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: 7Y3QK

Calculation Name: 4ZWS-G-Xray540

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 4ZWS

Chain ID: G

ChEMBL ID:

UniProt ID: P04537

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 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 188
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -666540.575083
FMO2-HF: Nuclear repulsion 627129.774291
FMO2-HF: Total energy -39410.800792
FMO2-MP2: Total energy -39523.765246


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:1:MET)


Summations of interaction energy for fragment #1(G: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.
-2.5040.7420.59-1.076-2.7610.005
Interaction energy analysis for fragmet #1(G:1:MET)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.124 / q_NPA : 0.027
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].
4G2ARG10.7630.9853.8150.7281.1130.006-0.154-0.2370.000
5G3LEU00.171-0.1003.879-1.743-0.058-0.011-0.969-0.7060.005
6G3LEU0-0.0910.1207.1440.0530.0530.0000.0000.0000.000
7G4GLU00.016-0.1456.3600.3610.3610.0000.0000.0000.000
8G4GLU-1-0.902-0.8067.849-2.137-2.1370.0000.0000.0000.000
9G5ASP00.097-0.0945.3420.3210.368-0.002-0.002-0.0430.000
10G5ASP-1-0.875-0.7764.288-0.447-0.331-0.001-0.026-0.0890.000
11G6LEU00.008-0.0935.7960.6510.6510.0000.0000.0000.000
12G6LEU0-0.0600.0773.4240.1630.1600.0430.137-0.1760.001
13G7GLN00.104-0.0976.7890.3870.3870.0000.0000.0000.000
14G7GLN0-0.0760.1079.8260.1500.1500.0000.0000.0000.000
15G8GLU00.126-0.08610.0440.1680.1680.0000.0000.0000.000
16G8GLU-1-0.925-0.79510.328-0.424-0.4240.0000.0000.0000.000
17G9GLU00.038-0.1329.3280.2010.2010.0000.0000.0000.000
18G9GLU-1-0.867-0.7677.604-0.300-0.3000.0000.0000.0000.000
19G10LEU00.103-0.10210.4450.1740.1740.0000.0000.0000.000
20G10LEU0-0.0670.11410.914-0.019-0.0190.0000.0000.0000.000
21G11LYS00.093-0.11512.2350.0870.0870.0000.0000.0000.000
22G11LYS10.7371.00914.5370.4390.4390.0000.0000.0000.000
23G12LYS00.055-0.08414.3640.0400.0400.0000.0000.0000.000
24G12LYS10.8171.04312.2100.2550.2550.0000.0000.0000.000
25G13ASP00.105-0.09414.4890.0600.0600.0000.0000.0000.000
26G13ASP-1-0.888-0.78913.189-0.232-0.2320.0000.0000.0000.000
27G14VAL00.043-0.10215.7820.0470.0470.0000.0000.0000.000
28G14VAL0-0.0790.10015.841-0.005-0.0050.0000.0000.0000.000
29G15PHE00.118-0.06518.1060.0090.0090.0000.0000.0000.000
30G15PHE0-0.0620.09820.1940.0030.0030.0000.0000.0000.000
31G16ILE00.012-0.10720.8640.0070.0070.0000.0000.0000.000
32G16ILE0-0.0820.10322.8470.0020.0020.0000.0000.0000.000
33G17ASP00.199-0.09423.942-0.004-0.0040.0000.0000.0000.000
34G17ASP-1-0.905-0.74325.024-0.037-0.0370.0000.0000.0000.000
35G18SER00.067-0.08726.1580.0100.0100.0000.0000.0000.000
36G18SER0-0.0240.08028.861-0.001-0.0010.0000.0000.0000.000
37G19THR0-0.046-0.11129.5330.0030.0030.0000.0000.0000.000
38G19THR0-0.0370.05529.3850.0040.0040.0000.0000.0000.000
39G20LYS00.036-0.06528.0080.0070.0070.0000.0000.0000.000
