Manual

About

FMODB

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

Last updated: 2024-04-05

All entries: 36946

Number of unique PDB entries: 7781

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FMODB ID: N92MQ

Calculation Name: 4TZO-G-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 4TZO

Chain ID: G

ChEMBL ID:

UniProt ID: G5EBG0

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:


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 236
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -3112679.022841
FMO2-HF: Nuclear repulsion 3017153.910681
FMO2-HF: Total energy -95525.11216
FMO2-MP2: Total energy -95799.263601


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:17:ASP)


Summations of interaction energy for fragment #1(G:17:ASP)
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.
-95.897-110.21550.448-21.66-14.470.187
Interaction energy analysis for fragmet #1(G:17:ASP)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : -1 / q_Mulliken : -0.823 / q_NPA : -0.879
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].
3G19ILE00.0110.0253.800-4.699-2.798-0.033-0.884-0.9840.002
4G20ASP-1-0.803-0.8906.76128.28228.2820.0000.0000.0000.000
5G21ASP-1-0.797-0.8858.93217.81617.8160.0000.0000.0000.000
6G22LYS10.8810.90012.021-17.783-17.7830.0000.0000.0000.000
7G23LYS10.8140.91315.047-15.506-15.5060.0000.0000.0000.000
8G24TRP00.0570.0229.392-1.863-1.8630.0000.0000.0000.000
9G25SER0-0.025-0.00713.168-0.298-0.2980.0000.0000.0000.000
10G26LYS10.9090.97714.075-14.961-14.9610.0000.0000.0000.000
11G27LEU0-0.050-0.02816.469-0.667-0.6670.0000.0000.0000.000
12G28PHE00.0280.00111.561-0.470-0.4700.0000.0000.0000.000
13G29PRO00.0320.0219.374-0.616-0.6160.0000.0000.0000.000
14G30ARG10.8720.9238.242-26.106-26.1060.0000.0000.0000.000
15G31ILE0-0.018-0.0034.3101.6781.865-0.001-0.067-0.1200.000
16G32VAL00.023-0.0024.474-7.701-7.559-0.001-0.024-0.1170.000
17G33SER00.0550.0251.940-24.076-22.1175.260-3.915-3.3030.051
18G34ASP-1-0.806-0.8765.02728.67428.742-0.001-0.010-0.0570.000
19G35PRO00.0920.0208.147-0.118-0.1180.0000.0000.0000.000
20G36ASP-1-0.786-0.87711.64519.46419.4640.0000.0000.0000.000
21G37ARG10.8610.9038.527-35.308-35.3080.0000.0000.0000.000
22G38SER0-0.022-0.0158.6960.8200.8200.0000.0000.0000.000
23G39SER00.0730.0349.910-1.646-1.6460.0000.0000.0000.000
24G40ASN0-0.054-0.03213.110-1.978-1.9780.0000.0000.0000.000
25G41PHE0-0.001-0.01210.160-1.037-1.0370.0000.0000.0000.000
26G42MET00.0150.02912.196-1.390-1.3900.0000.0000.0000.000
27G43THR00.0420.04714.380-1.010-1.0100.0000.0000.0000.000
28G44ARG10.8470.92814.655-18.262-18.2620.0000.0000.0000.000
29G45ALA0-0.027-0.02014.018-0.907-0.9070.0000.0000.0000.000
