FMODB

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

Last updated: 2025-10-17

All entries: 77277

Number of unique PDB entries: 32023

tag_button

FMODB ID: QN3KY

Calculation Name: 5CN2-A-Xray540

Preferred Name:

Target Type:

Ligand Name:

Ligand 3-letter code:

Ligand of Interest (LOI):

Structure Source: PDB

PDB ID: 5CN2

Chain ID: A

ChEMBL ID:

UniProt ID: Q06336

Base Structure: X-ray

Registration Date: 2025-07-10

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
Remarks
FMO calculation
FMO method FMO2-MP2/6-31G(d)
Fragmentation Auto
Number of fragment 218
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -904878.572629
FMO2-HF: Nuclear repulsion 860319.68686
FMO2-HF: Total energy -44558.885769
FMO2-MP2: Total energy -44688.736209


3D Structure Molmil
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:443:GLN)


Summations of interaction energy for fragment #1(A:443: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.
-0.8161.4130.016-1.001-1.2430.001
Interaction energy analysis for fragmet #1(A:443:GLN)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.127 / q_NPA : 0.038
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].
4A444ARG10.7050.9793.9711.7211.966-0.001-0.092-0.1510.000
5A445HIS00.077-0.0903.8430.9522.223-0.015-0.660-0.5960.002
6A445HIS0-0.1120.0883.528-0.1390.3990.035-0.249-0.324-0.001
7A446ILE00.146-0.0895.738-0.284-0.2840.0000.0000.0000.000
8A446ILE0-0.0820.1138.3280.0110.0110.0000.0000.0000.000
9A447LEU00.035-0.1209.3570.0630.0630.0000.0000.0000.000
10A447LEU0-0.1090.09211.872-0.014-0.0140.0000.0000.0000.000
11A448ASN00.068-0.10212.1700.0490.0490.0000.0000.0000.000
12A448ASN0-0.0720.08216.0190.0220.0220.0000.0000.0000.000
13A449GLN00.064-0.06714.594-0.046-0.0460.0000.0000.0000.000
14A449GLN0-0.0660.06913.330-0.022-0.0220.0000.0000.0000.000
15A450SER00.058-0.00416.1710.0280.0280.0000.0000.0000.000
16A450SER0-0.064-0.00620.632-0.003-0.0030.0000.0000.0000.000
17A451ASP00.132-0.12619.4950.0100.0100.0000.0000.0000.000
18A451ASP-1-1.023-0.83722.9300.0520.0520.0000.0000.0000.000
19A452HIS00.047-0.11521.9620.0040.0040.0000.0000.0000.000
20A452HIS0-0.0590.09022.793-0.007-0.0070.0000.0000.0000.000
21A453LEU00.136-0.11518.736-0.012-0.0120.0000.0000.0000.000
22A453LEU0-0.1200.12917.529-0.007-0.0070.0000.0000.0000.000
23A454ARG00.080-0.09114.3600.0350.0350.0000.0000.0000.000
24A454ARG10.7841.02510.9160.1160.1160.0000.0000.0000.000
25A455ILE00.011-0.10713.448-0.055-0.0550.0000.0000.0000.000
26A455ILE0-0.0790.09712.835-0.004-0.0040.0000.0000.0000.000
27A456ASP00.112-0.0769.0050.1290.1290.0000.0000.0000.000
28A456ASP-1-0.897-0.8177.952-0.517-0.5170.0000.0000.0000.000
29A457TYR00.029-0.1157.433-0.014-0.0140.0000.0000.0000.000
30A457TYR0-0.0760.0857.6520.0870.0870.0000.0000.0000.000
