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: N21NQ

Calculation Name: 2WCS-A-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 2WCS

Chain ID: A

ChEMBL ID:

UniProt ID: B2IUW9

Base Structure: X-ray

Registration Date: 2023-09-26

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 OptH
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 486
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -9899184.609147
FMO2-HF: Nuclear repulsion 9707317.361624
FMO2-HF: Total energy -191867.247523
FMO2-MP2: Total energy -192438.652719


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:1:MET)


Summations of interaction energy for fragment #1(A:1:MET)
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.
-1.914-0.555-0.011-0.557-0.790.003
Interaction energy analysis for fragmet #1(A:1:MET)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : -0.041 / q_NPA : -0.038
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].
3A3ILE00.0130.0063.802-1.759-0.400-0.011-0.557-0.7900.003
4A4GLN0-0.023-0.0045.7240.8290.8290.0000.0000.0000.000
5A5THR0-0.032-0.0208.3320.0020.0020.0000.0000.0000.000
6A6PRO00.0300.00411.6070.0480.0480.0000.0000.0000.000
7A7ASP-1-0.777-0.88514.391-0.130-0.1300.0000.0000.0000.000
8A8TRP0-0.092-0.07316.3900.0330.0330.0000.0000.0000.000
9A9VAL00.0130.01117.3660.0160.0160.0000.0000.0000.000
10A10LYS10.7910.91113.3020.2700.2700.0000.0000.0000.000
11A11HIS0-0.039-0.00719.3830.0220.0220.0000.0000.0000.000
12A12ALA0-0.023-0.00322.6960.0100.0100.0000.0000.0000.000
13A13VAL0-0.027-0.01024.4760.0000.0000.0000.0000.0000.000
14A14PHE00.005-0.01521.5010.0010.0010.0000.0000.0000.000
15A15TYR0-0.027-0.03527.3750.0050.0050.0000.0000.0000.000
16A16GLN00.0410.03229.611-0.002-0.0020.0000.0000.0000.000
17A17ILE00.004-0.00130.7440.0050.0050.0000.0000.0000.000
18A18PHE00.0320.01132.948-0.002-0.0020.0000.0000.0000.000
19A19PRO00.0560.02733.8670.0040.0040.0000.0000.0000.000
20A20ASP-1-0.750-0.87136.694-0.039-0.0390.0000.0000.0000.000
21A21ARG10.7320.85839.2250.0380.0380.0000.0000.0000.000
22A22PHE00.0450.04437.7340.0010.0010.0000.0000.0000.000
23A23ALA00.0880.03140.0380.0020.0020.0000.0000.0000.000
24A24ARG10.8990.96941.8140.0250.0250.0000.0000.0000.000
25A25SER0-0.036-0.00643.7850.0020.0020.0000.0000.0000.000
26A26LYS10.8800.95045.2900.0280.0280.0000.0000.0000.000
27A27GLN00.0200.01046.1820.0010.0010.0000.0000.0000.000
28A28PRO0-0.0020.00748.860-0.001-0.0010.0000.0000.0000.000
29A29ARG10.9250.94843.7680.0310.0310.0000.0000.0000.000
30A30LYS10.8470.95347.4760.0250.0250.0000.0000.0000.000
31A31ARG10.8610.93944.3790.0310.0310.0000.0000.0000.000
32A32LEU00.0490.02244.327-0.001-0.0010.0000.0000.0000.000
33A33LEU0-0.002-0.01246.029-0.001-0.0010.0000.0000.0000.000
34A34GLN00.0340.00743.2340.0000.0000.0000.0000.0000.000
