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: 2LJRR

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 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 221
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -2326716.696233
FMO2-HF: Nuclear repulsion 2243870.537453
FMO2-HF: Total energy -82846.158779
FMO2-MP2: Total energy -83086.092902


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.
-141.192-151.58661.008-24.357-26.252-0.233
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 : 0.785 / q_NPA : 0.849
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].
3A68PRO00.0720.0113.495-9.755-6.5270.003-1.741-1.4900.004
4A69LEU00.0400.0386.180-0.579-0.5790.0000.0000.0000.000
5A70HIS0-0.0300.0042.404-1.8660.7073.864-1.946-4.490-0.010
6A71GLU-1-0.779-0.8501.727-122.903-130.65824.511-8.848-7.908-0.096
7A72ALA0-0.042-0.0233.2346.7266.4080.0480.555-0.2850.000
8A73ALA0-0.010-0.0105.4184.1294.1290.0000.0000.0000.000
9A74ALA00.0090.0022.4174.6695.1580.620-0.335-0.774-0.002
10A75GLN0-0.033-0.0234.51312.75912.850-0.001-0.013-0.0760.000
11A76GLY00.0430.0286.8183.9953.9950.0000.0000.0000.000
12A77ARG10.8620.9288.43031.58931.5890.0000.0000.0000.000
13A78LEU00.030-0.00610.5940.0550.0550.0000.0000.0000.000
14A79LEU00.0320.01713.2590.1630.1630.0000.0000.0000.000
15A80ALA00.0260.03111.0740.6000.6000.0000.0000.0000.000
16A81LEU00.0080.0048.957-0.094-0.0940.0000.0000.0000.000
17A82LYS10.8650.90311.72117.83517.8350.0000.0000.0000.000
18A83THR0-0.006-0.00515.1571.2421.2420.0000.0000.0000.000
19A84LEU0-0.034-0.0269.2540.3810.3810.0000.0000.0000.000
20A85ILE0-0.011-0.01113.1250.3840.3840.0000.0000.0000.000
21A86ALA0-0.0100.00514.7480.8390.8390.0000.0000.0000.000
22A87GLN0-0.060-0.02815.0911.2611.2610.0000.0000.0000.000
23A88GLY00.0180.02415.7170.2880.2880.0000.0000.0000.000
24A89VAL0-0.068-0.0299.844-0.354-0.3540.0000.0000.0000.000
25A90ASN00.020-0.0039.4050.6870.6870.0000.0000.0000.000
26A91VAL00.0440.0158.834-2.470-2.4700.0000.0000.0000.000
27A92ASN0-0.037-0.0189.811-2.162-2.1620.0000.0000.0000.000
28A93LEU0-0.0190.0034.3010.5790.705-0.001-0.011-0.1140.000
29A94VAL0-0.051-0.0365.438-2.728-2.7280.0000.0000.0000.000
30A95THR00.0190.0072.3040.8352.5472.586-1.563-2.7340.002
31A96ILE00.0560.0144.5410.3020.4240.001-0.044-0.0780.000
32A97ASN00.0000.0096.5093.0723.0720.0000.0000.0000.000
33A98ARG10.9690.9798.21118.83918.8390.0000.0000.0000.000
34A99VAL0-0.0070.0204.7441.1641.275-0.001-0.005-0.1040.000
35A100SER00.0710.0175.435-2.257-2.2570.0000.0000.0000.000
36A101SER00.0700.0045.283-2.417-2.4170.0000.0000.0000.000
37A102LEU00.0570.0376.637-1.140-1.1400.0000.0000.0000.000