40G20LYS10.8111.00325.1770.0130.0130.0000.0000.0000.000
41G21LEU00.167-0.08227.9710.0050.0050.0000.0000.0000.000
42G21LEU0-0.1070.11127.6930.0010.0010.0000.0000.0000.000
43G22GLN00.084-0.11728.244-0.006-0.0060.0000.0000.0000.000
44G22GLN0-0.0550.10131.3560.0050.0050.0000.0000.0000.000
45G23TYR00.090-0.06327.1260.0020.0020.0000.0000.0000.000
46G23TYR0-0.1070.07221.579-0.002-0.0020.0000.0000.0000.000
47G24GLU00.076-0.12523.8320.0120.0120.0000.0000.0000.000
48G24GLU-1-0.876-0.77622.538-0.069-0.0690.0000.0000.0000.000
49G25ALA00.134-0.08523.537-0.013-0.0130.0000.0000.0000.000
50G25ALA0-0.0730.11027.4690.0010.0010.0000.0000.0000.000
51G26ALA00.080-0.10524.647-0.010-0.0100.0000.0000.0000.000
52G26ALA0-0.0880.10525.9120.0030.0030.0000.0000.0000.000
53G27ASN00.070-0.10221.6290.0100.0100.0000.0000.0000.000
54G27ASN0-0.1400.07819.7750.0220.0220.0000.0000.0000.000
55G28ASN00.117-0.07419.7880.0040.0040.0000.0000.0000.000
56G28ASN0-0.0630.08720.916-0.012-0.0120.0000.0000.0000.000
57G29VAL00.037-0.12519.194-0.031-0.0310.0000.0000.0000.000
58G29VAL0-0.0480.11621.2350.0010.0010.0000.0000.0000.000
59G30MET00.112-0.09618.448-0.002-0.0020.0000.0000.0000.000
60G30MET0-0.0840.11817.3680.0130.0130.0000.0000.0000.000
61G31LEU00.048-0.13215.1640.0450.0450.0000.0000.0000.000
62G31LEU0-0.0680.12215.177-0.005-0.0050.0000.0000.0000.000
63G32TYR00.155-0.08114.259-0.050-0.0500.0000.0000.0000.000
64G32TYR0-0.1010.09717.599-0.007-0.0070.0000.0000.0000.000
65G33SER0-0.002-0.09514.790-0.044-0.0440.0000.0000.0000.000
66G33SER0-0.0160.08516.5650.0270.0270.0000.0000.0000.000
67G34LYS00.070-0.09412.3930.0520.0520.0000.0000.0000.000
68G34LYS10.6880.97210.2080.1500.1500.0000.0000.0000.000
69G35TRP00.046-0.1389.9730.0660.0660.0000.0000.0000.000
70G35TRP0-0.1090.0957.254-0.104-0.1040.0000.0000.0000.000
71G36LEU00.130-0.09610.526-0.129-0.1290.0000.0000.0000.000
72G36LEU0-0.0890.11714.3910.0020.0020.0000.0000.0000.000
73G37ASN00.094-0.08711.489-0.033-0.0330.0000.0000.0000.000
74G37ASN0-0.1110.07911.4240.0000.0000.0000.0000.0000.000
75G38LYS00.046-0.0997.2340.4120.4120.0000.0000.0000.000
76G38LYS10.7901.0074.9520.3120.338-0.001-0.003-0.0220.000
77G39HIS00.189-0.0497.752-0.005-0.0050.0000.0000.0000.000
78G39HIS0-0.0680.11210.6850.1070.1070.0000.0000.0000.000
79G40SER00.020-0.0939.806-0.044-0.0440.0000.0000.0000.000
80G40SER0-0.0530.06412.3040.0200.0200.0000.0000.0000.000
81G41SER00.002-0.1108.569-0.134-0.1340.0000.0000.0000.000
82G41SER0-0.0590.0597.7300.2000.2000.0000.0000.0000.000
83G42ILE00.075-0.0907.1410.4900.4900.0000.0000.0000.000
84G42ILE0-0.0630.1224.814-0.093-0.056-0.001-0.009-0.0270.000
85G43LYS00.076-0.1057.935-0.025-0.0250.0000.0000.0000.000
86G43LYS10.8071.03612.0420.2440.2440.0000.0000.0000.000
87G44LYS00.113-0.06711.467-0.059-0.0590.0000.0000.0000.000
88G44LYS10.8451.06311.275-0.681-0.6810.0000.0000.0000.000
89G45GLU00.095-0.1018.128-0.091-0.0910.0000.0000.0000.000
