FMO DATABASE

FMODB ID: 5J19Z

Calculation Name: 4LX3-B-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 4LX3

Chain ID: B

ChEMBL ID:

UniProt ID: B2J066

Base Structure: X-ray

Registration Date: 2023-09-23

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	36
LigandCharge
Software	ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)

Total energy (hartree)

FMO2-HF: Electronic energy	-120315.621271
FMO2-HF: Nuclear repulsion	105960.379581
FMO2-HF: Total energy	-14355.24169
FMO2-MP2: Total energy	-14397.206169

3D Structure

Snapshot

Ligand structure

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/A	N/A	N/A	N/A	N/A	N/A

Interactive mode: IFIE and PIEDA for fragment #1(B:1:MET)

Summations of interaction energy for fragment #1(B:1:MET)

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.
1.955	3.374	-0.006	-0.537	-0.875	0.002

Interaction energy analysis for fragmet #1(B:1:MET)

Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE

Single fragment	Multi fragments
	Fragment list

Charge [e] FCHARGE : 0 / q_Mulliken : 0.040 / q_NPA : 0.009

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

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X Axis Label
Y Axis Max Y Axis Min
Display ES EX CT+mix DI(MP2)

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].
3	B	3	LYS	1	0.924	0.962	3.857	1.920	3.339	-0.006	-0.537	-0.875	0.002
4	B	4	ILE	0	0.048	0.023	5.799	0.272	0.272	0.000	0.000	0.000	0.000
5	B	5	ALA	0	-0.018	0.001	9.346	-0.146	-0.146	0.000	0.000	0.000	0.000
6	B	6	THR	0	-0.001	-0.005	11.328	-0.010	-0.010	0.000	0.000	0.000	0.000
7	B	7	ARG	1	1.005	0.999	14.670	0.075	0.075	0.000	0.000	0.000	0.000
8	B	8	LYS	1	0.951	0.980	16.944	-0.071	-0.071	0.000	0.000	0.000	0.000
9	B	9	TYR	0	0.002	0.006	20.526	0.015	0.015	0.000	0.000	0.000	0.000
10	B	10	LEU	0	0.033	0.003	22.599	-0.004	-0.004	0.000	0.000	0.000	0.000
11	B	11	GLY	0	0.036	0.024	25.482	0.000	0.000	0.000	0.000	0.000	0.000
12	B	12	LYS	1	0.914	0.953	27.339	-0.041	-0.041	0.000	0.000	0.000	0.000
13	B	13	GLN	0	0.031	0.015	25.821	-0.004	-0.004	0.000	0.000	0.000	0.000
14	B	14	ASN	0	0.008	0.003	29.486	-0.007	-0.007	0.000	0.000	0.000	0.000
15	B	15	VAL	0	-0.041	-0.020	25.745	0.010	0.010	0.000	0.000	0.000	0.000
16	B	16	TYR	0	-0.022	-0.019	26.523	-0.010	-0.010	0.000	0.000	0.000	0.000
17	B	17	ASP	-1	-0.851	-0.911	24.802	0.166	0.166	0.000	0.000	0.000	0.000
18	B	18	ILE	0	-0.060	-0.026	24.657	-0.010	-0.010	0.000	0.000	0.000	0.000
19	B	19	GLY	0	0.016	0.002	26.199	0.004	0.004	0.000	0.000	0.000	0.000
20	B	20	VAL	0	-0.029	0.003	24.486	-0.004	-0.004	0.000	0.000	0.000	0.000
21	B	21	GLU	-1	-0.831	-0.926	27.350	0.111	0.111	0.000	0.000	0.000	0.000
22	B	22	ARG	1	0.909	0.932	26.411	-0.140	-0.140	0.000	0.000	0.000	0.000
23	B	23	ASP	-1	-0.884	-0.943	21.378	0.182	0.182	0.000	0.000	0.000	0.000
24	B	24	HIS	1	0.770	0.900	22.096	-0.136	-0.136	0.000	0.000	0.000	0.000
25	B	25	ASN	0	0.027	0.020	18.602	0.023	0.023	0.000	0.000	0.000	0.000
26	B	26	PHE	0	0.065	0.019	19.567	-0.011	-0.011	0.000	0.000	0.000	0.000
27	B	27	ALA	0	0.012	0.011	17.286	0.035	0.035	0.000	0.000	0.000	0.000
28	B	28	LEU	0	-0.013	0.002	16.337	-0.053	-0.053	0.000	0.000	0.000	0.000
29	B	29	LYS	1	1.012	0.990	16.543	-0.365	-0.365	0.000	0.000	0.000	0.000
30	B	30	ASN	0	-0.071	-0.060	12.234	0.019	0.019	0.000	0.000	0.000	0.000
31	B	31	GLY	0	0.025	0.027	11.695	0.175	0.175	0.000	0.000	0.000	0.000
32	B	32	PHE	0	-0.029	0.002	9.850	0.056	0.056	0.000	0.000	0.000	0.000
33	B	33	ILE	0	0.025	0.011	13.209	-0.091	-0.091	0.000	0.000	0.000	0.000
34	B	34	ALA	0	-0.025	0.001	14.839	0.003	0.003	0.000	0.000	0.000	0.000
35	B	35	SER	0	0.024	-0.013	17.393	-0.016	-0.016	0.000	0.000	0.000	0.000
36	B	36	ASN	0	-0.013	0.018	19.783	0.008	0.008	0.000	0.000	0.000	0.000

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Interactive mode: IFIE and PIEDA for fragment #1(B:1:MET)