FMODB

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

Last updated: 2025-04-23

All entries: 37539

Number of unique PDB entries: 7791

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FMODB ID: 983R2

Calculation Name: 2NR7-A-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 2NR7

Chain ID: A

ChEMBL ID:

UniProt ID: Q7MXB3

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:

Apendix: None


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 194
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -2184330.139265
FMO2-HF: Nuclear repulsion 2108446.732935
FMO2-HF: Total energy -75883.40633
FMO2-MP2: Total energy -76111.050897


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:ASN)


Summations of interaction energy for fragment #1(A:-1:ASN)
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.
-9.575-5.3180.259-2.13-2.386-0.009
Interaction energy analysis for fragmet #1(A:-1:ASN)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.001 / q_NPA : -0.015
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].
3A1MET0-0.0020.0203.022-2.334-0.4120.096-0.807-1.2110.003
4A2ALA0-0.0240.0056.1881.0851.0850.0000.0000.0000.000
5A3ASN00.020-0.0079.9080.0110.0110.0000.0000.0000.000
6A4VAL00.0890.04712.2600.2160.2160.0000.0000.0000.000
7A5LYS10.8390.90015.5630.8510.8510.0000.0000.0000.000
8A6LEU0-0.026-0.00613.1240.1140.1140.0000.0000.0000.000
9A7LEU0-0.0250.00617.0070.0510.0510.0000.0000.0000.000
10A8LEU00.006-0.00818.8780.0800.0800.0000.0000.0000.000
11A9PRO00.0380.01420.6930.0570.0570.0000.0000.0000.000
12A10TYR0-0.022-0.02621.8700.0430.0430.0000.0000.0000.000
13A11ILE0-0.0040.00122.6810.0420.0420.0000.0000.0000.000
14A12LEU00.0120.00825.3150.0410.0410.0000.0000.0000.000
15A13LYS10.8550.92626.2750.3760.3760.0000.0000.0000.000
16A14TRP0-0.060-0.03526.4370.0510.0510.0000.0000.0000.000
17A15GLU-1-0.699-0.83028.578-0.341-0.3410.0000.0000.0000.000
18A16GLY00.0250.01830.9160.0200.0200.0000.0000.0000.000
19A17GLY0-0.032-0.01232.1170.0220.0220.0000.0000.0000.000
20A18PHE0-0.015-0.02132.7310.0200.0200.0000.0000.0000.000
21A19VAL0-0.023-0.01432.382-0.015-0.0150.0000.0000.0000.000
22A20HIS00.0390.02531.3610.0200.0200.0000.0000.0000.000
23A21ASP-1-0.838-0.91234.503-0.174-0.1740.0000.0000.0000.000
24A22PRO0-0.009-0.01535.552-0.007-0.0070.0000.0000.0000.000
25A23ALA00.020-0.00236.2940.0060.0060.0000.0000.0000.000
26A24ASP-1-0.937-0.96938.096-0.137-0.1370.0000.0000.0000.000
27A25ALA0-0.026-0.01140.0970.0070.0070.0000.0000.0000.000
28A26GLY0-0.0040.00041.2320.0040.0040.0000.0000.0000.000
29A27GLY0-0.052-0.02137.785-0.002-0.0020.0000.0000.0000.000
30A28ALA0-0.0200.00338.031-0.009-0.0090.0000.0000.0000.000
31A29THR00.000-0.01135.802-0.005-0.0050.0000.0000.0000.000
32A30ASN0-0.053-0.00237.5840.0120.0120.0000.0000.0000.000
33A31LYS10.8580.91536.5110.2160.2160.0000.0000.0000.000
34A32GLY00.0150.00937.1790.0130.0130.0000.0000.0000.000
35A33VAL0-0.045-0.02334.732-0.003-0.0030.0000.0000.0000.000
36A34THR0-0.005-0.00934.118-0.011-0.0110.0000.0000.0000.000
37A35ILE0-0.107-0.04131.1840.0150.0150.0000.0000.0000.000
