Manual

About

FMODB

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

Last updated: 2024-05-02

All entries: 37386

Number of unique PDB entries: 7781

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FMODB ID: M9V8Z

Calculation Name: 4UUC-A-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 4UUC

Chain ID: A

ChEMBL ID:

UniProt ID: Q8WXH4

Base Structure: X-ray

Registration Date: 2023-09-26

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 221
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -2319412.745333
FMO2-HF: Nuclear repulsion 2236567.001081
FMO2-HF: Total energy -82845.744251
FMO2-MP2: Total energy -83085.590803


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:66:ARG)


Summations of interaction energy for fragment #1(A:66:ARG)
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.
-135.803-120.33826.586-19.453-22.597-0.209
Interaction energy analysis for fragmet #1(A:66:ARG)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 1 / q_Mulliken : 0.810 / q_NPA : 0.893
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].
3A68PRO00.0670.0083.342-10.510-6.6230.008-2.089-1.8060.006
4A69LEU00.0150.0266.000-1.403-1.4030.0000.0000.0000.000
5A70HIS0-0.0040.0092.493-2.1010.7692.380-1.682-3.569-0.010
6A71GLU-1-0.830-0.9082.005-110.045-105.8148.114-5.840-6.505-0.069
7A72ALA0-0.041-0.0243.2156.2045.8260.0480.673-0.3430.001
8A73ALA0-0.017-0.0215.7413.7603.7600.0000.0000.0000.000
9A74ALA00.0000.0002.4434.0444.5790.625-0.372-0.788-0.002
10A75GLN0-0.068-0.0364.54412.22412.329-0.001-0.013-0.0900.000
11A76GLY00.0440.0446.6224.2404.2400.0000.0000.0000.000
12A77ARG10.9210.9558.55430.39530.3950.0000.0000.0000.000
13A78LEU00.0370.00510.600-0.367-0.3670.0000.0000.0000.000
14A79LEU00.0330.01113.2280.0780.0780.0000.0000.0000.000
15A80ALA00.0260.02610.7560.5550.5550.0000.0000.0000.000
16A81LEU00.0180.0139.206-0.020-0.0200.0000.0000.0000.000
17A82LYS10.9640.96611.59417.74617.7460.0000.0000.0000.000
18A83THR0-0.010-0.00414.9461.2311.2310.0000.0000.0000.000
19A84LEU0-0.023-0.0229.1750.4510.4510.0000.0000.0000.000
20A85ILE0-0.011-0.01213.1010.3880.3880.0000.0000.0000.000
21A86ALA0-0.0180.00014.7190.8200.8200.0000.0000.0000.000
22A87GLN0-0.043-0.01715.2511.2271.2270.0000.0000.0000.000
23A88GLY00.0170.02315.8350.5170.5170.0000.0000.0000.000
24A89VAL0-0.079-0.02810.026-0.363-0.3630.0000.0000.0000.000
25A90ASN00.0290.0009.4541.0021.0020.0000.0000.0000.000
26A91VAL00.0380.0139.061-2.445-2.4450.0000.0000.0000.000
27A92ASN0-0.016-0.0139.819-2.331-2.3310.0000.0000.0000.000
28A93LEU0-0.041-0.0034.1330.4980.616-0.001-0.010-0.1070.000
29A94VAL0-0.036-0.0165.888-2.663-2.6630.0000.0000.0000.000
30A95THR00.0150.0012.4061.0842.7300.885-0.976-1.5550.000
