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: 49KRN

Calculation Name: 4FCZ-B-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 4FCZ

Chain ID: B

ChEMBL ID:

UniProt ID: Q88P91

Base Structure: X-ray

Registration Date: 2023-06-26

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 183
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 22 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -1885271.815143
FMO2-HF: Nuclear repulsion 1813836.834066
FMO2-HF: Total energy -71434.981078
FMO2-MP2: Total energy -71643.680307


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(B:22:ALA)


Summations of interaction energy for fragment #1(B:22:ALA)
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.
-4.57-4.26910.731-4.406-6.625-0.018
Interaction energy analysis for fragmet #1(B:22:ALA)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.027 / q_NPA : 0.009
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].
3B24GLN0-0.0430.0033.507-1.6731.097-0.013-1.427-1.3300.002
4B25THR00.014-0.0355.499-0.654-0.6540.0000.0000.0000.000
5B26PRO00.027-0.0108.2280.1250.1250.0000.0000.0000.000
6B27HIS00.0290.01210.0260.1480.1480.0000.0000.0000.000
7B28GLU-1-0.826-0.8818.516-1.367-1.3670.0000.0000.0000.000
8B29VAL00.0180.0256.2470.1760.1760.0000.0000.0000.000
9B30VAL00.0010.0208.9110.2140.2140.0000.0000.0000.000
10B31GLN0-0.0020.00912.7150.1190.1190.0000.0000.0000.000
11B32SER00.0270.0079.8980.0230.0230.0000.0000.0000.000
12B33THR00.0370.00710.7550.1050.1050.0000.0000.0000.000
13B34THR0-0.043-0.03712.9830.0830.0830.0000.0000.0000.000
14B35ASN0-0.022-0.01815.9360.0500.0500.0000.0000.0000.000
15B36GLU-1-0.918-0.95012.479-0.188-0.1880.0000.0000.0000.000
16B37LEU00.0000.00516.2400.0410.0410.0000.0000.0000.000
17B38LEU0-0.016-0.01618.1930.0290.0290.0000.0000.0000.000
18B39GLY0-0.0010.00419.9640.0180.0180.0000.0000.0000.000
19B40ASP-1-0.751-0.83119.328-0.053-0.0530.0000.0000.0000.000
20B41LEU00.012-0.01221.2070.0170.0170.0000.0000.0000.000
21B42LYS10.9130.95823.8820.1110.1110.0000.0000.0000.000
22B43ALA0-0.039-0.00424.5600.0070.0070.0000.0000.0000.000
23B44ASN0-0.021-0.01323.2410.0160.0160.0000.0000.0000.000
24B45LYS10.7920.89426.9530.0790.0790.0000.0000.0000.000
25B46GLU-1-0.785-0.92528.964-0.047-0.0470.0000.0000.0000.000
26B47GLN0-0.0210.00327.5880.0040.0040.0000.0000.0000.000
27B48TYR0-0.051-0.05922.4530.0090.0090.0000.0000.0000.000
28B49LYS10.7810.89228.7900.0570.0570.0000.0000.0000.000
29B50SER0-0.037-0.00932.1000.0030.0030.0000.0000.0000.000
30B51ASN0-0.028-0.01229.8890.0060.0060.0000.0000.0000.000
31B52PRO00.0800.02128.800-0.002-0.0020.0000.0000.0000.000
32B53ASN00.0130.01227.108-0.005-0.0050.0000.0000.0000.000
33B54ALA00.0490.03025.3250.0000.0000.0000.0000.0000.000
34B55PHE00.0130.00923.893-0.006-0.0060.0000.0000.0000.000
35B56TYR00.008-0.04222.846-0.016-0.0160.0000.0000.0000.000
36B57ASP-1-0.892-0.94021.3490.0150.0150.0000.0000.0000.000
