FMODB

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

Last updated: 2025-04-23

All entries: 37539

Number of unique PDB entries: 7791

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FMODB ID: N9Z9Q

Calculation Name: 5CS0-A-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 5CS0

Chain ID: A

ChEMBL ID:

UniProt ID: Q00955

Base Structure: X-ray

Registration Date: 2023-06-22

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 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 215
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -2343472.278913
FMO2-HF: Nuclear repulsion 2259453.338265
FMO2-HF: Total energy -84018.940648
FMO2-MP2: Total energy -84268.350932


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:797:LYS)


Summations of interaction energy for fragment #1(A:797: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.
56.44860.8611.482-2.098-3.7970.007
Interaction energy analysis for fragmet #1(A:797:LYS)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 1 / q_Mulliken : 1.052 / q_NPA : 1.018
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].
3A799ALA00.0600.0283.6230.8532.6230.007-0.766-1.0110.003
4A800TYR00.0170.0082.516-1.1200.6661.475-1.164-2.0970.004
5A801LYS10.9860.9974.05739.05339.4600.000-0.129-0.2780.000
6A802PHE00.0130.0066.0112.9222.9220.0000.0000.0000.000
7A803LYS11.0010.9967.53822.69422.6940.0000.0000.0000.000
8A804SER00.0490.0448.3351.5891.5890.0000.0000.0000.000
9A805LEU0-0.032-0.0099.4951.3521.3520.0000.0000.0000.000
10A806VAL00.0230.01211.9401.4911.4910.0000.0000.0000.000
11A807SER00.003-0.01512.5841.4571.4570.0000.0000.0000.000
12A808THR0-0.054-0.03013.6820.8710.8710.0000.0000.0000.000
13A809LEU0-0.014-0.01215.9340.9340.9340.0000.0000.0000.000
14A810GLU-1-0.784-0.89017.551-12.641-12.6410.0000.0000.0000.000
15A811ASN0-0.015-0.01317.9031.1341.1340.0000.0000.0000.000
16A812ILE0-0.026-0.00320.0560.6010.6010.0000.0000.0000.000
17A813LEU0-0.028-0.01421.0840.6170.6170.0000.0000.0000.000
18A814LYS10.7820.88320.90113.40313.4030.0000.0000.0000.000
19A815GLY0-0.0040.01325.0390.3480.3480.0000.0000.0000.000
20A816TYR0-0.049-0.02421.5990.2010.2010.0000.0000.0000.000
21A817ASP-1-0.823-0.91325.497-10.947-10.9470.0000.0000.0000.000
22A818ASN00.0230.00124.141-0.820-0.8200.0000.0000.0000.000
23A819GLN00.0210.01724.708-0.687-0.6870.0000.0000.0000.000
24A820VAL00.0150.01424.603-0.079-0.0790.0000.0000.0000.000
25A821ILE00.0230.01219.918-0.379-0.3790.0000.0000.0000.000
26A822MET0-0.0300.02621.141-0.726-0.7260.0000.0000.0000.000
27A823ASN0-0.010-0.03122.042-0.286-0.2860.0000.0000.0000.000
28A824ALA00.0060.01020.942-0.052-0.0520.0000.0000.0000.000
29A825SER0-0.014-0.02717.753-0.676-0.6760.0000.0000.0000.000
