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: 16G7Z

Calculation Name: 4P4H-I-Xray540

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 4P4H

Chain ID: I

ChEMBL ID:

UniProt ID: O95786

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 OptHSide
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 186
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -771584.647756
FMO2-HF: Nuclear repulsion 731281.981689
FMO2-HF: Total energy -40302.666067
FMO2-MP2: Total energy -40417.442643


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(I:1:MET)


Summations of interaction energy for fragment #1(I: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.
-6.009-3.3620.012-1.374-1.2860.001
Interaction energy analysis for fragmet #1(I:1:MET)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.149 / q_NPA : 0.012
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].
4I3PHE00.1530.0483.813-2.656-0.698-0.007-1.143-0.8090.002
5I3PHE0-0.0910.0745.2260.1030.1030.0000.0000.0000.000
6I4ALA00.103-0.1224.8270.9621.026-0.002-0.005-0.0570.000
7I4ALA0-0.0360.1394.790-0.236-0.218-0.001-0.006-0.0100.000
8I5GLU00.027-0.1265.7750.2300.2300.0000.0000.0000.000
9I5GLU-1-0.865-0.8024.6930.2060.393-0.001-0.022-0.1640.000
10I6ASP00.138-0.1137.4820.1990.1990.0000.0000.0000.000
11I6ASP-1-0.964-0.8109.7770.1600.1600.0000.0000.0000.000
12I7LYS0-0.075-0.1789.6260.2170.2170.0000.0000.0000.000
13I7LYS10.9051.0849.8240.7640.7640.0000.0000.0000.000
14I8THR00.006-0.09210.3960.1460.1460.0000.0000.0000.000
15I8THR0-0.0260.0889.187-0.087-0.0870.0000.0000.0000.000
16I9TYR00.118-0.07311.7540.0790.0790.0000.0000.0000.000
17I9TYR0-0.0010.14212.8070.0480.0480.0000.0000.0000.000
18I10LYS00.124-0.07413.8220.0840.0840.0000.0000.0000.000
19I10LYS10.8671.06014.6800.2730.2730.0000.0000.0000.000
20I11TYR0-0.041-0.13014.7780.0970.0970.0000.0000.0000.000
21I11TYR0-0.0830.04614.778-0.036-0.0360.0000.0000.0000.000
22I12ILE00.044-0.08815.9030.0340.0340.0000.0000.0000.000
23I12ILE0-0.0690.09414.1370.0060.0060.0000.0000.0000.000
24I13CYS00.113-0.11017.6480.0400.0400.0000.0000.0000.000
25I13CYS0-0.1820.07017.6600.0270.0270.0000.0000.0000.000
26I14ARG00.054-0.07619.5330.0430.0430.0000.0000.0000.000
27I14ARG10.8251.02016.0130.5170.5170.0000.0000.0000.000
28I15ASN00.064-0.04920.3530.0450.0450.0000.0000.0000.000
29I15ASN0-0.0820.07020.063-0.014-0.0140.0000.0000.0000.000
30I16PHE00.156-0.04321.580-0.016-0.0160.0000.0000.0000.000
31I16PHE0-0.0770.08721.1650.0110.0110.0000.0000.0000.000
32I17SER0-0.008-0.11922.5070.0070.0070.0000.0000.0000.000
33I17SER00.0060.09126.4480.0050.0050.0000.0000.0000.000
34I18ASN00.059-0.10722.8640.0310.0310.0000.0000.0000.000
35I18ASN0-0.0680.08021.8220.0290.0290.0000.0000.0000.000
36I19PHE00.062-0.08521.381-0.008-0.0080.0000.0000.0000.000
37I19PHE0-0.0800.09917.3280.0060.0060.0000.0000.0000.000
38I20CYS00.068-0.13722.5800.0170.0170.0000.0000.0000.000
