FMODB

FMODB: The database of quantum mechanical data based on the FMO method

Last updated: 2025-07-23

All entries: 44592

Number of unique PDB entries: 7794

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FMODB ID: NZV9Q

Calculation Name: 4E5X-G-Xray540

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 4E5X

Chain ID: G

ChEMBL ID:

UniProt ID: P61769

Base Structure: X-ray

Registration Date: 2025-07-11

Reference: C. Watanabe, N. Tani, K. Kamisaka, T. Honma et al., Interaction energy analysis of Apo structure dataset on FMODB, To be published.

DOI:

Apendix: None


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 188
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -764241.06078
FMO2-HF: Nuclear repulsion 721592.898484
FMO2-HF: Total energy -42648.162296
FMO2-MP2: Total energy -42767.867638


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(G:2:LYS)


Summations of interaction energy for fragment #1(G:2:LYS)
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.
-1.150.529-0.007-0.861-0.810.001
Interaction energy analysis for fragmet #1(G:2:LYS)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.220 / q_NPA : 0.052
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].
4G3LYS10.8481.0704.607-0.2160.050-0.001-0.107-0.1580.000
5G4VAL00.022-0.1233.633-1.538-0.125-0.006-0.754-0.6520.001
6G4VAL0-0.0360.1155.207-0.025-0.0250.0000.0000.0000.000
7G5GLU00.055-0.1146.389-0.009-0.0090.0000.0000.0000.000
8G5GLU-1-1.017-0.8458.5910.5170.5170.0000.0000.0000.000
9G6PHE00.003-0.1129.3890.0120.0120.0000.0000.0000.000
10G6PHE0-0.1250.06610.026-0.023-0.0230.0000.0000.0000.000
11G7LYS00.083-0.12211.8190.0450.0450.0000.0000.0000.000
12G7LYS10.9471.13312.507-0.132-0.1320.0000.0000.0000.000
13G8GLU00.092-0.15414.793-0.036-0.0360.0000.0000.0000.000
14G8GLU-1-0.933-0.74218.965-0.009-0.0090.0000.0000.0000.000
15G9PRO0-0.083-0.12518.2070.0020.0020.0000.0000.0000.000
16G10ALA00.1810.02719.8740.0080.0080.0000.0000.0000.000
17G10ALA0-0.0850.11422.4040.0010.0010.0000.0000.0000.000
18G11CYS0-0.002-0.18522.990-0.007-0.0070.0000.0000.0000.000
19G11CYS0-0.1320.24522.967-0.004-0.0040.0000.0000.0000.000
20G12ASN00.161-0.03725.9620.0060.0060.0000.0000.0000.000
21G12ASN0-0.1110.06729.2610.0020.0020.0000.0000.0000.000
22G13VAL00.066-0.13129.658-0.005-0.0050.0000.0000.0000.000
23G13VAL0-0.0710.13530.8450.0000.0000.0000.0000.0000.000
24G14THR0-0.037-0.09132.4810.0040.0040.0000.0000.0000.000
25G14THR0-0.0710.05333.6380.0000.0000.0000.0000.0000.000
26G15PHE00.098-0.09235.583-0.003-0.0030.0000.0000.0000.000
27G15PHE0-0.0320.11136.2940.0000.0000.0000.0000.0000.000
28G16LYS00.138-0.07839.0260.0020.0020.0000.0000.0000.000
29G16LYS10.8611.06040.4450.0250.0250.0000.0000.0000.000
30G17SER00.106-0.05241.748-0.002-0.0020.0000.0000.0000.000
31G17SER0-0.0130.08146.2660.0000.0000.0000.0000.0000.000
32G18GLU00.019-0.14644.9220.0010.0010.0000.0000.0000.000
33G18GLU-1-1.034-0.84343.578-0.030-0.0300.0000.0000.0000.000
34G19ALA00.065-0.11346.1270.0000.0000.0000.0000.0000.000
