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: 76LNK

Calculation Name: 4AEZ-A-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 4AEZ

Chain ID: A

ChEMBL ID:

UniProt ID: O14417

Base Structure: X-ray

Registration Date: 2023-09-24

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 326
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -4798688.299013
FMO2-HF: Nuclear repulsion 4674247.709085
FMO2-HF: Total energy -124440.589927
FMO2-MP2: Total energy -124807.984223


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:125:LEU)


Summations of interaction energy for fragment #1(A:125:LEU)
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.
-3.268-2.0017.147-2.745-5.669-0.003
Interaction energy analysis for fragmet #1(A:125:LEU)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : -0.013 / q_NPA : -0.020
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].
3A127THR0-0.0130.0011.867-2.471-1.4646.423-2.912-4.5180.006
4A128ARG10.9930.9972.733-1.084-0.8240.7240.167-1.151-0.009
5A129VAL00.0150.0064.9120.2410.2410.0000.0000.0000.000
6A130LEU0-0.049-0.0277.410-0.069-0.0690.0000.0000.0000.000
7A131ALA00.0490.02611.1630.0410.0410.0000.0000.0000.000
8A132PHE0-0.027-0.01514.281-0.007-0.0070.0000.0000.0000.000
9A133LYS10.9840.97317.7560.1280.1280.0000.0000.0000.000
10A134LEU0-0.054-0.01719.711-0.001-0.0010.0000.0000.0000.000
11A135ASP-1-0.848-0.90422.381-0.108-0.1080.0000.0000.0000.000
12A136ALA0-0.051-0.02824.0650.0090.0090.0000.0000.0000.000
13A137PRO0-0.023-0.02525.611-0.002-0.0020.0000.0000.0000.000
14A138GLU-1-0.897-0.93429.352-0.055-0.0550.0000.0000.0000.000
15A139ALA0-0.024-0.01131.1400.0040.0040.0000.0000.0000.000
16A140LYS10.9510.96433.2190.0240.0240.0000.0000.0000.000
17A141LYS10.9240.94935.8540.0370.0370.0000.0000.0000.000
18A142PRO00.0080.01838.6800.0000.0000.0000.0000.0000.000
19A143VAL00.003-0.00340.992-0.001-0.0010.0000.0000.0000.000
20A144ASP-1-0.952-0.96143.010-0.003-0.0030.0000.0000.0000.000
21A162ARG10.8230.88866.352-0.011-0.0110.0000.0000.0000.000
22A163ARG10.9570.98865.914-0.005-0.0050.0000.0000.0000.000
23A164PHE00.0550.02162.5130.0000.0000.0000.0000.0000.000
24A165ASN0-0.005-0.01066.651-0.001-0.0010.0000.0000.0000.000
25A166THR00.0300.00662.8540.0000.0000.0000.0000.0000.000
26A167THR0-0.023-0.00162.7310.0000.0000.0000.0000.0000.000
27A168PRO0-0.0190.00761.6390.0000.0000.0000.0000.0000.000
28A169GLU-1-0.848-0.92064.3520.0090.0090.0000.0000.0000.000
29A170ARG10.8740.93865.437-0.011-0.0110.0000.0000.0000.000
30A171VAL00.010-0.00860.2370.0000.0000.0000.0000.0000.000
31A172LEU0-0.048-0.01661.2280.0000.0000.0000.0000.0000.000
32A173ASP-1-0.868-0.93258.2660.0110.0110.0000.0000.0000.000
33A174ALA0-0.054-0.03355.2040.0010.0010.0000.0000.0000.000
34A175PRO00.0290.02153.9730.0010.0010.0000.0000.0000.000
