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: 7M2NK

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 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 221
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -2320672.378239
FMO2-HF: Nuclear repulsion 2237826.191325
FMO2-HF: Total energy -82846.186914
FMO2-MP2: Total energy -83086.065067


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.
-143.329-151.19258.147-24.407-25.874-0.233
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 : 0.778 / q_NPA : 0.846
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].
3A68PRO00.0760.0133.354-10.623-6.7930.008-2.028-1.8100.006
4A69LEU00.0330.0316.020-1.499-1.4990.0000.0000.0000.000
5A70HIS0-0.0320.0022.444-1.9010.6443.508-1.908-4.145-0.009
6A71GLU-1-0.782-0.8611.740-121.600-128.15023.935-9.162-8.223-0.094
7A72ALA0-0.037-0.0213.1836.3135.5960.0581.025-0.3650.001
8A73ALA0-0.020-0.0235.5173.7853.7850.0000.0000.0000.000
9A74ALA00.0060.0032.3084.3974.7950.949-0.449-0.897-0.002
10A75GLN0-0.039-0.0194.42813.38713.491-0.001-0.020-0.0830.000
11A76GLY00.0410.0336.6344.2244.2240.0000.0000.0000.000
12A77ARG10.8570.9238.48331.89131.8910.0000.0000.0000.000
13A78LEU00.0520.01110.594-0.458-0.4580.0000.0000.0000.000
14A79LEU00.0370.01613.2220.0750.0750.0000.0000.0000.000
15A80ALA00.0200.02510.7440.5310.5310.0000.0000.0000.000
16A81LEU00.0110.0079.010-0.037-0.0370.0000.0000.0000.000
17A82LYS10.9320.95311.57417.80717.8070.0000.0000.0000.000
18A83THR0-0.010-0.00614.9331.2391.2390.0000.0000.0000.000
19A84LEU0-0.025-0.0239.1990.4380.4380.0000.0000.0000.000
20A85ILE0-0.010-0.01412.9540.4250.4250.0000.0000.0000.000
21A86ALA0-0.0130.00414.7110.8380.8380.0000.0000.0000.000
22A87GLN0-0.052-0.02215.2501.2691.2690.0000.0000.0000.000
23A88GLY00.0200.02615.8060.5410.5410.0000.0000.0000.000
24A89VAL0-0.077-0.02910.011-0.340-0.3400.0000.0000.0000.000
25A90ASN00.018-0.0029.4850.7320.7320.0000.0000.0000.000
26A91VAL00.0430.0149.034-2.410-2.4100.0000.0000.0000.000
27A92ASN0-0.029-0.0319.812-2.416-2.4160.0000.0000.0000.000
28A93LEU0-0.0390.0044.4410.4350.536-0.001-0.006-0.0940.000
29A94VAL0-0.033-0.0205.846-2.804-2.8040.0000.0000.0000.000
30A95THR00.0160.0052.3670.9882.8111.325-1.221-1.9270.001
31A96ILE00.0710.0244.8390.9410.994-0.001-0.012-0.0390.000
32A97ASN0-0.032-0.0096.7883.3303.3300.0000.0000.0000.000
33A98ARG10.9690.9678.32818.71218.7120.0000.0000.0000.000
34A99VAL00.0000.0175.0371.1891.1890.0000.0000.0000.000
35A100SER00.0670.0165.611-2.129-2.1290.0000.0000.0000.000
36A101SER00.0820.0075.580-2.439-2.4390.0000.0000.0000.000
37A102LEU00.0500.0386.866-1.212-1.2120.0000.0000.0000.000