30A826LEU0-0.026-0.00318.659-0.592-0.5920.0000.0000.0000.000
31A827GLN00.012-0.00321.047-0.125-0.1250.0000.0000.0000.000
32A828GLN00.0230.01216.6660.0540.0540.0000.0000.0000.000
33A829LEU0-0.0270.00315.066-0.744-0.7440.0000.0000.0000.000
34A830ILE00.000-0.00717.737-0.241-0.2410.0000.0000.0000.000
35A831GLU-1-0.962-0.97818.734-14.866-14.8660.0000.0000.0000.000
36A832VAL0-0.039-0.03313.562-0.181-0.1810.0000.0000.0000.000
37A833LEU0-0.024-0.01515.824-0.451-0.4510.0000.0000.0000.000
38A834ARG10.8000.87918.12713.17113.1710.0000.0000.0000.000
39A835ASN00.0110.01616.3540.9170.9170.0000.0000.0000.000
40A836PRO00.0370.00718.061-0.890-0.8900.0000.0000.0000.000
41A837LYS10.9280.94815.24314.98314.9830.0000.0000.0000.000
42A838LEU00.0030.02212.186-1.368-1.3680.0000.0000.0000.000
43A839PRO00.0350.02913.006-1.900-1.9000.0000.0000.0000.000
44A840TYR0-0.023-0.04013.369-1.415-1.4150.0000.0000.0000.000
45A841SER0-0.055-0.0249.204-0.592-0.5920.0000.0000.0000.000
46A842GLU-1-0.800-0.8938.727-28.765-28.7650.0000.0000.0000.000
47A843TRP00.0760.0318.552-3.587-3.5870.0000.0000.0000.000
48A844LYS10.9430.9758.18322.72022.7200.0000.0000.0000.000
49A845LEU0-0.062-0.0353.787-2.119-1.7930.001-0.036-0.2910.000
50A846HIS0-0.017-0.0085.388-10.328-10.204-0.001-0.003-0.1200.000
51A847ILE00.0590.0307.0380.5810.5810.0000.0000.0000.000
52A848SER0-0.040-0.0256.4851.7301.7300.0000.0000.0000.000
53A849ALA0-0.072-0.0304.987-1.547-1.5470.0000.0000.0000.000
54A850LEU0-0.029-0.0157.1470.8620.8620.0000.0000.0000.000
55A851HIS00.0170.00010.5181.4151.4150.0000.0000.0000.000
56A852SER0-0.038-0.00212.5751.0051.0050.0000.0000.0000.000
57A853ARG10.9040.94611.74022.77022.7700.0000.0000.0000.000
58A854LEU0-0.0300.00214.6010.6470.6470.0000.0000.0000.000
59A855PRO00.009-0.00317.3610.4870.4870.0000.0000.0000.000
60A856ALA00.0420.02920.195-0.217-0.2170.0000.0000.0000.000
61A857LYS10.9870.99321.19111.27211.2720.0000.0000.0000.000
62A858LEU0-0.021-0.01318.6240.1690.1690.0000.0000.0000.000
63A859ASP-1-0.796-0.90515.650-19.894-19.8940.0000.0000.0000.000
64A860GLU-1-0.848-0.93018.453-13.402-13.4020.0000.0000.0000.000
65A861GLN0-0.087-0.05021.1400.2340.2340.0000.0000.0000.000
66A862MET0-0.051-0.02715.7880.1700.1700.0000.0000.0000.000
67A863GLU-1-0.917-0.94117.523-16.551-16.5510.0000.0000.0000.000
68A864GLU-1-0.713-0.86518.832-12.339-12.3390.0000.0000.0000.000
69A865LEU0-0.084-0.01621.4900.6440.6440.0000.0000.0000.000
70A866VAL00.0300.01616.0890.3490.3490.0000.0000.0000.000
71A867ALA0-0.0150.00019.4230.1990.1990.0000.0000.0000.000
72A868ARG10.8710.91820.20612.50312.5030.0000.0000.0000.000
73A869SER0-0.033-0.02421.4420.5700.5700.0000.0000.0000.000
74A870LEU0-0.0020.00416.5300.3060.3060.0000.0000.0000.000
75A871ARG10.7910.88220.71512.84112.8410.0000.0000.0000.000