35A176GLY00.0460.00750.2570.0010.0010.0000.0000.0000.000
36A177ILE0-0.071-0.02049.7230.0020.0020.0000.0000.0000.000
37A178ILE00.0330.01944.3710.0000.0000.0000.0000.0000.000
38A179ASP-1-0.790-0.83943.5970.0200.0200.0000.0000.0000.000
39A180ASP-1-0.794-0.91341.4240.0390.0390.0000.0000.0000.000
40A181TYR0-0.017-0.01041.694-0.001-0.0010.0000.0000.0000.000
41A182TYR0-0.118-0.08438.0120.0000.0000.0000.0000.0000.000
42A183LEU0-0.0020.03443.2650.0020.0020.0000.0000.0000.000
43A184ASN0-0.083-0.06946.405-0.003-0.0030.0000.0000.0000.000
44A185LEU00.0260.02348.2020.0010.0010.0000.0000.0000.000
45A186LEU00.0250.02352.197-0.001-0.0010.0000.0000.0000.000
46A187ASP-1-0.790-0.87955.5140.0250.0250.0000.0000.0000.000
47A188TRP0-0.025-0.01458.347-0.001-0.0010.0000.0000.0000.000
48A189SER00.0460.03462.0900.0000.0000.0000.0000.0000.000
49A190ASN0-0.022-0.05864.473-0.001-0.0010.0000.0000.0000.000
50A191LEU0-0.0270.00767.570-0.001-0.0010.0000.0000.0000.000
51A192ASN0-0.051-0.03567.6880.0000.0000.0000.0000.0000.000
52A193VAL0-0.0030.00664.440-0.001-0.0010.0000.0000.0000.000
53A194VAL0-0.0050.01060.5770.0010.0010.0000.0000.0000.000
54A195ALA00.0150.01158.6640.0000.0000.0000.0000.0000.000
55A196VAL0-0.003-0.01955.3130.0000.0000.0000.0000.0000.000
56A197ALA0-0.029-0.01752.0460.0000.0000.0000.0000.0000.000
57A198LEU0-0.032-0.01352.1510.0000.0000.0000.0000.0000.000
58A199GLU-1-0.889-0.95148.4630.0210.0210.0000.0000.0000.000
59A200ARG10.7760.87548.758-0.024-0.0240.0000.0000.0000.000
60A201ASN00.0080.00351.3110.0010.0010.0000.0000.0000.000
61A202VAL0-0.0280.00454.5940.0000.0000.0000.0000.0000.000
62A203TYR00.0300.01756.3190.0000.0000.0000.0000.0000.000
63A204VAL0-0.009-0.01959.8240.0000.0000.0000.0000.0000.000
64A205TRP00.0160.00862.723-0.001-0.0010.0000.0000.0000.000
65A206ASN00.0140.02865.0410.0000.0000.0000.0000.0000.000
66A207ALA00.0150.01567.341-0.001-0.0010.0000.0000.0000.000
67A208ASP-1-0.887-0.92268.9550.0130.0130.0000.0000.0000.000
68A209SER0-0.042-0.05072.192-0.001-0.0010.0000.0000.0000.000
69A210GLY0-0.007-0.00869.322-0.001-0.0010.0000.0000.0000.000
70A211SER0-0.061-0.03869.3200.0000.0000.0000.0000.0000.000
71A212VAL00.003-0.00863.6270.0010.0010.0000.0000.0000.000
72A213SER0-0.051-0.04864.6010.0000.0000.0000.0000.0000.000
73A214ALA00.0100.00460.3170.0000.0000.0000.0000.0000.000
74A215LEU0-0.059-0.01459.3750.0000.0000.0000.0000.0000.000
75A216ALA0-0.003-0.01556.7870.0010.0010.0000.0000.0000.000
76A217GLU-1-0.790-0.86954.4810.0220.0220.0000.0000.0000.000
77A218THR0-0.077-0.03549.8890.0010.0010.0000.0000.0000.000
78A219ASP-1-0.818-0.88748.4420.0350.0350.0000.0000.0000.000
79A220GLU-1-0.909-0.96747.6020.0290.0290.0000.0000.0000.000
80A221SER0-0.116-0.06544.2620.0010.0010.0000.0000.0000.000
81A222THR0-0.078-0.05944.0480.0030.0030.0000.0000.0000.000
