Manual

About

FMODB

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

Last updated: 2024-04-05

All entries: 36946

Number of unique PDB entries: 7781

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FMODB ID: 663NZ

Calculation Name: 4FZS-A-Xray321

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 4FZS

Chain ID: A

ChEMBL ID:

UniProt ID: Q13596

Base Structure: X-ray

Registration Date: 2021-09-07

Reference: C. Watanabe, S. Koyama, K. Kamisaka, D. Takaya, T. Honma et. al., Interaction energy analysis of Apo structure dataset on FMODB, To be pubulished.

DOI:


IFIE MAP

IFIE Diagram


Modeling method
Optimization MOE:Amber10:EHT
Restraint OptH
Protonation MOE:Protonate 3D
Complement MOE:Structure Preparation
Water No
Procedure Auto-FMO protocol ver. 1.20200129
FMO calculation
FMO method FMO2-MP2/6-31G(d)
Fragmentation Auto
Number of fragment 211
LigandCharge
Software ABINIT-MP - Open Ver.1 Rev. 15 / 20190524
Total energy (hartree)
FMO2-HF: Electronic energy -2093560.855066
FMO2-HF: Nuclear repulsion 2007237.998348
FMO2-HF: Total energy -86322.856718
FMO2-MP2: Total energy -86579.06362


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:304:ACE )