31A96ILE00.0710.0234.8540.9891.041-0.001-0.012-0.0390.000
32A97ASN0-0.019-0.0036.9333.2643.2640.0000.0000.0000.000
33A98ARG10.9590.9638.40218.86618.8660.0000.0000.0000.000
34A99VAL00.0070.0214.9891.2911.2910.0000.0000.0000.000
35A100SER00.0580.0305.697-2.115-2.1150.0000.0000.0000.000
36A101SER00.0980.0166.144-5.246-5.2460.0000.0000.0000.000
37A102LEU00.0460.0367.092-1.058-1.0580.0000.0000.0000.000
38A103HIS0-0.0020.0057.607-1.053-1.0530.0000.0000.0000.000
39A104GLU-1-0.770-0.8771.891-126.282-123.88314.529-9.132-7.795-0.135
40A105ALA00.0060.0065.7101.2531.2530.0000.0000.0000.000
41A106CYS0-0.052-0.0128.2542.6762.6760.0000.0000.0000.000
42A107LEU0-0.033-0.0136.8671.9701.9700.0000.0000.0000.000
43A108GLY00.0130.0078.3781.1871.1870.0000.0000.0000.000
44A109GLY00.0080.0069.2451.8571.8570.0000.0000.0000.000
45A110HIS0-0.012-0.0018.2024.0314.0310.0000.0000.0000.000
46A111VAL00.0590.00412.227-0.574-0.5740.0000.0000.0000.000
47A112ALA0-0.0090.00015.2320.2570.2570.0000.0000.0000.000
48A113CYS0-0.023-0.00910.537-0.083-0.0830.0000.0000.0000.000
49A114ALA00.0410.02012.417-0.275-0.2750.0000.0000.0000.000
50A115LYS10.9850.99613.18014.45214.4520.0000.0000.0000.000
51A116ALA0-0.0030.00914.6170.5870.5870.0000.0000.0000.000
52A117LEU0-0.025-0.0079.6260.0260.0260.0000.0000.0000.000
53A118LEU0-0.019-0.01214.2540.4110.4110.0000.0000.0000.000
54A119GLU-1-0.933-0.97317.037-14.482-14.4820.0000.0000.0000.000
55A120ASN0-0.100-0.05516.1241.0571.0570.0000.0000.0000.000
56A121GLY00.0250.01616.410-0.359-0.3590.0000.0000.0000.000
57A122ALA0-0.029-0.00813.294-0.263-0.2630.0000.0000.0000.000
58A123HIS00.0050.00013.6991.0761.0760.0000.0000.0000.000
59A124VAL00.0460.02014.897-1.227-1.2270.0000.0000.0000.000
60A125ASN0-0.041-0.01616.962-0.274-0.2740.0000.0000.0000.000
61A126GLY0-0.0040.00913.9970.4230.4230.0000.0000.0000.000
62A127VAL00.006-0.00414.403-0.701-0.7010.0000.0000.0000.000
63A128THR0-0.026-0.0079.8610.2940.2940.0000.0000.0000.000
64A129VAL0-0.006-0.01611.5861.3911.3910.0000.0000.0000.000
65A130HIS0-0.014-0.00611.3691.7941.7940.0000.0000.0000.000
66A131GLY00.0470.03514.5390.6450.6450.0000.0000.0000.000
67A132ALA0-0.022-0.00212.1200.6470.6470.0000.0000.0000.000
68A133THR00.0680.02213.527-0.712-0.7120.0000.0000.0000.000
69A134PRO00.000-0.01312.485-0.765-0.7650.0000.0000.0000.000
70A135LEU00.0780.04213.543-0.387-0.3870.0000.0000.0000.000
71A136PHE00.0120.00214.1570.2230.2230.0000.0000.0000.000
72A137ASN00.015-0.0169.3321.5101.5100.0000.0000.0000.000
73A138ALA0-0.015-0.00112.771-0.339-0.3390.0000.0000.0000.000
74A139CYS0-0.028-0.00214.5420.9000.9000.0000.0000.0000.000
75A140CYS0-0.068-0.02713.1060.5550.5550.0000.0000.0000.000
76A141SER0-0.026-0.01312.3791.1221.1220.0000.0000.0000.000
