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: 49MQN

Calculation Name: 4Q7K-A-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 4Q7K

Chain ID: A

ChEMBL ID:

UniProt ID: Q9WYC3

Base Structure: X-ray

Registration Date: 2023-09-20

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 194
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 22 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -2079860.658129
FMO2-HF: Nuclear repulsion 2005708.99004
FMO2-HF: Total energy -74151.668088
FMO2-MP2: Total energy -74370.689339


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:353:ASN)


Summations of interaction energy for fragment #1(A:353:ASN)
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.
-1.660.7170-1.041-1.3340.002
Interaction energy analysis for fragmet #1(A:353:ASN)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.027 / q_NPA : -0.003
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].
3A355SER0-0.010-0.0153.502-0.8351.2010.001-0.965-1.0710.002
4A356VAL00.0280.0174.822-0.342-0.274-0.001-0.009-0.0580.000
5A357LYS10.8910.9487.482-0.318-0.3180.0000.0000.0000.000
6A358PRO00.0480.0339.2710.0510.0510.0000.0000.0000.000
7A359GLY0-0.040-0.00312.311-0.027-0.0270.0000.0000.0000.000
8A360SER0-0.035-0.03411.5000.0100.0100.0000.0000.0000.000
9A361LEU00.0070.00614.025-0.010-0.0100.0000.0000.0000.000
10A362VAL0-0.017-0.01210.6420.0700.0700.0000.0000.0000.000
11A363ALA00.0140.02213.727-0.066-0.0660.0000.0000.0000.000
12A364VAL0-0.031-0.02713.8330.1260.1260.0000.0000.0000.000
13A365LEU00.0200.02015.002-0.065-0.0650.0000.0000.0000.000
14A366GLY00.0440.01415.7420.0480.0480.0000.0000.0000.000
15A367GLU-1-0.830-0.91418.1100.1930.1930.0000.0000.0000.000
16A368THR0-0.030-0.02220.616-0.010-0.0100.0000.0000.0000.000
17A369GLY00.0040.03020.308-0.026-0.0260.0000.0000.0000.000
18A370SER00.0290.00620.7520.0210.0210.0000.0000.0000.000
19A371GLY00.0760.04219.016-0.005-0.0050.0000.0000.0000.000
20A372LYS10.8050.88319.754-0.172-0.1720.0000.0000.0000.000
21A373SER0-0.074-0.03721.704-0.021-0.0210.0000.0000.0000.000
22A374THR0-0.059-0.02816.256-0.014-0.0140.0000.0000.0000.000
23A375LEU0-0.0110.00114.7240.0080.0080.0000.0000.0000.000
24A376MET00.0170.00116.1170.0260.0260.0000.0000.0000.000
25A377ASN0-0.039-0.02316.4450.0020.0020.0000.0000.0000.000
26A378LEU0-0.008-0.00610.722-0.033-0.0330.0000.0000.0000.000
27A379ILE00.0280.03412.4630.0210.0210.0000.0000.0000.000
28A380PRO0-0.0030.00112.6930.0250.0250.0000.0000.0000.000
29A381ARG10.8950.9777.6160.2390.2390.0000.0000.0000.000
30A382LEU0-0.021-0.0278.2190.0470.0470.0000.0000.0000.000
31A407GLY00.0810.03922.418-0.004-0.0040.0000.0000.0000.000
32A408HIS0-0.030-0.02121.3400.0080.0080.0000.0000.0000.000
33A409ILE0-0.002-0.00618.7930.0130.0130.0000.0000.0000.000
34A410SER0-0.019-0.00321.734-0.014-0.0140.0000.0000.0000.000
35A411ALA00.0250.00022.5660.0190.0190.0000.0000.0000.000
36A412VAL0-0.002-0.00324.625-0.015-0.0150.0000.0000.0000.000
37A413PRO00.0140.00526.6020.0140.0140.0000.0000.0000.000
38A414GLN0-0.009-0.00828.146-0.003-0.0030.0000.0000.0000.000
39A415GLU-1-0.756-0.84229.5160.0920.0920.0000.0000.0000.000