82A223TYR00.0500.02641.443-0.002-0.0020.0000.0000.0000.000
83A224VAL00.0310.01847.5900.0020.0020.0000.0000.0000.000
84A225ALA0-0.030-0.02245.9000.0000.0000.0000.0000.0000.000
85A226SER0-0.016-0.03247.7430.0000.0000.0000.0000.0000.000
86A227VAL00.0240.02450.8400.0000.0000.0000.0000.0000.000
87A228LYS10.8110.89454.638-0.026-0.0260.0000.0000.0000.000
88A229TRP00.0690.02857.0370.0010.0010.0000.0000.0000.000
89A230SER0-0.028-0.02860.6880.0010.0010.0000.0000.0000.000
90A231HIS0-0.010-0.01962.5470.0000.0000.0000.0000.0000.000
91A232ASP-1-0.841-0.88964.8230.0220.0220.0000.0000.0000.000
92A233GLY0-0.029-0.01465.294-0.001-0.0010.0000.0000.0000.000
93A234SER00.017-0.00266.328-0.001-0.0010.0000.0000.0000.000
94A235PHE0-0.010-0.01462.6750.0000.0000.0000.0000.0000.000
95A236LEU0-0.0190.00758.4570.0000.0000.0000.0000.0000.000
96A237SER0-0.064-0.04155.9040.0010.0010.0000.0000.0000.000
97A238VAL00.0570.01252.807-0.001-0.0010.0000.0000.0000.000
98A239GLY0-0.0020.01050.2310.0010.0010.0000.0000.0000.000
99A240LEU00.0320.02248.377-0.001-0.0010.0000.0000.0000.000
100A241GLY00.0430.00644.3310.0020.0020.0000.0000.0000.000
101A242ASN00.017-0.01542.9830.0020.0020.0000.0000.0000.000
102A243GLY0-0.0210.00544.5720.0020.0020.0000.0000.0000.000
103A244LEU0-0.059-0.02645.8890.0000.0000.0000.0000.0000.000
104A245VAL00.011-0.00549.467-0.001-0.0010.0000.0000.0000.000
105A246ASP-1-0.780-0.85552.4480.0330.0330.0000.0000.0000.000
106A247ILE0-0.047-0.03455.5850.0000.0000.0000.0000.0000.000
107A248TYR00.030-0.00856.2580.0000.0000.0000.0000.0000.000
108A249ASP-1-0.804-0.86861.6730.0210.0210.0000.0000.0000.000
109A250VAL0-0.005-0.00165.0710.0000.0000.0000.0000.0000.000
110A251GLU-1-0.923-0.95766.2330.0180.0180.0000.0000.0000.000
111A252SER0-0.101-0.07768.4130.0000.0000.0000.0000.0000.000
112A253GLN00.0160.02864.8040.0000.0000.0000.0000.0000.000
113A254THR0-0.0170.00264.0620.0010.0010.0000.0000.0000.000
114A255LYS10.8400.91756.439-0.031-0.0310.0000.0000.0000.000
115A256LEU0-0.034-0.00461.5310.0000.0000.0000.0000.0000.000
116A257ARG10.7840.86658.579-0.033-0.0330.0000.0000.0000.000
117A258THR00.028-0.00553.155-0.001-0.0010.0000.0000.0000.000
118A259MET0-0.085-0.03053.8840.0000.0000.0000.0000.0000.000
119A260ALA00.0540.02749.2120.0010.0010.0000.0000.0000.000
120A261GLY00.028-0.00547.574-0.001-0.0010.0000.0000.0000.000
121A262HIS0-0.047-0.00745.1270.0050.0050.0000.0000.0000.000
122A263GLN00.001-0.00239.863-0.002-0.0020.0000.0000.0000.000
123A264ALA00.000-0.00439.4810.0020.0020.0000.0000.0000.000
124A265ARG10.8130.89639.966-0.046-0.0460.0000.0000.0000.000
125A266VAL0-0.0160.00343.3760.0020.0020.0000.0000.0000.000
126A267GLY00.0580.04045.642-0.002-0.0020.0000.0000.0000.000
127A268CYS0-0.056-0.00546.538-0.002-0.0020.0000.0000.0000.000