Summations of interaction energy for fragment #1(A:304:ACE )
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.
1.2142.4952.235-1.768-1.748-0.004
Interaction energy analysis for fragmet #1(A:304:ACE )
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.029 / q_NPA : -0.002
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].
3A306ASP -1-0.849-0.9393.820-0.0250.944-0.006-0.403-0.561-0.001
4A307ILE 00.0120.0233.8620.0600.2810.003-0.059-0.1630.000
5A308TRP 00.0420.0202.4650.3450.3532.222-1.273-0.958-0.003
6A309PHE 0-0.059-0.0443.825-0.375-0.2920.016-0.033-0.0660.000
7A310GLU -1-0.902-0.9507.221-0.041-0.0410.0000.0000.0000.000
8A311GLU -1-0.906-0.9475.6641.2831.2830.0000.0000.0000.000
9A312LYS 10.7950.9007.569-0.926-0.9260.0000.0000.0000.000
10A313LEU 0-0.031-0.0079.802-0.071-0.0710.0000.0000.0000.000
11A314GLN 00.0870.04711.2640.0230.0230.0000.0000.0000.000
12A315GLU -1-0.938-0.97011.3060.5760.5760.0000.0000.0000.000
13A316VAL 0-0.022-0.01413.588-0.047-0.0470.0000.0000.0000.000
14A317GLU -1-0.898-0.95815.9030.0810.0810.0000.0000.0000.000
15A318CYS 0-0.049-0.00517.318-0.020-0.0200.0000.0000.0000.000
16A319GLU -1-0.889-0.97217.3730.2000.2000.0000.0000.0000.000
17A320GLU -1-0.834-0.90819.9020.0750.0750.0000.0000.0000.000
18A321GLN 0-0.009-0.00221.818-0.011-0.0110.0000.0000.0000.000
19A322ARG 10.8670.92719.829-0.190-0.1900.0000.0000.0000.000
20A323LEU 0-0.003-0.02122.765-0.009-0.0090.0000.0000.0000.000
21A324ARG 10.9851.01025.355-0.085-0.0850.0000.0000.0000.000
22A325LYS 10.9400.97327.645-0.090-0.0900.0000.0000.0000.000
23A326LEU 0-0.010-0.00127.673-0.005-0.0050.0000.0000.0000.000
24A327HIS 00.0430.01829.309-0.001-0.0010.0000.0000.0000.000
25A328ALA 00.0130.01631.023-0.005-0.0050.0000.0000.0000.000
26A329VAL 0-0.031-0.00733.293-0.004-0.0040.0000.0000.0000.000
27A330VAL 00.006-0.01332.023-0.003-0.0030.0000.0000.0000.000
28A331GLU -1-0.902-0.96934.5750.0470.0470.0000.0000.0000.000
29A332THR 0-0.087-0.03236.518-0.004-0.0040.0000.0000.0000.000
30A333LEU 0-0.002-0.00237.005-0.003-0.0030.0000.0000.0000.000
31A334VAL 00.000-0.00336.456-0.002-0.0020.0000.0000.0000.000
32A335ASN 0-0.004-0.01339.469-0.003-0.0030.0000.0000.0000.000
33A336HIS 00.0500.04342.053-0.002-0.0020.0000.0000.0000.000
34A337ARG 10.9000.94343.375-0.043-0.0430.0000.0000.0000.000
35A338LYS 10.9380.98841.360-0.039-0.0390.0000.0000.0000.000
36A339GLU -1-0.924-0.97745.0050.0290.0290.0000.0000.0000.000
37A340LEU 0-0.038-0.01147.887-0.002-0.0020.0000.0000.0000.000
38A341ALA 00.0620.03548.188-0.001-0.0010.0000.0000.0000.000
39A342LEU 0-0.045-0.00648.205-0.001-0.0010.0000.0000.0000.000
40A343ASN 0-0.001-0.02950.841-0.002-0.0020.0000.0000.0000.000
41A344THR 0-0.0030.00152.796-0.001-0.0010.0000.0000.0000.000
42A345ALA 00.0990.05653.550-0.001-0.0010.0000.0000.0000.000
43A346GLN 0-0.104-0.04355.265-0.001-0.0010.0000.0000.0000.000
44A347PHE 0-0.009-0.00457.006-0.001-0.0010.0000.0000.0000.000
45A348ALA 00.0790.03658.645-0.001-0.0010.0000.0000.0000.000
46A349LYS 10.9550.97959.014-0.019-0.0190.0000.0000.0000.000
47A350SER 0-0.056-0.03461.131-0.001-0.0010.0000.0000.0000.000
48A351LEU 00.0170.00862.480-0.001-0.0010.0000.0000.0000.000
49A352ALA 00.0390.02264.254-0.001-0.0010.0000.0000.0000.000
50A353MET 0-0.081-0.02765.471-0.001-0.0010.0000.0000.0000.000
