FMODB

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

Last updated: 2024-07-23

All entries: 37450

Number of unique PDB entries: 7783

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FMODB ID: 224RR

Calculation Name: 3ALZ-AB-Docking371-FmoPV-SLAM: pose 3

Preferred Name:

Target Type:

Ligand Name: 2-acetamido-2-deoxy-beta-d-glucopyranose

ligand 3-letter code: NAG

PDB ID: 3ALZ

Chain ID: AB

ChEMBL ID:

UniProt ID: P08362

Base Structure: Docking

Registration Date: 2023-03-09

Reference:

DOI:


IFIE MAP

IFIE Diagram


Modeling method
Optimization BaseStructure_original
Restraint OptAll
Protonation MOE:Protonate 3D
Complement MOE:Structure Preparation
Water No
Procedure Manual calculation
FMO calculation
FMO method FMO2-MP2/6-31G(d)
Fragmentation Auto
Number of fragment 479
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 22 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -9856178.672221
FMO2-HF: Nuclear repulsion 9659959.250858
FMO2-HF: Total energy -196219.421363
FMO2-MP2: Total energy -196790.165277


3D Structure
Snapshot
 
Ligand structure

ligand structure
Ligand Interaction
ligand interaction
Ligand binding energy (frag 1-109 : frag 110-479)
"
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.
-159.4480-333.6361412.0636-137.6809-100.19460.0272


Interactive mode: IFIE and PIEDA for fragment #1(B:32:CYS)