35A35GLU-1-0.916-0.95846.851-0.029-0.0290.0000.0000.0000.000
36A36ALA0-0.0080.00450.0260.0010.0010.0000.0000.0000.000
37A37ARG10.9380.97053.0380.0200.0200.0000.0000.0000.000
38A38TRP00.018-0.01651.2860.0000.0000.0000.0000.0000.000
39A39GLU-1-0.957-0.97156.762-0.018-0.0180.0000.0000.0000.000
40A40ASP-1-0.841-0.93357.792-0.019-0.0190.0000.0000.0000.000
41A41TRP0-0.012-0.00349.885-0.001-0.0010.0000.0000.0000.000
42A42ASP-1-0.906-0.94956.608-0.019-0.0190.0000.0000.0000.000
43A43SER0-0.061-0.03158.9910.0010.0010.0000.0000.0000.000
44A44MET0-0.081-0.02253.985-0.001-0.0010.0000.0000.0000.000
45A45PRO00.0510.02154.690-0.001-0.0010.0000.0000.0000.000
46A46THR0-0.009-0.01149.5760.0000.0000.0000.0000.0000.000
47A47LEU0-0.048-0.00548.719-0.001-0.0010.0000.0000.0000.000
48A48GLN0-0.014-0.00350.832-0.001-0.0010.0000.0000.0000.000
49A49GLY00.0070.00652.9920.0000.0000.0000.0000.0000.000
50A50TYR0-0.031-0.01242.6540.0010.0010.0000.0000.0000.000
51A51LYS10.9130.94947.4530.0280.0280.0000.0000.0000.000
52A52GLY0-0.067-0.04944.3640.0000.0000.0000.0000.0000.000
53A53GLY0-0.0080.00441.4150.0010.0010.0000.0000.0000.000
54A54ASP-1-0.783-0.91939.911-0.035-0.0350.0000.0000.0000.000
55A55LEU00.0120.00634.5600.0000.0000.0000.0000.0000.000
56A56TRP0-0.0150.00237.7210.0000.0000.0000.0000.0000.000
57A57GLY00.0120.00640.6270.0010.0010.0000.0000.0000.000
58A58ILE0-0.022-0.00534.6270.0000.0000.0000.0000.0000.000
59A59MET0-0.022-0.01837.0380.0000.0000.0000.0000.0000.000
60A60GLU-1-0.840-0.94537.969-0.030-0.0300.0000.0000.0000.000
61A61ASP-1-0.908-0.94939.894-0.031-0.0310.0000.0000.0000.000
62A62LEU0-0.027-0.02434.251-0.001-0.0010.0000.0000.0000.000
63A63ASP-1-0.858-0.90437.188-0.030-0.0300.0000.0000.0000.000
64A64TYR0-0.079-0.05838.8460.0010.0010.0000.0000.0000.000
65A65ILE00.009-0.00133.6280.0000.0000.0000.0000.0000.000
66A66GLN00.0580.02733.0040.0010.0010.0000.0000.0000.000
67A67ASN0-0.049-0.01935.4900.0020.0020.0000.0000.0000.000
68A68LEU0-0.035-0.00735.3350.0020.0020.0000.0000.0000.000
69A69GLY00.0300.02133.9870.0010.0010.0000.0000.0000.000
70A70ILE0-0.076-0.02230.305-0.003-0.0030.0000.0000.0000.000
71A71ASN00.001-0.00626.351-0.004-0.0040.0000.0000.0000.000
72A72ALA00.0300.01925.292-0.004-0.0040.0000.0000.0000.000
73A73ILE0-0.0070.01627.3110.0010.0010.0000.0000.0000.000
74A74TYR00.0130.00925.765-0.005-0.0050.0000.0000.0000.000
75A75PHE00.0060.00627.6810.0050.0050.0000.0000.0000.000
76A76THR00.0290.01028.692-0.003-0.0030.0000.0000.0000.000
77A77PRO0-0.0150.00329.994-0.001-0.0010.0000.0000.0000.000
78A78ILE00.002-0.00630.6360.0040.0040.0000.0000.0000.000
79A79PHE00.0170.01427.2720.0020.0020.0000.0000.0000.000
80A80GLN00.0200.01733.0150.0020.0020.0000.0000.0000.000
81A81SER00.0520.03835.7560.0000.0000.0000.0000.0000.000
