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: ZYRRN

Calculation Name: 3AQ2-A-Xray317

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 3AQ2

Chain ID: A

ChEMBL ID:

UniProt ID: Q44522

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 194
LigandCharge
Software ABINIT-MP - Open Ver.1 Rev. 15 / 20190524
Total energy (hartree)
FMO2-HF: Electronic energy -2269793.511727
FMO2-HF: Nuclear repulsion 2192311.80775
FMO2-HF: Total energy -77481.703977
FMO2-MP2: Total energy -77707.621262


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:0:ACE )


Summations of interaction energy for fragment #1(A:0: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.
-1.0390.5231.825-1.923-1.464-0.015
Interaction energy analysis for fragmet #1(A:0:ACE )
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.008 / q_NPA : 0.001
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].
3A2THR 00.0520.0343.8771.2271.817-0.004-0.292-0.2940.000
4A3VAL 00.1040.0467.081-0.009-0.0090.0000.0000.0000.000
5A4PRO 0-0.055-0.0329.4810.0460.0460.0000.0000.0000.000
6A5THR 0-0.050-0.0267.4550.0190.0190.0000.0000.0000.000
7A6TRP 0-0.056-0.0159.2210.0750.0750.0000.0000.0000.000
8A7GLN 0-0.011-0.00210.6390.0890.0890.0000.0000.0000.000
9A8VAL 00.0210.02214.1430.0270.0270.0000.0000.0000.000
10A9ARG 10.8390.91311.8910.1740.1740.0000.0000.0000.000
11A10ASP -1-0.764-0.86817.722-0.053-0.0530.0000.0000.0000.000
12A11LEU 0-0.035-0.02419.7810.0040.0040.0000.0000.0000.000
13A12ARG 10.7960.86623.2380.0680.0680.0000.0000.0000.000
14A13ARG 10.9280.96726.3820.0480.0480.0000.0000.0000.000
15A14ILE 0-0.0230.00824.0380.0020.0020.0000.0000.0000.000
16A15LEU 00.0460.01027.2460.0030.0030.0000.0000.0000.000
17A16ARG 10.9050.95829.8360.0010.0010.0000.0000.0000.000
18A17VAL 00.0480.02128.7740.0010.0010.0000.0000.0000.000
19A18SER 0-0.024-0.02327.7410.0020.0020.0000.0000.0000.000
20A19GLU -1-0.851-0.91426.270-0.003-0.0030.0000.0000.0000.000
21A20LEU 00.0380.02323.7250.0010.0010.0000.0000.0000.000
22A21SER 0-0.021-0.00722.9650.0050.0050.0000.0000.0000.000
23A22GLN 0-0.028-0.02021.8600.0050.0050.0000.0000.0000.000
24A23HIS 00.0340.01019.9290.0010.0010.0000.0000.0000.000
25A24LEU 0-0.022-0.00118.312-0.002-0.0020.0000.0000.0000.000
26A25ARG 10.9410.97717.291-0.091-0.0910.0000.0000.0000.000
27A26GLN 0-0.033-0.02713.8130.0340.0340.0000.0000.0000.000
28A27ALA 00.0330.02313.8540.0030.0030.0000.0000.0000.000
29A28ARG 10.8660.91912.554-0.256-0.2560.0000.0000.0000.000
30A29THR 0-0.047-0.02611.4310.0590.0590.0000.0000.0000.000
31A30ASP -1-0.806-0.8929.7120.0830.0830.0000.0000.0000.000
32A31PHE 00.0120.0067.997-0.058-0.0580.0000.0000.0000.000
33A32ARG 10.8590.9296.892-0.926-0.9260.0000.0000.0000.000
34A33SER 0-0.087-0.0555.8580.4380.4380.0000.0000.0000.000
35A34THR 0-0.058-0.0263.6800.1210.4970.006-0.103-0.2790.000
36A35LEU 0-0.0180.0002.554-2.276-1.9201.795-1.424-0.726-0.015
37A36SER 00.0180.0183.2160.1020.3400.028-0.094-0.1720.000
38A37GLN 00.0510.0204.933-0.250-0.2480.000-0.0100.0070.000
39A38LEU 0-0.0240.0017.179-0.218-0.2180.0000.0000.0000.000
40A39VAL 0-0.0140.0006.7000.0460.0460.0000.0000.0000.000