39I20CYS0-0.0990.10827.0410.0040.0040.0000.0000.0000.000
40I21ASN00.083-0.07325.5220.0240.0240.0000.0000.0000.000
41I21ASN0-0.0720.09026.4380.0110.0110.0000.0000.0000.000
42I22VAL00.109-0.11022.3960.0140.0140.0000.0000.0000.000
43I22VAL0-0.0320.13420.595-0.001-0.0010.0000.0000.0000.000
44I23LYS00.108-0.06023.8110.0140.0140.0000.0000.0000.000
45I23LYS10.7520.99326.5040.1500.1500.0000.0000.0000.000
46I24VAL00.099-0.11522.998-0.012-0.0120.0000.0000.0000.000
47I24VAL0-0.0390.11522.7220.0010.0010.0000.0000.0000.000
48I25VAL00.099-0.10823.5670.0050.0050.0000.0000.0000.000
49I25VAL0-0.0380.11927.780-0.001-0.0010.0000.0000.0000.000
50I26LYS00.059-0.09025.2600.0150.0150.0000.0000.0000.000
51I26LYS10.8731.04125.3500.1300.1300.0000.0000.0000.000
52I27ILE00.077-0.05620.8800.0080.0080.0000.0000.0000.000
53I27ILE0-0.0680.09518.201-0.003-0.0030.0000.0000.0000.000
54I28LEU00.060-0.10319.759-0.013-0.0130.0000.0000.0000.000
55I28LEU0-0.1160.08219.8640.0040.0040.0000.0000.0000.000
56I29PRO0-0.012-0.12419.8760.0210.0210.0000.0000.0000.000
57I30TYR00.0170.01518.9680.0310.0310.0000.0000.0000.000
58I30TYR0-0.0550.08818.503-0.001-0.0010.0000.0000.0000.000
59I31LEU00.122-0.07615.444-0.046-0.0460.0000.0000.0000.000
60I31LEU0-0.1290.09014.417-0.001-0.0010.0000.0000.0000.000
61I32PRO00.042-0.10514.1060.0410.0410.0000.0000.0000.000
62I33CYS00.0910.02412.1080.0470.0470.0000.0000.0000.000
63I33CYS0-0.1020.09911.221-0.034-0.0340.0000.0000.0000.000
64I34LEU00.049-0.12213.4890.1030.1030.0000.0000.0000.000
65I34LEU0-0.1080.08815.450-0.006-0.0060.0000.0000.0000.000
66I35THR00.029-0.07216.371-0.021-0.0210.0000.0000.0000.000
67I35THR0-0.0590.03816.708-0.007-0.0070.0000.0000.0000.000
68I36ALA00.166-0.06418.645-0.038-0.0380.0000.0000.0000.000
69I36ALA0-0.0450.12122.8220.0010.0010.0000.0000.0000.000
70I37ARG00.124-0.08222.111-0.032-0.0320.0000.0000.0000.000
71I37ARG10.8761.07821.880-0.191-0.1910.0000.0000.0000.000
72I38ASP00.048-0.11319.528-0.026-0.0260.0000.0000.0000.000
73I38ASP-1-0.802-0.74317.8400.3010.3010.0000.0000.0000.000
74I39GLN00.090-0.07421.038-0.030-0.0300.0000.0000.0000.000
75I39GLN0-0.0600.11319.151-0.025-0.0250.0000.0000.0000.000
76I40ASP00.068-0.10822.682-0.029-0.0290.0000.0000.0000.000
77I40ASP-1-0.990-0.84625.6820.1190.1190.0000.0000.0000.000
78I41ARG00.173-0.05424.608-0.019-0.0190.0000.0000.0000.000
79I41ARG10.7540.99419.990-0.148-0.1480.0000.0000.0000.000
80I42LEU00.029-0.12123.112-0.011-0.0110.0000.0000.0000.000
81I42LEU0-0.0670.09619.850-0.003-0.0030.0000.0000.0000.000
82I43ARG00.120-0.07824.495-0.020-0.0200.0000.0000.0000.000
83I43ARG10.8581.04223.665-0.031-0.0310.0000.0000.0000.000
84I44ALA00.101-0.09627.036-0.016-0.0160.0000.0000.0000.000
85I44ALA0-0.0640.13328.9200.0020.0020.0000.0000.0000.000
86I45THR0-0.012-0.10527.477-0.006-0.0060.0000.0000.0000.000
87I45THR0-0.0710.04426.6810.0030.0030.0000.0000.0000.000
88I46CYS00.163-0.06727.831-0.008-0.0080.0000.0000.0000.000