35G19ALA0-0.0440.12648.0190.0000.0000.0000.0000.0000.000
36G20ASN0-0.029-0.08649.1400.0000.0000.0000.0000.0000.000
37G20ASN0-0.0520.09851.0470.0010.0010.0000.0000.0000.000
38G21GLU00.132-0.10745.8070.0010.0010.0000.0000.0000.000
39G21GLU-1-0.873-0.80244.857-0.026-0.0260.0000.0000.0000.000
40G22CYS00.204-0.08843.2100.0010.0010.0000.0000.0000.000
41G22CYS0-0.3240.17741.564-0.001-0.0010.0000.0000.0000.000
42G23THR00.013-0.10640.264-0.002-0.0020.0000.0000.0000.000
43G23THR0-0.0760.07339.677-0.001-0.0010.0000.0000.0000.000
44G24THR0-0.030-0.06836.5860.0030.0030.0000.0000.0000.000
45G24THR0-0.0250.05635.755-0.001-0.0010.0000.0000.0000.000
46G25LEU00.172-0.11133.565-0.003-0.0030.0000.0000.0000.000
47G25LEU0-0.1640.09932.0020.0000.0000.0000.0000.0000.000
48G26ILE00.091-0.08829.8750.0050.0050.0000.0000.0000.000
49G26ILE0-0.0640.11527.844-0.001-0.0010.0000.0000.0000.000
50G27LYS00.174-0.07727.821-0.008-0.0080.0000.0000.0000.000
51G27LYS10.8221.06727.3340.0390.0390.0000.0000.0000.000
52G28CYS0-0.012-0.14923.7870.0090.0090.0000.0000.0000.000
53G29THR0-0.015-0.08921.621-0.009-0.0090.0000.0000.0000.000
54G29THR0-0.0030.08521.6830.0040.0040.0000.0000.0000.000
55G30THR00.082-0.05417.3800.0110.0110.0000.0000.0000.000
56G30THR0-0.0440.04816.124-0.015-0.0150.0000.0000.0000.000
57G31GLU0-0.005-0.12615.528-0.008-0.0080.0000.0000.0000.000
58G31GLU-1-0.878-0.78514.222-0.030-0.0300.0000.0000.0000.000
59G32HIS00.009-0.07912.4520.0040.0040.0000.0000.0000.000
60G32HIS0-0.0880.05610.7500.0160.0160.0000.0000.0000.000
61G33GLU00.202-0.05712.0970.0370.0370.0000.0000.0000.000
62G33GLU-1-1.044-0.87611.581-0.403-0.4030.0000.0000.0000.000
63G34LYS00.069-0.07313.5670.0280.0280.0000.0000.0000.000
64G34LYS10.8291.02015.2650.2760.2760.0000.0000.0000.000
65G35LEU00.036-0.11415.956-0.030-0.0300.0000.0000.0000.000
66G35LEU0-0.0200.14518.1690.0010.0010.0000.0000.0000.000
67G36ILE00.032-0.13118.5620.0070.0070.0000.0000.0000.000
68G36ILE0-0.1290.07219.726-0.003-0.0030.0000.0000.0000.000
69G37ILE00.128-0.10721.442-0.006-0.0060.0000.0000.0000.000
70G37ILE0-0.0500.13423.7420.0010.0010.0000.0000.0000.000
71G38ARG00.042-0.10224.486-0.001-0.0010.0000.0000.0000.000
72G38ARG10.8551.07421.2670.1430.1430.0000.0000.0000.000
73G39HIS00.184-0.06726.7870.0030.0030.0000.0000.0000.000
74G39HIS0-0.1350.05129.9550.0030.0030.0000.0000.0000.000
75G40LYS00.037-0.05130.356-0.001-0.0010.0000.0000.0000.000
76G40LYS10.7280.96934.0920.0420.0420.0000.0000.0000.000
77G41ASP00.056-0.11331.858-0.005-0.0050.0000.0000.0000.000
78G41ASP-1-0.893-0.81134.305-0.059-0.0590.0000.0000.0000.000
79G42LYS00.051-0.10131.257-0.004-0.0040.0000.0000.0000.000
80G42LYS10.8241.05331.4360.0570.0570.0000.0000.0000.000
81G43ILE00.093-0.12627.1310.0000.0000.0000.0000.0000.000
82G43ILE0-0.0800.10525.188-0.004-0.0040.0000.0000.0000.000
83G44GLY0-0.016-0.09526.0010.0040.0040.0000.0000.0000.000
84G45LYS00.071-0.00622.636-0.004-0.0040.0000.0000.0000.000
85G45LYS10.8661.06519.8810.1590.1590.0000.0000.0000.000
86G46TYR00.068-0.06322.669-0.005-0.0050.0000.0000.0000.000