41A40TYR 00.0770.0548.471-0.041-0.0410.0000.0000.0000.000
42A41PHE 0-0.033-0.0439.542-0.096-0.0960.0000.0000.0000.000
43A42ASN 0-0.018-0.00612.072-0.059-0.0590.0000.0000.0000.000
44A43ARG 10.8690.94811.3130.3100.3100.0000.0000.0000.000
45A44SER 00.000-0.02216.8660.0120.0120.0000.0000.0000.000
46A45VAL 0-0.044-0.03719.578-0.012-0.0120.0000.0000.0000.000
47A46VAL 0-0.032-0.00422.7080.0020.0020.0000.0000.0000.000
48A47ASN 00.020-0.00720.542-0.013-0.0130.0000.0000.0000.000
49A48PRO 00.0530.02819.444-0.008-0.0080.0000.0000.0000.000
50A49ASN 0-0.054-0.02817.416-0.036-0.0360.0000.0000.0000.000
51A50GLU -1-0.991-0.98715.170-0.079-0.0790.0000.0000.0000.000
52A51TYR 0-0.088-0.0558.640-0.049-0.0490.0000.0000.0000.000
53A52ASP -1-0.773-0.88214.855-0.022-0.0220.0000.0000.0000.000
54A53ASP -1-0.804-0.90315.8930.0340.0340.0000.0000.0000.000
55A54GLU -1-0.822-0.85916.4850.0330.0330.0000.0000.0000.000
56A55TYR 0-0.025-0.03011.982-0.010-0.0100.0000.0000.0000.000
57A56LEU 0-0.041-0.03111.1760.0030.0030.0000.0000.0000.000
58A57LEU 00.0060.02511.3700.0760.0760.0000.0000.0000.000
59A58SER 0-0.004-0.0348.590-0.047-0.0470.0000.0000.0000.000
60A59ASP -1-0.874-0.92511.7960.5380.5380.0000.0000.0000.000
61A60GLN 0-0.043-0.02013.695-0.055-0.0550.0000.0000.0000.000
62A61ARG 10.9260.95915.832-0.096-0.0960.0000.0000.0000.000
63A62LEU 00.0140.00915.5840.0020.0020.0000.0000.0000.000
64A63THR 0-0.030-0.02118.651-0.001-0.0010.0000.0000.0000.000
65A64TYR 0-0.012-0.01420.925-0.004-0.0040.0000.0000.0000.000
66A65VAL 00.0620.03122.9280.0030.0030.0000.0000.0000.000
67A66TYR 0-0.034-0.02925.163-0.008-0.0080.0000.0000.0000.000
68A67VAL 00.0160.03526.572-0.001-0.0010.0000.0000.0000.000
69A68ASP -1-0.716-0.83929.333-0.028-0.0280.0000.0000.0000.000
70A69GLU -1-0.918-0.97929.729-0.041-0.0410.0000.0000.0000.000
71A70VAL 00.0000.00429.309-0.006-0.0060.0000.0000.0000.000
72A71THR 00.001-0.03427.303-0.008-0.0080.0000.0000.0000.000
73A72ALA 0-0.0060.00125.570-0.006-0.0060.0000.0000.0000.000
74A73GLN 00.0150.02724.448-0.005-0.0050.0000.0000.0000.000
75A74LEU 00.0100.00624.678-0.011-0.0110.0000.0000.0000.000
76A75CYS 00.0060.00422.714-0.009-0.0090.0000.0000.0000.000
77A76GLY 00.017-0.00120.330-0.011-0.0110.0000.0000.0000.000
78A77LEU 0-0.078-0.04819.491-0.018-0.0180.0000.0000.0000.000
79A78ASN 0-0.070-0.03320.620-0.024-0.0240.0000.0000.0000.000
80A79ARG 10.8540.95813.9100.2490.2490.0000.0000.0000.000
81A80LEU 00.0490.02118.4140.0020.0020.0000.0000.0000.000
82A81LEU 0-0.008-0.00720.3430.0060.0060.0000.0000.0000.000
83A82PRO 00.0220.01322.362-0.001-0.0010.0000.0000.0000.000
84A83SER 0-0.038-0.01726.0480.0050.0050.0000.0000.0000.000
85A84ASN 0-0.030-0.03428.226-0.002-0.0020.0000.0000.0000.000
86A85SER 00.0540.01730.6950.0020.0020.0000.0000.0000.000
87A86PRO 00.0070.01732.147-0.003-0.0030.0000.0000.0000.000
88A87ALA 0-0.003-0.00932.8400.0020.0020.0000.0000.0000.000
89A88PHE 0-0.008-0.00828.3020.0020.0020.0000.0000.0000.000
90A89GLY 00.0380.03727.7330.0010.0010.0000.0000.0000.000
91A90THR 0-0.036-0.03324.044-0.004-0.0040.0000.0000.0000.000
92A91VAL 0-0.044-0.02225.8910.0070.0070.0000.0000.0000.000