40A416THR0-0.075-0.06032.659-0.001-0.0010.0000.0000.0000.000
41A417VAL00.0110.00934.522-0.006-0.0060.0000.0000.0000.000
42A418LEU00.0250.02836.5220.0010.0010.0000.0000.0000.000
43A419PHE0-0.001-0.00738.436-0.002-0.0020.0000.0000.0000.000
44A420SER00.007-0.02142.3350.0010.0010.0000.0000.0000.000
45A421GLY00.0200.01944.184-0.002-0.0020.0000.0000.0000.000
46A422THR00.0130.00644.0960.0010.0010.0000.0000.0000.000
47A423ILE00.0120.00239.0230.0030.0030.0000.0000.0000.000
48A424LYS10.8140.89739.313-0.049-0.0490.0000.0000.0000.000
49A425GLU-1-0.809-0.89539.3360.0510.0510.0000.0000.0000.000
50A426ASN0-0.026-0.02438.2830.0040.0040.0000.0000.0000.000
51A427LEU0-0.008-0.00334.0180.0040.0040.0000.0000.0000.000
52A428LYS10.8540.91534.471-0.052-0.0520.0000.0000.0000.000
53A429TRP0-0.0130.00434.3460.0000.0000.0000.0000.0000.000
54A430GLY00.015-0.00833.3620.0060.0060.0000.0000.0000.000
55A431ARG10.6920.79030.410-0.066-0.0660.0000.0000.0000.000
56A432GLU-1-0.884-0.93633.7350.0450.0450.0000.0000.0000.000
57A433ASP-1-0.800-0.87033.2870.0590.0590.0000.0000.0000.000
58A434ALA0-0.039-0.00533.7500.0000.0000.0000.0000.0000.000
59A435THR00.0350.02235.243-0.002-0.0020.0000.0000.0000.000
60A436ASP-1-0.807-0.92036.4250.0580.0580.0000.0000.0000.000
61A437ASP-1-0.915-0.94935.8380.0690.0690.0000.0000.0000.000
62A438GLU-1-0.711-0.83731.4530.0760.0760.0000.0000.0000.000
63A439ILE0-0.047-0.02432.3700.0070.0070.0000.0000.0000.000
64A440VAL00.0260.02534.2510.0050.0050.0000.0000.0000.000
65A441GLU-1-0.755-0.86330.6440.0950.0950.0000.0000.0000.000
66A442ALA0-0.032-0.00529.4050.0090.0090.0000.0000.0000.000
67A443ALA00.0270.00430.3090.0090.0090.0000.0000.0000.000
68A444LYS10.8060.88532.229-0.086-0.0860.0000.0000.0000.000
69A445ILE0-0.033-0.00125.6600.0070.0070.0000.0000.0000.000
70A446ALA0-0.015-0.00928.2850.0110.0110.0000.0000.0000.000
71A447GLN0-0.029-0.01429.791-0.001-0.0010.0000.0000.0000.000
72A448ILE0-0.020-0.01532.406-0.001-0.0010.0000.0000.0000.000
73A449HIS00.0750.05735.032-0.005-0.0050.0000.0000.0000.000
74A450ASP-1-0.880-0.94436.7280.0860.0860.0000.0000.0000.000
75A451PHE0-0.0050.00038.928-0.003-0.0030.0000.0000.0000.000
76A452ILE0-0.0050.01137.208-0.004-0.0040.0000.0000.0000.000
77A453ILE0-0.032-0.02340.696-0.004-0.0040.0000.0000.0000.000
78A454SER0-0.088-0.04843.089-0.003-0.0030.0000.0000.0000.000
79A455LEU0-0.0230.00143.245-0.002-0.0020.0000.0000.0000.000
80A456PRO00.0100.00046.714-0.001-0.0010.0000.0000.0000.000
81A457GLU-1-0.827-0.91948.2060.0490.0490.0000.0000.0000.000
82A458GLY00.0210.02744.9350.0000.0000.0000.0000.0000.000
83A459TYR00.019-0.03537.2500.0030.0030.0000.0000.0000.000
84A460ASP-1-0.873-0.92342.5490.0530.0530.0000.0000.0000.000
85A461SER00.005-0.01145.000-0.003-0.0030.0000.0000.0000.000
86A462ARG10.8630.94445.014-0.046-0.0460.0000.0000.0000.000
87A463VAL0-0.0250.00741.3910.0030.0030.0000.0000.0000.000
88A464GLU-1-0.873-0.94444.6040.0500.0500.0000.0000.0000.000
89A465ARG10.8970.93644.142-0.042-0.0420.0000.0000.0000.000
90A466GLY00.0220.00341.553-0.001-0.0010.0000.0000.0000.000
91A467GLY00.0180.00540.5200.0050.0050.0000.0000.0000.000