38A103HIS00.0100.0307.394-1.258-1.2580.0000.0000.0000.000
39A104GLU-1-0.768-0.8631.702-129.422-138.87228.367-10.626-8.291-0.136
40A105ALA00.0040.0085.6361.2791.2790.0000.0000.0000.000
41A106CYS0-0.052-0.0178.1322.7662.7660.0000.0000.0000.000
42A107LEU0-0.031-0.0126.9052.0772.0770.0000.0000.0000.000
43A108GLY00.0140.0078.3341.2151.2150.0000.0000.0000.000
44A109GLY00.0070.0049.1981.8821.8820.0000.0000.0000.000
45A110HIS0-0.0070.0008.1704.2414.2410.0000.0000.0000.000
46A111VAL00.0680.00612.111-0.577-0.5770.0000.0000.0000.000
47A112ALA0-0.0060.00415.1030.2660.2660.0000.0000.0000.000
48A113CYS0-0.030-0.00910.0120.7150.7150.0000.0000.0000.000
49A114ALA00.0440.02212.272-0.273-0.2730.0000.0000.0000.000
50A115LYS10.9210.96413.03314.53014.5300.0000.0000.0000.000
51A116ALA0-0.0140.00414.4140.6380.6380.0000.0000.0000.000
52A117LEU0-0.016-0.0029.4390.0530.0530.0000.0000.0000.000
53A118LEU0-0.018-0.01314.0910.4560.4560.0000.0000.0000.000
54A119GLU-1-0.904-0.95916.889-15.210-15.2100.0000.0000.0000.000
55A120ASN0-0.091-0.05316.0241.0911.0910.0000.0000.0000.000
56A121GLY00.0330.02416.399-0.351-0.3510.0000.0000.0000.000
57A122ALA0-0.0320.00013.099-0.261-0.2610.0000.0000.0000.000
58A123HIS00.0070.00213.3521.2951.2950.0000.0000.0000.000
59A124VAL00.0340.01314.780-1.251-1.2510.0000.0000.0000.000
60A125ASN0-0.042-0.01816.730-0.285-0.2850.0000.0000.0000.000
61A126GLY00.0060.01413.9000.4350.4350.0000.0000.0000.000
62A127VAL00.002-0.00414.249-0.713-0.7130.0000.0000.0000.000
63A128THR0-0.026-0.0089.7190.2860.2860.0000.0000.0000.000
64A129VAL0-0.014-0.02211.3271.4371.4370.0000.0000.0000.000
65A130HIS0-0.007-0.00210.8471.8491.8490.0000.0000.0000.000
66A131GLY00.0450.03414.3120.6570.6570.0000.0000.0000.000
67A132ALA0-0.025-0.00212.0690.6500.6500.0000.0000.0000.000
68A133THR00.0720.02713.436-0.712-0.7120.0000.0000.0000.000
69A134PRO00.000-0.01312.366-0.767-0.7670.0000.0000.0000.000
70A135LEU00.0800.04113.387-0.404-0.4040.0000.0000.0000.000
71A136PHE00.0250.01214.1360.2510.2510.0000.0000.0000.000
72A137ASN00.012-0.0169.2181.5921.5920.0000.0000.0000.000
73A138ALA0-0.0050.00512.764-0.343-0.3430.0000.0000.0000.000
74A139CYS0-0.040-0.01014.5000.9240.9240.0000.0000.0000.000
75A140CYS0-0.090-0.04213.1010.6010.6010.0000.0000.0000.000
76A141SER0-0.018-0.01212.2731.1891.1890.0000.0000.0000.000
77A142GLY00.014-0.00114.2020.5850.5850.0000.0000.0000.000
78A143SER0-0.0030.01115.4991.0711.0710.0000.0000.0000.000
79A144ALA00.1020.03717.365-0.274-0.2740.0000.0000.0000.000
80A145ALA0-0.011-0.00318.5620.1980.1980.0000.0000.0000.000
81A146CYS0-0.056-0.01514.523-0.489-0.4890.0000.0000.0000.000
82A147VAL00.0100.00016.816-0.039-0.0390.0000.0000.0000.000