51A354LEU 00.018-0.01566.365-0.001-0.0010.0000.0000.0000.000
52A355GLY 00.0170.00768.7080.0000.0000.0000.0000.0000.000
53A356SER 0-0.080-0.02269.735-0.001-0.0010.0000.0000.0000.000
54A357SER 0-0.049-0.03471.4900.0000.0000.0000.0000.0000.000
55A358GLU -1-0.893-0.92873.4870.0130.0130.0000.0000.0000.000
56A359ASP -1-0.869-0.93875.3220.0110.0110.0000.0000.0000.000
57A360ASN 0-0.084-0.02678.0470.0000.0000.0000.0000.0000.000
58A361THR 00.042-0.00577.1980.0000.0000.0000.0000.0000.000
59A362ALA 0-0.035-0.00676.5090.0000.0000.0000.0000.0000.000
60A363LEU 0-0.005-0.01372.9360.0010.0010.0000.0000.0000.000
61A364SER 00.0130.00372.7620.0010.0010.0000.0000.0000.000
62A365ARG 10.9590.97771.760-0.014-0.0140.0000.0000.0000.000
63A366ALA 0-0.0050.00970.6550.0010.0010.0000.0000.0000.000
64A367LEU 0-0.0080.00368.2070.0010.0010.0000.0000.0000.000
65A368SER 00.022-0.00666.8690.0010.0010.0000.0000.0000.000
66A369GLN 0-0.007-0.00866.3280.0000.0000.0000.0000.0000.000
67A370LEU 0-0.012-0.00862.8740.0010.0010.0000.0000.0000.000
68A371ALA 0-0.0240.00062.4790.0010.0010.0000.0000.0000.000
69A372GLU -1-0.909-0.95861.3280.0190.0190.0000.0000.0000.000
70A373VAL 0-0.087-0.04460.5250.0010.0010.0000.0000.0000.000
71A374GLU -1-0.895-0.97557.9700.0250.0250.0000.0000.0000.000
72A375GLU -1-0.940-0.94756.7490.0230.0230.0000.0000.0000.000
73A376LYS 10.9330.96055.826-0.023-0.0230.0000.0000.0000.000
74A377ILE 0-0.045-0.03054.0900.0010.0010.0000.0000.0000.000
75A378GLU -1-0.910-0.93551.9110.0290.0290.0000.0000.0000.000
76A379GLN 00.0570.00451.0000.0020.0020.0000.0000.0000.000
77A380LEU 0-0.0150.00950.2160.0020.0020.0000.0000.0000.000
78A381HIS 0-0.010-0.00448.1010.0040.0040.0000.0000.0000.000
79A382GLN 0-0.029-0.02846.4610.0030.0030.0000.0000.0000.000
80A383GLU -1-0.979-0.99045.7030.0390.0390.0000.0000.0000.000
81A384GLN 0-0.031-0.02043.6240.0050.0050.0000.0000.0000.000
82A385ALA 00.0210.02242.4580.0030.0030.0000.0000.0000.000
83A386ASN 0-0.094-0.03140.8220.0050.0050.0000.0000.0000.000
84A387ASN 00.0170.02539.9310.0010.0010.0000.0000.0000.000
85A388ASP -1-0.919-0.97735.5250.0630.0630.0000.0000.0000.000
86A389PHE 0-0.071-0.04534.7980.0060.0060.0000.0000.0000.000
87A390PHE 00.0310.00235.0020.0040.0040.0000.0000.0000.000
88A391LEU 00.0680.05132.6430.0010.0010.0000.0000.0000.000
89A392LEU 0-0.019-0.02429.3310.0050.0050.0000.0000.0000.000
90A393ALA 00.014-0.00530.5030.0060.0060.0000.0000.0000.000
91A394GLU -1-0.897-0.95031.6950.0570.0570.0000.0000.0000.000
92A395LEU 0-0.063-0.02127.5870.0050.0050.0000.0000.0000.000
93A396LEU 0-0.029-0.00626.4330.0080.0080.0000.0000.0000.000
94A397SER 00.021-0.00127.1800.0040.0040.0000.0000.0000.000
95A398ASP -1-0.951-0.95926.0190.0780.0780.0000.0000.0000.000
96A399TYR 00.0440.01918.0240.0060.0060.0000.0000.0000.000
97A400ILE 0-0.045-0.02922.8020.0070.0070.0000.0000.0000.000
98A401ARG 10.9300.96224.136-0.055-0.0550.0000.0000.0000.000
99A402LEU 00.0210.02019.257-0.004-0.0040.0000.0000.0000.000
100A403LEU 0-0.023-0.02618.2370.0040.0040.0000.0000.0000.000
101A404ALA 00.0110.01119.857-0.001-0.0010.0000.0000.0000.000
102A405ILE 0-0.036-0.01220.214-0.010-0.0100.0000.0000.0000.000
103A406VAL 0-0.014-0.00615.685-0.010-0.0100.0000.0000.0000.000
104A407ARG 10.8720.93016.662-0.097-0.0970.0000.0000.0000.000