38A103HIS00.0100.0337.365-0.822-0.8220.0000.0000.0000.000
39A104GLU-1-0.775-0.8641.705-128.131-138.90429.378-10.406-8.199-0.131
40A105ALA0-0.0090.0015.6621.4651.4650.0000.0000.0000.000
41A106CYS0-0.037-0.0138.1482.4772.4770.0000.0000.0000.000
42A107LEU0-0.028-0.0036.7561.9981.9980.0000.0000.0000.000
43A108GLY00.0160.0088.1381.0491.0490.0000.0000.0000.000
44A109GLY00.0210.0059.1041.9691.9690.0000.0000.0000.000
45A110HIS00.0200.0208.0284.5224.5220.0000.0000.0000.000
46A111VAL00.054-0.00311.917-0.536-0.5360.0000.0000.0000.000
47A112ALA00.0030.01014.9520.3230.3230.0000.0000.0000.000
48A113CYS0-0.031-0.0029.8030.7900.7900.0000.0000.0000.000
49A114ALA00.0290.01312.274-0.308-0.3080.0000.0000.0000.000
50A115LYS10.8410.90112.99614.57214.5720.0000.0000.0000.000
51A116ALA0-0.0090.00214.1460.5310.5310.0000.0000.0000.000
52A117LEU0-0.009-0.0029.343-0.064-0.0640.0000.0000.0000.000
53A118LEU0-0.025-0.01214.0110.5020.5020.0000.0000.0000.000
54A119GLU-1-0.853-0.92116.947-15.633-15.6330.0000.0000.0000.000
55A120ASN0-0.064-0.03415.8681.1661.1660.0000.0000.0000.000
56A121GLY00.0340.02516.014-0.376-0.3760.0000.0000.0000.000
57A122ALA0-0.0250.00012.759-0.231-0.2310.0000.0000.0000.000
58A123HIS00.014-0.00312.9531.1571.1570.0000.0000.0000.000
59A124VAL00.0210.00814.503-1.110-1.1100.0000.0000.0000.000
60A125ASN0-0.044-0.01416.562-0.219-0.2190.0000.0000.0000.000
61A126GLY00.0060.00813.6710.4540.4540.0000.0000.0000.000
62A127VAL0-0.021-0.02314.023-0.492-0.4920.0000.0000.0000.000
63A128THR0-0.024-0.0109.4660.1640.1640.0000.0000.0000.000
64A129VAL0-0.027-0.03311.0601.4831.4830.0000.0000.0000.000
65A130HIS0-0.026-0.01210.4321.8591.8590.0000.0000.0000.000
66A131GLY00.0580.03614.0430.4640.4640.0000.0000.0000.000
67A132ALA0-0.0070.00911.9760.6270.6270.0000.0000.0000.000
68A133THR00.0670.02813.261-0.701-0.7010.0000.0000.0000.000
69A134PRO00.014-0.00312.024-0.783-0.7830.0000.0000.0000.000
70A135LEU00.0910.04613.130-0.299-0.2990.0000.0000.0000.000
71A136PHE00.0250.00813.8720.3420.3420.0000.0000.0000.000
72A137ASN00.005-0.0239.0511.6511.6510.0000.0000.0000.000
73A138ALA00.0030.00712.600-0.439-0.4390.0000.0000.0000.000
74A139CYS0-0.047-0.01214.5600.9850.9850.0000.0000.0000.000
75A140CYS0-0.079-0.03312.8540.4920.4920.0000.0000.0000.000
76A141SER0-0.017-0.02112.0761.3011.3010.0000.0000.0000.000
77A142GLY00.0160.00414.0080.6230.6230.0000.0000.0000.000
78A143SER0-0.0080.00215.1081.2031.2030.0000.0000.0000.000
79A144ALA00.0950.03216.966-0.320-0.3200.0000.0000.0000.000
80A145ALA0-0.0090.00118.2580.2640.2640.0000.0000.0000.000
81A146CYS0-0.072-0.01814.091-0.584-0.5840.0000.0000.0000.000
82A147VAL00.011-0.00616.4870.0160.0160.0000.0000.0000.000