83A148ASN00.0350.01019.1610.5040.5040.0000.0000.0000.000
84A149VAL00.0090.01517.1210.2260.2260.0000.0000.0000.000
85A150LEU0-0.022-0.02314.789-0.042-0.0420.0000.0000.0000.000
86A151LEU0-0.004-0.00918.8370.2810.2810.0000.0000.0000.000
87A152GLU-1-0.881-0.93122.425-13.035-13.0350.0000.0000.0000.000
88A153PHE0-0.054-0.03119.9610.2940.2940.0000.0000.0000.000
89A154GLY00.0240.02021.802-0.193-0.1930.0000.0000.0000.000
90A155ALA0-0.051-0.02319.470-0.050-0.0500.0000.0000.0000.000
91A156LYS10.8480.90421.12713.58613.5860.0000.0000.0000.000
92A157ALA00.0580.02221.903-0.527-0.5270.0000.0000.0000.000
93A158GLN00.0070.00123.600-0.191-0.1910.0000.0000.0000.000
94A159LEU0-0.057-0.02319.3940.0870.0870.0000.0000.0000.000
95A160GLU-1-0.810-0.89823.277-12.453-12.4530.0000.0000.0000.000
96A161VAL00.018-0.00923.957-0.409-0.4090.0000.0000.0000.000
97A162HIS0-0.018-0.00122.343-0.292-0.2920.0000.0000.0000.000
98A163LEU0-0.044-0.00918.243-0.783-0.7830.0000.0000.0000.000
99A164ALA00.0130.01917.2840.5730.5730.0000.0000.0000.000
100A165SER00.0120.00519.3750.0180.0180.0000.0000.0000.000
101A166PRO00.0360.00219.195-0.171-0.1710.0000.0000.0000.000
102A167ILE00.0720.03620.385-0.191-0.1910.0000.0000.0000.000
103A168HIS10.8170.90323.47211.78311.7830.0000.0000.0000.000
104A169GLU-1-0.717-0.82117.205-16.287-16.2870.0000.0000.0000.000
105A170ALA00.0080.00220.488-0.117-0.1170.0000.0000.0000.000
106A171VAL00.0070.00521.3320.1490.1490.0000.0000.0000.000
107A172LYS10.8650.92719.31915.54715.5470.0000.0000.0000.000
108A173ARG10.7730.87914.44918.93118.9310.0000.0000.0000.000
109A174GLY0-0.0140.00121.614-0.007-0.0070.0000.0000.0000.000
110A175HIS0-0.0040.01417.6710.7840.7840.0000.0000.0000.000
111A176ARG10.8420.87922.81910.38010.3800.0000.0000.0000.000
112A177GLU-1-0.903-0.94724.104-12.128-12.1280.0000.0000.0000.000
113A178CYS0-0.025-0.00819.3670.0530.0530.0000.0000.0000.000
114A179MET0-0.0030.01022.8880.0760.0760.0000.0000.0000.000
115A180GLU-1-0.788-0.88725.516-9.861-9.8610.0000.0000.0000.000
116A181ILE00.0100.01723.5330.2600.2600.0000.0000.0000.000
117A182LEU0-0.003-0.00421.7520.1070.1070.0000.0000.0000.000
118A183LEU0-0.022-0.01125.8650.2260.2260.0000.0000.0000.000
119A184ALA0-0.0170.00229.2030.3130.3130.0000.0000.0000.000
120A185ASN0-0.103-0.05726.7750.1890.1890.0000.0000.0000.000
121A186ASN0-0.037-0.01828.8870.0960.0960.0000.0000.0000.000
122A187VAL0-0.038-0.00525.778-0.019-0.0190.0000.0000.0000.000
123A188ASN00.007-0.00329.2000.3520.3520.0000.0000.0000.000
124A189ILE00.0460.01730.963-0.349-0.3490.0000.0000.0000.000
125A190ASP-1-0.833-0.91132.490-8.760-8.7600.0000.0000.0000.000
126A191HIS0-0.061-0.04226.7420.2730.2730.0000.0000.0000.000