89I46CYS0-0.2030.05626.947-0.007-0.0070.0000.0000.0000.000
90I47THR0-0.022-0.04228.903-0.012-0.0120.0000.0000.0000.000
91I47THR0-0.0960.02731.2100.0010.0010.0000.0000.0000.000
92I48LEU00.113-0.11032.397-0.009-0.0090.0000.0000.0000.000
93I48LEU0-0.1010.10732.8890.0020.0020.0000.0000.0000.000
94I49SER00.016-0.10531.224-0.002-0.0020.0000.0000.0000.000
95I49SER0-0.0210.08730.2800.0020.0020.0000.0000.0000.000
96I50GLY00.034-0.04231.881-0.009-0.0090.0000.0000.0000.000
97I51ASN00.1840.06628.2380.0050.0050.0000.0000.0000.000
98I51ASN0-0.1310.03426.4270.0040.0040.0000.0000.0000.000
99I52ARG00.091-0.09127.122-0.001-0.0010.0000.0000.0000.000
100I52ARG10.8631.07327.2410.1320.1320.0000.0000.0000.000
101I53ASP00.046-0.12327.236-0.017-0.0170.0000.0000.0000.000
102I53ASP-1-0.929-0.80329.898-0.057-0.0570.0000.0000.0000.000
103I54THR00.051-0.10226.0640.0050.0050.0000.0000.0000.000
104I54THR0-0.0610.07624.4590.0060.0060.0000.0000.0000.000
105I55LEU00.039-0.11122.7970.0180.0180.0000.0000.0000.000
106I55LEU0-0.1290.09622.266-0.003-0.0030.0000.0000.0000.000
107I56TRP00.136-0.10521.281-0.012-0.0120.0000.0000.0000.000
108I56TRP0-0.0420.12221.8540.0090.0090.0000.0000.0000.000
109I57HIS00.029-0.11620.9950.0020.0020.0000.0000.0000.000
110I57HIS0-0.0710.11622.8930.0150.0150.0000.0000.0000.000
111I58LEU00.126-0.07219.8760.0420.0420.0000.0000.0000.000
112I58LEU0-0.0990.08818.473-0.001-0.0010.0000.0000.0000.000
113I59PHE00.062-0.09816.5240.0310.0310.0000.0000.0000.000
114I59PHE0-0.0250.09716.808-0.015-0.0150.0000.0000.0000.000
115I60ASN00.097-0.07915.759-0.001-0.0010.0000.0000.0000.000
116I60ASN0-0.0810.09318.8460.0450.0450.0000.0000.0000.000
117I61THR00.053-0.10816.8170.0550.0550.0000.0000.0000.000
118I61THR0-0.0800.06517.1040.0110.0110.0000.0000.0000.000
119I62LEU00.067-0.06913.9860.1180.1180.0000.0000.0000.000
120I62LEU0-0.0800.09013.085-0.010-0.0100.0000.0000.0000.000
121I63GLN00.067-0.06611.2350.1160.1160.0000.0000.0000.000
122I63GLN0-0.0730.07912.287-0.023-0.0230.0000.0000.0000.000
123I64ARG00.048-0.09611.2120.0700.0700.0000.0000.0000.000
124I64ARG10.7941.00614.404-0.242-0.2420.0000.0000.0000.000
125I65ARG0-0.019-0.11711.3130.2070.2070.0000.0000.0000.000
126I65ARG10.7970.99511.782-0.480-0.4800.0000.0000.0000.000
127I66PRO0-0.007-0.1027.049-0.150-0.1500.0000.0000.0000.000
128I67GLY00.0590.0194.880-0.040-0.0400.0000.0000.0000.000
129I68TRP00.0850.0105.871-0.462-0.4620.0000.0000.0000.000
130I68TRP0-0.1030.0988.375-0.163-0.1630.0000.0000.0000.000
131I69VAL00.085-0.1007.5430.1900.1900.0000.0000.0000.000
132I69VAL0-0.0540.1257.123-0.003-0.0030.0000.0000.0000.000
133I70GLU00.062-0.1217.1220.0220.0220.0000.0000.0000.000
134I70GLU-1-0.881-0.7905.676-3.439-3.4390.0000.0000.0000.000
135I71TYR00.024-0.1028.5000.0810.0810.0000.0000.0000.000
136I71TYR0-0.0390.0919.054-0.038-0.0380.0000.0000.0000.000
137I72PHE00.098-0.07910.9750.0980.0980.0000.0000.0000.000