76A872ARG10.9320.97023.22410.93610.9360.0000.0000.0000.000
77A873GLY0-0.0020.00623.2960.3340.3340.0000.0000.0000.000
78A874ALA0-0.0270.00024.1440.1410.1410.0000.0000.0000.000
79A875VAL00.0210.00722.379-0.670-0.6700.0000.0000.0000.000
80A876PHE00.0350.02415.4330.2370.2370.0000.0000.0000.000
81A877PRO00.0310.03419.3630.2420.2420.0000.0000.0000.000
82A878ALA0-0.002-0.00919.1270.0980.0980.0000.0000.0000.000
83A879ARG10.9330.95120.12712.04512.0450.0000.0000.0000.000
84A880GLN0-0.041-0.02423.218-0.014-0.0140.0000.0000.0000.000
85A881LEU00.0070.00916.9250.3180.3180.0000.0000.0000.000
86A882SER00.0380.01719.927-0.346-0.3460.0000.0000.0000.000
87A883LYS10.8950.95920.77812.71412.7140.0000.0000.0000.000
88A884LEU0-0.066-0.03821.0860.5920.5920.0000.0000.0000.000
89A885ILE00.0630.03016.1800.2360.2360.0000.0000.0000.000
90A886ASP-1-0.830-0.92920.209-14.240-14.2400.0000.0000.0000.000
91A887MET0-0.084-0.05122.9150.4940.4940.0000.0000.0000.000
92A888ALA00.0060.01121.5900.3840.3840.0000.0000.0000.000
93A889VAL00.0220.01220.1350.2020.2020.0000.0000.0000.000
94A890LYS10.8950.95423.02611.22711.2270.0000.0000.0000.000
95A891ASN00.000-0.01026.0210.8390.8390.0000.0000.0000.000
96A892PRO00.006-0.00926.781-0.379-0.3790.0000.0000.0000.000
97A893GLU-1-0.837-0.87128.278-11.209-11.2090.0000.0000.0000.000
98A894TYR0-0.081-0.06523.163-0.297-0.2970.0000.0000.0000.000
99A895ASN0-0.012-0.01222.848-1.155-1.1550.0000.0000.0000.000
100A896PRO00.0270.02424.4740.2490.2490.0000.0000.0000.000
101A897ASP-1-0.903-0.95023.622-12.138-12.1380.0000.0000.0000.000
102A898LYS10.8820.92824.14910.96410.9640.0000.0000.0000.000
103A899LEU00.0360.01719.182-0.500-0.5000.0000.0000.0000.000
104A900LEU00.0070.01417.871-1.085-1.0850.0000.0000.0000.000
105A901GLY00.013-0.00217.437-0.947-0.9470.0000.0000.0000.000
106A902ALA00.0150.00215.889-0.842-0.8420.0000.0000.0000.000
107A903VAL0-0.062-0.01813.260-1.784-1.7840.0000.0000.0000.000
108A904VAL00.001-0.01512.579-1.774-1.7740.0000.0000.0000.000
109A905GLU-1-0.887-0.92112.950-21.307-21.3070.0000.0000.0000.000
110A906PRO0-0.003-0.0108.170-0.245-0.2450.0000.0000.0000.000
111A907LEU0-0.023-0.01410.339-0.290-0.2900.0000.0000.0000.000
112A908ALA00.008-0.00312.4781.3811.3810.0000.0000.0000.000
113A909ASP-1-0.780-0.88711.750-23.865-23.8650.0000.0000.0000.000
114A910ILE0-0.056-0.0169.2081.4211.4210.0000.0000.0000.000
115A911ALA0-0.007-0.00813.7251.1991.1990.0000.0000.0000.000
116A912HIS00.0040.01417.0721.3601.3600.0000.0000.0000.000
117A913LYS10.8010.91011.65826.07426.0740.0000.0000.0000.000
118A914TYR0-0.025-0.04713.9251.6151.6150.0000.0000.0000.000
119A915SER0-0.067-0.04318.9081.1141.1140.0000.0000.0000.000
120A916ASN0-0.020-0.00222.0011.0341.0340.0000.0000.0000.000
121A917GLY00.0140.01022.4560.4710.4710.0000.0000.0000.000