128A269LEU00.0230.01849.4030.0020.0020.0000.0000.0000.000
129A270SER00.0200.01152.775-0.002-0.0020.0000.0000.0000.000
130A271TRP00.0030.00755.6020.0020.0020.0000.0000.0000.000
131A272ASN0-0.063-0.02359.006-0.002-0.0020.0000.0000.0000.000
132A273ARG10.9180.94560.945-0.027-0.0270.0000.0000.0000.000
133A274HIS00.0220.01762.831-0.001-0.0010.0000.0000.0000.000
134A275VAL0-0.031-0.01857.6510.0010.0010.0000.0000.0000.000
135A276LEU00.0150.02955.155-0.001-0.0010.0000.0000.0000.000
136A277SER0-0.023-0.02852.9220.0010.0010.0000.0000.0000.000
137A278SER00.015-0.01750.182-0.001-0.0010.0000.0000.0000.000
138A279GLY00.0410.01747.1770.0020.0020.0000.0000.0000.000
139A280SER00.0390.01443.2400.0000.0000.0000.0000.0000.000
140A281ARG10.9300.95635.120-0.057-0.0570.0000.0000.0000.000
141A282SER0-0.036-0.02938.5850.0030.0030.0000.0000.0000.000
142A283GLY0-0.0030.00939.1720.0040.0040.0000.0000.0000.000
143A284ALA0-0.046-0.01641.248-0.001-0.0010.0000.0000.0000.000
144A285ILE00.001-0.01544.093-0.003-0.0030.0000.0000.0000.000
145A286HIS0-0.012-0.00445.9810.0010.0010.0000.0000.0000.000
146A287HIS00.0400.03150.332-0.002-0.0020.0000.0000.0000.000
147A288HIS00.0280.01351.6950.0020.0020.0000.0000.0000.000
148A289ASP-1-0.779-0.87556.1860.0300.0300.0000.0000.0000.000
149A290VAL00.0380.00558.7690.0000.0000.0000.0000.0000.000
150A291ARG10.8380.89960.847-0.030-0.0300.0000.0000.0000.000
151A292ILE0-0.0190.00560.185-0.001-0.0010.0000.0000.0000.000
152A293ALA00.0380.02660.5370.0010.0010.0000.0000.0000.000
153A294ASN0-0.016-0.01555.3630.0020.0020.0000.0000.0000.000
154A295HIS00.0790.04652.306-0.001-0.0010.0000.0000.0000.000
155A296GLN0-0.0350.01349.0360.0000.0000.0000.0000.0000.000
156A297ILE0-0.009-0.01254.6520.0000.0000.0000.0000.0000.000
157A298GLY0-0.002-0.00552.9740.0000.0000.0000.0000.0000.000
158A299THR0-0.0120.00447.6660.0000.0000.0000.0000.0000.000
159A300LEU0-0.056-0.01748.1830.0000.0000.0000.0000.0000.000
160A301GLN00.0280.01440.270-0.002-0.0020.0000.0000.0000.000
161A302GLY00.004-0.00344.0440.0010.0010.0000.0000.0000.000
162A303HIS0-0.0360.00841.259-0.004-0.0040.0000.0000.0000.000
163A304SER0-0.039-0.02435.7950.0030.0030.0000.0000.0000.000
164A305SER0-0.012-0.02035.7300.0030.0030.0000.0000.0000.000
165A306GLU-1-0.741-0.84237.7060.0490.0490.0000.0000.0000.000
166A307VAL0-0.0030.01540.222-0.002-0.0020.0000.0000.0000.000
167A308CYS0-0.100-0.03542.313-0.001-0.0010.0000.0000.0000.000
168A309GLY00.0560.03345.039-0.002-0.0020.0000.0000.0000.000
169A310LEU0-0.019-0.02448.4480.0020.0020.0000.0000.0000.000
170A311ALA00.0190.01351.111-0.002-0.0020.0000.0000.0000.000
171A312TRP0-0.011-0.01054.7820.0000.0000.0000.0000.0000.000
172A313ARG10.7540.85657.611-0.028-0.0280.0000.0000.0000.000
173A314SER00.0610.02660.3480.0010.0010.0000.0000.0000.000
174A315ASP-1-0.764-0.85663.4360.0260.0260.0000.0000.0000.000