138I72PHE0-0.1100.07011.8780.0360.0360.0000.0000.0000.000
139I73ILE00.106-0.07511.9710.1150.1150.0000.0000.0000.000
140I73ILE0-0.1140.10310.8680.0130.0130.0000.0000.0000.000
141I74ALA00.056-0.09813.6490.0810.0810.0000.0000.0000.000
142I74ALA0-0.0440.10414.565-0.007-0.0070.0000.0000.0000.000
143I75ALA00.220-0.06315.2080.0630.0630.0000.0000.0000.000
144I75ALA0-0.1250.08915.8870.0070.0070.0000.0000.0000.000
145I76LEU0-0.028-0.15616.6940.0560.0560.0000.0000.0000.000
146I76LEU0-0.0550.11616.3180.0070.0070.0000.0000.0000.000
147I77ARG00.041-0.12417.8550.0350.0350.0000.0000.0000.000
148I77ARG10.7930.99615.6160.6540.6540.0000.0000.0000.000
149I78GLY00.023-0.06519.3730.0270.0270.0000.0000.0000.000
150I79CYS00.047-0.02721.3100.0340.0340.0000.0000.0000.000
151I79CYS0-0.1570.08222.0230.0110.0110.0000.0000.0000.000
152I80LYS00.054-0.07222.9480.0080.0080.0000.0000.0000.000
153I80LYS10.8441.04325.0020.1880.1880.0000.0000.0000.000
154I81LEU00.054-0.11422.3270.0210.0210.0000.0000.0000.000
155I81LEU0-0.0990.08321.6660.0020.0020.0000.0000.0000.000
156I82VAL00.097-0.09721.013-0.027-0.0270.0000.0000.0000.000
157I82VAL0-0.0410.09921.1170.0040.0040.0000.0000.0000.000
158I83ASP00.151-0.06821.028-0.057-0.0570.0000.0000.0000.000
159I83ASP-1-1.003-0.85224.193-0.323-0.3230.0000.0000.0000.000
160I84LEU00.164-0.05820.885-0.047-0.0470.0000.0000.0000.000
161I84LEU0-0.1440.07619.4940.0100.0100.0000.0000.0000.000
162I85ALA00.085-0.10017.296-0.062-0.0620.0000.0000.0000.000
163I85ALA0-0.0880.08617.3190.0090.0090.0000.0000.0000.000
164I86ASP00.051-0.12816.231-0.129-0.1290.0000.0000.0000.000
165I86ASP-1-0.873-0.74918.590-0.590-0.5900.0000.0000.0000.000
166I87GLU00.084-0.08616.639-0.107-0.1070.0000.0000.0000.000
167I87GLU-1-0.878-0.78318.319-0.460-0.4600.0000.0000.0000.000
168I88VAL00.008-0.13914.773-0.075-0.0750.0000.0000.0000.000
169I88VAL0-0.0980.07612.7540.0130.0130.0000.0000.0000.000
170I89ALA00.133-0.07612.067-0.226-0.2260.0000.0000.0000.000
171I89ALA0-0.0830.09513.2290.0250.0250.0000.0000.0000.000
172I90SER00.013-0.08611.721-0.288-0.2880.0000.0000.0000.000
173I90SER0-0.0200.08815.2850.0610.0610.0000.0000.0000.000
174I91VAL00.061-0.08812.654-0.141-0.1410.0000.0000.0000.000
175I91VAL0-0.1040.08912.7480.0220.0220.0000.0000.0000.000
176I92TYR00.058-0.0999.298-0.001-0.0010.0000.0000.0000.000
177I92TYR0-0.1050.0574.558-0.855-0.798-0.001-0.017-0.0390.000
178I93GLN00.034-0.1197.931-0.710-0.7100.0000.0000.0000.000
179I93GLN0-0.0570.1186.5670.2130.2130.0000.0000.0000.000
180I94SER00.049-0.0999.136-0.064-0.0640.0000.0000.0000.000
181I94SER0-0.0740.05311.8070.1120.1120.0000.0000.0000.000
182I95TYR0-0.075-0.0999.0540.2500.2500.0000.0000.0000.000
183I95TYR0-0.0780.0718.2290.2010.2010.0000.0000.0000.000
184I96GLN00.106-0.1135.9740.2110.220-0.0020.001-0.0080.000
185I96GLN0-0.0590.1023.957-2.314-1.9600.026-0.182-0.199-0.001
186I97PRO00.004-0.0707.0820.2910.2910.0000.0000.0000.000