77A142GLY00.0250.00914.2120.5870.5870.0000.0000.0000.000
78A143SER0-0.0140.00115.5731.0481.0480.0000.0000.0000.000
79A144ALA00.1010.03417.426-0.241-0.2410.0000.0000.0000.000
80A145ALA0-0.0070.00018.6140.1910.1910.0000.0000.0000.000
81A146CYS0-0.036-0.01014.366-0.500-0.5000.0000.0000.0000.000
82A147VAL00.0100.00316.914-0.055-0.0550.0000.0000.0000.000
83A148ASN00.0420.01219.2390.4000.4000.0000.0000.0000.000
84A149VAL00.0210.02417.1320.1720.1720.0000.0000.0000.000
85A150LEU0-0.031-0.02814.883-0.063-0.0630.0000.0000.0000.000
86A151LEU0-0.009-0.00918.9400.2580.2580.0000.0000.0000.000
87A152GLU-1-0.951-0.96422.538-12.614-12.6140.0000.0000.0000.000
88A153PHE0-0.062-0.03220.0610.2570.2570.0000.0000.0000.000
89A154GLY00.0200.01622.058-0.193-0.1930.0000.0000.0000.000
90A155ALA0-0.055-0.02819.578-0.053-0.0530.0000.0000.0000.000
91A156LYS10.8770.93921.35413.45513.4550.0000.0000.0000.000
92A157ALA00.0610.02222.083-0.518-0.5180.0000.0000.0000.000
93A158GLN00.0030.00123.695-0.165-0.1650.0000.0000.0000.000
94A159LEU0-0.066-0.03119.5390.0910.0910.0000.0000.0000.000
95A160GLU-1-0.830-0.92323.414-12.427-12.4270.0000.0000.0000.000
96A161VAL00.022-0.00924.016-0.409-0.4090.0000.0000.0000.000
97A162HIS0-0.022-0.00522.550-0.292-0.2920.0000.0000.0000.000
98A163LEU0-0.053-0.01018.603-0.782-0.7820.0000.0000.0000.000
99A164ALA00.0190.02117.3540.5670.5670.0000.0000.0000.000
100A165SER00.0070.01319.4040.0360.0360.0000.0000.0000.000
101A166PRO00.0410.00219.244-0.143-0.1430.0000.0000.0000.000
102A167ILE00.0770.03420.383-0.184-0.1840.0000.0000.0000.000
103A168HIS10.8070.89623.40111.83011.8300.0000.0000.0000.000
104A169GLU-1-0.796-0.87817.133-16.266-16.2660.0000.0000.0000.000
105A170ALA00.009-0.00220.478-0.098-0.0980.0000.0000.0000.000
106A171VAL00.0050.01021.3200.1510.1510.0000.0000.0000.000
107A172LYS10.9460.98820.51914.63714.6370.0000.0000.0000.000
108A173ARG10.7910.88114.56618.81918.8190.0000.0000.0000.000
109A174GLY0-0.0100.00421.573-0.005-0.0050.0000.0000.0000.000
110A175HIS0-0.0080.01417.6660.7840.7840.0000.0000.0000.000
111A176ARG10.9360.93122.82310.54510.5450.0000.0000.0000.000
112A177GLU-1-0.917-0.95224.172-12.012-12.0120.0000.0000.0000.000
113A178CYS0-0.013-0.00320.393-0.163-0.1630.0000.0000.0000.000
114A179MET0-0.0090.00322.9260.0750.0750.0000.0000.0000.000
115A180GLU-1-0.843-0.92025.538-9.902-9.9020.0000.0000.0000.000
116A181ILE00.0160.02023.4500.2620.2620.0000.0000.0000.000
117A182LEU0-0.011-0.00221.9020.1080.1080.0000.0000.0000.000
118A183LEU0-0.023-0.01225.9090.2240.2240.0000.0000.0000.000
119A184ALA0-0.0130.00429.2640.3070.3070.0000.0000.0000.000
120A185ASN0-0.099-0.06126.8450.1480.1480.0000.0000.0000.000
121A186ASN0-0.026-0.01128.9420.0830.0830.0000.0000.0000.000