37B58SER0-0.007-0.00919.4230.0070.0070.0000.0000.0000.000
38B59LEU0-0.016-0.00218.142-0.019-0.0190.0000.0000.0000.000
39B60ASN0-0.066-0.05217.222-0.012-0.0120.0000.0000.0000.000
40B61ARG10.8200.88715.2530.0490.0490.0000.0000.0000.000
41B62ILE0-0.0170.00213.560-0.004-0.0040.0000.0000.0000.000
42B63LEU0-0.004-0.01312.692-0.061-0.0610.0000.0000.0000.000
43B64GLY0-0.0010.01012.762-0.045-0.0450.0000.0000.0000.000
44B65PRO00.0080.0048.5790.0180.0180.0000.0000.0000.000
45B66VAL00.0150.0207.469-0.102-0.1020.0000.0000.0000.000
46B67VAL00.0010.0009.618-0.067-0.0670.0000.0000.0000.000
47B68ASP-1-0.764-0.87311.8530.0720.0720.0000.0000.0000.000
48B69ALA00.0310.01513.091-0.003-0.0030.0000.0000.0000.000
49B70ASP-1-0.808-0.89216.0480.1020.1020.0000.0000.0000.000
50B71GLY0-0.034-0.03115.8830.0010.0010.0000.0000.0000.000
51B72ILE0-0.037-0.00916.453-0.012-0.0120.0000.0000.0000.000
52B73SER00.0330.00118.9920.0030.0030.0000.0000.0000.000
53B74ARG10.8120.91415.197-0.038-0.0380.0000.0000.0000.000
54B75SER0-0.102-0.06221.154-0.011-0.0110.0000.0000.0000.000
55B76ILE0-0.0330.00722.884-0.006-0.0060.0000.0000.0000.000
56B77MET00.0180.01924.8510.0060.0060.0000.0000.0000.000
57B78THR00.001-0.00225.1370.0010.0010.0000.0000.0000.000
58B79VAL00.0920.04623.9140.0090.0090.0000.0000.0000.000
59B80LYS10.8770.93525.8200.0150.0150.0000.0000.0000.000
60B81TYR00.017-0.02628.6500.0040.0040.0000.0000.0000.000
61B82SER00.1030.04924.0040.0010.0010.0000.0000.0000.000
62B83ARG10.8760.94325.723-0.045-0.0450.0000.0000.0000.000
63B84LYS10.8250.90727.430-0.024-0.0240.0000.0000.0000.000
64B85ALA00.0330.03926.906-0.004-0.0040.0000.0000.0000.000
65B86THR00.001-0.02727.3020.0070.0070.0000.0000.0000.000
66B87PRO00.0300.00124.164-0.006-0.0060.0000.0000.0000.000
67B88GLU-1-0.827-0.88525.3520.0670.0670.0000.0000.0000.000
68B89GLN0-0.024-0.00727.891-0.004-0.0040.0000.0000.0000.000
69B90MET0-0.0090.00122.199-0.016-0.0160.0000.0000.0000.000
70B91GLN00.006-0.00822.501-0.004-0.0040.0000.0000.0000.000
71B92ARG10.7570.83224.303-0.037-0.0370.0000.0000.0000.000
72B93PHE00.0160.00323.497-0.009-0.0090.0000.0000.0000.000
73B94GLN0-0.009-0.03319.285-0.017-0.0170.0000.0000.0000.000
74B95GLU-1-0.799-0.86423.4210.0090.0090.0000.0000.0000.000
75B96ASN0-0.003-0.01625.247-0.007-0.0070.0000.0000.0000.000
76B97PHE0-0.033-0.00621.910-0.010-0.0100.0000.0000.0000.000
77B98LYS10.8750.93719.770-0.028-0.0280.0000.0000.0000.000
78B99ARG10.8770.94123.788-0.015-0.0150.0000.0000.0000.000
79B100SER00.027-0.00526.818-0.004-0.0040.0000.0000.0000.000
80B101LEU0-0.061-0.01922.684-0.006-0.0060.0000.0000.0000.000
81B102MET0-0.0140.00524.849-0.008-0.0080.0000.0000.0000.000
82B103GLN0-0.0160.00626.5660.0000.0000.0000.0000.0000.000
83B104PHE00.0220.00829.6830.0000.0000.0000.0000.0000.000
84B105TYR0-0.008-0.01226.751-0.006-0.0060.0000.0000.0000.000
85B106GLY00.0410.03126.424-0.007-0.0070.0000.0000.0000.000
86B107ASN00.004-0.01227.487-0.003-0.0030.0000.0000.0000.000