Summations of interaction energy for fragment #1(B:32:CYS)
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.
-28.729-9.32316.945-13.397-22.95-0.002
Interaction energy analysis for fragmet #1(B:32:CYS)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 1 / q_Mulliken : 0.793 / q_NPA : 0.885
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].
3B34LYS10.9520.9853.83833.73634.828-0.001-0.434-0.6560.002
16B47LEU0-0.006-0.0025.128-2.699-2.569-0.002-0.009-0.1190.000
17B48THR0-0.0110.0193.728-9.648-9.4020.008-0.108-0.1460.000
39B70LEU0-0.024-0.0275.6160.3600.520-0.002-0.012-0.1470.000
86B117TRP0-0.020-0.0113.216-2.111-0.8810.334-0.276-1.288-0.001
87B118TYR0-0.026-0.0314.7614.4434.762-0.001-0.078-0.2400.000
88B119PHE00.009-0.0252.255-16.165-11.82310.831-6.558-8.6150.001
89B120MET00.0130.0242.087-7.501-8.4313.848-0.425-2.4930.035
90B121THR0-0.033-0.0133.516-4.634-4.1090.0640.064-0.653-0.001
98B129GLN0-0.0040.0015.2180.8860.886-0.0020.0000.0030.000
99B130ARG10.7790.8842.91519.30622.5970.285-1.674-1.9000.001
102B134HIS00.0100.0023.0002.4905.3600.574-0.738-2.706-0.002
103B135LEU00.0260.0344.6340.3680.384-0.002-0.013-0.0020.000
424A512GLU-1-0.887-0.9306.276-36.703-36.592-0.002-0.002-0.1070.000
449A537SER00.0810.0493.775-4.826-3.1180.095-0.591-1.212-0.005
450A538ASN0-0.082-0.0582.446-24.530-20.7500.919-2.477-2.221-0.032
451A539THR0-0.0020.0194.0951.1871.6400.001-0.067-0.3870.000
452A540SER0-0.008-0.0235.9162.0302.093-0.0020.001-0.0610.000
4B35ILE0-0.0070.0015.8583.6633.6630.0000.0000.0000.000
5B36VAL0-0.006-0.0078.7810.4390.4390.0000.0000.0000.000
6B37GLN0-0.012-0.01312.0481.4621.4620.0000.0000.0000.000
7B38GLN00.0400.02814.6770.5730.5730.0000.0000.0000.000
8B39LEU00.0040.01317.800-0.188-0.1880.0000.0000.0000.000
9B40GLY00.0160.01718.8690.5990.5990.0000.0000.0000.000
10B41SER0-0.056-0.03818.3470.2400.2400.0000.0000.0000.000
11B42ASP-1-0.826-0.91518.684-13.768-13.7680.0000.0000.0000.000
12B43VAL0-0.045-0.00213.548-0.461-0.4610.0000.0000.0000.000
13B44LEU00.024-0.00413.979-0.092-0.0920.0000.0000.0000.000
14B45LEU00.010-0.0177.785-0.869-0.8690.0000.0000.0000.000
15B46PRO0-0.034-0.0249.0870.8720.8720.0000.0000.0000.000
18B49HIS0-0.006-0.0155.3870.8380.8380.0000.0000.0000.000
19B50GLU-1-0.912-0.9766.942-22.511-22.5110.0000.0000.0000.000
20B51ARG10.9120.94510.34920.68920.6890.0000.0000.0000.000
21B52ILE00.0210.03113.3761.0621.0620.0000.0000.0000.000
22B53ASN00.0070.00110.037-0.009-0.0090.0000.0000.0000.000
23B54THR00.0410.03213.3210.4080.4080.0000.0000.0000.000
24B55SER0-0.034-0.01113.8571.0621.0620.0000.0000.0000.000
25B56MET00.0060.02114.093-0.654-0.6540.0000.0000.0000.000
26B57ASN0-0.013-0.00614.4780.6580.6580.0000.0000.0000.000
27B58LYS10.8790.95215.25812.42112.4210.0000.0000.0000.000
28B59SER00.006-0.01310.824-0.897-0.8970.0000.0000.0000.000
29B60ILE0-0.065-0.03112.922-0.235-0.2350.0000.0000.0000.000
30B61HIS00.0800.05413.1940.1950.1950.0000.0000.0000.000
31B62ILE00.0210.0118.779-1.032-1.0320.0000.0000.0000.000
32B63VAL0-0.020-0.0028.5350.9660.9660.0000.0000.0000.000
33B64VAL00.0000.0086.926-0.824-0.8240.0000.0000.0000.000
34B65THR0-0.035-0.0516.5410.8050.8050.0000.0000.0000.000
35B66MET0-0.023-0.0066.641-1.218-1.2180.0000.0000.0000.000