122A187VAL0-0.042-0.00725.797-0.023-0.0230.0000.0000.0000.000
123A188ASN00.003-0.00429.2280.3410.3410.0000.0000.0000.000
124A189ILE00.0500.02030.966-0.356-0.3560.0000.0000.0000.000
125A190ASP-1-0.840-0.91432.483-8.722-8.7220.0000.0000.0000.000
126A191HIS0-0.052-0.04026.6110.3010.3010.0000.0000.0000.000
127A192GLU-1-0.809-0.89830.156-9.327-9.3270.0000.0000.0000.000
128A193VAL0-0.033-0.00825.127-0.036-0.0360.0000.0000.0000.000
129A194PRO00.0550.01428.1100.1180.1180.0000.0000.0000.000
130A195GLN0-0.012-0.01128.136-0.339-0.3390.0000.0000.0000.000
131A196LEU0-0.051-0.01923.348-0.155-0.1550.0000.0000.0000.000
132A197GLY00.0420.02028.0190.1060.1060.0000.0000.0000.000
133A198THR00.007-0.01029.575-0.451-0.4510.0000.0000.0000.000
134A199PRO0-0.041-0.02328.371-0.218-0.2180.0000.0000.0000.000
135A200LEU00.0930.05229.407-0.198-0.1980.0000.0000.0000.000
136A201TYR0-0.016-0.02630.701-0.054-0.0540.0000.0000.0000.000
137A202VAL0-0.0270.00225.366-0.092-0.0920.0000.0000.0000.000
138A203ALA00.011-0.00928.599-0.169-0.1690.0000.0000.0000.000
139A204CYS0-0.052-0.01029.6500.0890.0890.0000.0000.0000.000
140A205THR0-0.040-0.02328.7770.1460.1460.0000.0000.0000.000
141A206TYR0-0.044-0.02825.006-0.307-0.3070.0000.0000.0000.000
142A207GLN0-0.007-0.00328.4170.1410.1410.0000.0000.0000.000
143A208ARG10.8650.93923.62612.28112.2810.0000.0000.0000.000
144A209VAL00.0740.03129.7060.0460.0460.0000.0000.0000.000
145A210ASP-1-0.868-0.92830.286-9.611-9.6110.0000.0000.0000.000
146A211CYS0-0.096-0.05027.695-0.084-0.0840.0000.0000.0000.000
147A212VAL00.0260.00930.4860.1010.1010.0000.0000.0000.000
148A213LYS10.8910.93133.5628.3848.3840.0000.0000.0000.000
149A214LYS10.9220.96931.6639.2939.2930.0000.0000.0000.000
150A215LEU0-0.002-0.01630.0350.0800.0800.0000.0000.0000.000
151A216LEU0-0.0020.00233.9970.1350.1350.0000.0000.0000.000
152A217GLU-1-0.872-0.91137.227-8.104-8.1040.0000.0000.0000.000
153A218LEU0-0.098-0.04732.9930.0860.0860.0000.0000.0000.000
154A219GLY0-0.0020.00737.0830.0170.0170.0000.0000.0000.000
155A220ALA0-0.050-0.01535.0300.0250.0250.0000.0000.0000.000
156A221SER0-0.011-0.01236.9680.2700.2700.0000.0000.0000.000
157A222VAL00.0300.01438.149-0.216-0.2160.0000.0000.0000.000
158A223ASP-1-0.884-0.95739.359-7.382-7.3820.0000.0000.0000.000
159A224HIS0-0.072-0.04235.8460.0820.0820.0000.0000.0000.000
160A225GLY0-0.008-0.00934.794-0.208-0.2080.0000.0000.0000.000
161A226GLN00.003-0.00531.912-0.191-0.1910.0000.0000.0000.000
162A227TRP00.0260.00334.3900.2020.2020.0000.0000.0000.000
163A228LEU0-0.050-0.02237.2780.1400.1400.0000.0000.0000.000
164A229ASP-1-0.809-0.84836.097-8.376-8.3760.0000.0000.0000.000
165A230THR00.0670.01836.895-0.206-0.2060.0000.0000.0000.000
166A231PRO00.044-0.00135.569-0.125-0.1250.0000.0000.0000.000