82A82ALA00.0320.02137.7150.0010.0010.0000.0000.0000.000
83A83SER00.0530.00740.186-0.001-0.0010.0000.0000.0000.000
84A84ASN0-0.0090.00140.4950.0010.0010.0000.0000.0000.000
85A85HIS10.8480.91138.7100.0370.0370.0000.0000.0000.000
86A86ARG10.8240.90834.6800.0430.0430.0000.0000.0000.000
87A87TYR00.1200.06129.7510.0000.0000.0000.0000.0000.000
88A88HIS0-0.086-0.03433.136-0.001-0.0010.0000.0000.0000.000
89A89THR0-0.026-0.01430.8020.0020.0020.0000.0000.0000.000
90A90HIS0-0.0560.00233.8150.0030.0030.0000.0000.0000.000
91A91ASP-1-0.825-0.94133.482-0.053-0.0530.0000.0000.0000.000
92A92TYR0-0.015-0.03528.2780.0010.0010.0000.0000.0000.000
93A93TYR0-0.0070.01226.449-0.005-0.0050.0000.0000.0000.000
94A94GLN0-0.060-0.02931.1870.0030.0030.0000.0000.0000.000
95A95VAL00.0190.02132.514-0.001-0.0010.0000.0000.0000.000
96A96ASP-1-0.803-0.91434.593-0.039-0.0390.0000.0000.0000.000
97A97PRO00.0710.01837.6420.0000.0000.0000.0000.0000.000
98A98MET0-0.082-0.03440.8610.0020.0020.0000.0000.0000.000
99A99LEU0-0.033-0.01235.9350.0010.0010.0000.0000.0000.000
100A100GLY00.012-0.00739.2790.0000.0000.0000.0000.0000.000
101A101GLY00.0180.00337.3440.0000.0000.0000.0000.0000.000
102A102ASN00.0480.00433.436-0.002-0.0020.0000.0000.0000.000
103A103GLU-1-0.920-0.95135.278-0.039-0.0390.0000.0000.0000.000
104A104ALA00.0810.05337.7010.0000.0000.0000.0000.0000.000
105A105PHE00.005-0.01928.464-0.001-0.0010.0000.0000.0000.000
106A106LYS10.8580.94230.9320.0580.0580.0000.0000.0000.000
107A107GLU-1-0.875-0.94633.772-0.039-0.0390.0000.0000.0000.000
108A108LEU0-0.0010.00732.9040.0010.0010.0000.0000.0000.000
109A109LEU0-0.015-0.00927.378-0.001-0.0010.0000.0000.0000.000
110A110ASP-1-0.871-0.93331.055-0.056-0.0560.0000.0000.0000.000
111A111ALA0-0.009-0.00532.8130.0010.0010.0000.0000.0000.000
112A112ALA0-0.012-0.01730.7690.0020.0020.0000.0000.0000.000
113A113HIS10.8280.88126.0130.0790.0790.0000.0000.0000.000
114A114GLN0-0.0340.01030.0480.0020.0020.0000.0000.0000.000
115A115ARG10.8050.88932.7480.0390.0390.0000.0000.0000.000
116A116ASN0-0.084-0.04726.615-0.001-0.0010.0000.0000.0000.000
117A117ILE0-0.049-0.02728.324-0.002-0.0020.0000.0000.0000.000
118A118LYS10.8730.94521.9080.0970.0970.0000.0000.0000.000
119A119VAL00.043-0.00425.3020.0060.0060.0000.0000.0000.000
120A120VAL0-0.045-0.00321.914-0.006-0.0060.0000.0000.0000.000
121A121LEU0-0.025-0.02224.0790.0100.0100.0000.0000.0000.000
122A122ASP-1-0.804-0.91824.199-0.088-0.0880.0000.0000.0000.000
123A123GLY0-0.009-0.00924.0080.0040.0040.0000.0000.0000.000
124A124VAL0-0.0020.00324.810-0.001-0.0010.0000.0000.0000.000
125A125PHE00.0480.02621.4340.0030.0030.0000.0000.0000.000
126A126ASN00.0240.03425.6910.0010.0010.0000.0000.0000.000
127A127HIS00.0850.01326.8540.0040.0040.0000.0000.0000.000