90G45GLU-1-0.862-0.7396.5031.0231.0230.0000.0000.0000.000
91G46MET00.083-0.1229.642-0.017-0.0170.0000.0000.0000.000
92G46MET0-0.0980.1079.332-0.081-0.0810.0000.0000.0000.000
93G47LEU00.092-0.08311.082-0.042-0.0420.0000.0000.0000.000
94G47LEU0-0.0960.10214.4280.0000.0000.0000.0000.0000.000
95G48ARG00.089-0.09713.025-0.062-0.0620.0000.0000.0000.000
96G48ARG10.7330.9659.889-0.653-0.6530.0000.0000.0000.000
97G49ILE00.082-0.08912.0750.0180.0180.0000.0000.0000.000
98G49ILE0-0.1040.0908.824-0.030-0.0300.0000.0000.0000.000
99G50GLU00.093-0.10413.262-0.018-0.0180.0000.0000.0000.000
100G50GLU-1-0.851-0.76415.518-0.114-0.1140.0000.0000.0000.000
101G51ALA00.086-0.11216.215-0.032-0.0320.0000.0000.0000.000
102G51ALA0-0.0840.10417.2640.0080.0080.0000.0000.0000.000
103G52GLN00.122-0.08016.647-0.017-0.0170.0000.0000.0000.000
104G52GLN0-0.1100.08915.9890.0210.0210.0000.0000.0000.000
105G53LYS00.041-0.10717.2370.0010.0010.0000.0000.0000.000
106G53LYS10.7350.97115.4820.1030.1030.0000.0000.0000.000
107G54LYS00.031-0.07818.845-0.021-0.0210.0000.0000.0000.000
108G54LYS10.7770.99220.2810.0400.0400.0000.0000.0000.000
109G55VAL00.076-0.09021.212-0.008-0.0080.0000.0000.0000.000
110G55VAL0-0.1010.08721.4880.0040.0040.0000.0000.0000.000
111G56ALA0-0.074-0.13421.733-0.006-0.0060.0000.0000.0000.000
112G56ALA00.0310.03721.235-0.002-0.0020.0000.0000.0000.000
113G98THR00.0470.0365.5870.0580.0580.0000.0000.0000.000
114G98THR0-0.0690.0413.986-0.0650.013-0.001-0.016-0.0610.000
115G99SER00.144-0.0467.0700.1840.1840.0000.0000.0000.000
116G99SER0-0.0380.06310.1130.0080.0080.0000.0000.0000.000
117G100LEU00.118-0.0768.674-0.269-0.2690.0000.0000.0000.000
118G100LEU0-0.0870.11411.1960.0130.0130.0000.0000.0000.000
119G101GLN00.110-0.09110.575-0.073-0.0730.0000.0000.0000.000
120G101GLN0-0.0880.09312.314-0.046-0.0460.0000.0000.0000.000
121G102TYR00.115-0.0768.0010.0470.0470.0000.0000.0000.000
122G102TYR0-0.0810.1064.733-0.183-0.098-0.001-0.023-0.0610.000
123G103TRP00.027-0.1316.236-0.693-0.6930.0000.0000.0000.000
124G103TRP0-0.0460.1002.768-2.296-1.1910.553-0.618-1.041-0.001
125G104GLY00.092-0.0697.186-0.058-0.0580.0000.0000.0000.000
126G105ILE00.1090.01410.0650.0760.0760.0000.0000.0000.000
127G105ILE0-0.0940.0999.433-0.003-0.0030.0000.0000.0000.000
128G106LEU00.087-0.0925.3730.2970.307-0.002-0.001-0.0070.000
129G106LEU0-0.1140.0883.3520.089-0.2360.0080.608-0.2910.000
130G107LEU00.104-0.0816.601-0.026-0.0260.0000.0000.0000.000
131G107LEU0-0.0910.0889.4790.0660.0660.0000.0000.0000.000
132G108ASP00.066-0.1279.0310.1170.1170.0000.0000.0000.000
133G108ASP-1-0.966-0.81712.148-0.735-0.7350.0000.0000.0000.000
134G109PHE00.104-0.0769.1170.2810.2810.0000.0000.0000.000
135G109PHE0-0.0890.0938.105-0.092-0.0920.0000.0000.0000.000
136G110CYS00.103-0.1078.7870.1470.1470.0000.0000.0000.000
137G110CYS0-0.1790.0666.8050.0210.0210.0000.0000.0000.000
138G111SER0-0.050-0.1009.6180.1950.1950.0000.0000.0000.000
139G111SER00.0000.06613.4020.0210.0210.0000.0000.0000.000