167A232LEU00.0610.03336.573-0.122-0.1220.0000.0000.0000.000
168A233HIS0-0.0250.00138.626-0.093-0.0930.0000.0000.0000.000
169A234ALA0-0.016-0.00833.514-0.036-0.0360.0000.0000.0000.000
170A235ALA00.017-0.00535.283-0.130-0.1300.0000.0000.0000.000
171A236ALA0-0.027-0.01136.5610.0030.0030.0000.0000.0000.000
172A237ARG10.8060.89435.3218.7038.7030.0000.0000.0000.000
173A238GLN0-0.066-0.01032.394-0.276-0.2760.0000.0000.0000.000
174A239SER0-0.017-0.01434.8680.2960.2960.0000.0000.0000.000
175A240ASN00.0070.00134.1380.2470.2470.0000.0000.0000.000
176A241VAL00.0580.01836.7610.0550.0550.0000.0000.0000.000
177A242GLU-1-0.906-0.95637.274-8.182-8.1820.0000.0000.0000.000
178A243VAL0-0.009-0.01134.4130.0560.0560.0000.0000.0000.000
179A244ILE00.0000.01137.6900.0770.0770.0000.0000.0000.000
180A245HIS00.0440.01640.8530.1650.1650.0000.0000.0000.000
181A246LEU00.0250.02637.2350.0950.0950.0000.0000.0000.000
182A247LEU00.0270.00437.2690.0660.0660.0000.0000.0000.000
183A248THR0-0.032-0.02840.9450.1470.1470.0000.0000.0000.000
184A249ASP-1-0.885-0.93843.784-6.812-6.8120.0000.0000.0000.000
185A250TYR0-0.068-0.02841.2740.0900.0900.0000.0000.0000.000
186A251GLY0-0.0070.00043.865-0.033-0.0330.0000.0000.0000.000
187A252ALA0-0.0180.00042.3640.0260.0260.0000.0000.0000.000
188A253ASN0-0.019-0.01044.2170.2090.2090.0000.0000.0000.000
189A254LEU00.032-0.00445.553-0.096-0.0960.0000.0000.0000.000
190A255LYS10.8450.94947.0346.0246.0240.0000.0000.0000.000
191A256ARG10.9010.97342.9197.3167.3160.0000.0000.0000.000
192A257ARG10.8510.90245.6566.3346.3340.0000.0000.0000.000
193A258ASN00.0360.02539.8550.1580.1580.0000.0000.0000.000
194A259ALA00.0210.00140.0580.1530.1530.0000.0000.0000.000
195A260GLN0-0.052-0.02238.8070.0290.0290.0000.0000.0000.000
196A261GLY00.0110.00943.1770.1350.1350.0000.0000.0000.000
197A262LYS10.9150.96643.1907.1247.1240.0000.0000.0000.000
198A263SER00.0410.02444.394-0.120-0.1200.0000.0000.0000.000
199A264ALA00.0630.01242.525-0.095-0.0950.0000.0000.0000.000
200A265LEU00.0440.01743.427-0.125-0.1250.0000.0000.0000.000
201A266ASP-1-0.840-0.92145.657-6.636-6.6360.0000.0000.0000.000
202A267LEU0-0.117-0.05439.449-0.068-0.0680.0000.0000.0000.000
203A268ALA00.0190.03741.334-0.174-0.1740.0000.0000.0000.000
204A269ALA00.0000.00840.9140.1190.1190.0000.0000.0000.000
205A270PRO00.0630.02342.8660.0770.0770.0000.0000.0000.000
206A271LYS10.8270.91345.8436.6786.6780.0000.0000.0000.000
207A272SER0-0.0170.00142.194-0.071-0.0710.0000.0000.0000.000
208A273SER00.0630.00842.1460.0740.0740.0000.0000.0000.000
209A274VAL00.0090.01438.9720.0990.0990.0000.0000.0000.000
210A275GLU-1-0.815-0.91742.376-6.602-6.6020.0000.0000.0000.000
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