00412.7160.0290.0290.0000.0000.0000.000
63A503ALA00.0410.01916.076-0.064-0.0640.0000.0000.0000.000
64A504LEU00.0420.02411.7560.1210.1210.0000.0000.0000.000
65A505ALA0-0.0050.01314.643-0.060-0.0600.0000.0000.0000.000
66A506GLY00.0180.00816.649-0.058-0.0580.0000.0000.0000.000
67A507PHE0-0.053-0.01319.038-0.030-0.0300.0000.0000.0000.000
68A508THR00.003-0.00820.678-0.001-0.0010.0000.0000.0000.000
69A509PRO0-0.0030.01224.353-0.008-0.0080.0000.0000.0000.000
70A510SER0-0.034-0.03126.284-0.031-0.0310.0000.0000.0000.000
71A511PHE0-0.017-0.00728.916-0.007-0.0070.0000.0000.0000.000
72A512SER00.0330.02431.947-0.014-0.0140.0000.0000.0000.000
73A513GLU-1-0.798-0.92333.1150.1380.1380.0000.0000.0000.000
74A514THR0-0.007-0.00135.612-0.001-0.0010.0000.0000.0000.000
75A515GLN00.0680.02234.7110.0060.0060.0000.0000.0000.000
76A516LYS10.8400.92729.553-0.151-0.1510.0000.0000.0000.000
77A517LYS10.8610.93833.257-0.122-0.1220.0000.0000.0000.000
78A518LEU00.0780.03835.9130.0040.0040.0000.0000.0000.000
79A519LEU0-0.0150.00630.3050.0060.0060.0000.0000.0000.000
80A520LYS10.9440.97729.849-0.178-0.1780.0000.0000.0000.000
81A521ASP-1-0.820-0.91133.3550.1440.1440.0000.0000.0000.000
82A522LEU0-0.030-0.02235.190-0.001-0.0010.0000.0000.0000.000
83A523GLU-1-0.959-0.97329.2300.2920.2920.0000.0000.0000.000
84A524ASP-1-0.826-0.92133.4310.1770.1770.0000.0000.0000.000
85A525LYS10.9140.97235.807-0.158-0.1580.0000.0000.0000.000
86A526TYR00.003-0.01435.293-0.004-0.0040.0000.0000.0000.000
87A527ARG10.8410.91632.430-0.197-0.1970.0000.0000.0000.000
88A528VAL0-0.031-0.01435.413-0.003-0.0030.0000.0000.0000.000
89A529SER0-0.054-0.01838.841-0.011-0.0110.0000.0000.0000.000
90A530ARG10.9570.98436.549-0.192-0.1920.0000.0000.0000.000
91A531TRP0-0.034-0.02936.7460.0040.0040.0000.0000.0000.000
92A532GLN0-0.0120.00540.4580.0010.0010.0000.0000.0000.000
93A533PRO0-0.0340.00039.102-0.007-0.0070.0000.0000.0000.000
94A534PRO0-0.028-0.00540.181-0.007-0.0070.0000.0000.0000.000
95A535SER00.035-0.00141.8220.0100.0100.0000.0000.0000.000
96A536PHE00.0240.00239.504-0.007-0.0070.0000.0000.0000.000
97A537LYS10.9850.97242.669-0.146-0.1460.0000.0000.0000.000
98A538GLU-1-0.910-0.93545.5740.1370.1370.0000.0000.0000.000
99A539VAL0-0.0180.00040.047-0.005-0.0050.0000.0000.0000.000
100A540ALA00.0020.00343.489-0.003-0.0030.0000.0000.0000.000
101A541GLY00.0050.01244.607-0.005-0.0050.0000.0000.0000.000
102A542SER0-0.035-0.02844.372-0.004-0.0040.0000.0000.0000.000
103A543PHE0-0.064-0.04540.429-0.003-0.0030.0000.0000.0000.000
104A544ASN0-0.045-0.00444.278-0.001-0.0010.0000.0000.0000.000
105A545LEU0-0.015-0.00340.2440.0010.0010.0000.0000.0000.000