30G46ILE00.0530.02416.029-0.902-0.9020.0000.0000.0000.000
31G47TYR0-0.022-0.01019.402-0.665-0.6650.0000.0000.0000.000
32G48VAL0-0.033-0.01617.799-0.864-0.8640.0000.0000.0000.000
33G49ALA00.0260.00818.965-0.685-0.6850.0000.0000.0000.000
34G50PHE00.0670.02020.763-0.649-0.6490.0000.0000.0000.000
35G51SER0-0.070-0.03423.293-0.825-0.8250.0000.0000.0000.000
36G52ALA0-0.010-0.01023.027-0.551-0.5510.0000.0000.0000.000
37G53VAL00.0220.02524.617-0.459-0.4590.0000.0000.0000.000
38G54LEU00.0210.00926.903-0.477-0.4770.0000.0000.0000.000
39G55ARG10.7820.88828.153-10.212-10.2120.0000.0000.0000.000
40G56ASN0-0.067-0.05626.9800.0210.0210.0000.0000.0000.000
41G57ARG10.8410.88830.086-9.605-9.6050.0000.0000.0000.000
42G58ASN0-0.060-0.01732.446-0.222-0.2220.0000.0000.0000.000
43G59ILE00.0760.06531.674-0.199-0.1990.0000.0000.0000.000
44G60LEU0-0.054-0.01931.155-0.187-0.1870.0000.0000.0000.000
45G61GLY00.0700.03533.9260.1100.1100.0000.0000.0000.000
46G62GLN00.012-0.01432.6490.4820.4820.0000.0000.0000.000
47G63GLU-1-0.856-0.93333.1408.9568.9560.0000.0000.0000.000
48G64TYR0-0.022-0.00532.2860.0020.0020.0000.0000.0000.000
49G65PHE0-0.007-0.00727.3340.4480.4480.0000.0000.0000.000
50G66THR0-0.047-0.01926.129-0.253-0.2530.0000.0000.0000.000
51G67LYS10.9320.95126.267-10.822-10.8220.0000.0000.0000.000
52G68ASN0-0.022-0.01821.4420.2710.2710.0000.0000.0000.000
53G69TYR0-0.020-0.02819.193-0.693-0.6930.0000.0000.0000.000
54G70ILE00.0550.05315.3620.3090.3090.0000.0000.0000.000
55G71THR00.0600.02513.1520.8580.8580.0000.0000.0000.000
56G72GLU-1-0.899-0.95915.38216.76616.7660.0000.0000.0000.000
57G73LYS10.9390.97116.694-17.686-17.6860.0000.0000.0000.000
58G74LEU00.0050.02818.033-0.854-0.8540.0000.0000.0000.000
59G75LYS10.8850.94719.764-12.273-12.2730.0000.0000.0000.000
60G76CYS00.0400.00721.3820.0610.0610.0000.0000.0000.000
61G77MET0-0.0300.00423.320-0.011-0.0110.0000.0000.0000.000
62G78THR00.0590.00921.4940.1750.1750.0000.0000.0000.000
63G79LEU00.0480.05224.861-0.431-0.4310.0000.0000.0000.000
64G80CYS0-0.063-0.00626.5320.3360.3360.0000.0000.0000.000
65G81PHE00.0540.03223.016-0.160-0.1600.0000.0000.0000.000
66G82ARG10.9200.94528.816-10.888-10.8880.0000.0000.0000.000
67G83ASN00.0000.00432.160-0.384-0.3840.0000.0000.0000.000
68G84LEU00.0490.02733.2130.2550.2550.0000.0000.0000.000
69G85ARG11.0431.01734.404-8.567-8.5670.0000.0000.0000.000
70G86SER00.020-0.01530.2500.0280.0280.0000.0000.0000.000
71G87ASN0-0.014-0.00329.3780.7810.7810.0000.0000.0000.000
72G88GLN00.0290.01129.5410.2750.2750.0000.0000.0000.000
73G89ILE00.0440.02628.4980.1810.1810.0000.0000.0000.000
74G90ALA0-0.030-0.02025.5380.3950.3950.0000.0000.0000.000
75G91GLN0-0.053-0.02625.3940.4330.4330.0000.0000.0000.000
76G92LEU00.0420.03526.9380.2470.2470.0000.0000.0000.000