38A36ALA00.0510.03031.049-0.023-0.0230.0000.0000.0000.000
39A37THR0-0.101-0.07328.5770.0050.0050.0000.0000.0000.000
40A38TRP00.0230.01627.8510.0130.0130.0000.0000.0000.000
41A39LYS10.8460.90329.9760.3460.3460.0000.0000.0000.000
42A40ARG10.8600.92431.9740.2970.2970.0000.0000.0000.000
43A41VAL0-0.026-0.00330.3990.0180.0180.0000.0000.0000.000
44A42GLY0-0.0030.00231.530-0.011-0.0110.0000.0000.0000.000
45A43TYR0-0.103-0.06028.076-0.010-0.0100.0000.0000.0000.000
46A44ASP-1-0.849-0.91030.631-0.262-0.2620.0000.0000.0000.000
47A45LYS10.8410.88530.0520.2310.2310.0000.0000.0000.000
48A46ASP-1-0.829-0.90030.306-0.296-0.2960.0000.0000.0000.000
49A47GLY00.000-0.00227.248-0.029-0.0290.0000.0000.0000.000
50A48ASP-1-0.835-0.89926.106-0.379-0.3790.0000.0000.0000.000
51A49GLY00.0080.00226.946-0.023-0.0230.0000.0000.0000.000
52A50ASP-1-0.852-0.90828.398-0.256-0.2560.0000.0000.0000.000
53A51ILE0-0.0150.02226.6690.0160.0160.0000.0000.0000.000
54A52ASP-1-0.859-0.93029.908-0.281-0.2810.0000.0000.0000.000
55A53VAL0-0.033-0.02431.3760.0000.0000.0000.0000.0000.000
56A54GLU-1-0.930-0.95034.037-0.199-0.1990.0000.0000.0000.000
57A55ASP-1-0.782-0.89335.420-0.251-0.2510.0000.0000.0000.000
58A56LEU0-0.0050.00328.718-0.004-0.0040.0000.0000.0000.000
59A57LYS10.7340.85031.7990.2440.2440.0000.0000.0000.000
60A58LEU0-0.0180.00734.0740.0120.0120.0000.0000.0000.000
61A59LEU0-0.0240.00230.1260.0020.0020.0000.0000.0000.000
62A60THR00.005-0.02328.755-0.009-0.0090.0000.0000.0000.000
63A61ASP-1-0.844-0.93425.497-0.399-0.3990.0000.0000.0000.000
64A62ASP-1-0.769-0.89922.109-0.624-0.6240.0000.0000.0000.000
65A63ASP-1-0.797-0.84024.406-0.375-0.3750.0000.0000.0000.000
66A64VAL00.0160.00425.210-0.018-0.0180.0000.0000.0000.000
67A65LEU0-0.032-0.01618.617-0.032-0.0320.0000.0000.0000.000
68A66ASN0-0.073-0.05520.374-0.100-0.1000.0000.0000.0000.000
69A67ARG10.8280.90122.2860.3680.3680.0000.0000.0000.000
70A68VAL00.0010.01024.3980.0220.0220.0000.0000.0000.000
71A69LEU0-0.0010.00120.360-0.027-0.0270.0000.0000.0000.000
72A70LYS10.7760.85613.6401.2791.2790.0000.0000.0000.000
73A71PRO00.0150.01718.876-0.051-0.0510.0000.0000.0000.000
74A72PHE00.0030.00220.585-0.004-0.0040.0000.0000.0000.000
75A73TYR0-0.043-0.02421.0160.0290.0290.0000.0000.0000.000
76A74TRP0-0.021-0.03112.1480.1270.1270.0000.0000.0000.000
77A75ASP-1-0.790-0.89715.081-1.298-1.2980.0000.0000.0000.000
78A76ARG10.8120.92316.7100.4810.4810.0000.0000.0000.000
79A77TRP0-0.006-0.03515.4510.0250.0250.0000.0000.0000.000
80A78LYS10.8480.92312.8560.7220.7220.0000.0000.0000.000
81A79ALA00.0720.02411.663-0.254-0.2540.0000.0000.0000.000
82A80ASP-1-0.828-0.8849.570-2.069-2.0690.0000.0000.0000.000
83A81LEU0-0.046-0.0257.107-0.742-0.7420.0000.0000.0000.000
84A82ILE00.0060.0177.8310.0160.0160.0000.0000.0000.000
85A83GLU-1-0.861-0.9293.044-7.934-5.5990.163-1.323-1.175-0.012
86A84SER00.0030.0015.9910.5240.5240.0000.0000.0000.000
87A85GLN00.0300.0008.793-0.008-0.0080.0000.0000.0000.000
88A86LYS10.8510.92511.3360.7090.7090.0000.0000.0000.000
89A87VAL00.0250.01612.1270.1140.1140.0000.0000.0000.000
90A88ALA00.0340.01612.1850.1090.1090.0000.0000.0000.000