36B67ALA0-0.0070.0107.4151.4441.4440.0000.0000.0000.000
37B68LYS10.9350.9688.79315.68415.6840.0000.0000.0000.000
38B69SER00.0270.02310.837-1.699-1.6990.0000.0000.0000.000
40B71GLU-1-0.917-0.9599.407-17.145-17.1450.0000.0000.0000.000
41B72ASN00.0470.01612.9160.4930.4930.0000.0000.0000.000
42B73SER0-0.099-0.03010.3270.1440.1440.0000.0000.0000.000
43B74VAL00.021-0.00711.5160.9670.9670.0000.0000.0000.000
44B75GLU-1-0.732-0.7877.530-18.973-18.9730.0000.0000.0000.000
45B76ASN00.0200.01810.9411.3991.3990.0000.0000.0000.000
46B77LYS10.9390.95610.94212.69112.6910.0000.0000.0000.000
47B78ILE0-0.0180.00010.2190.4520.4520.0000.0000.0000.000
48B79VAL00.003-0.01611.6160.7860.7860.0000.0000.0000.000
49B80SER00.0060.01311.616-0.561-0.5610.0000.0000.0000.000
50B81LEU0-0.041-0.02013.2090.5620.5620.0000.0000.0000.000
51B82ASP-1-0.712-0.85114.488-12.718-12.7180.0000.0000.0000.000
52B83PRO0-0.081-0.02714.7270.3500.3500.0000.0000.0000.000
53B84SER0-0.061-0.06217.4390.1050.1050.0000.0000.0000.000
54B85GLU-1-0.914-0.93920.528-9.530-9.5300.0000.0000.0000.000
55B86ALA0-0.014-0.01021.296-0.374-0.3740.0000.0000.0000.000
56B87GLY0-0.0140.00323.6920.0050.0050.0000.0000.0000.000
57B88PRO0-0.026-0.01321.113-0.417-0.4170.0000.0000.0000.000
58B89PRO00.0210.01516.5680.1820.1820.0000.0000.0000.000
59B90ARG10.9720.97818.51510.69810.6980.0000.0000.0000.000
60B91TYR00.024-0.00114.917-0.560-0.5600.0000.0000.0000.000
61B92LEU0-0.065-0.02815.6340.6050.6050.0000.0000.0000.000
62B93LYS10.8240.91717.16111.70111.7010.0000.0000.0000.000
63B94ASP-1-0.866-0.91618.128-11.741-11.7410.0000.0000.0000.000
64B95ARG10.9120.92216.14514.69414.6940.0000.0000.0000.000
65B96TYR0-0.019-0.00412.3820.1840.1840.0000.0000.0000.000
66B97ARG10.9370.98015.09314.19814.1980.0000.0000.0000.000
67B98PHE00.011-0.0049.410-0.855-0.8550.0000.0000.0000.000
68B99TYR0-0.019-0.00413.5651.4131.4130.0000.0000.0000.000
69B100LEU00.0010.00612.987-1.146-1.1460.0000.0000.0000.000
70B101GLU-1-0.809-0.93813.557-15.118-15.1180.0000.0000.0000.000
71B102ASN0-0.071-0.05613.6220.3410.3410.0000.0000.0000.000
72B103LEU0-0.0250.0028.082-1.805-1.8050.0000.0000.0000.000
73B104SER00.0040.0068.878-2.118-2.1180.0000.0000.0000.000
74B105LEU0-0.011-0.0099.2461.5211.5210.0000.0000.0000.000
75B106ALA0-0.026-0.01611.557-0.683-0.6830.0000.0000.0000.000
76B107ILE0-0.052-0.02611.0410.3770.3770.0000.0000.0000.000
77B108ARG10.9630.97615.31612.13512.1350.0000.0000.0000.000
78B109GLU-1-0.907-0.95619.086-11.611-11.6110.0000.0000.0000.000
79B110SER0-0.070-0.01916.169-0.146-0.1460.0000.0000.0000.000
80B111THR00.046-0.00417.5160.4360.4360.0000.0000.0000.000
81B112LYS10.9580.97716.51314.10714.1070.0000.0000.0000.000
82B113LYS10.8810.92916.19612.65912.6590.0000.0000.0000.000
83B114ASP-1-0.734-0.83113.669-16.353-16.3530.0000.0000.0000.000
84B115GLU-1-0.848-0.91011.361-21.404-21.4040.0000.0000.0000.000
85B116GLY00.0160.0099.2251.5201.5200.0000.0000.0000.000
91B122LEU00.0080.0105.8641.1301.1300.0000.0000.0000.000
92B123GLU-1-0.884-0.9497.996-16.131-16.1310.0000.0000.0000.000
93B124LYS10.9540.95711.17218.62718.6270.0000.0000.0000.000
94B125ASN0-0.031-0.02414.2830.0370.0370.0000.0000.0000.000