127A192GLU-1-0.806-0.89530.104-9.326-9.3260.0000.0000.0000.000
128A193VAL0-0.028-0.00925.063-0.035-0.0350.0000.0000.0000.000
129A194PRO00.0530.01428.1620.1110.1110.0000.0000.0000.000
130A195GLN0-0.021-0.01228.137-0.332-0.3320.0000.0000.0000.000
131A196LEU0-0.048-0.01723.379-0.165-0.1650.0000.0000.0000.000
132A197GLY00.0480.02328.0530.1080.1080.0000.0000.0000.000
133A198THR00.004-0.00129.560-0.456-0.4560.0000.0000.0000.000
134A199PRO0-0.037-0.02228.412-0.227-0.2270.0000.0000.0000.000
135A200LEU00.0930.05029.433-0.199-0.1990.0000.0000.0000.000
136A201TYR0-0.005-0.01230.754-0.055-0.0550.0000.0000.0000.000
137A202VAL0-0.0230.00225.380-0.094-0.0940.0000.0000.0000.000
138A203ALA00.011-0.00528.656-0.170-0.1700.0000.0000.0000.000
139A204CYS0-0.059-0.01629.6920.0910.0910.0000.0000.0000.000
140A205THR0-0.043-0.02828.9540.1390.1390.0000.0000.0000.000
141A206TYR0-0.041-0.02624.665-0.312-0.3120.0000.0000.0000.000
142A207GLN0-0.0030.00028.4770.1370.1370.0000.0000.0000.000
143A208ARG10.8630.93223.83912.29312.2930.0000.0000.0000.000
144A209VAL00.0640.02729.7430.0550.0550.0000.0000.0000.000
145A210ASP-1-0.785-0.87930.280-9.691-9.6910.0000.0000.0000.000
146A211CYS0-0.077-0.03426.8860.0040.0040.0000.0000.0000.000
147A212VAL00.0330.01430.4950.1010.1010.0000.0000.0000.000
148A213LYS10.8740.92133.5828.5158.5150.0000.0000.0000.000
149A214LYS10.8720.93331.6269.4709.4700.0000.0000.0000.000
150A215LEU0-0.002-0.01530.0360.0760.0760.0000.0000.0000.000
151A216LEU0-0.0020.00133.9960.1380.1380.0000.0000.0000.000
152A217GLU-1-0.864-0.90637.213-8.100-8.1000.0000.0000.0000.000
153A218LEU0-0.093-0.04533.0050.0850.0850.0000.0000.0000.000
154A219GLY0-0.0030.00737.0630.0180.0180.0000.0000.0000.000
155A220ALA0-0.052-0.01635.0250.0270.0270.0000.0000.0000.000
156A221SER0-0.006-0.00936.9730.2790.2790.0000.0000.0000.000
157A222VAL00.0210.00538.176-0.209-0.2090.0000.0000.0000.000
158A223ASP-1-0.803-0.90939.397-7.374-7.3740.0000.0000.0000.000
159A224HIS0-0.074-0.04336.0020.1040.1040.0000.0000.0000.000
160A225GLY0-0.006-0.00934.848-0.209-0.2090.0000.0000.0000.000
161A226GLN00.001-0.00631.741-0.203-0.2030.0000.0000.0000.000
162A227TRP00.0290.00234.4180.1900.1900.0000.0000.0000.000
163A228LEU0-0.036-0.01137.3070.1310.1310.0000.0000.0000.000
164A229ASP-1-0.799-0.83036.177-8.355-8.3550.0000.0000.0000.000
165A230THR00.0640.00736.962-0.213-0.2130.0000.0000.0000.000
166A231PRO00.0550.00035.533-0.123-0.1230.0000.0000.0000.000
167A232LEU00.0490.03136.629-0.123-0.1230.0000.0000.0000.000
168A233HIS0-0.0100.02738.683-0.112-0.1120.0000.0000.0000.000
169A234ALA0-0.012-0.00333.573-0.031-0.0310.0000.0000.0000.000
170A235ALA00.0280.00235.363-0.135-0.1350.0000.0000.0000.000