87G46TYR0-0.0780.08322.275-0.001-0.0010.0000.0000.0000.000
88G47ALA00.166-0.09825.2900.0030.0030.0000.0000.0000.000
89G47ALA0-0.0700.08828.8970.0020.0020.0000.0000.0000.000
90G48VAL0-0.010-0.12028.238-0.005-0.0050.0000.0000.0000.000
91G48VAL0-0.0750.12628.0590.0000.0000.0000.0000.0000.000
92G49TYR00.157-0.09830.5190.0040.0040.0000.0000.0000.000
93G49TYR0-0.0710.12134.3740.0000.0000.0000.0000.0000.000
94G50ALA00.061-0.10134.298-0.004-0.0040.0000.0000.0000.000
95G50ALA0-0.0690.08635.5030.0000.0000.0000.0000.0000.000
96G51ILE00.068-0.10037.0430.0010.0010.0000.0000.0000.000
97G51ILE0-0.0230.14841.2640.0000.0000.0000.0000.0000.000
98G52TRP00.031-0.10639.740-0.002-0.0020.0000.0000.0000.000
99G52TRP0-0.0830.08037.5110.0020.0020.0000.0000.0000.000
100G53GLN00.023-0.14440.5220.0020.0020.0000.0000.0000.000
101G53GLN0-0.0470.12443.483-0.001-0.0010.0000.0000.0000.000
102G54PRO0-0.027-0.12742.822-0.001-0.0010.0000.0000.0000.000
103G55GLY0-0.029-0.01143.3610.0000.0000.0000.0000.0000.000
104G56ASP00.1160.00739.979-0.001-0.0010.0000.0000.0000.000
105G56ASP-1-0.886-0.79238.911-0.035-0.0350.0000.0000.0000.000
106G57THR00.020-0.07335.8650.0030.0030.0000.0000.0000.000
107G57THR0-0.080-0.01833.9460.0010.0010.0000.0000.0000.000
108G58ASN00.041-0.08735.2890.0000.0000.0000.0000.0000.000
109G58ASN0-0.0910.06435.6040.0010.0010.0000.0000.0000.000
110G59ASP00.065-0.10231.3910.0040.0040.0000.0000.0000.000
111G59ASP-1-0.879-0.78630.520-0.055-0.0550.0000.0000.0000.000
112G60TYR00.096-0.04028.674-0.001-0.0010.0000.0000.0000.000
113G60TYR0-0.0520.08626.3170.0020.0020.0000.0000.0000.000
114G61ASN00.016-0.06524.7100.0070.0070.0000.0000.0000.000
115G61ASN0-0.0620.05223.717-0.012-0.0120.0000.0000.0000.000
116G62VAL00.125-0.11921.969-0.004-0.0040.0000.0000.0000.000
117G62VAL0-0.0320.12820.3170.0010.0010.0000.0000.0000.000
118G63THR00.016-0.07218.2960.0070.0070.0000.0000.0000.000
119G63THR0-0.0490.06016.537-0.003-0.0030.0000.0000.0000.000
120G64VAL00.049-0.08815.4200.0030.0030.0000.0000.0000.000
121G64VAL0-0.0150.15314.1880.0000.0000.0000.0000.0000.000
122G65PHE00.082-0.10912.616-0.030-0.0300.0000.0000.0000.000
123G65PHE0-0.1270.05612.9830.0130.0130.0000.0000.0000.000
124G66GLN00.168-0.0829.0210.0990.0990.0000.0000.0000.000
125G66GLN0-0.0680.1117.3020.0600.0600.0000.0000.0000.000
126G67GLY0-0.006-0.0847.458-0.216-0.2160.0000.0000.0000.000
127G68GLU00.091-0.0047.6350.1610.1610.0000.0000.0000.000
128G68GLU-1-1.024-0.8478.223-0.790-0.7900.0000.0000.0000.000
129G69ASN00.064-0.0978.2810.0550.0550.0000.0000.0000.000
130G69ASN0-0.1280.0505.2630.2220.2220.0000.0000.0000.000
131G70ARG00.102-0.1019.3750.0640.0640.0000.0000.0000.000
132G70ARG10.8971.06513.3430.3630.3630.0000.0000.0000.000
133G71LYS00.025-0.12012.600-0.019-0.0190.0000.0000.0000.000
134G71LYS10.9101.10113.6060.0890.0890.0000.0000.0000.000
135G72THR00.006-0.10315.0840.0050.0050.0000.0000.0000.000
136G72THR0-0.0620.05319.136-0.009-0.0090.0000.0000.0000.000
137G73PHE00.010-0.11718.8600.0080.0080.0000.0000.0000.000