83A148ASN00.0390.01418.9990.5620.5620.0000.0000.0000.000
84A149VAL0-0.0020.00216.7810.2350.2350.0000.0000.0000.000
85A150LEU0-0.032-0.02914.709-0.076-0.0760.0000.0000.0000.000
86A151LEU0-0.007-0.00318.7460.3180.3180.0000.0000.0000.000
87A152GLU-1-0.819-0.88522.146-13.171-13.1710.0000.0000.0000.000
88A153PHE0-0.028-0.01419.9290.2510.2510.0000.0000.0000.000
89A154GLY00.0220.02422.040-0.072-0.0720.0000.0000.0000.000
90A155ALA0-0.041-0.02319.370-0.060-0.0600.0000.0000.0000.000
91A156LYS10.8430.90121.03613.73813.7380.0000.0000.0000.000
92A157ALA00.0470.02221.986-0.427-0.4270.0000.0000.0000.000
93A158GLN00.0130.00723.622-0.111-0.1110.0000.0000.0000.000
94A159LEU0-0.047-0.02119.072-0.044-0.0440.0000.0000.0000.000
95A160GLU-1-0.805-0.90323.051-12.444-12.4440.0000.0000.0000.000
96A161VAL0-0.002-0.01923.684-0.444-0.4440.0000.0000.0000.000
97A162HIS0-0.0030.00922.171-0.307-0.3070.0000.0000.0000.000
98A163LEU0-0.040-0.01117.785-0.757-0.7570.0000.0000.0000.000
99A164ALA00.0060.00716.7150.5770.5770.0000.0000.0000.000
100A165SER00.0250.01418.787-0.208-0.2080.0000.0000.0000.000
101A166PRO00.014-0.00318.7270.0320.0320.0000.0000.0000.000
102A167ILE00.0760.03120.099-0.207-0.2070.0000.0000.0000.000
103A168HIS10.8300.91523.04111.96511.9650.0000.0000.0000.000
104A169GLU-1-0.728-0.82216.922-16.441-16.4410.0000.0000.0000.000
105A170ALA00.0160.00520.200-0.121-0.1210.0000.0000.0000.000
106A171VAL0-0.0010.00120.9970.1740.1740.0000.0000.0000.000
107A172LYS10.8600.91219.05215.82615.8260.0000.0000.0000.000
108A173ARG10.7720.87314.10619.15819.1580.0000.0000.0000.000
109A174GLY00.0150.01621.4340.1340.1340.0000.0000.0000.000
110A175HIS0-0.0230.01417.3970.9450.9450.0000.0000.0000.000
111A176ARG10.8380.86822.60310.26310.2630.0000.0000.0000.000
112A177GLU-1-0.909-0.94423.727-12.241-12.2410.0000.0000.0000.000
113A178CYS0-0.028-0.00419.0860.0530.0530.0000.0000.0000.000
114A179MET0-0.0040.01422.6270.0540.0540.0000.0000.0000.000
115A180GLU-1-0.766-0.87725.420-9.824-9.8240.0000.0000.0000.000
116A181ILE0-0.0080.00923.1660.2600.2600.0000.0000.0000.000
117A182LEU0-0.004-0.00421.5870.1110.1110.0000.0000.0000.000
118A183LEU0-0.025-0.01125.8010.2440.2440.0000.0000.0000.000
119A184ALA0-0.017-0.00129.1850.3030.3030.0000.0000.0000.000
120A185ASN0-0.068-0.04126.7570.1050.1050.0000.0000.0000.000
121A186ASN0-0.047-0.02528.8600.1840.1840.0000.0000.0000.000
122A187VAL0-0.055-0.01425.5740.0390.0390.0000.0000.0000.000
123A188ASN00.007-0.00228.9630.3370.3370.0000.0000.0000.000
124A189ILE00.0450.01630.562-0.376-0.3760.0000.0000.0000.000
125A190ASP-1-0.820-0.90232.241-8.856-8.8560.0000.0000.0000.000