92A468ARG10.8880.94341.588-0.052-0.0520.0000.0000.0000.000
93A469ASN0-0.011-0.00344.1260.0020.0020.0000.0000.0000.000
94A470PHE00.0170.01140.7820.0010.0010.0000.0000.0000.000
95A471SER00.016-0.01239.7760.0030.0030.0000.0000.0000.000
96A472GLY00.0600.01937.1380.0020.0020.0000.0000.0000.000
97A473GLY00.1060.04434.5140.0050.0050.0000.0000.0000.000
98A474GLN0-0.0360.02334.7560.0040.0040.0000.0000.0000.000
99A475LYS10.8710.93235.824-0.086-0.0860.0000.0000.0000.000
100A476GLN00.0240.00630.9390.0040.0040.0000.0000.0000.000
101A477ARG10.8770.92831.145-0.112-0.1120.0000.0000.0000.000
102A478LEU00.0270.01531.8450.0010.0010.0000.0000.0000.000
103A479SER0-0.028-0.01931.231-0.004-0.0040.0000.0000.0000.000
104A480ILE0-0.007-0.00926.3320.0020.0020.0000.0000.0000.000
105A481ALA00.0210.01128.3550.0010.0010.0000.0000.0000.000
106A482ARG10.8020.88930.518-0.087-0.0870.0000.0000.0000.000
107A483ALA0-0.043-0.01826.015-0.003-0.0030.0000.0000.0000.000
108A484LEU0-0.011-0.01124.3190.0030.0030.0000.0000.0000.000
109A485VAL00.0380.02527.122-0.004-0.0040.0000.0000.0000.000
110A486LYS10.8500.93827.639-0.093-0.0930.0000.0000.0000.000
111A487LYS10.7920.90325.351-0.076-0.0760.0000.0000.0000.000
112A488PRO00.0100.01421.995-0.004-0.0040.0000.0000.0000.000
113A489LYS10.8230.89618.368-0.115-0.1150.0000.0000.0000.000
114A490VAL0-0.005-0.00215.7290.0180.0180.0000.0000.0000.000
115A491LEU00.0310.01718.299-0.022-0.0220.0000.0000.0000.000
116A492ILE0-0.013-0.00618.7050.0330.0330.0000.0000.0000.000
117A493LEU00.0340.00020.829-0.026-0.0260.0000.0000.0000.000
118A494ASP-1-0.775-0.90122.2600.2160.2160.0000.0000.0000.000
119A495ASP-1-0.790-0.89523.5180.1810.1810.0000.0000.0000.000
120A496CYS0-0.0740.00025.354-0.011-0.0110.0000.0000.0000.000
121A497THR0-0.014-0.03926.156-0.006-0.0060.0000.0000.0000.000
122A498SER0-0.010-0.00628.506-0.009-0.0090.0000.0000.0000.000
123A499SER0-0.063-0.01629.950-0.010-0.0100.0000.0000.0000.000
124A500VAL0-0.056-0.03130.496-0.011-0.0110.0000.0000.0000.000
125A501ASP-1-0.769-0.83531.4490.1430.1430.0000.0000.0000.000
126A502PRO00.0710.00628.8160.0050.0050.0000.0000.0000.000
127A503ILE0-0.0040.01428.5500.0120.0120.0000.0000.0000.000
128A504THR0-0.031-0.06029.8870.0010.0010.0000.0000.0000.000
129A505GLU-1-0.760-0.81625.0970.2450.2450.0000.0000.0000.000
130A506LYS10.8600.91323.859-0.219-0.2190.0000.0000.0000.000
131A507ARG10.8390.90625.524-0.128-0.1280.0000.0000.0000.000
132A508ILE00.0160.02125.190-0.003-0.0030.0000.0000.0000.000
133A509LEU0-0.002-0.00320.8780.0040.0040.0000.0000.0000.000
134A510ASP-1-0.816-0.90221.6550.2490.2490.0000.0000.0000.000
135A511GLY00.0060.00623.252-0.007-0.0070.0000.0000.0000.000
136A512LEU0-0.030-0.02021.091-0.007-0.0070.0000.0000.0000.000
137A513LYS10.8060.89517.616-0.309-0.3090.0000.0000.0000.000
138A514ARG10.8700.94419.931-0.137-0.1370.0000.0000.0000.000
139A515TYR00.0100.00522.827-0.014-0.0140.0000.0000.0000.000
140A516THR00.0460.02721.428-0.012-0.0120.0000.0000.0000.000
141A517LYS10.8850.94315.465-0.124-0.1240.0000.0000.0000.000
142A518GLY00.0140.00118.476-0.016-0.0160.0000.0000.0000.000
143A519CYS0-0.0260.00518.513-0.009-0.0090.0000.0000.0000.000