91A89ASN00.0130.00214.0950.0350.0350.0000.0000.0000.000
92A90ILE0-0.0160.00416.8890.0840.0840.0000.0000.0000.000
93A91LEU00.0510.03215.2410.0930.0930.0000.0000.0000.000
94A92VAL00.0040.00516.7140.0790.0790.0000.0000.0000.000
95A93ASP-1-0.776-0.87219.563-0.422-0.4220.0000.0000.0000.000
96A94TRP00.0000.01021.9310.0480.0480.0000.0000.0000.000
97A95VAL0-0.008-0.00221.5240.0450.0450.0000.0000.0000.000
98A96TRP0-0.052-0.03123.6570.0300.0300.0000.0000.0000.000
99A97GLY00.0260.00625.3860.0370.0370.0000.0000.0000.000
100A98SER0-0.052-0.06327.1560.0290.0290.0000.0000.0000.000
101A99GLY00.0340.03027.1040.0210.0210.0000.0000.0000.000
102A100LYS10.8690.92725.9170.2620.2620.0000.0000.0000.000
103A101TYR00.007-0.00325.994-0.006-0.0060.0000.0000.0000.000
104A102GLY00.0190.01023.8130.0000.0000.0000.0000.0000.000
105A103ILE0-0.035-0.01220.707-0.063-0.0630.0000.0000.0000.000
106A104VAL00.0110.00122.5390.0020.0020.0000.0000.0000.000
107A105ILE0-0.037-0.00525.2590.0230.0230.0000.0000.0000.000
108A106PRO00.0280.00619.7580.0160.0160.0000.0000.0000.000
109A107GLN0-0.005-0.01120.9240.0130.0130.0000.0000.0000.000
110A108ARG10.8510.91822.1090.2950.2950.0000.0000.0000.000
111A109ILE0-0.062-0.02420.3670.0270.0270.0000.0000.0000.000
112A110LEU0-0.016-0.00416.3300.0130.0130.0000.0000.0000.000
113A111GLY00.0160.03319.7640.0210.0210.0000.0000.0000.000
114A112VAL0-0.113-0.06519.1370.0310.0310.0000.0000.0000.000
115A113GLN0-0.043-0.03622.5030.0280.0280.0000.0000.0000.000
116A114ALA00.0360.02024.057-0.031-0.0310.0000.0000.0000.000
117A115ASP-1-0.806-0.89123.822-0.326-0.3260.0000.0000.0000.000
118A116GLY0-0.002-0.01624.4110.0110.0110.0000.0000.0000.000
119A117ILE0-0.068-0.03120.985-0.037-0.0370.0000.0000.0000.000
120A118VAL00.0430.03115.8090.0220.0220.0000.0000.0000.000
121A119GLY00.0260.01617.247-0.051-0.0510.0000.0000.0000.000
122A120ASN00.0350.00413.058-0.121-0.1210.0000.0000.0000.000
123A121LYS10.9780.99014.5900.1570.1570.0000.0000.0000.000
124A122THR00.0100.00916.5920.0300.0300.0000.0000.0000.000
125A123LEU00.0470.02111.424-0.003-0.0030.0000.0000.0000.000
126A124GLN0-0.039-0.02510.640-0.038-0.0380.0000.0000.0000.000
127A125ALA0-0.0150.00912.6160.0170.0170.0000.0000.0000.000
128A126VAL0-0.037-0.02411.3150.0310.0310.0000.0000.0000.000
129A127ASN0-0.050-0.0556.3860.2100.2100.0000.0000.0000.000
130A128SER0-0.040-0.0189.3610.0930.0930.0000.0000.0000.000
131A129ALA0-0.039-0.00711.9270.1290.1290.0000.0000.0000.000
132A130ASP-1-0.757-0.87611.553-0.609-0.6090.0000.0000.0000.000
133A131PRO0-0.034-0.0318.803-0.040-0.0400.0000.0000.0000.000
134A132ASP-1-0.854-0.92411.575-0.554-0.5540.0000.0000.0000.000
135A133GLU-1-0.926-0.95814.897-0.236-0.2360.0000.0000.0000.000
136A134LEU00.0040.02013.4900.0320.0320.0000.0000.0000.000
137A135PHE0-0.027-0.02015.0650.0120.0120.0000.0000.0000.000
138A136GLU-1-0.750-0.86216.811-0.361-0.3610.0000.0000.0000.000
139A137SER0-0.022-0.01519.6380.0460.0460.0000.0000.0000.000
140A138ILE0-0.030-0.02317.0020.0250.0250.0000.0000.0000.000
141A139PHE00.007-0.01020.8720.0280.0280.0000.0000.0000.000
142A140ASP-1-0.827-0.90822.598-0.249-0.2490.0000.0000.0000.000