31A458GLU00.108-0.1024.139-0.466-0.479-0.001-0.0380.0520.000
32A458GLU-1-0.980-0.8253.722-3.726-3.6120.0000.046-0.1600.000
33A459LEU00.131-0.1404.3150.3800.454-0.002-0.008-0.0640.000
34A459LEU0-0.1130.1215.9550.0100.0100.0000.0000.0000.000
35A460THR0-0.050-0.1145.6080.2490.2490.0000.0000.0000.000
36A460THR0-0.0010.1006.0510.0340.0340.0000.0000.0000.000
37A461ARG00.151-0.0837.741-0.009-0.0090.0000.0000.0000.000
38A461ARG10.6301.12211.0210.0980.0980.0000.0000.0000.000
39A462GLU00.070-0.13611.094-0.006-0.0060.0000.0000.0000.000
40A462GLU-1-0.984-0.84112.588-0.390-0.3900.0000.0000.0000.000
41A463SER0-0.018-0.07513.6780.0140.0140.0000.0000.0000.000
42A463SER0-0.0080.06417.6700.0070.0070.0000.0000.0000.000
43A464MET00.139-0.10115.817-0.003-0.0030.0000.0000.0000.000
44A464MET0-0.0510.13819.025-0.001-0.0010.0000.0000.0000.000
45A465THR00.039-0.09318.2700.0140.0140.0000.0000.0000.000
46A465THR0-0.0580.07419.9870.0060.0060.0000.0000.0000.000
47A466LYS00.131-0.10616.2940.0090.0090.0000.0000.0000.000
48A466LYS10.8551.09515.6550.2560.2560.0000.0000.0000.000
49A467LEU0-0.003-0.14312.2100.0080.0080.0000.0000.0000.000
50A467LEU0-0.0230.12011.2020.0050.0050.0000.0000.0000.000
51A468ARG00.112-0.10910.8050.0510.0510.0000.0000.0000.000
52A468ARG10.8491.10610.4410.6480.6480.0000.0000.0000.000
53A469LEU00.098-0.1769.348-0.100-0.1000.0000.0000.0000.000
54A469LEU0-0.0990.1379.7860.0250.0250.0000.0000.0000.000
55A470VAL00.075-0.0908.7510.1990.1990.0000.0000.0000.000
56A470VAL0-0.1090.1238.5860.0190.0190.0000.0000.0000.000
57A471ILE00.121-0.1208.912-0.320-0.3200.0000.0000.0000.000
58A471ILE0-0.0940.11511.6470.0130.0130.0000.0000.0000.000
59A472PHE00.022-0.10211.0100.0540.0540.0000.0000.0000.000
60A472PHE0-0.0520.0917.8930.0020.0020.0000.0000.0000.000
61A473TYR00.085-0.07712.1070.0300.0300.0000.0000.0000.000
62A473TYR0-0.1090.07116.1920.0050.0050.0000.0000.0000.000
63A474SER00.035-0.08714.806-0.025-0.0250.0000.0000.0000.000
64A474SER0-0.0440.06713.2410.0020.0020.0000.0000.0000.000
65A475ASN00.204-0.03615.8590.0290.0290.0000.0000.0000.000
66A475ASN0-0.1560.06520.4460.0140.0140.0000.0000.0000.000
67A476ILE0-0.033-0.14118.962-0.015-0.0150.0000.0000.0000.000
68A476ILE0-0.0660.10516.9480.0020.0020.0000.0000.0000.000
69A477SER00.041-0.08019.7730.0250.0250.0000.0000.0000.000
70A477SER0-0.0030.07823.7460.0010.0010.0000.0000.0000.000
71A478SER00.005-0.07323.576-0.016-0.0160.0000.0000.0000.000
72A478SER0-0.0020.08726.4410.0050.0050.0000.0000.0000.000
73A479ASP00.071-0.12426.010-0.001-0.0010.0000.0000.0000.000
74A479ASP-1-0.988-0.83127.826-0.031-0.0310.0000.0000.0000.000
75A480PRO0-0.019-0.11025.580-0.006-0.0060.0000.0000.0000.000
76A481ILE00.0950.01723.8920.0140.0140.0000.0000.0000.000
77A481ILE0-0.0830.10821.715-0.003-0.0030.0000.0000.0000.000
78A482THR0-0.021-0.10025.038-0.018-0.0180.0000.0000.0000.000