95B126ILE00.0370.01916.6410.2790.2790.0000.0000.0000.000
96B127SER0-0.010-0.00812.532-0.141-0.1410.0000.0000.0000.000
97B128VAL00.0120.0168.2300.3600.3600.0000.0000.0000.000
104B136LYS10.8310.9178.32326.40826.4080.0000.0000.0000.000
105B137LEU00.001-0.01211.021-0.196-0.1960.0000.0000.0000.000
106B138TYR0-0.0110.00314.7570.4030.4030.0000.0000.0000.000
107B139GLU-1-0.865-0.95517.521-13.219-13.2190.0000.0000.0000.000
108B140GLN0-0.041-0.03421.227-0.352-0.3520.0000.0000.0000.000
109B141NME00.0370.04123.6580.5050.5050.0000.0000.0000.000
110A195PHE10.8430.91026.37510.52910.5290.0000.0000.0000.000
111A196ALA00.1130.05130.3780.1020.1020.0000.0000.0000.000
112A197THR00.0400.01933.055-0.128-0.1280.0000.0000.0000.000
113A198VAL00.0000.01735.8540.2000.2000.0000.0000.0000.000
114A199ASN0-0.014-0.01235.620-0.105-0.1050.0000.0000.0000.000
115A200ILE0-0.020-0.01737.6210.2810.2810.0000.0000.0000.000
116A201GLN00.0210.02734.367-0.068-0.0680.0000.0000.0000.000
117A202SER0-0.022-0.03138.9710.1990.1990.0000.0000.0000.000
118A203THR0-0.010-0.02136.529-0.001-0.0010.0000.0000.0000.000
119A204PRO00.0230.00335.9010.0850.0850.0000.0000.0000.000
120A205ARG10.9090.98938.4917.5587.5580.0000.0000.0000.000
121A206PHE00.0290.01342.0440.1220.1220.0000.0000.0000.000
122A207LEU0-0.014-0.00436.5620.0790.0790.0000.0000.0000.000
123A208ASN0-0.043-0.02939.181-0.017-0.0170.0000.0000.0000.000
124A209PHE0-0.053-0.02742.0080.0740.0740.0000.0000.0000.000
125A210GLY00.0130.02643.9910.1370.1370.0000.0000.0000.000
126A211HIS00.0240.01844.8820.1330.1330.0000.0000.0000.000
127A212THR00.0010.00243.792-0.197-0.1970.0000.0000.0000.000
128A213VAL0-0.051-0.02738.894-0.010-0.0100.0000.0000.0000.000
129A214SER0-0.017-0.01339.036-0.193-0.1930.0000.0000.0000.000
130A215ASN0-0.046-0.03337.167-0.107-0.1070.0000.0000.0000.000
131A216GLN0-0.0050.00733.3660.1320.1320.0000.0000.0000.000
132A217ARG10.8150.91331.5158.6068.6060.0000.0000.0000.000
133A218ILE0-0.050-0.03229.7140.3040.3040.0000.0000.0000.000
134A219THR0-0.007-0.00526.634-0.351-0.3510.0000.0000.0000.000
135A220PHE00.0300.01825.5470.3420.3420.0000.0000.0000.000
136A221GLY00.0910.04725.371-0.252-0.2520.0000.0000.0000.000
137A222GLN0-0.005-0.01124.8490.1690.1690.0000.0000.0000.000
138A223GLY00.0020.01125.865-0.182-0.1820.0000.0000.0000.000
139A224THR0-0.102-0.04827.9060.4540.4540.0000.0000.0000.000
140A225TYR0-0.016-0.03029.290-0.365-0.3650.0000.0000.0000.000
141A226SER0-0.013-0.00831.6140.3610.3610.0000.0000.0000.000
142A227SER0-0.012-0.02132.706-0.167-0.1670.0000.0000.0000.000
143A228THR00.008-0.00135.1470.2550.2550.0000.0000.0000.000
144A229TYR0-0.050-0.04436.690-0.142-0.1420.0000.0000.0000.000
145A230VAL00.0010.00539.1970.1440.1440.0000.0000.0000.000
146A231ILE00.0010.00342.238-0.115-0.1150.0000.0000.0000.000
147A232THR00.0350.02144.9800.0650.0650.0000.0000.0000.000
148A233ILE00.0310.01147.768-0.132-0.1320.0000.0000.0000.000
149A234GLN00.028-0.00449.013-0.026-0.0260.0000.0000.0000.000
150A235GLU-1-0.946-0.96950.553-5.693-5.6930.0000.0000.0000.000
151A236ASP-1-0.874-0.91052.950-5.562-5.5620.0000.0000.0000.000
152A237GLY0-0.027-0.02153.051-0.052-0.0520.0000.0000.0000.000
153A238ILE0-0.052-0.03054.046-0.008-0.0080.0000.0000.0000.000