93A92ALA 0-0.0010.00323.529-0.005-0.0050.0000.0000.0000.000
94A93THR 00.0210.01625.4840.0070.0070.0000.0000.0000.000
95A94ALA 00.001-0.01124.4050.0010.0010.0000.0000.0000.000
96A95MET 0-0.055-0.01125.4360.0000.0000.0000.0000.0000.000
97A96PRO 00.0120.02525.640-0.004-0.0040.0000.0000.0000.000
98A97PRO 00.0460.01025.429-0.002-0.0020.0000.0000.0000.000
99A98TRP 00.0000.00524.298-0.003-0.0030.0000.0000.0000.000
100A99LEU 0-0.111-0.04330.5800.0010.0010.0000.0000.0000.000
101A100LEU 00.021-0.00832.2200.0010.0010.0000.0000.0000.000
102A101ASP -1-0.804-0.88834.2000.0010.0010.0000.0000.0000.000
103A102PRO 00.0280.00133.9220.0010.0010.0000.0000.0000.000
104A103GLN 0-0.015-0.01635.656-0.002-0.0020.0000.0000.0000.000
105A104GLU -1-0.887-0.94037.7770.0120.0120.0000.0000.0000.000
106A105MET 0-0.026-0.01931.3550.0020.0020.0000.0000.0000.000
107A106ASN 0-0.023-0.01835.2760.0010.0010.0000.0000.0000.000
108A107ALA 00.0400.02836.7900.0000.0000.0000.0000.0000.000
109A108ILE 0-0.012-0.00934.6010.0010.0010.0000.0000.0000.000
110A109LEU 0-0.027-0.01930.9190.0010.0010.0000.0000.0000.000
111A110GLN 0-0.046-0.01834.8710.0000.0000.0000.0000.0000.000
112A111GLN 0-0.0100.00738.072-0.001-0.0010.0000.0000.0000.000
113A112SER 0-0.079-0.03333.2180.0030.0030.0000.0000.0000.000
114A113CYS 0-0.0290.02431.7050.0020.0020.0000.0000.0000.000
115A114GLY 00.0470.03934.722-0.001-0.0010.0000.0000.0000.000
116A115GLN 00.002-0.00736.073-0.003-0.0030.0000.0000.0000.000
117A116GLY 0-0.009-0.02136.9290.0010.0010.0000.0000.0000.000
118A117GLY 00.0040.02832.595-0.001-0.0010.0000.0000.0000.000
119A118PHE 0-0.037-0.02529.800-0.002-0.0020.0000.0000.0000.000
120A119VAL 0-0.027-0.00229.488-0.001-0.0010.0000.0000.0000.000
121A120ASN 00.022-0.01232.2820.0050.0050.0000.0000.0000.000
122A121TYR 00.014-0.05129.5360.0010.0010.0000.0000.0000.000
123A122HIS 0-0.013-0.02036.2240.0000.0000.0000.0000.0000.000
124A123HIS 0-0.038-0.00238.5460.0000.0000.0000.0000.0000.000
125A124GLY 00.0220.02939.412-0.001-0.0010.0000.0000.0000.000
126A125PRO 00.0260.00237.249-0.001-0.0010.0000.0000.0000.000
127A126SER 0-0.0290.00436.0270.0000.0000.0000.0000.0000.000
128A127THR 0-0.022-0.03134.352-0.002-0.0020.0000.0000.0000.000
129A128ASN 0-0.008-0.01231.535-0.001-0.0010.0000.0000.0000.000
130A129GLY 00.0250.01931.8930.0020.0020.0000.0000.0000.000
131A130PHE 0-0.024-0.01327.834-0.001-0.0010.0000.0000.0000.000
132A131PHE 00.0210.00522.1350.0050.0050.0000.0000.0000.000
133A132LEU 00.0310.02021.320-0.008-0.0080.0000.0000.0000.000
134A133ALA 0-0.024-0.01619.1060.0120.0120.0000.0000.0000.000
135A134ILE 00.0240.00416.912-0.014-0.0140.0000.0000.0000.000
136A135LEU 0-0.019-0.00112.0800.0240.0240.0000.0000.0000.000
137A136MET 0-0.0110.03015.802-0.022-0.0220.0000.0000.0000.000
138A137SER 00.036-0.01115.7860.0320.0320.0000.0000.0000.000
139A138GLN 00.008-0.00916.7920.0000.0000.0000.0000.0000.000
140A139LEU 0-0.042-0.01018.663-0.005-0.0050.0000.0000.0000.000
141A140PHE 0-0.058-0.02819.679-0.012-0.0120.0000.0000.0000.000
142A141ILE 00.0620.04322.5980.0120.0120.0000.0000.0000.000
143A142ARG 10.8590.90025.439-0.073-0.0730.0000.0000.0000.000