106A546ASP-1-0.836-0.91344.0470.1300.1300.0000.0000.0000.000
107A547PRO0-0.041-0.04642.8780.0090.0090.0000.0000.0000.000
108A548SER00.004-0.00340.8750.0090.0090.0000.0000.0000.000
109A549GLU-1-0.815-0.91038.7460.1710.1710.0000.0000.0000.000
110A550LEU0-0.010-0.00337.9350.0110.0110.0000.0000.0000.000
111A551GLU-1-0.939-0.97636.2640.2640.2640.0000.0000.0000.000
112A552GLU-1-0.938-0.97133.7190.2440.2440.0000.0000.0000.000
113A553LEU0-0.022-0.01333.1330.0220.0220.0000.0000.0000.000
114A554LEU00.011-0.01032.5450.0190.0190.0000.0000.0000.000
115A555HIS00.0080.00730.7560.0370.0370.0000.0000.0000.000
116A556TYR0-0.0040.00325.5500.0420.0420.0000.0000.0000.000
117A557LEU00.0720.01927.5910.0360.0360.0000.0000.0000.000
118A558VAL0-0.060-0.02028.1740.0250.0250.0000.0000.0000.000
119A559ARG10.8630.92225.549-0.365-0.3650.0000.0000.0000.000
120A560GLU-1-0.918-0.94923.2510.4870.4870.0000.0000.0000.000
121A561GLY0-0.027-0.02323.4040.0510.0510.0000.0000.0000.000
122A562VAL00.0340.01425.616-0.007-0.0070.0000.0000.0000.000
123A563LEU0-0.034-0.01327.928-0.028-0.0280.0000.0000.0000.000
124A564VAL0-0.015-0.01229.3370.0290.0290.0000.0000.0000.000
125A565LYS10.9340.98331.822-0.278-0.2780.0000.0000.0000.000
126A566ILE0-0.072-0.02434.7690.0090.0090.0000.0000.0000.000
127A567ASN00.0440.00637.266-0.002-0.0020.0000.0000.0000.000
128A568ASP-1-0.886-0.95639.4680.2220.2220.0000.0000.0000.000
129A569GLU-1-0.977-0.96941.4020.1580.1580.0000.0000.0000.000
130A570PHE00.006-0.01240.307-0.003-0.0030.0000.0000.0000.000
131A571TYR00.0750.03034.3130.0200.0200.0000.0000.0000.000
132A572TRP00.015-0.00434.918-0.012-0.0120.0000.0000.0000.000
133A573HIS00.0920.04429.8490.0220.0220.0000.0000.0000.000
134A574ARG10.9670.98323.574-0.512-0.5120.0000.0000.0000.000
135A575GLN0-0.018-0.01728.132-0.008-0.0080.0000.0000.0000.000
136A576ALA00.0340.03130.778-0.011-0.0110.0000.0000.0000.000
137A577LEU00.0260.01931.079-0.008-0.0080.0000.0000.0000.000
138A578GLY0-0.052-0.02630.4080.0000.0000.0000.0000.0000.000
139A579GLU-1-0.883-0.95831.2260.2390.2390.0000.0000.0000.000
140A580ALA00.0040.00934.081-0.012-0.0120.0000.0000.0000.000
141A581ARG10.9070.94729.354-0.371-0.3710.0000.0000.0000.000
142A582GLU-1-0.895-0.94432.3120.2520.2520.0000.0000.0000.000
143A583VAL00.0090.01734.827-0.011-0.0110.0000.0000.0000.000
144A584ILE0-0.031-0.01737.439-0.008-0.0080.0000.0000.0000.000
145A585LYS10.8740.93131.339-0.304-0.3040.0000.0000.0000.000
146A586ASN00.0490.02837.322-0.004-0.0040.0000.0000.0000.000
147A587LEU0-0.0180.03039.703-0.009-0.0090.0000.0000.0000.000
148A588ALA0-0.013-0.01339.743-0.007-0.0070.0000.0000.0000.000
149A589SER0-0.085-0.05239.681-0.005-0.0050.0000.0000.0000.000