140G112GLY00.045-0.07313.0680.1080.1080.0000.0000.0000.000
141G113ALA00.116-0.00611.6240.1230.1230.0000.0000.0000.000
142G113ALA0-0.0580.10711.020-0.025-0.0250.0000.0000.0000.000
143G114LEU00.038-0.10713.0450.0870.0870.0000.0000.0000.000
144G114LEU0-0.1110.08813.0860.0140.0140.0000.0000.0000.000
145G115ASP00.101-0.11015.0950.0720.0720.0000.0000.0000.000
146G115ASP-1-0.922-0.79917.548-0.313-0.3130.0000.0000.0000.000
147G116ALA00.109-0.10116.5010.0670.0670.0000.0000.0000.000
148G116ALA0-0.0770.11715.699-0.013-0.0130.0000.0000.0000.000
149G117ILE00.057-0.11016.5770.0370.0370.0000.0000.0000.000
150G117ILE0-0.1140.10115.1430.0050.0050.0000.0000.0000.000
151G118LYS00.155-0.05617.9880.0470.0470.0000.0000.0000.000
152G118LYS10.7441.00819.8670.2200.2200.0000.0000.0000.000
153G119SER00.029-0.09520.6020.0340.0340.0000.0000.0000.000
154G119SER0-0.0510.06921.1960.0050.0050.0000.0000.0000.000
155G120ARG00.069-0.11620.8700.0210.0210.0000.0000.0000.000
156G120ARG10.6970.99219.2170.1310.1310.0000.0000.0000.000
157G121GLY00.026-0.09522.1470.0210.0210.0000.0000.0000.000
158G122PHE00.076-0.00524.2500.0190.0190.0000.0000.0000.000
159G122PHE0-0.1000.10025.0660.0020.0020.0000.0000.0000.000
160G123ALA00.140-0.08325.5330.0150.0150.0000.0000.0000.000
161G123ALA0-0.0800.10924.829-0.004-0.0040.0000.0000.0000.000
162G124ILE00.066-0.10325.9030.0060.0060.0000.0000.0000.000
163G124ILE0-0.1160.08723.3570.0020.0020.0000.0000.0000.000
164G125LYS00.109-0.08127.3620.0110.0110.0000.0000.0000.000
165G125LYS10.7170.99729.3840.0600.0600.0000.0000.0000.000
166G126HIS00.049-0.12229.9420.0110.0110.0000.0000.0000.000
167G126HIS0-0.1250.07229.826-0.007-0.0070.0000.0000.0000.000
168G127ILE00.159-0.07630.3520.0030.0030.0000.0000.0000.000
169G127ILE0-0.0960.09327.8170.0000.0000.0000.0000.0000.000
170G128GLN00.065-0.09531.8150.0040.0040.0000.0000.0000.000
171G128GLN0-0.0610.09432.7860.0010.0010.0000.0000.0000.000
172G129ASP00.060-0.11533.9620.0080.0080.0000.0000.0000.000
173G129ASP-1-0.847-0.78533.990-0.068-0.0680.0000.0000.0000.000
174G130MET00.145-0.09235.0350.0050.0050.0000.0000.0000.000
175G130MET0-0.1030.12535.0410.0000.0000.0000.0000.0000.000
176G131ARG00.124-0.08336.1640.0020.0020.0000.0000.0000.000
177G131ARG10.7491.00632.4160.0510.0510.0000.0000.0000.000
178G132ALA00.085-0.06738.0410.0040.0040.0000.0000.0000.000
179G132ALA0-0.1010.08539.0740.0000.0000.0000.0000.0000.000
180G133PHE00.074-0.07939.7530.0050.0050.0000.0000.0000.000
181G133PHE0-0.1080.07539.904-0.001-0.0010.0000.0000.0000.000
182G134GLU00.069-0.13640.5810.0030.0030.0000.0000.0000.000
183G134GLU-1-1.001-0.85138.408-0.063-0.0630.0000.0000.0000.000
184G135ALA00.081-0.09642.0360.0020.0020.0000.0000.0000.000
185G135ALA0-0.1010.10242.4790.0010.0010.0000.0000.0000.000
186G136GLY0-0.008-0.08543.9370.0040.0040.0000.0000.0000.000
187G137LYS0-0.102-0.04342.4990.0020.0020.0000.0000.0000.000
188G137LYS10.8920.93644.3520.0300.0300.0000.0000.0000.000