105A408ALA 00.0070.01918.310-0.016-0.0160.0000.0000.0000.000
106A409ALA 00.0260.02616.462-0.017-0.0170.0000.0000.0000.000
107A410PHE 0-0.025-0.03210.461-0.027-0.0270.0000.0000.0000.000
108A411ASP -1-0.877-0.91915.484-0.035-0.0350.0000.0000.0000.000
109A412GLN 00.019-0.01018.728-0.014-0.0140.0000.0000.0000.000
110A413ARG 10.8460.9349.5050.2930.2930.0000.0000.0000.000
111A414MET 00.0000.01513.805-0.037-0.0370.0000.0000.0000.000
112A415LYS 10.9110.93616.7530.0050.0050.0000.0000.0000.000
113A416THR 0-0.073-0.04118.231-0.002-0.0020.0000.0000.0000.000
114A417TRP 00.0190.01013.5540.0230.0230.0000.0000.0000.000
115A418GLN 00.0560.01017.277-0.015-0.0150.0000.0000.0000.000
116A419ARG 10.9100.98519.9770.0850.0850.0000.0000.0000.000
117A420TRP 0-0.012-0.00514.7030.0080.0080.0000.0000.0000.000
118A421GLN 00.0040.00416.7070.0090.0090.0000.0000.0000.000
119A422ASP -1-0.853-0.92120.458-0.100-0.1000.0000.0000.0000.000
120A423ALA 0-0.069-0.03723.9800.0090.0090.0000.0000.0000.000
121A424GLN 00.004-0.00718.4420.0090.0090.0000.0000.0000.000
122A425ALA 00.0290.01923.6810.0040.0040.0000.0000.0000.000
123A426THR 0-0.079-0.04225.3810.0120.0120.0000.0000.0000.000
124A427LEU 0-0.004-0.00125.3450.0060.0060.0000.0000.0000.000
125A428GLN 0-0.001-0.01025.3060.0120.0120.0000.0000.0000.000
126A429LYS 11.0131.01828.0030.0810.0810.0000.0000.0000.000
127A430LYS 10.7460.85231.0930.0810.0810.0000.0000.0000.000
128A431ARG 10.9150.95525.8330.1330.1330.0000.0000.0000.000
129A432GLU -1-0.931-0.95430.074-0.090-0.0900.0000.0000.0000.000
130A433ALA 0-0.051-0.03533.6540.0060.0060.0000.0000.0000.000
131A434GLU -1-0.898-0.94535.823-0.068-0.0680.0000.0000.0000.000
132A435ALA 0-0.008-0.00635.5020.0040.0040.0000.0000.0000.000
133A436ARG 10.8780.94836.6980.0660.0660.0000.0000.0000.000
134A437LEU 0-0.016-0.02840.1720.0030.0030.0000.0000.0000.000
135A438LEU 0-0.0140.00939.3670.0030.0030.0000.0000.0000.000
136A439TRP 00.0180.00641.9340.0030.0030.0000.0000.0000.000
137A440ALA 00.0010.00344.2620.0030.0030.0000.0000.0000.000
138A441ASN 0-0.048-0.02145.9920.0030.0030.0000.0000.0000.000
139A442LYS 10.9970.98747.3690.0390.0390.0000.0000.0000.000
140A443PRO 0-0.011-0.02946.305-0.001-0.0010.0000.0000.0000.000
141A444ASP -1-0.900-0.93046.656-0.040-0.0400.0000.0000.0000.000
142A445LYS 11.0070.99244.4350.0400.0400.0000.0000.0000.000
143A446LEU 0-0.0120.00341.156-0.002-0.0020.0000.0000.0000.000
144A447GLN 0-0.088-0.04441.441-0.001-0.0010.0000.0000.0000.000
145A448GLN 00.0280.01640.025-0.002-0.0020.0000.0000.0000.000
146A449ALA 00.011-0.00238.220-0.002-0.0020.0000.0000.0000.000
147A450LYS 10.9550.98936.8100.0530.0530.0000.0000.0000.000
148A451ASP -1-0.860-0.93636.471-0.061-0.0610.0000.0000.0000.000
149A452GLU -1-0.864-0.90035.423-0.065-0.0650.0000.0000.0000.000
150A453ILE 0-0.058-0.03431.523-0.005-0.0050.0000.0000.0000.000
151A454LEU 00.0330.02531.582-0.006-0.0060.0000.0000.0000.000
152A455GLU -1-0.864-0.92632.339-0.074-0.0740.0000.0000.0000.000
153A456TRP 0-0.041-0.04828.473-0.005-0.0050.0000.0000.0000.000
154A457GLU -1-0.785-0.89227.435-0.116-0.1160.0000.0000.0000.000
155A458SER 0-0.0170.00026.864-0.011-0.0110.0000.0000.0000.000
156A459ARG 10.8240.92427.5150.0710.0710.0000.0000.0000.000
157A460VAL 00.0230.00422.337-0.005-0.0050.0000.0000.0000.000
158A461THR 00.0070.00622.390-0.014-0.0140.0000.0000.0000.000