143A141ALA00.0050.00923.9810.0210.0210.0000.0000.0000.000
144A142ARG10.7740.86722.1970.4930.4930.0000.0000.0000.000
145A143ARG10.7810.86726.0290.2970.2970.0000.0000.0000.000
146A144GLU-1-0.860-0.92028.451-0.234-0.2340.0000.0000.0000.000
147A145PHE0-0.007-0.00628.7160.0150.0150.0000.0000.0000.000
148A146LEU00.0030.00028.8240.0140.0140.0000.0000.0000.000
149A147GLU-1-0.831-0.91732.000-0.182-0.1820.0000.0000.0000.000
150A148ASP-1-0.826-0.85833.678-0.182-0.1820.0000.0000.0000.000
151A149ILE00.002-0.00432.8220.0160.0160.0000.0000.0000.000
152A150THR0-0.034-0.02735.8700.0090.0090.0000.0000.0000.000
153A151ALA00.0090.00538.1890.0110.0110.0000.0000.0000.000
154A152ARG10.8150.85936.5530.1890.1890.0000.0000.0000.000
155A153SER0-0.049-0.00240.2950.0060.0060.0000.0000.0000.000
156A154ILE00.010-0.01241.8290.0070.0070.0000.0000.0000.000
157A155LYS10.8420.90643.9430.1200.1200.0000.0000.0000.000
158A156LYS10.9780.98841.3850.1660.1660.0000.0000.0000.000
159A157TYR0-0.023-0.03246.3880.0040.0040.0000.0000.0000.000
160A158GLU-1-0.758-0.88048.333-0.107-0.1070.0000.0000.0000.000
161A159ASP-1-0.814-0.89748.424-0.108-0.1080.0000.0000.0000.000
162A160SER0-0.064-0.03050.6170.0030.0030.0000.0000.0000.000
163A161ILE0-0.072-0.02252.3640.0030.0030.0000.0000.0000.000
164A162GLY0-0.0020.01454.3850.0040.0040.0000.0000.0000.000
165A163ARG10.7860.86254.4350.0980.0980.0000.0000.0000.000
166A164LYS10.8470.91248.5830.1050.1050.0000.0000.0000.000
167A165ALA0-0.0060.00549.5970.0030.0030.0000.0000.0000.000
168A166THR0-0.025-0.04051.069-0.001-0.0010.0000.0000.0000.000
169A167GLU-1-0.742-0.86545.935-0.132-0.1320.0000.0000.0000.000
170A168ARG10.9410.96348.1880.0980.0980.0000.0000.0000.000
171A169GLU-1-0.746-0.79750.158-0.104-0.1040.0000.0000.0000.000
172A170LEU00.0590.03145.301-0.005-0.0050.0000.0000.0000.000
173A171LEU00.0160.02143.232-0.008-0.0080.0000.0000.0000.000
174A172ARG10.8520.93045.2500.1170.1170.0000.0000.0000.000
175A173HIS00.0180.01146.306-0.007-0.0070.0000.0000.0000.000
176A174THR0-0.028-0.01643.249-0.001-0.0010.0000.0000.0000.000
177A175ASN00.045-0.00237.773-0.001-0.0010.0000.0000.0000.000
178A176LYS10.8550.92238.6590.1300.1300.0000.0000.0000.000
179A177ARG10.8230.91440.2840.1610.1610.0000.0000.0000.000
180A178PHE0-0.001-0.00636.2410.0020.0020.0000.0000.0000.000
181A179LEU00.0110.02433.836-0.010-0.0100.0000.0000.0000.000
182A180ARG10.9700.98334.1380.1580.1580.0000.0000.0000.000
183A181GLY00.0060.00733.916-0.005-0.0050.0000.0000.0000.000
184A182TRP00.0540.00630.820-0.014-0.0140.0000.0000.0000.000
185A183LEU00.0370.02729.394-0.023-0.0230.0000.0000.0000.000
186A184ASN0-0.024-0.01529.058-0.011-0.0110.0000.0000.0000.000
187A185ARG10.8140.88725.5460.4070.4070.0000.0000.0000.000
188A186LEU00.0040.02523.908-0.032-0.0320.0000.0000.0000.000
189A187GLU-1-0.781-0.88424.174-0.323-0.3230.0000.0000.0000.000
190A188ASP-1-0.826-0.89624.930-0.349-0.3490.0000.0000.0000.000
191A189ILE00.0140.01519.734-0.018-0.0180.0000.0000.0000.000
192A190ARG10.7340.83219.7260.3060.3060.0000.0000.0000.000
193A191LYS10.7890.89819.8630.3060.3060.0000.0000.0000.000
194A192LEU0-0.0260.01516.7310.0090.0090.0000.0000.0000.000