77G93LEU00.0020.00023.1460.3120.3120.0000.0000.0000.000
78G94ARG10.8730.94020.470-14.158-14.1580.0000.0000.0000.000
79G95ASN00.0060.00422.6560.7450.7450.0000.0000.0000.000
80G96ALA00.0280.01623.8320.1230.1230.0000.0000.0000.000
81G97GLY0-0.021-0.02519.9320.3490.3490.0000.0000.0000.000
82G98ASP-1-0.891-0.95518.97316.52716.5270.0000.0000.0000.000
83G99ALA00.0150.01620.9740.1450.1450.0000.0000.0000.000
84G100THR0-0.049-0.02316.039-0.042-0.0420.0000.0000.0000.000
85G101LYS10.8340.90417.177-17.152-17.1520.0000.0000.0000.000
86G102ASP-1-0.933-0.96618.21715.43615.4360.0000.0000.0000.000
87G103GLY0-0.030-0.01619.724-0.291-0.2910.0000.0000.0000.000
88G104PHE00.0130.00120.514-0.649-0.6490.0000.0000.0000.000
89G105LEU0-0.0110.01120.817-0.697-0.6970.0000.0000.0000.000
90G106LYS10.8690.94621.870-10.799-10.7990.0000.0000.0000.000
91G107GLU-1-0.787-0.86723.00112.24312.2430.0000.0000.0000.000
92G108VAL0-0.0130.00323.497-0.390-0.3900.0000.0000.0000.000
93G109SER0-0.004-0.03624.5880.6170.6170.0000.0000.0000.000
94G110LEU0-0.093-0.03427.235-0.264-0.2640.0000.0000.0000.000
95G111VAL00.012-0.00229.3400.0190.0190.0000.0000.0000.000
96G112ILE0-0.010-0.00432.683-0.143-0.1430.0000.0000.0000.000
97G113THR0-0.022-0.02135.5210.0480.0480.0000.0000.0000.000
98G114ASN00.0320.00939.059-0.016-0.0160.0000.0000.0000.000
99G115ASN0-0.036-0.03042.640-0.185-0.1850.0000.0000.0000.000
100G116GLU-1-0.990-0.94640.2807.9497.9490.0000.0000.0000.000
101G117GLY00.0770.00240.201-0.140-0.1400.0000.0000.0000.000
102G118ASP-1-0.857-0.90841.0207.4157.4150.0000.0000.0000.000
103G119LEU00.020-0.00439.1580.2490.2490.0000.0000.0000.000
104G120GLU-1-0.914-0.94938.1107.9137.9130.0000.0000.0000.000
105G121ALA0-0.050-0.02935.319-0.070-0.0700.0000.0000.0000.000
106G122ILE0-0.0020.00237.324-0.035-0.0350.0000.0000.0000.000
107G123GLU-1-0.755-0.85032.4199.6329.6320.0000.0000.0000.000
108G124VAL0-0.016-0.00629.0060.0410.0410.0000.0000.0000.000
109G125PHE0-0.038-0.00926.0610.3360.3360.0000.0000.0000.000
110G126SER00.0710.03925.1380.0440.0440.0000.0000.0000.000
111G127MET0-0.078-0.04017.9050.4820.4820.0000.0000.0000.000
112G128LYS10.8760.95121.255-12.509-12.5090.0000.0000.0000.000
113G129PHE00.013-0.01916.8611.1391.1390.0000.0000.0000.000
114G130ILE00.0040.03917.367-0.826-0.8260.0000.0000.0000.000
115G131TYR0-0.025-0.02416.0431.6381.6380.0000.0000.0000.000
116G132PHE00.0010.00113.496-0.280-0.2800.0000.0000.0000.000
117G133GLU-1-0.878-0.93615.68616.04816.0480.0000.0000.0000.000
118G134ASN00.004-0.02014.7871.1071.1070.0000.0000.0000.000
119G135GLY0-0.051-0.00911.581-0.410-0.4100.0000.0000.0000.000
120G136GLY00.0200.00710.7322.1652.1650.0000.0000.0000.000
121G137VAL0-0.030-0.00411.3711.1201.1200.0000.0000.0000.000