159A462GLN 0-0.048-0.01522.183-0.008-0.0080.0000.0000.0000.000
160A463TYR 0-0.008-0.02822.2500.0050.0050.0000.0000.0000.000
161A464GLU -1-0.845-0.90716.639-0.300-0.3000.0000.0000.0000.000
162A465ARG 10.9430.98517.6410.1190.1190.0000.0000.0000.000
163A466ASP -1-0.860-0.94518.638-0.100-0.1000.0000.0000.0000.000
164A467PHE 00.011-0.00711.7920.0300.0300.0000.0000.0000.000
165A468GLU -1-0.918-0.96013.856-0.318-0.3180.0000.0000.0000.000
166A469ARG 10.8200.90414.5130.1080.1080.0000.0000.0000.000
167A470ILE 00.0050.00915.6660.0200.0200.0000.0000.0000.000
168A471SER 00.0390.01810.7730.0290.0290.0000.0000.0000.000
169A472THR 0-0.065-0.02511.4670.0270.0270.0000.0000.0000.000
170A473VAL 0-0.009-0.01013.3370.0440.0440.0000.0000.0000.000
171A474VAL 00.0210.02210.9700.0300.0300.0000.0000.0000.000
172A475ARG 10.9720.9876.5220.5290.5290.0000.0000.0000.000
173A476LYS 10.9360.96910.8630.0030.0030.0000.0000.0000.000
174A477GLU -1-0.901-0.96914.3180.0870.0870.0000.0000.0000.000
175A478VAL 00.0000.0079.2200.0170.0170.0000.0000.0000.000
176A479ILE 00.0100.00311.8460.0220.0220.0000.0000.0000.000
177A480ARG 10.8700.93313.812-0.087-0.0870.0000.0000.0000.000
178A481PHE 00.0540.02012.512-0.013-0.0130.0000.0000.0000.000
179A482GLU -1-0.837-0.92010.6910.5820.5820.0000.0000.0000.000
180A483LYS 10.9230.95715.543-0.168-0.1680.0000.0000.0000.000
181A484GLU -1-0.858-0.94018.6980.1010.1010.0000.0000.0000.000
182A485LYS 10.9431.01414.357-0.379-0.3790.0000.0000.0000.000
183A486SER 0-0.069-0.04818.4910.0010.0010.0000.0000.0000.000
184A487LYS 10.8790.94220.031-0.133-0.1330.0000.0000.0000.000
185A488ASP -1-0.896-0.95322.9710.1330.1330.0000.0000.0000.000
186A489PHE 00.0290.01223.921-0.009-0.0090.0000.0000.0000.000
187A490LYS 10.9330.96922.206-0.178-0.1780.0000.0000.0000.000
188A491ASN 00.004-0.00527.000-0.015-0.0150.0000.0000.0000.000
189A492HIS 00.0170.02828.175-0.013-0.0130.0000.0000.0000.000
190A493VAL 00.0130.00530.995-0.007-0.0070.0000.0000.0000.000
191A494ILE 0-0.0170.00130.863-0.005-0.0050.0000.0000.0000.000
192A495LYS 10.9700.99130.432-0.104-0.1040.0000.0000.0000.000
193A496TYR 00.0180.00835.492-0.005-0.0050.0000.0000.0000.000
194A497LEU 00.022-0.00736.489-0.004-0.0040.0000.0000.0000.000
195A498GLU -1-0.953-0.97137.4070.0670.0670.0000.0000.0000.000
196A499THR 0-0.036-0.00439.548-0.004-0.0040.0000.0000.0000.000
197A500LEU 00.0070.00841.474-0.004-0.0040.0000.0000.0000.000
198A501LEU 0-0.008-0.00842.643-0.003-0.0030.0000.0000.0000.000
199A502TYR 00.0040.00244.235-0.003-0.0030.0000.0000.0000.000
200A503SER 00.0130.00145.937-0.003-0.0030.0000.0000.0000.000
201A504GLN 0-0.030-0.01947.078-0.002-0.0020.0000.0000.0000.000
202A505GLN 0-0.030-0.01846.755-0.001-0.0010.0000.0000.0000.000
203A506GLN 0-0.026-0.02250.028-0.001-0.0010.0000.0000.0000.000
204A507LEU 00.0170.02452.050-0.002-0.0020.0000.0000.0000.000
205A508ALA 0-0.017-0.01353.351-0.002-0.0020.0000.0000.0000.000
206A509LYS 10.9490.97351.139-0.038-0.0380.0000.0000.0000.000
207A510TYR 0-0.036-0.00656.357-0.001-0.0010.0000.0000.0000.000
208A511TRP 00.009-0.01657.949-0.001-0.0010.0000.0000.0000.000
209A512GLU -1-0.997-0.97958.4690.0270.0270.0000.0000.0000.000
210A513ALA 0-0.082-0.04361.709-0.001-0.0010.0000.0000.0000.000
211A514NME 0-0.0050.01763.7540.0000.0000.0000.0000.0000.000