128A128SER0-0.0120.02330.363-0.001-0.0010.0000.0000.0000.000
129A129SER0-0.017-0.05732.7370.0030.0030.0000.0000.0000.000
130A130ARG10.8540.90436.4910.0320.0320.0000.0000.0000.000
131A131GLY00.0100.00239.1630.0010.0010.0000.0000.0000.000
132A132PHE00.0240.03430.2350.0000.0000.0000.0000.0000.000
133A133PHE00.0350.01734.3430.0010.0010.0000.0000.0000.000
134A134PHE00.0620.02131.5560.0020.0020.0000.0000.0000.000
135A135PHE00.0050.02134.8480.0020.0020.0000.0000.0000.000
136A136HIS00.0260.01036.3220.0020.0020.0000.0000.0000.000
137A137ASP-1-0.789-0.87837.389-0.034-0.0340.0000.0000.0000.000
138A138VAL00.021-0.00335.8830.0020.0020.0000.0000.0000.000
139A139LEU0-0.139-0.07739.1110.0020.0020.0000.0000.0000.000
140A140GLU-1-0.969-0.98042.057-0.028-0.0280.0000.0000.0000.000
141A141ASN0-0.065-0.02141.0530.0020.0020.0000.0000.0000.000
142A142GLY0-0.036-0.01442.6430.0010.0010.0000.0000.0000.000
143A143PRO0-0.066-0.05741.076-0.001-0.0010.0000.0000.0000.000
144A144HIS0-0.026-0.01340.463-0.001-0.0010.0000.0000.0000.000
145A145SER0-0.058-0.02938.163-0.001-0.0010.0000.0000.0000.000
146A146PRO0-0.005-0.00935.4920.0000.0000.0000.0000.0000.000
147A147TRP00.0050.01131.194-0.001-0.0010.0000.0000.0000.000
148A148VAL00.0550.02633.443-0.001-0.0010.0000.0000.0000.000
149A149ASN0-0.046-0.02729.0020.0010.0010.0000.0000.0000.000
150A150TRP00.0010.00127.883-0.002-0.0020.0000.0000.0000.000
151A151PHE0-0.021-0.01429.730-0.002-0.0020.0000.0000.0000.000
152A152LYS10.8670.93827.7680.0470.0470.0000.0000.0000.000
153A153ILE0-0.045-0.02233.0390.0010.0010.0000.0000.0000.000
154A154GLU-1-0.931-0.95536.472-0.027-0.0270.0000.0000.0000.000
155A155GLY00.028-0.00538.7300.0010.0010.0000.0000.0000.000
156A156TRP0-0.0040.00339.1680.0000.0000.0000.0000.0000.000
157A157PRO0-0.001-0.01844.4860.0010.0010.0000.0000.0000.000
158A158LEU00.0160.02040.2470.0000.0000.0000.0000.0000.000
159A159SER00.026-0.00744.3860.0010.0010.0000.0000.0000.000
160A160PRO00.0330.02142.3660.0000.0000.0000.0000.0000.000
161A161TYR00.001-0.01743.670-0.001-0.0010.0000.0000.0000.000
162A162ASN0-0.0220.01146.7130.0000.0000.0000.0000.0000.000
163A163GLY00.058-0.00247.6810.0000.0000.0000.0000.0000.000
164A164GLU-1-0.949-0.96648.669-0.019-0.0190.0000.0000.0000.000
165A165PHE0-0.028-0.00949.1340.0010.0010.0000.0000.0000.000
166A166PRO00.1290.05945.153-0.001-0.0010.0000.0000.0000.000
167A167ALA0-0.091-0.03141.6560.0000.0000.0000.0000.0000.000
168A168ASN0-0.068-0.00241.5040.0000.0000.0000.0000.0000.000
169A169TYR00.038-0.00736.7640.0000.0000.0000.0000.0000.000
170A170VAL00.0600.03733.1410.0010.0010.0000.0000.0000.000
171A171GLY0-0.003-0.00934.907-0.002-0.0020.0000.0000.0000.000
172A172TRP00.0320.00829.3920.0010.0010.0000.0000.0000.000
173A173ALA0-0.018-0.01333.6710.0010.0010.0000.0000.0000.000