171A236ALA0-0.027-0.01136.6300.0050.0050.0000.0000.0000.000
172A237ARG10.7860.86835.4748.7048.7040.0000.0000.0000.000
173A238GLN0-0.081-0.02032.486-0.304-0.3040.0000.0000.0000.000
174A239SER0-0.026-0.02134.9550.2910.2910.0000.0000.0000.000
175A240ASN0-0.010-0.00334.5820.2330.2330.0000.0000.0000.000
176A241VAL00.0590.01736.8240.0630.0630.0000.0000.0000.000
177A242GLU-1-0.884-0.94836.941-8.323-8.3230.0000.0000.0000.000
178A243VAL00.001-0.01034.3680.0590.0590.0000.0000.0000.000
179A244ILE00.0040.01337.7330.0790.0790.0000.0000.0000.000
180A245HIS00.0380.02740.9040.1900.1900.0000.0000.0000.000
181A246LEU00.0160.02337.2530.0960.0960.0000.0000.0000.000
182A247LEU00.0320.00037.2480.0680.0680.0000.0000.0000.000
183A248THR0-0.041-0.04140.9800.1470.1470.0000.0000.0000.000
184A249ASP-1-0.867-0.91243.833-6.816-6.8160.0000.0000.0000.000
185A250TYR0-0.055-0.02041.4970.0920.0920.0000.0000.0000.000
186A251GLY0-0.0040.00343.884-0.033-0.0330.0000.0000.0000.000
187A252ALA0-0.035-0.00842.3990.0250.0250.0000.0000.0000.000
188A253ASN0-0.004-0.00644.2580.2220.2220.0000.0000.0000.000
189A254LEU00.030-0.00145.612-0.100-0.1000.0000.0000.0000.000
190A255LYS10.8290.93247.0946.0336.0330.0000.0000.0000.000
191A256ARG10.8130.91942.1567.4037.4030.0000.0000.0000.000
192A257ARG10.8380.88545.7246.3846.3840.0000.0000.0000.000
193A258ASN00.0350.01439.8600.1550.1550.0000.0000.0000.000
194A259ALA00.0230.00540.0280.1550.1550.0000.0000.0000.000
195A260GLN0-0.045-0.02039.0260.0000.0000.0000.0000.0000.000
196A261GLY00.0170.01643.1830.1360.1360.0000.0000.0000.000
197A262LYS10.8430.92843.2867.0347.0340.0000.0000.0000.000
198A263SER00.024-0.00944.482-0.102-0.1020.0000.0000.0000.000
199A264ALA00.0620.00842.603-0.095-0.0950.0000.0000.0000.000
200A265LEU00.0590.02643.512-0.122-0.1220.0000.0000.0000.000
201A266ASP-1-0.820-0.87245.617-6.653-6.6530.0000.0000.0000.000
202A267LEU0-0.088-0.03939.490-0.050-0.0500.0000.0000.0000.000
203A268ALA00.0140.03641.434-0.170-0.1700.0000.0000.0000.000
204A269ALA00.0030.00940.9740.1250.1250.0000.0000.0000.000
205A270PRO00.0600.02042.9680.0710.0710.0000.0000.0000.000
206A271LYS10.8290.90945.9466.7316.7310.0000.0000.0000.000
207A272SER0-0.0240.00342.279-0.075-0.0750.0000.0000.0000.000
208A273SER00.0670.01042.2440.0670.0670.0000.0000.0000.000
209A274VAL00.0040.01139.0320.1030.1030.0000.0000.0000.000
210A275GLU-1-0.811-0.91042.451-6.606-6.6060.0000.0000.0000.000
211A276GLN0-0.004-0.00245.4580.0280.0280.0000.0000.0000.000
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213A278LEU00.019-0.00342.7470.0860.0860.0000.0000.0000.000
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