144A143ILE 0-0.0010.00427.286-0.002-0.0020.0000.0000.0000.000
145A144ARG 10.8100.87930.493-0.030-0.0300.0000.0000.0000.000
146A145THR 0-0.045-0.03130.7370.0060.0060.0000.0000.0000.000
147A146ASP -1-0.761-0.83032.4910.0270.0270.0000.0000.0000.000
148A147VAL 0-0.002-0.01933.3280.0040.0040.0000.0000.0000.000
149A148ILE 00.0320.01734.366-0.003-0.0030.0000.0000.0000.000
150A149ARG 10.8610.91833.743-0.024-0.0240.0000.0000.0000.000
151A150GLY 00.0160.00936.4990.0020.0020.0000.0000.0000.000
152A151GLN 0-0.0220.00431.5240.0060.0060.0000.0000.0000.000
153A152GLY 00.0210.01831.875-0.004-0.0040.0000.0000.0000.000
154A153TYR 0-0.048-0.03828.0230.0060.0060.0000.0000.0000.000
155A154GLY 00.0010.00227.342-0.003-0.0030.0000.0000.0000.000
156A155TRP 00.006-0.00227.751-0.003-0.0030.0000.0000.0000.000
157A156TYR 00.027-0.00824.0040.0080.0080.0000.0000.0000.000
158A157ALA 00.0340.01826.366-0.007-0.0070.0000.0000.0000.000
159A158ARG 10.8100.90420.5320.0080.0080.0000.0000.0000.000
160A159GLN 00.0480.00724.829-0.011-0.0110.0000.0000.0000.000
161A160GLY 00.0720.02127.5810.0030.0030.0000.0000.0000.000
162A161ASN 0-0.112-0.04930.9840.0010.0010.0000.0000.0000.000
163A162TYR 0-0.015-0.01630.491-0.001-0.0010.0000.0000.0000.000
164A163VAL 0-0.004-0.00532.0060.0010.0010.0000.0000.0000.000
165A164GLU -1-0.957-0.96927.4300.0660.0660.0000.0000.0000.000
166A165GLU -1-0.813-0.91130.6280.0520.0520.0000.0000.0000.000
167A166GLY 0-0.064-0.02932.1110.0030.0030.0000.0000.0000.000
168A167NME 0-0.036-0.01133.887-0.001-0.0010.0000.0000.0000.000
169A179ACE 0-0.018-0.02232.3010.0000.0000.0000.0000.0000.000
170A180GLU -1-0.785-0.88925.4570.0380.0380.0000.0000.0000.000
171A181THR 0-0.031-0.01725.957-0.003-0.0030.0000.0000.0000.000
172A182ARG 10.7880.89121.071-0.053-0.0530.0000.0000.0000.000
173A183GLU -1-0.772-0.85221.230-0.047-0.0470.0000.0000.0000.000
174A184PHE 0-0.014-0.01320.4690.0020.0020.0000.0000.0000.000
175A185GLN 0-0.0120.00119.079-0.007-0.0070.0000.0000.0000.000
176A186LEU 00.0300.01123.0880.0070.0070.0000.0000.0000.000
177A187SER 00.0200.00426.006-0.002-0.0020.0000.0000.0000.000
178A188ASP -1-0.810-0.88327.171-0.017-0.0170.0000.0000.0000.000
179A189LEU 0-0.045-0.01625.5430.0000.0000.0000.0000.0000.000
180A190ILE 0-0.0450.00220.704-0.004-0.0040.0000.0000.0000.000
181A191HIS 00.0030.00214.817-0.024-0.0240.0000.0000.0000.000
182A192TYR 00.003-0.03416.5870.0140.0140.0000.0000.0000.000
183A193PRO 0-0.017-0.00912.350-0.022-0.0220.0000.0000.0000.000
184A194ILE 0-0.0030.01814.6650.0340.0340.0000.0000.0000.000
185A195VAL 0-0.028-0.00713.202-0.025-0.0250.0000.0000.0000.000
186A196ALA 0-0.001-0.02315.071-0.020-0.0200.0000.0000.0000.000
187A197LEU 00.0020.02518.3090.0070.0070.0000.0000.0000.000
188A198GLY 00.020-0.00121.967-0.002-0.0020.0000.0000.0000.000
189A199SER 00.0270.01925.0650.0010.0010.0000.0000.0000.000
190A200CYS 0-0.008-0.01128.5690.0040.0040.0000.0000.0000.000
191A201HIS 0-0.032-0.00230.7680.0040.0040.0000.0000.0000.000
192A202LEU 0-0.034-0.01428.816-0.001-0.0010.0000.0000.0000.000
193A203THR 0-0.012-0.00732.8410.0010.0010.0000.0000.0000.000
194A204ARG 00.0450.02133.011-0.008-0.0080.0000.0000.0000.000