144A520THR0-0.0150.00512.226-0.001-0.0010.0000.0000.0000.000
145A521THR00.0070.00415.371-0.021-0.0210.0000.0000.0000.000
146A522PHE00.0210.00612.0980.0420.0420.0000.0000.0000.000
147A523ILE0-0.0060.00017.066-0.045-0.0450.0000.0000.0000.000
148A524ILE0-0.0070.01518.5250.0500.0500.0000.0000.0000.000
149A525THR0-0.010-0.01719.035-0.046-0.0460.0000.0000.0000.000
150A526GLN00.019-0.00620.4980.0310.0310.0000.0000.0000.000
151A527LYS10.8570.93122.197-0.229-0.2290.0000.0000.0000.000
152A528ILE00.0530.02118.3950.0300.0300.0000.0000.0000.000
153A529PRO0-0.014-0.02220.2080.0280.0280.0000.0000.0000.000
154A530THR0-0.024-0.03120.805-0.002-0.0020.0000.0000.0000.000
155A531ALA00.005-0.00916.3340.0170.0170.0000.0000.0000.000
156A532LEU0-0.033-0.01816.6800.0600.0600.0000.0000.0000.000
157A533LEU0-0.0160.00718.532-0.025-0.0250.0000.0000.0000.000
158A534ALA0-0.032-0.00114.753-0.045-0.0450.0000.0000.0000.000
159A535ASP-1-0.828-0.91311.6680.3930.3930.0000.0000.0000.000
160A536LYS10.7870.8855.353-2.166-2.1660.0000.0000.0000.000
161A537ILE00.0100.01310.446-0.198-0.1980.0000.0000.0000.000
162A538LEU0-0.031-0.0178.8730.4150.4150.0000.0000.0000.000
163A539VAL00.0250.01110.595-0.198-0.1980.0000.0000.0000.000
164A540LEU0-0.030-0.01911.9070.0110.0110.0000.0000.0000.000
165A541HIS00.016-0.00414.3300.0400.0400.0000.0000.0000.000
166A542GLU-1-0.861-0.93615.7630.0610.0610.0000.0000.0000.000
167A543GLY00.0340.04117.109-0.017-0.0170.0000.0000.0000.000
168A544LYS10.8520.90412.676-0.078-0.0780.0000.0000.0000.000
169A545VAL0-0.016-0.0098.1800.0260.0260.0000.0000.0000.000
170A546ALA00.0530.0269.917-0.143-0.1430.0000.0000.0000.000
171A547GLY00.0300.0217.755-0.034-0.0340.0000.0000.0000.000
172A548PHE0-0.023-0.0274.101-0.858-0.5850.000-0.067-0.2050.000
173A549GLY00.0410.0245.6961.4561.4560.0000.0000.0000.000
174A550THR0-0.021-0.0377.451-0.646-0.6460.0000.0000.0000.000
175A551HIS00.0890.05510.9180.1680.1680.0000.0000.0000.000
176A552LYS10.8870.93013.059-0.578-0.5780.0000.0000.0000.000
177A553GLU-1-0.731-0.8396.8792.8022.8020.0000.0000.0000.000
178A554LEU00.0020.0109.163-0.026-0.0260.0000.0000.0000.000
179A555LEU00.0180.01410.946-0.176-0.1760.0000.0000.0000.000
180A556GLU-1-0.865-0.90211.2330.6680.6680.0000.0000.0000.000
181A557HIS0-0.062-0.0366.243-0.692-0.6920.0000.0000.0000.000
182A558CYS0-0.072-0.01510.304-0.177-0.1770.0000.0000.0000.000
183A559LYS10.8250.88411.885-0.240-0.2400.0000.0000.0000.000
184A560PRO00.0680.01913.8610.0010.0010.0000.0000.0000.000
185A561TYR00.015-0.02513.567-0.002-0.0020.0000.0000.0000.000
186A562ARG10.8520.92614.121-0.484-0.4840.0000.0000.0000.000
187A563GLU-1-0.740-0.84317.8240.1960.1960.0000.0000.0000.000
188A564ILE0-0.010-0.00317.105-0.020-0.0200.0000.0000.0000.000
189A565TYR00.0020.00018.466-0.018-0.0180.0000.0000.0000.000
190A566GLU-1-0.930-0.96720.4420.1930.1930.0000.0000.0000.000
191A567SER0-0.111-0.06323.163-0.026-0.0260.0000.0000.0000.000
192A568GLN0-0.028-0.02222.600-0.009-0.0090.0000.0000.0000.000
193A569PHE0-0.039-0.01123.091-0.008-0.0080.0000.0000.0000.000
194A570GLY0-0.0070.00825.0890.0000.0000.0000.0000.0000.000