122G138VAL00.0290.01213.583-0.562-0.5620.0000.0000.0000.000
123G139ALA0-0.0020.00017.1650.3130.3130.0000.0000.0000.000
124G140ARG10.8800.94218.031-16.354-16.3540.0000.0000.0000.000
125G141LEU0-0.032-0.02520.7940.1210.1210.0000.0000.0000.000
126G142SER0-0.048-0.04322.8130.0910.0910.0000.0000.0000.000
127G143THR0-0.0020.00324.834-0.081-0.0810.0000.0000.0000.000
128G144ASP-1-0.838-0.90328.5939.5339.5330.0000.0000.0000.000
129G145LYS10.8380.89731.773-9.755-9.7550.0000.0000.0000.000
130G146ASN0-0.067-0.04834.693-0.443-0.4430.0000.0000.0000.000
131G147GLY0-0.0040.00732.717-0.145-0.1450.0000.0000.0000.000
132G148GLN0-0.047-0.02332.0180.0000.0000.0000.0000.0000.000
133G149GLU-1-0.887-0.95526.12412.42912.4290.0000.0000.0000.000
134G150ASP-1-0.759-0.84825.42111.74311.7430.0000.0000.0000.000
135G151PRO00.0310.00226.0750.3720.3720.0000.0000.0000.000
136G152HIS0-0.039-0.02320.864-0.234-0.2340.0000.0000.0000.000
137G153PHE00.001-0.02021.0561.0231.0230.0000.0000.0000.000
138G154ALA00.0690.03320.7120.8450.8450.0000.0000.0000.000
139G155LYS10.8750.93018.552-15.286-15.2860.0000.0000.0000.000
140G156LEU0-0.033-0.02915.8870.9840.9840.0000.0000.0000.000
141G157ALA00.0030.01215.8851.4871.4870.0000.0000.0000.000
142G158GLN0-0.043-0.01716.9700.0910.0910.0000.0000.0000.000
143G159LEU0-0.048-0.00512.8710.6700.6700.0000.0000.0000.000
144G160VAL00.017-0.0029.9140.3110.3110.0000.0000.0000.000
145G161TYR0-0.094-0.0771.516-24.117-38.80129.760-11.085-3.9920.078
146G162GLU-1-0.921-0.9626.87929.84829.8480.0000.0000.0000.000
147G163GLY0-0.0110.0112.523-2.802-1.7202.093-1.740-1.4340.016
148G164GLY00.021-0.0051.859-16.665-22.29113.245-3.677-3.9420.034
149G165ASP-1-0.821-0.9293.55222.96223.6150.126-0.258-0.5210.006
150G166SER0-0.014-0.0055.687-7.058-7.0580.0000.0000.0000.000
151G167VAL00.0160.0205.740-4.699-4.6990.0000.0000.0000.000
152G168ARG10.7380.8437.815-32.928-32.9280.0000.0000.0000.000
153G169ASP-1-0.822-0.9049.77122.05522.0550.0000.0000.0000.000
154G170GLN00.0500.0479.490-2.391-2.3910.0000.0000.0000.000
155G171MET00.0000.02612.265-2.467-2.4670.0000.0000.0000.000
156G172VAL0-0.063-0.04514.080-2.011-2.0110.0000.0000.0000.000
157G173THR0-0.053-0.04315.382-1.622-1.6220.0000.0000.0000.000
158G174ILE00.0160.02915.698-1.179-1.1790.0000.0000.0000.000
159G175VAL00.020-0.00118.399-1.056-1.0560.0000.0000.0000.000
160G176ARG10.8840.93618.744-15.937-15.9370.0000.0000.0000.000
161G177SER00.0250.03421.414-0.998-0.9980.0000.0000.0000.000
162G178VAL00.0450.03522.764-0.649-0.6490.0000.0000.0000.000
163G179GLN0-0.032-0.01523.457-0.508-0.5080.0000.0000.0000.000
164G180PHE0-0.0020.00725.870-0.592-0.5920.0000.0000.0000.000
165G181LEU00.0350.01026.389-0.464-0.4640.0000.0000.0000.000