150A590THR0-0.018-0.00741.510-0.007-0.0070.0000.0000.0000.000
151A591GLY00.0000.00244.402-0.008-0.0080.0000.0000.0000.000
152A592PRO0-0.046-0.03245.0560.0050.0050.0000.0000.0000.000
153A593PHE00.0180.02341.384-0.006-0.0060.0000.0000.0000.000
154A594GLY00.0420.00846.7380.0040.0040.0000.0000.0000.000
155A595LEU0-0.022-0.02346.7310.0020.0020.0000.0000.0000.000
156A596ALA0-0.038-0.02147.9360.0020.0020.0000.0000.0000.000
157A597GLU-1-0.784-0.90148.2060.1310.1310.0000.0000.0000.000
158A598ALA00.0260.01343.6470.0020.0020.0000.0000.0000.000
159A599ARG10.7970.89044.729-0.121-0.1210.0000.0000.0000.000
160A600ASP-1-0.846-0.91847.0560.1200.1200.0000.0000.0000.000
161A601ALA0-0.021-0.00643.452-0.001-0.0010.0000.0000.0000.000
162A602LEU0-0.056-0.02939.8520.0050.0050.0000.0000.0000.000
163A603GLY00.0010.01643.5500.0000.0000.0000.0000.0000.000
164A604SER0-0.004-0.00444.572-0.001-0.0010.0000.0000.0000.000
165A605SER00.002-0.02446.656-0.007-0.0070.0000.0000.0000.000
166A606ARG10.9830.97047.234-0.122-0.1220.0000.0000.0000.000
167A607LYS10.9650.99847.422-0.134-0.1340.0000.0000.0000.000
168A608TYR00.0280.02543.4900.0000.0000.0000.0000.0000.000
169A609VAL00.0100.00543.0180.0100.0100.0000.0000.0000.000
170A610LEU0-0.016-0.00743.2240.0070.0070.0000.0000.0000.000
171A611PRO00.0570.02342.3840.0080.0080.0000.0000.0000.000
172A612LEU00.0170.02736.9850.0130.0130.0000.0000.0000.000
173A613LEU0-0.033-0.03938.9300.0130.0130.0000.0000.0000.000
174A614GLU-1-0.931-0.96340.4940.1940.1940.0000.0000.0000.000
175A615TYR00.0470.02431.3890.0140.0140.0000.0000.0000.000
176A616LEU0-0.049-0.03834.6410.0200.0200.0000.0000.0000.000
177A617ASP-1-0.765-0.84736.3900.2280.2280.0000.0000.0000.000
178A618GLN0-0.024-0.00435.328-0.008-0.0080.0000.0000.0000.000
179A619VAL0-0.097-0.04331.7280.0160.0160.0000.0000.0000.000
180A620LYS10.8830.95032.497-0.279-0.2790.0000.0000.0000.000
181A621PHE0-0.0060.00432.2420.0120.0120.0000.0000.0000.000
182A622THR0-0.009-0.03834.335-0.006-0.0060.0000.0000.0000.000
183A623ARG10.9470.96338.114-0.208-0.2080.0000.0000.0000.000
184A624ARG10.9050.95940.748-0.173-0.1730.0000.0000.0000.000
185A625VAL0-0.031-0.02544.3090.0010.0010.0000.0000.0000.000
186A626GLY00.0350.02947.176-0.006-0.0060.0000.0000.0000.000
187A627ASP-1-0.888-0.94549.4800.1410.1410.0000.0000.0000.000
188A628LYS10.9000.94147.678-0.137-0.1370.0000.0000.0000.000
189A629ARG10.8730.94642.121-0.187-0.1870.0000.0000.0000.000
190A630VAL00.0350.03040.911-0.007-0.0070.0000.0000.0000.000
191A631VAL00.0380.00835.4330.0070.0070.0000.0000.0000.000
192A632VAL0-0.063-0.01734.337-0.008-0.0080.0000.0000.0000.000
193A633GLY00.0050.00334.2230.0110.0110.0000.0000.0000.000