79A482THR0-0.0350.05028.2220.0040.0040.0000.0000.0000.000
80A483ASN00.066-0.05026.8580.0020.0020.0000.0000.0000.000
81A483ASN0-0.1050.05828.639-0.003-0.0030.0000.0000.0000.000
82A484PHE00.209-0.07822.6030.0130.0130.0000.0000.0000.000
83A484PHE0-0.0910.09418.739-0.001-0.0010.0000.0000.0000.000
84A485ALA00.040-0.09522.651-0.016-0.0160.0000.0000.0000.000
85A485ALA0-0.0590.11524.4870.0030.0030.0000.0000.0000.000
86A486LEU00.109-0.11819.4240.0250.0250.0000.0000.0000.000
87A486LEU0-0.0990.12216.803-0.003-0.0030.0000.0000.0000.000
88A487LEU00.006-0.13620.927-0.013-0.0130.0000.0000.0000.000
89A487LEU0-0.0920.11924.0020.0030.0030.0000.0000.0000.000
90A488VAL00.063-0.12219.8830.0080.0080.0000.0000.0000.000
91A488VAL0-0.0670.11818.006-0.004-0.0040.0000.0000.0000.000
92A489ALA00.128-0.07621.1490.0020.0020.0000.0000.0000.000
93A489ALA0-0.0900.09423.0120.0040.0040.0000.0000.0000.000
94A490SER00.030-0.12320.790-0.014-0.0140.0000.0000.0000.000
95A490SER0-0.0230.10422.196-0.006-0.0060.0000.0000.0000.000
96A491PRO0-0.052-0.10717.9260.0170.0170.0000.0000.0000.000
97A492LYS00.0860.02021.007-0.005-0.0050.0000.0000.0000.000
98A492LYS10.8631.05023.6010.0240.0240.0000.0000.0000.000
99A493GLY00.020-0.09422.1970.0040.0040.0000.0000.0000.000
100A494THR0-0.021-0.00220.2270.0030.0030.0000.0000.0000.000
101A494THR0-0.0490.05718.6900.0030.0030.0000.0000.0000.000
102A495THR00.063-0.05521.2230.0070.0070.0000.0000.0000.000
103A495THR00.0210.10622.2270.0030.0030.0000.0000.0000.000
104A496LEU00.169-0.11118.888-0.014-0.0140.0000.0000.0000.000
105A496LEU0-0.1570.11416.7750.0010.0010.0000.0000.0000.000
106A497SER0-0.013-0.09918.8040.0180.0180.0000.0000.0000.000
107A497SER0-0.0280.08519.3020.0060.0060.0000.0000.0000.000
108A498LEU00.142-0.09918.236-0.043-0.0430.0000.0000.0000.000
109A498LEU0-0.1060.11417.6360.0020.0020.0000.0000.0000.000
110A499GLN00.052-0.12418.5190.0350.0350.0000.0000.0000.000
111A499GLN0-0.1000.09718.257-0.014-0.0140.0000.0000.0000.000
112A500PRO00.012-0.07819.632-0.011-0.0110.0000.0000.0000.000
113A501GLN00.080-0.01519.036-0.034-0.0340.0000.0000.0000.000
114A501GLN0-0.0910.10119.584-0.017-0.0170.0000.0000.0000.000
115A502SER00.039-0.10018.7990.0330.0330.0000.0000.0000.000
116A502SER0-0.0320.09018.341-0.021-0.0210.0000.0000.0000.000
117A503GLY0-0.016-0.10020.2110.0190.0190.0000.0000.0000.000
118A504ASN00.0810.04021.743-0.018-0.0180.0000.0000.0000.000
119A504ASN0-0.0840.05824.703-0.001-0.0010.0000.0000.0000.000
120A505MET00.152-0.09123.2910.0140.0140.0000.0000.0000.000
121A505MET0-0.1330.08924.9660.0030.0030.0000.0000.0000.000
122A506LEU0-0.008-0.15821.146-0.024-0.0240.0000.0000.0000.000
123A506LEU0-0.0620.13518.0980.0010.0010.0000.0000.0000.000
124A507GLN00.093-0.06722.0960.0200.0200.0000.0000.0000.000
125A507GLN0-0.0240.09922.8540.0100.0100.0000.0000.0000.000