174A174GLY00.0090.01235.4140.0020.0020.0000.0000.0000.000
175A175ASN00.0160.01437.4270.0020.0020.0000.0000.0000.000
176A176ARG10.8050.92738.1350.0260.0260.0000.0000.0000.000
177A177ALA0-0.049-0.04339.4030.0000.0000.0000.0000.0000.000
178A178LEU0-0.029-0.00633.845-0.001-0.0010.0000.0000.0000.000
179A179PRO0-0.0460.00534.4020.0000.0000.0000.0000.0000.000
180A180GLU-1-0.795-0.91530.345-0.047-0.0470.0000.0000.0000.000
181A181PHE0-0.0040.01127.0820.0020.0020.0000.0000.0000.000
182A182ASN0-0.031-0.01427.2030.0010.0010.0000.0000.0000.000
183A183HIS0-0.045-0.04622.1750.0020.0020.0000.0000.0000.000
184A184ASP-1-0.868-0.91721.947-0.044-0.0440.0000.0000.0000.000
185A185ASN0-0.084-0.04622.123-0.004-0.0040.0000.0000.0000.000
186A186PRO00.0240.00120.562-0.003-0.0030.0000.0000.0000.000
187A187GLU-1-0.868-0.92321.559-0.060-0.0600.0000.0000.0000.000
188A188VAL0-0.030-0.00424.114-0.003-0.0030.0000.0000.0000.000
189A189ARG10.8760.94015.0160.0700.0700.0000.0000.0000.000
190A190GLU-1-0.821-0.90718.718-0.120-0.1200.0000.0000.0000.000
191A191TYR00.0540.03321.108-0.003-0.0030.0000.0000.0000.000
192A192ILE0-0.013-0.01221.021-0.002-0.0020.0000.0000.0000.000
193A193MET0-0.0290.03015.077-0.003-0.0030.0000.0000.0000.000
194A194GLU-1-0.906-0.95219.597-0.099-0.0990.0000.0000.0000.000
195A195ILE0-0.050-0.01522.0900.0010.0010.0000.0000.0000.000
196A196ALA00.001-0.01119.5420.0010.0010.0000.0000.0000.000
197A197GLU-1-0.823-0.95517.381-0.151-0.1510.0000.0000.0000.000
198A198TYR0-0.067-0.02520.4910.0030.0030.0000.0000.0000.000
199A199TRP0-0.004-0.01524.2020.0030.0030.0000.0000.0000.000
200A200LEU0-0.0050.01017.8910.0020.0020.0000.0000.0000.000
201A201LYS10.9180.95620.8840.1170.1170.0000.0000.0000.000
202A202PHE0-0.083-0.03023.3670.0070.0070.0000.0000.0000.000
203A203GLY00.0010.00724.6580.0070.0070.0000.0000.0000.000
204A204ILE0-0.076-0.03322.6500.0050.0050.0000.0000.0000.000
205A205ASP-1-0.789-0.86821.583-0.107-0.1070.0000.0000.0000.000
206A206GLY00.004-0.01219.382-0.017-0.0170.0000.0000.0000.000
207A207TRP0-0.077-0.02119.0650.0190.0190.0000.0000.0000.000
208A208ARG10.8450.92319.7670.0690.0690.0000.0000.0000.000
209A209LEU0-0.025-0.00817.5630.0060.0060.0000.0000.0000.000
210A210ASP-1-0.815-0.91821.991-0.067-0.0670.0000.0000.0000.000
211A211VAL0-0.0280.00024.8790.0010.0010.0000.0000.0000.000
212A212PRO0-0.013-0.00719.7760.0030.0030.0000.0000.0000.000
213A213PHE0-0.015-0.01420.9810.0010.0010.0000.0000.0000.000
214A214GLU-1-0.907-0.96522.375-0.045-0.0450.0000.0000.0000.000
215A215ILE0-0.048-0.00520.5980.0050.0050.0000.0000.0000.000
216A216LYS10.9130.95220.6350.0470.0470.0000.0000.0000.000
217A217THR0-0.039-0.01118.8470.0050.0050.0000.0000.0000.000
218A218PRO00.005-0.00816.224-0.003-0.0030.0000.0000.0000.000
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