175A316GLY0-0.011-0.00861.3680.0000.0000.0000.0000.0000.000
176A317LEU0-0.059-0.03261.2320.0010.0010.0000.0000.0000.000
177A318GLN0-0.057-0.03957.2300.0000.0000.0000.0000.0000.000
178A319LEU00.0170.02652.427-0.001-0.0010.0000.0000.0000.000
179A320ALA0-0.016-0.00452.1850.0010.0010.0000.0000.0000.000
180A321SER00.019-0.00947.136-0.001-0.0010.0000.0000.0000.000
181A322GLY00.0180.01446.1870.0000.0000.0000.0000.0000.000
182A323GLY00.0530.02542.4390.0000.0000.0000.0000.0000.000
183A324ASN00.018-0.01735.678-0.006-0.0060.0000.0000.0000.000
184A325ASP-1-0.793-0.87837.2080.0610.0610.0000.0000.0000.000
185A326ASN0-0.026-0.00936.9100.0000.0000.0000.0000.0000.000
186A327VAL0-0.0230.01440.419-0.002-0.0020.0000.0000.0000.000
187A328VAL00.002-0.00542.987-0.001-0.0010.0000.0000.0000.000
188A329GLN0-0.0040.00744.075-0.001-0.0010.0000.0000.0000.000
189A330ILE0-0.012-0.00648.418-0.002-0.0020.0000.0000.0000.000
190A331TRP00.0600.02446.8160.0010.0010.0000.0000.0000.000
191A332ASP-1-0.768-0.87953.4330.0320.0320.0000.0000.0000.000
192A333ALA00.0310.00956.0890.0010.0010.0000.0000.0000.000
193A334ARG10.8430.90957.529-0.035-0.0350.0000.0000.0000.000
194A335SER0-0.077-0.02853.6770.0010.0010.0000.0000.0000.000
195A336SER00.0600.02550.227-0.001-0.0010.0000.0000.0000.000
196A337ILE0-0.020-0.00749.5070.0030.0030.0000.0000.0000.000
197A338PRO00.0270.01746.998-0.002-0.0020.0000.0000.0000.000
198A339LYS10.7620.89150.315-0.033-0.0330.0000.0000.0000.000
199A340PHE0-0.051-0.04050.843-0.001-0.0010.0000.0000.0000.000
200A341THR00.0250.00144.3120.0010.0010.0000.0000.0000.000
201A342LYS10.8080.90646.859-0.036-0.0360.0000.0000.0000.000
202A343THR00.0690.02141.5250.0000.0000.0000.0000.0000.000
203A344ASN0-0.042-0.02542.4410.0010.0010.0000.0000.0000.000
204A345HIS0-0.0330.01143.473-0.001-0.0010.0000.0000.0000.000
205A346ASN0-0.008-0.01539.0960.0040.0040.0000.0000.0000.000
206A347ALA0-0.060-0.02638.5920.0000.0000.0000.0000.0000.000
207A348ALA00.0250.02039.8420.0000.0000.0000.0000.0000.000
208A349VAL0-0.033-0.01541.294-0.003-0.0030.0000.0000.0000.000
209A350LYS10.8660.93944.944-0.029-0.0290.0000.0000.0000.000
210A351ALA0-0.0100.01746.637-0.001-0.0010.0000.0000.0000.000
211A352VAL00.013-0.01049.4790.0000.0000.0000.0000.0000.000
212A353ALA00.0240.01852.1710.0000.0000.0000.0000.0000.000
213A354TRP0-0.003-0.01355.949-0.001-0.0010.0000.0000.0000.000
214A355CYS0-0.045-0.00458.818-0.001-0.0010.0000.0000.0000.000
215A356PRO00.0230.01461.7080.0000.0000.0000.0000.0000.000
216A357TRP0-0.024-0.01663.7230.0000.0000.0000.0000.0000.000
217A358GLN0-0.009-0.02063.5980.0000.0000.0000.0000.0000.000
218A359SER00.0600.03063.3600.0000.0000.0000.0000.0000.000
219A360ASN00.000-0.00460.9540.0010.0010.0000.0000.0000.000
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