126A508SER00.051-0.06822.166-0.012-0.0120.0000.0000.0000.000
127A508SER0-0.0350.06025.201-0.001-0.0010.0000.0000.0000.000
128A509ASN00.047-0.05720.496-0.013-0.0130.0000.0000.0000.000
129A509ASN0-0.1090.06121.1010.0030.0030.0000.0000.0000.000
130A510SER00.105-0.06819.0170.0020.0020.0000.0000.0000.000
131A510SER0-0.0580.07518.909-0.010-0.0100.0000.0000.0000.000
132A511ARG00.138-0.09614.5220.0100.0100.0000.0000.0000.000
133A511ARG10.8591.07410.0830.1510.1510.0000.0000.0000.000
134A512ASP0-0.011-0.12212.6180.0140.0140.0000.0000.0000.000
135A512ASP-1-0.910-0.79610.454-0.829-0.8290.0000.0000.0000.000
136A513GLY00.050-0.07613.678-0.018-0.0180.0000.0000.0000.000
137A514ILE00.056-0.02616.2410.0160.0160.0000.0000.0000.000
138A514ILE0-0.0980.10717.523-0.001-0.0010.0000.0000.0000.000
139A515LYS00.179-0.07014.002-0.043-0.0430.0000.0000.0000.000
140A515LYS10.8311.06212.0450.7020.7020.0000.0000.0000.000
141A516GLN00.074-0.13714.0660.0610.0610.0000.0000.0000.000
142A516GLN0-0.0810.12715.7160.0050.0050.0000.0000.0000.000
143A517ILE00.049-0.12213.671-0.066-0.0660.0000.0000.0000.000
144A517ILE0-0.0660.10513.085-0.004-0.0040.0000.0000.0000.000
145A518ALA00.135-0.06513.6250.0660.0660.0000.0000.0000.000
146A518ALA0-0.0560.11014.2820.0050.0050.0000.0000.0000.000
147A519SER0-0.059-0.10213.771-0.073-0.0730.0000.0000.0000.000
148A519SER0-0.0200.09015.7060.0150.0150.0000.0000.0000.000
149A520VAL00.107-0.12015.1240.0230.0230.0000.0000.0000.000
150A520VAL0-0.0810.11913.8030.0040.0040.0000.0000.0000.000
151A521GLU00.087-0.14916.258-0.009-0.0090.0000.0000.0000.000
152A521GLU-1-0.962-0.78418.414-0.174-0.1740.0000.0000.0000.000
153A522GLY00.032-0.07219.0070.0090.0090.0000.0000.0000.000
154A523ILE00.1390.02320.556-0.002-0.0020.0000.0000.0000.000
155A523ILE0-0.0590.11323.8270.0010.0010.0000.0000.0000.000
156A524SER00.002-0.09920.3150.0090.0090.0000.0000.0000.000
157A524SER0-0.0550.05319.4890.0030.0030.0000.0000.0000.000
158A525VAL00.102-0.11216.6200.0200.0200.0000.0000.0000.000
159A525VAL0-0.0850.13415.2590.0000.0000.0000.0000.0000.000
160A526ASN00.191-0.04917.1490.0080.0080.0000.0000.0000.000
161A526ASN0-0.1400.07721.142-0.009-0.0090.0000.0000.0000.000
162A527LEU00.011-0.10719.7770.0090.0090.0000.0000.0000.000
163A527LEU0-0.1140.07321.5950.0010.0010.0000.0000.0000.000
164A528GLY00.014-0.10616.5930.0130.0130.0000.0000.0000.000
165A529LYS00.0530.00317.4910.0240.0240.0000.0000.0000.000
166A529LYS10.8681.06719.9700.0000.0000.0000.0000.0000.000
167A530PRO00.040-0.08115.778-0.012-0.0120.0000.0000.0000.000
168A531ILE00.044-0.02515.4120.0070.0070.0000.0000.0000.000
169A531ILE0-0.0590.13014.984-0.004-0.0040.0000.0000.0000.000
170A532LYS00.128-0.07915.497-0.005-0.0050.0000.0000.0000.000
171A532LYS10.8531.05318.224-0.003-0.0030.0000.0000.0000.000
172A533LEU00.118-0.14516.2090.0050.0050.0000.0000.0000.000