126A191HIS0-0.047-0.03726.6430.2480.2480.0000.0000.0000.000
127A192GLU-1-0.806-0.90129.522-9.317-9.3170.0000.0000.0000.000
128A193VAL0-0.0270.00125.038-0.048-0.0480.0000.0000.0000.000
129A194PRO00.026-0.00328.3010.0820.0820.0000.0000.0000.000
130A195GLN0-0.016-0.01427.955-0.303-0.3030.0000.0000.0000.000
131A196LEU0-0.054-0.02123.280-0.294-0.2940.0000.0000.0000.000
132A197GLY00.0650.02827.8410.0380.0380.0000.0000.0000.000
133A198THR00.0120.00129.448-0.459-0.4590.0000.0000.0000.000
134A199PRO0-0.056-0.02628.190-0.217-0.2170.0000.0000.0000.000
135A200LEU00.0950.05229.317-0.195-0.1950.0000.0000.0000.000
136A201TYR0-0.023-0.00630.626-0.037-0.0370.0000.0000.0000.000
137A202VAL0-0.0260.01525.213-0.078-0.0780.0000.0000.0000.000
138A203ALA00.012-0.00128.509-0.158-0.1580.0000.0000.0000.000
139A204CYS0-0.046-0.01029.5860.0980.0980.0000.0000.0000.000
140A205THR0-0.032-0.02728.8620.1200.1200.0000.0000.0000.000
141A206TYR0-0.058-0.03524.169-0.301-0.3010.0000.0000.0000.000
142A207GLN00.0340.00828.2070.1480.1480.0000.0000.0000.000
143A208ARG10.8610.93923.83912.35312.3530.0000.0000.0000.000
144A209VAL00.0390.01429.7250.0310.0310.0000.0000.0000.000
145A210ASP-1-0.787-0.87830.560-9.667-9.6670.0000.0000.0000.000
146A211CYS0-0.060-0.02126.861-0.015-0.0150.0000.0000.0000.000
147A212VAL00.0190.00830.4620.0930.0930.0000.0000.0000.000
148A213LYS10.8750.92333.5018.6828.6820.0000.0000.0000.000
149A214LYS10.8450.92331.4999.4679.4670.0000.0000.0000.000
150A215LEU0-0.009-0.01929.9070.0580.0580.0000.0000.0000.000
151A216LEU0-0.0030.00233.8630.1410.1410.0000.0000.0000.000
152A217GLU-1-0.855-0.90736.848-8.227-8.2270.0000.0000.0000.000
153A218LEU0-0.094-0.04632.6480.0720.0720.0000.0000.0000.000
154A219GLY00.0010.00536.716-0.008-0.0080.0000.0000.0000.000
155A220ALA0-0.050-0.01834.9490.0570.0570.0000.0000.0000.000
156A221SER00.015-0.00536.8930.3010.3010.0000.0000.0000.000
157A222VAL00.005-0.00538.297-0.167-0.1670.0000.0000.0000.000
158A223ASP-1-0.803-0.89039.555-7.360-7.3600.0000.0000.0000.000
159A224HIS0-0.073-0.05236.0720.1450.1450.0000.0000.0000.000
160A225GLY0-0.007-0.01434.915-0.205-0.2050.0000.0000.0000.000
161A226GLN00.010-0.00231.481-0.311-0.3110.0000.0000.0000.000
162A227TRP00.0200.00334.4320.1640.1640.0000.0000.0000.000
163A228LEU0-0.009-0.00237.4060.1030.1030.0000.0000.0000.000
164A229ASP-1-0.775-0.81436.299-8.336-8.3360.0000.0000.0000.000
165A230THR00.0770.01537.119-0.214-0.2140.0000.0000.0000.000
166A231PRO00.047-0.00135.151-0.146-0.1460.0000.0000.0000.000
167A232LEU00.0460.02936.344-0.128-0.1280.0000.0000.0000.000
168A233HIS00.0010.03038.685-0.127-0.1270.0000.0000.0000.000
169A234ALA0-0.024-0.00733.413-0.044-0.0440.0000.0000.0000.000