87B108ALA0-0.034-0.00928.209-0.001-0.0010.0000.0000.0000.000
88B109LEU0-0.0050.00222.428-0.007-0.0070.0000.0000.0000.000
89B110LEU00.0340.02426.158-0.002-0.0020.0000.0000.0000.000
90B111GLU-1-0.789-0.87928.226-0.062-0.0620.0000.0000.0000.000
91B112TYR0-0.033-0.02626.050-0.001-0.0010.0000.0000.0000.000
92B113ASN0-0.015-0.00927.733-0.004-0.0040.0000.0000.0000.000
93B114ASN0-0.0320.00528.9780.0070.0070.0000.0000.0000.000
94B115GLN00.0560.01427.148-0.009-0.0090.0000.0000.0000.000
95B116GLY00.0220.01427.138-0.002-0.0020.0000.0000.0000.000
96B117ILE00.0310.02920.392-0.003-0.0030.0000.0000.0000.000
97B118THR0-0.024-0.01621.7500.0040.0040.0000.0000.0000.000
98B119VAL00.0250.02415.6770.0110.0110.0000.0000.0000.000
99B120ASP-1-0.848-0.91919.084-0.277-0.2770.0000.0000.0000.000
100B121PRO0-0.007-0.01518.345-0.044-0.0440.0000.0000.0000.000
101B122ALA00.0560.04414.9140.0390.0390.0000.0000.0000.000
102B123LYS10.7810.88716.8630.4460.4460.0000.0000.0000.000
103B124ALA00.0500.02614.962-0.070-0.0700.0000.0000.0000.000
104B125ASP-1-0.894-0.95010.712-1.027-1.0270.0000.0000.0000.000
105B126ASP-1-0.829-0.90913.311-0.392-0.3920.0000.0000.0000.000
106B127GLY00.0010.0119.5760.0840.0840.0000.0000.0000.000
107B128LYS10.7570.8508.9820.2050.2050.0000.0000.0000.000
108B129ARG10.8920.93711.0780.3040.3040.0000.0000.0000.000
109B130ALA00.0730.03611.625-0.035-0.0350.0000.0000.0000.000
110B131SER0-0.069-0.06113.5310.0750.0750.0000.0000.0000.000
111B132VAL0-0.0090.00813.320-0.026-0.0260.0000.0000.0000.000
112B133GLY0-0.0010.00416.6000.0390.0390.0000.0000.0000.000
113B134MET00.0160.02018.098-0.023-0.0230.0000.0000.0000.000
114B135LYS10.8250.90721.3320.2690.2690.0000.0000.0000.000
115B136VAL00.0290.01123.654-0.009-0.0090.0000.0000.0000.000
116B137THR0-0.036-0.01726.0000.0140.0140.0000.0000.0000.000
117B138GLY00.0310.01129.1910.0030.0030.0000.0000.0000.000
118B139ASN0-0.045-0.04431.1460.0000.0000.0000.0000.0000.000
119B140ASN00.0020.00633.719-0.001-0.0010.0000.0000.0000.000
120B141GLY00.0330.02833.8980.0030.0030.0000.0000.0000.000
121B142ALA0-0.028-0.01233.928-0.004-0.0040.0000.0000.0000.000
122B143VAL0-0.0040.00128.612-0.006-0.0060.0000.0000.0000.000
123B144TYR00.0250.01927.9590.0050.0050.0000.0000.0000.000
124B145PRO0-0.036-0.00926.088-0.016-0.0160.0000.0000.0000.000
125B146VAL0-0.007-0.01220.6240.0140.0140.0000.0000.0000.000
126B147GLN00.0010.01519.565-0.048-0.0480.0000.0000.0000.000
127B148TYR00.0380.00315.4380.0350.0350.0000.0000.0000.000
128B149THR0-0.050-0.02515.828-0.016-0.0160.0000.0000.0000.000
129B150LEU00.009-0.00510.3230.0350.0350.0000.0000.0000.000
130B151GLU-1-0.815-0.90010.748-0.140-0.1400.0000.0000.0000.000
131B152ASN0-0.0160.0084.0560.6920.778-0.001-0.020-0.0640.000
132B153ILE0-0.018-0.0216.3660.2990.2990.0000.0000.0000.000
133B154GLY00.0130.0016.0190.2540.2540.0000.0000.0000.000
134B155GLY00.0470.0323.3011.0111.4330.075-0.178-0.3190.001