122A918LEU0-0.008-0.00719.011-0.254-0.2540.0000.0000.0000.000
123A919GLU-1-0.778-0.85721.333-11.534-11.5340.0000.0000.0000.000
124A920ALA00.0110.00623.3540.0410.0410.0000.0000.0000.000
125A921HIS00.0400.02414.5600.4300.4300.0000.0000.0000.000
126A922GLU-1-0.761-0.83719.535-13.479-13.4790.0000.0000.0000.000
127A923HIS0-0.011-0.02320.822-0.338-0.3380.0000.0000.0000.000
128A924SER0-0.043-0.03019.394-0.134-0.1340.0000.0000.0000.000
129A925ILE00.0280.02115.589-0.220-0.2200.0000.0000.0000.000
130A926PHE00.018-0.01018.9380.0510.0510.0000.0000.0000.000
131A927VAL0-0.006-0.00522.1100.4110.4110.0000.0000.0000.000
132A928HIS0-0.029-0.01317.8860.5100.5100.0000.0000.0000.000
133A929PHE0-0.004-0.00916.5550.2580.2580.0000.0000.0000.000
134A930LEU0-0.041-0.01521.5380.4800.4800.0000.0000.0000.000
135A931GLU-1-0.749-0.86023.686-10.983-10.9830.0000.0000.0000.000
136A932GLU-1-0.945-0.96018.493-16.378-16.3780.0000.0000.0000.000
137A933TYR0-0.061-0.06122.8490.3580.3580.0000.0000.0000.000
138A934TYR0-0.006-0.03425.5450.2460.2460.0000.0000.0000.000
139A935GLU-1-0.819-0.91224.970-10.947-10.9470.0000.0000.0000.000
140A936VAL0-0.068-0.02824.1610.1690.1690.0000.0000.0000.000
141A937GLU-1-0.741-0.86327.198-10.595-10.5950.0000.0000.0000.000
142A938LYS10.8250.92229.44111.06611.0660.0000.0000.0000.000
143A939LEU0-0.072-0.02528.9320.2960.2960.0000.0000.0000.000
144A940PHE0-0.076-0.03629.6200.3340.3340.0000.0000.0000.000
145A961ASP-1-0.822-0.92625.300-12.176-12.1760.0000.0000.0000.000
146A962LEU00.011-0.00128.6550.0360.0360.0000.0000.0000.000
147A963ASP-1-0.871-0.92023.524-12.710-12.7100.0000.0000.0000.000
148A964LYS10.9150.94823.74311.63711.6370.0000.0000.0000.000
149A965VAL0-0.0110.01124.746-0.028-0.0280.0000.0000.0000.000
150A966ALA00.0360.01826.0760.1080.1080.0000.0000.0000.000
151A967LEU00.015-0.00120.146-0.032-0.0320.0000.0000.0000.000
152A968THR0-0.041-0.02523.878-0.153-0.1530.0000.0000.0000.000
153A969VAL00.0100.00026.0730.1380.1380.0000.0000.0000.000
154A970LEU0-0.0200.00122.3810.1980.1980.0000.0000.0000.000
155A971SER00.0610.04322.8560.2410.2410.0000.0000.0000.000
156A972HIS10.8920.93524.64610.29110.2910.0000.0000.0000.000
157A973SER0-0.081-0.05027.3400.2660.2660.0000.0000.0000.000
158A974LYS10.8890.92924.84511.90911.9090.0000.0000.0000.000
159A975VAL00.0210.02027.368-0.153-0.1530.0000.0000.0000.000
160A976SER0-0.037-0.00829.439-0.058-0.0580.0000.0000.0000.000
161A977ALA00.0540.02125.3420.0260.0260.0000.0000.0000.000
162A978LYS10.8500.91724.13112.22212.2220.0000.0000.0000.000
163A979ASN00.0140.00526.110-0.259-0.2590.0000.0000.0000.000
164A980ASN0-0.047-0.02527.8460.3110.3110.0000.0000.0000.000
165A981LEU00.0380.01421.0590.0810.0810.0000.0000.0000.000
166A982ILE00.0380.01824.2800.0060.0060.0000.0000.0000.000