170A235ALA00.0230.00035.120-0.139-0.1390.0000.0000.0000.000
171A236ALA0-0.007-0.00536.356-0.006-0.0060.0000.0000.0000.000
172A237ARG10.7660.85635.4748.6888.6880.0000.0000.0000.000
173A238GLN0-0.055-0.00532.293-0.368-0.3680.0000.0000.0000.000
174A239SER0-0.060-0.05035.1180.2230.2230.0000.0000.0000.000
175A240ASN0-0.054-0.03134.5380.2670.2670.0000.0000.0000.000
176A241VAL00.0430.01336.6040.0600.0600.0000.0000.0000.000
177A242GLU-1-0.844-0.91736.850-8.407-8.4070.0000.0000.0000.000
178A243VAL00.013-0.00134.2680.0850.0850.0000.0000.0000.000
179A244ILE00.0040.01037.6230.0720.0720.0000.0000.0000.000
180A245HIS00.0180.03740.8650.2000.2000.0000.0000.0000.000
181A246LEU00.0340.01737.0680.0800.0800.0000.0000.0000.000
182A247LEU00.024-0.00237.1240.0560.0560.0000.0000.0000.000
183A248THR0-0.037-0.03440.7930.1460.1460.0000.0000.0000.000
184A249ASP-1-0.870-0.91843.603-6.873-6.8730.0000.0000.0000.000
185A250TYR0-0.027-0.00941.0320.0800.0800.0000.0000.0000.000
186A251GLY0-0.0060.00343.7640.0030.0030.0000.0000.0000.000
187A252ALA0-0.038-0.01641.9960.0370.0370.0000.0000.0000.000
188A253ASN00.004-0.00843.9080.2270.2270.0000.0000.0000.000
189A254LEU00.016-0.00245.442-0.073-0.0730.0000.0000.0000.000
190A255LYS10.8260.92446.7156.0126.0120.0000.0000.0000.000
191A256ARG10.7620.89241.1647.5507.5500.0000.0000.0000.000
192A257ARG10.8180.87245.5626.4336.4330.0000.0000.0000.000
193A258ASN00.0250.01239.4720.1900.1900.0000.0000.0000.000
194A259ALA00.0150.00039.5440.1550.1550.0000.0000.0000.000
195A260GLN0-0.038-0.01738.758-0.058-0.0580.0000.0000.0000.000
196A261GLY00.0300.02243.2220.1360.1360.0000.0000.0000.000
197A262LYS10.8330.91742.9967.0387.0380.0000.0000.0000.000
198A263SER00.022-0.00644.237-0.107-0.1070.0000.0000.0000.000
199A264ALA00.0470.00842.665-0.131-0.1310.0000.0000.0000.000
200A265LEU00.0680.03143.438-0.131-0.1310.0000.0000.0000.000
201A266ASP-1-0.838-0.88045.445-6.663-6.6630.0000.0000.0000.000
202A267LEU0-0.058-0.02639.492-0.053-0.0530.0000.0000.0000.000
203A268ALA00.0170.03640.878-0.194-0.1940.0000.0000.0000.000
204A269ALA00.0180.01540.4080.1180.1180.0000.0000.0000.000
205A270PRO00.0430.01842.4330.0830.0830.0000.0000.0000.000
206A271LYS10.8480.91746.0186.7376.7370.0000.0000.0000.000
207A272SER0-0.029-0.00242.170-0.043-0.0430.0000.0000.0000.000
208A273SER00.0610.00642.3790.0670.0670.0000.0000.0000.000
209A274VAL00.0100.02139.0930.0650.0650.0000.0000.0000.000
210A275GLU-1-0.829-0.91542.509-6.586-6.5860.0000.0000.0000.000
211A276GLN00.0020.00145.6000.0060.0060.0000.0000.0000.000
212A277ALA0-0.022-0.01743.9120.1220.1220.0000.0000.0000.000
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