138G73PHE0-0.0320.12916.434-0.001-0.0010.0000.0000.0000.000
139G74MET00.149-0.10521.188-0.008-0.0080.0000.0000.0000.000
140G74MET0-0.0910.10023.479-0.005-0.0050.0000.0000.0000.000
141G75TYR00.007-0.11824.8350.0080.0080.0000.0000.0000.000
142G75TYR0-0.1100.05922.631-0.007-0.0070.0000.0000.0000.000
143G76LYS00.096-0.10527.815-0.005-0.0050.0000.0000.0000.000
144G76LYS10.8801.07731.2020.0320.0320.0000.0000.0000.000
145G77PHE00.063-0.09831.5370.0030.0030.0000.0000.0000.000
146G77PHE0-0.0390.11332.221-0.001-0.0010.0000.0000.0000.000
147G78PRO00.032-0.06733.823-0.002-0.0020.0000.0000.0000.000
148G79PHE00.087-0.01537.4360.0020.0020.0000.0000.0000.000
149G79PHE0-0.0820.10932.9930.0000.0000.0000.0000.0000.000
150G80TYR00.142-0.07238.4710.0000.0000.0000.0000.0000.000
151G80TYR0-0.0650.08442.597-0.001-0.0010.0000.0000.0000.000
152G81GLU00.028-0.15841.4440.0000.0000.0000.0000.0000.000
153G81GLU-1-0.984-0.82140.675-0.008-0.0080.0000.0000.0000.000
154G82MET00.163-0.08139.7570.0020.0020.0000.0000.0000.000
155G82MET0-0.0790.12037.8600.0000.0000.0000.0000.0000.000
156G83CYS00.094-0.10641.2120.0010.0010.0000.0000.0000.000
157G84ASP00.112-0.07543.0320.0000.0000.0000.0000.0000.000
158G84ASP-1-0.920-0.80845.847-0.011-0.0110.0000.0000.0000.000
159G85ILE00.021-0.12844.8150.0010.0010.0000.0000.0000.000
160G85ILE0-0.0700.10442.8090.0000.0000.0000.0000.0000.000
161G86THR0-0.005-0.07543.7110.0010.0010.0000.0000.0000.000
162G86THR0-0.0590.03142.509-0.001-0.0010.0000.0000.0000.000
163G87MET00.041-0.12044.9950.0000.0000.0000.0000.0000.000
164G87MET0-0.1760.11445.5940.0000.0000.0000.0000.0000.000
165G88TYR00.136-0.09347.8690.0000.0000.0000.0000.0000.000
166G88TYR0-0.0610.11249.6820.0000.0000.0000.0000.0000.000
167G89MET00.092-0.10150.4960.0010.0010.0000.0000.0000.000
168G89MET0-0.0720.11051.8700.0000.0000.0000.0000.0000.000
169G90SER00.005-0.10651.2940.0010.0010.0000.0000.0000.000
170G90SER0-0.0250.06550.6760.0000.0000.0000.0000.0000.000
171G91LYS00.092-0.09251.9960.0000.0000.0000.0000.0000.000
172G91LYS10.7781.01850.0110.0110.0110.0000.0000.0000.000
173G92GLN00.039-0.11553.4140.0000.0000.0000.0000.0000.000
174G92GLN0-0.0890.10755.3220.0010.0010.0000.0000.0000.000
175G93TYR00.043-0.08756.1890.0010.0010.0000.0000.0000.000
176G93TYR0-0.1090.08356.0100.0000.0000.0000.0000.0000.000
177G94LYS0-0.005-0.11956.0770.0000.0000.0000.0000.0000.000
178G94LYS10.8611.05757.3780.0100.0100.0000.0000.0000.000
179G95LEU00.093-0.09954.2700.0000.0000.0000.0000.0000.000
180G95LEU0-0.1040.09453.6900.0000.0000.0000.0000.0000.000
181G96TRP00.106-0.07350.254-0.001-0.0010.0000.0000.0000.000
182G96TRP0-0.0600.10145.0050.0010.0010.0000.0000.0000.000
183G97PRO0-0.068-0.14548.9830.0010.0010.0000.0000.0000.000
184G98PRO00.0410.02647.3410.0010.0010.0000.0000.0000.000
185G99GLN00.068-0.02350.6200.0000.0000.0000.0000.0000.000
186G99GLN0-0.0700.11153.6690.0000.0000.0000.0000.0000.000
187G100LYS0-0.036-0.09750.162-0.001-0.0010.0000.0000.0000.000
188G100LYS11.0071.00448.7060.0200.0200.0000.0000.0000.000