154A239THR0-0.056-0.04355.0500.0910.0910.0000.0000.0000.000
155A240ASP-1-0.795-0.86353.044-5.951-5.9510.0000.0000.0000.000
156A241VAL0-0.009-0.01452.4370.0620.0620.0000.0000.0000.000
157A242GLN0-0.052-0.03248.090-0.231-0.2310.0000.0000.0000.000
158A243TYR00.008-0.00747.4930.0870.0870.0000.0000.0000.000
159A244ARG10.9040.95639.5347.2607.2600.0000.0000.0000.000
160A245VAL0-0.028-0.00641.8270.1360.1360.0000.0000.0000.000
161A246PHE00.0080.00639.375-0.193-0.1930.0000.0000.0000.000
162A247GLU-1-0.702-0.82837.834-7.914-7.9140.0000.0000.0000.000
163A248ILE00.0480.02135.089-0.218-0.2180.0000.0000.0000.000
164A249GLY0-0.0020.00135.1640.3140.3140.0000.0000.0000.000
165A250TYR00.0090.01332.460-0.258-0.2580.0000.0000.0000.000
166A251ILE00.0100.01527.7900.1980.1980.0000.0000.0000.000
167A252SER0-0.066-0.03130.7810.0560.0560.0000.0000.0000.000
168A253ASP-1-0.782-0.90130.825-10.120-10.1200.0000.0000.0000.000
169A254GLN0-0.089-0.06432.6680.4000.4000.0000.0000.0000.000
170A255PHE0-0.0030.00433.1930.2400.2400.0000.0000.0000.000
171A256GLY0-0.0020.01234.1620.1630.1630.0000.0000.0000.000
172A257VAL0-0.049-0.02829.556-0.043-0.0430.0000.0000.0000.000
173A258PHE0-0.012-0.02229.872-0.195-0.1950.0000.0000.0000.000
174A259PRO00.0040.03027.4890.2450.2450.0000.0000.0000.000
175A260SER0-0.020-0.00930.2830.2030.2030.0000.0000.0000.000
176A261LEU00.0180.02530.314-0.053-0.0530.0000.0000.0000.000
177A262ILE00.003-0.00534.0720.2990.2990.0000.0000.0000.000
178A263VAL0-0.0080.00436.797-0.117-0.1170.0000.0000.0000.000
179A264SER0-0.047-0.02838.2830.1110.1110.0000.0000.0000.000
180A265ARG10.8890.92940.2057.6767.6760.0000.0000.0000.000
181A266VAL00.0280.01140.906-0.186-0.1860.0000.0000.0000.000
182A267LEU0-0.028-0.00143.3100.1550.1550.0000.0000.0000.000
183A268PRO00.0290.02044.543-0.112-0.1120.0000.0000.0000.000
184A269ILE00.016-0.00445.8950.1270.1270.0000.0000.0000.000
185A270ARG10.7910.88848.0995.7545.7540.0000.0000.0000.000
186A271MET0-0.0360.00244.126-0.033-0.0330.0000.0000.0000.000
187A272LEU00.001-0.00749.1880.1170.1170.0000.0000.0000.000
188A273LEU00.0120.00646.9960.0680.0680.0000.0000.0000.000
189A274GLY00.0550.02945.053-0.107-0.1070.0000.0000.0000.000
190A275MET0-0.022-0.00943.196-0.188-0.1880.0000.0000.0000.000
191A276GLU-1-0.906-0.94342.145-6.853-6.8530.0000.0000.0000.000
192A277SER0-0.040-0.02237.138-0.222-0.2220.0000.0000.0000.000
193A278CYS0-0.015-0.00436.8570.0490.0490.0000.0000.0000.000
194A279THR00.0230.03932.915-0.111-0.1110.0000.0000.0000.000
195A280LEU0-0.039-0.01830.8530.2280.2280.0000.0000.0000.000
196A281THR0-0.0130.00029.868-0.392-0.3920.0000.0000.0000.000
197A282SER00.0300.01729.4690.2090.2090.0000.0000.0000.000
198A283ASP-1-0.660-0.80927.841-11.296-11.2960.0000.0000.0000.000
199A284ARG10.8200.91229.8669.6699.6690.0000.0000.0000.000
200A285LEU0-0.029-0.02132.0660.2920.2920.0000.0000.0000.000
201A286GLY0-0.0120.01733.7450.2890.2890.0000.0000.0000.000
202A287GLY00.018-0.01333.257-0.350-0.3500.0000.0000.0000.000
203A288TYR0-0.061-0.02834.3620.2880.2880.0000.0000.0000.000
204A289PHE00.0830.02235.123-0.176-0.1760.0000.0000.0000.000
205A290LEU0-0.019-0.00537.0200.2380.2380.0000.0000.0000.000
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