173A533LEU0-0.0900.16014.381-0.003-0.0030.0000.0000.0000.000
174A534LYS00.110-0.08017.5120.0100.0100.0000.0000.0000.000
175A534LYS10.8431.06221.9380.0490.0490.0000.0000.0000.000
176A535TRP00.057-0.12318.783-0.011-0.0110.0000.0000.0000.000
177A535TRP0-0.0520.12316.758-0.017-0.0170.0000.0000.0000.000
178A536LYS00.092-0.09720.2290.0190.0190.0000.0000.0000.000
179A536LYS10.7050.98523.9410.0570.0570.0000.0000.0000.000
180A537ALA00.120-0.13421.241-0.017-0.0170.0000.0000.0000.000
181A537ALA0-0.0680.13920.305-0.003-0.0030.0000.0000.0000.000
182A538ASN00.074-0.07422.4080.0170.0170.0000.0000.0000.000
183A538ASN0-0.0930.07026.436-0.005-0.0050.0000.0000.0000.000
184A539TYR00.067-0.07824.706-0.016-0.0160.0000.0000.0000.000
185A539TYR0-0.114-0.01322.3560.0010.0010.0000.0000.0000.000
186A540CYS00.101-0.10825.9830.0100.0100.0000.0000.0000.000
187A540CYS0-0.1260.11929.680-0.001-0.0010.0000.0000.0000.000
188A541THR00.098-0.00627.668-0.012-0.0120.0000.0000.0000.000
189A541THR0-0.0130.06526.808-0.001-0.0010.0000.0000.0000.000
190A542LYS00.010-0.15928.534-0.001-0.0010.0000.0000.0000.000
191A542LYS10.9231.10829.7310.0680.0680.0000.0000.0000.000
192A543GLY0-0.003-0.09031.8540.0050.0050.0000.0000.0000.000
193A544ASP00.0480.00031.3340.0030.0030.0000.0000.0000.000
194A544ASP-1-0.845-0.78430.298-0.024-0.0240.0000.0000.0000.000
195A545SER00.060-0.08630.316-0.007-0.0070.0000.0000.0000.000
196A545SER0-0.0750.05731.444-0.003-0.0030.0000.0000.0000.000
197A546LYS00.053-0.09526.9500.0070.0070.0000.0000.0000.000
198A546LYS10.7721.00825.9110.0240.0240.0000.0000.0000.000
199A547GLU00.069-0.08625.735-0.012-0.0120.0000.0000.0000.000
200A547GLU-1-0.891-0.81926.762-0.040-0.0400.0000.0000.0000.000
201A548GLU00.044-0.15121.8890.0140.0140.0000.0000.0000.000
202A548GLU-1-0.813-0.67220.092-0.064-0.0640.0000.0000.0000.000
203A549SER0-0.051-0.09721.729-0.018-0.0180.0000.0000.0000.000
204A549SER0-0.0140.07523.6310.0020.0020.0000.0000.0000.000
205A550GLY00.078-0.06319.4930.0180.0180.0000.0000.0000.000
206A551THR00.0310.01819.179-0.021-0.0210.0000.0000.0000.000
207A551THR0-0.0700.03319.4090.0010.0010.0000.0000.0000.000
208A552THR0-0.021-0.09814.8090.0330.0330.0000.0000.0000.000
209A552THR00.0050.12712.857-0.010-0.0100.0000.0000.0000.000
210A553SER00.046-0.06314.644-0.044-0.0440.0000.0000.0000.000
211A553SER0-0.0510.03914.1960.0000.0000.0000.0000.0000.000
212A554LEU00.053-0.10611.0210.0350.0350.0000.0000.0000.000
213A554LEU0-0.0620.10910.927-0.008-0.0080.0000.0000.0000.000
214A555PRO0-0.004-0.0896.8680.0340.0340.0000.0000.0000.000
215A556THR0-0.0130.0039.887-0.076-0.0760.0000.0000.0000.000
216A556THR00.0100.06710.6830.0060.0060.0000.0000.0000.000
217A557ILE00.026-0.1049.8540.0240.0240.0000.0000.0000.000
218A557ILE00.084-0.02013.491-0.009-0.0090.0000.0000.0000.000