167A983LEU0-0.028-0.01727.0100.2590.2590.0000.0000.0000.000
168A984ALA00.0020.01026.5680.2490.2490.0000.0000.0000.000
169A985ILE00.0040.00222.4970.0680.0680.0000.0000.0000.000
170A986LEU00.003-0.00226.5980.1670.1670.0000.0000.0000.000
171A987LYS10.8730.92530.1189.2399.2390.0000.0000.0000.000
172A988HIS00.0110.01525.3550.3170.3170.0000.0000.0000.000
173A989TYR00.025-0.01524.3360.0360.0360.0000.0000.0000.000
174A990GLN00.0010.01830.0400.3080.3080.0000.0000.0000.000
175A991PRO0-0.025-0.01632.5760.2720.2720.0000.0000.0000.000
176A992LEU00.0090.00628.4320.1720.1720.0000.0000.0000.000
177A993CYS0-0.041-0.01531.818-0.011-0.0110.0000.0000.0000.000
178A994LYS10.8910.94834.0177.9247.9240.0000.0000.0000.000
179A995LEU0-0.032-0.01435.5700.2540.2540.0000.0000.0000.000
180A996SER00.0010.00032.9220.0750.0750.0000.0000.0000.000
181A997SER00.0670.02434.642-0.075-0.0750.0000.0000.0000.000
182A998LYS10.8220.89529.66810.58310.5830.0000.0000.0000.000
183A999VAL00.0090.01229.237-0.208-0.2080.0000.0000.0000.000
184A1000SER00.0460.00431.237-0.167-0.1670.0000.0000.0000.000
185A1001ALA0-0.0240.00133.3040.0080.0080.0000.0000.0000.000
186A1002ILE0-0.046-0.00926.749-0.091-0.0910.0000.0000.0000.000
187A1003PHE00.023-0.00125.313-0.312-0.3120.0000.0000.0000.000
188A1004SER0-0.036-0.01429.8200.0640.0640.0000.0000.0000.000
189A1005THR00.0340.01329.8580.2410.2410.0000.0000.0000.000
190A1006PRO00.0410.01526.9870.1250.1250.0000.0000.0000.000
191A1007LEU0-0.039-0.00429.3780.1020.1020.0000.0000.0000.000
192A1008GLN0-0.005-0.01132.3600.2040.2040.0000.0000.0000.000
193A1009HIS10.8500.90129.12610.64510.6450.0000.0000.0000.000
194A1010ILE0-0.020-0.01528.3170.0820.0820.0000.0000.0000.000
195A1011VAL0-0.050-0.03132.5610.1730.1730.0000.0000.0000.000
196A1012GLU-1-0.851-0.89734.677-9.071-9.0710.0000.0000.0000.000
197A1013LEU0-0.072-0.01730.9270.0040.0040.0000.0000.0000.000
198A1014GLU-1-0.923-0.95135.549-7.557-7.5570.0000.0000.0000.000
199A1015SER00.0320.02335.5620.0940.0940.0000.0000.0000.000
200A1016LYS10.9470.96337.9617.4707.4700.0000.0000.0000.000
201A1017ALA0-0.034-0.01934.0600.0170.0170.0000.0000.0000.000
202A1018THR00.0540.02232.316-0.203-0.2030.0000.0000.0000.000
203A1019ALA00.0440.03134.706-0.078-0.0780.0000.0000.0000.000
204A1020LYS10.9350.95235.9228.4528.4520.0000.0000.0000.000
205A1021VAL00.0030.00330.5690.0190.0190.0000.0000.0000.000
206A1022ALA00.0700.04833.924-0.045-0.0450.0000.0000.0000.000
207A1023LEU0-0.043-0.01735.9820.0980.0980.0000.0000.0000.000
208A1024GLN00.006-0.00834.4990.0100.0100.0000.0000.0000.000
209A1025ALA00.0390.02333.224-0.034-0.0340.0000.0000.0000.000
210A1026ARG10.9040.93434.8897.6447.6440.0000.0000.0000.000
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