166G182CYS0-0.056-0.02528.211-0.378-0.3780.0000.0000.0000.000
167G183THR0-0.093-0.04630.032-0.374-0.3740.0000.0000.0000.000
168G184LYS10.8650.91431.044-9.784-9.7840.0000.0000.0000.000
169G185VAL0-0.0160.00530.671-0.160-0.1600.0000.0000.0000.000
170G186LEU0-0.021-0.01430.445-0.175-0.1750.0000.0000.0000.000
171G187GLU-1-0.896-0.94134.3887.7727.7720.0000.0000.0000.000
172G188PRO0-0.076-0.04137.1790.2250.2250.0000.0000.0000.000
173G189LEU0-0.0020.00234.902-0.071-0.0710.0000.0000.0000.000
174G190PRO00.0110.00439.035-0.129-0.1290.0000.0000.0000.000
175G191GLU-1-0.970-0.98441.8336.8716.8710.0000.0000.0000.000
176G192GLU-1-0.980-0.98043.7686.8076.8070.0000.0000.0000.000
177G193PHE0-0.019-0.01536.3840.1660.1660.0000.0000.0000.000
178G194THR0-0.0060.00338.218-0.057-0.0570.0000.0000.0000.000
179G195ALA0-0.016-0.00733.6520.1320.1320.0000.0000.0000.000
180G196ASN00.0180.02133.7590.0760.0760.0000.0000.0000.000
181G197PHE0-0.007-0.01026.6690.2190.2190.0000.0000.0000.000
182G198ARG10.8360.91030.125-9.126-9.1260.0000.0000.0000.000
183G199LEU0-0.020-0.01326.7000.3890.3890.0000.0000.0000.000
184G200GLU-1-0.808-0.89127.35310.20810.2080.0000.0000.0000.000
185G201TYR00.0240.01326.6750.6470.6470.0000.0000.0000.000
186G202THR0-0.018-0.02123.194-0.376-0.3760.0000.0000.0000.000
187G203ASN0-0.017-0.02526.645-0.416-0.4160.0000.0000.0000.000
188G204ASP-1-0.879-0.93023.92413.03613.0360.0000.0000.0000.000
189G205ALA0-0.044-0.01126.860-0.084-0.0840.0000.0000.0000.000
190G206PRO0-0.0080.00128.044-0.429-0.4290.0000.0000.0000.000
191G207SER00.0120.00031.2730.0680.0680.0000.0000.0000.000
192G208ASN0-0.068-0.04331.8890.0960.0960.0000.0000.0000.000
193G209PHE00.0080.01425.4790.0400.0400.0000.0000.0000.000
194G210ARG10.8650.89130.662-9.360-9.3600.0000.0000.0000.000
195G211ILE0-0.035-0.00725.8960.2190.2190.0000.0000.0000.000
196G212ASP-1-0.869-0.93629.17010.00010.0000.0000.0000.0000.000
197G213GLY0-0.063-0.04929.9740.3060.3060.0000.0000.0000.000
198G214PHE0-0.051-0.03627.831-0.046-0.0460.0000.0000.0000.000
199G215GLU-1-0.936-0.95732.5808.3758.3750.0000.0000.0000.000
200G216ASP-1-0.832-0.88435.1509.2199.2190.0000.0000.0000.000
201G217SER00.025-0.00735.855-0.357-0.3570.0000.0000.0000.000
202G218SER0-0.060-0.02036.3360.2060.2060.0000.0000.0000.000
203G219THR0-0.046-0.01837.854-0.018-0.0180.0000.0000.0000.000
204G220PHE00.0350.02128.5500.0930.0930.0000.0000.0000.000
205G221TYR0-0.047-0.05628.815-0.153-0.1530.0000.0000.0000.000
206G222THR00.002-0.00435.0930.1200.1200.0000.0000.0000.000
207G223LEU0-0.029-0.01632.0430.0440.0440.0000.0000.0000.000
208G224PRO00.0760.04436.748-0.055-0.0550.0000.0000.0000.000
209G225ASP-1-0.926-0.96738.3177.8987.8980.0000.0000.0000.000
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