135B156GLU-1-0.847-0.9051.866-7.211-8.99310.533-4.134-4.616-0.020
136B157TRP0-0.0280.0012.8492.9821.7870.1371.353-0.296-0.001
137B158LYS10.8180.8955.8180.2520.2520.0000.0000.0000.000
138B159VAL0-0.003-0.0138.8080.0490.0490.0000.0000.0000.000
139B160ARG10.8070.89912.5860.2050.2050.0000.0000.0000.000
140B161ASN0-0.032-0.03814.9270.0590.0590.0000.0000.0000.000
141B162VAL00.0290.02017.497-0.046-0.0460.0000.0000.0000.000
142B163ILE0-0.048-0.01320.0030.0340.0340.0000.0000.0000.000
143B164VAL00.0600.02423.198-0.019-0.0190.0000.0000.0000.000
144B165ASN00.0170.00825.5910.0080.0080.0000.0000.0000.000
145B166GLY00.0220.01627.5430.0100.0100.0000.0000.0000.000
146B167ILE00.0090.00828.2350.0040.0040.0000.0000.0000.000
147B168ASN00.003-0.00222.713-0.001-0.0010.0000.0000.0000.000
148B169ILE00.0680.03122.8910.0150.0150.0000.0000.0000.000
149B170GLY00.0450.02322.5140.0140.0140.0000.0000.0000.000
150B171LYS10.9010.94823.3380.1210.1210.0000.0000.0000.000
151B172LEU00.0090.01726.6130.0100.0100.0000.0000.0000.000
152B173PHE00.0380.01124.7390.0110.0110.0000.0000.0000.000
153B174ARG10.8300.89626.0160.0780.0780.0000.0000.0000.000
154B175ASP-1-0.829-0.88827.770-0.061-0.0610.0000.0000.0000.000
155B176GLN00.0480.02930.8660.0110.0110.0000.0000.0000.000
156B177PHE00.0320.00729.1550.0070.0070.0000.0000.0000.000
157B178ALA00.000-0.00531.1970.0070.0070.0000.0000.0000.000
158B179ASP-1-0.855-0.91533.176-0.031-0.0310.0000.0000.0000.000
159B180ALA00.0030.00933.7670.0040.0040.0000.0000.0000.000
160B181MET0-0.055-0.00832.7150.0060.0060.0000.0000.0000.000
161B182GLN0-0.054-0.02435.7560.0040.0040.0000.0000.0000.000
162B183ARG10.7760.86536.4740.0310.0310.0000.0000.0000.000
163B184ASN0-0.030-0.00837.0940.0040.0040.0000.0000.0000.000
164B185GLY00.0440.03039.7310.0030.0030.0000.0000.0000.000
165B186ASN0-0.078-0.04436.5690.0010.0010.0000.0000.0000.000
166B187ASP-1-0.815-0.89836.3400.0160.0160.0000.0000.0000.000
167B188LEU00.0440.01330.598-0.004-0.0040.0000.0000.0000.000
168B189ASP-1-0.755-0.84033.1490.0290.0290.0000.0000.0000.000
169B190LYS10.8860.92734.703-0.005-0.0050.0000.0000.0000.000
170B191THR0-0.061-0.04232.286-0.005-0.0050.0000.0000.0000.000
171B192ILE0-0.049-0.03029.342-0.005-0.0050.0000.0000.0000.000
172B193ASP-1-0.801-0.86331.4660.0150.0150.0000.0000.0000.000
173B194GLY0-0.0070.00634.075-0.002-0.0020.0000.0000.0000.000
174B195TRP0-0.028-0.01526.696-0.006-0.0060.0000.0000.0000.000
175B196ALA00.0620.03631.505-0.006-0.0060.0000.0000.0000.000
176B197GLY00.0440.01332.497-0.005-0.0050.0000.0000.0000.000
177B198GLU-1-0.805-0.87432.588-0.028-0.0280.0000.0000.0000.000
178B199VAL0-0.033-0.02128.402-0.007-0.0070.0000.0000.0000.000
179B200ALA0-0.0130.00031.069-0.007-0.0070.0000.0000.0000.000
180B201LYS10.8680.90333.8580.0270.0270.0000.0000.0000.000
181B202ALA0-0.038-0.01230.549-0.003-0.0030.0000.0000.0000.000
182B203LYS10.8210.91330.7440.0680.0680.0000.0000.0000.000
183B204GLN0-0.047-0.00732.901-0.001-0.0010.0000.0000.0000.000