FMODB

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

Last updated: 2025-10-17

All entries: 77277

Number of unique PDB entries: 32023

tag_button

FMODB ID: 8NRLY

Calculation Name: 2R2C-B-Xray540

Preferred Name:

Target Type:

Ligand Name:

Ligand 3-letter code:

Ligand of Interest (LOI):

Structure Source: PDB

PDB ID: 2R2C

Chain ID: B

ChEMBL ID:

UniProt ID: Q9S3Q1

Base Structure: X-ray

Registration Date: 2025-07-09

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 OptH
Protonation MOE:Protonate 3D
Complement MOE:Structure Preparation
Water No
Procedure Auto-FMO protocol ver. 2.20220422
Remarks
FMO calculation
FMO method FMO2-MP2/6-31G(d)
Fragmentation Auto
Number of fragment 209
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -846150.946724
FMO2-HF: Nuclear repulsion 803503.940014
FMO2-HF: Total energy -42647.00671
FMO2-MP2: Total energy -42772.987462


3D Structure Molmil
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:53:ALA)


Summations of interaction energy for fragment #1(B:53: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.
-0.4291.678-0.004-0.773-1.3270.005
Interaction energy analysis for fragmet #1(B:53:ALA)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.181 / q_NPA : 0.017
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].
4B54LYS10.8511.0773.924-2.358-1.9500.005-0.184-0.2290.001
5B55ILE00.042-0.1143.602-1.5210.035-0.007-0.867-0.6810.004
6B55ILE0-0.0520.1055.0520.1840.1840.0000.0000.0000.000
7B56ASN00.088-0.0574.744-0.805-0.668-0.002-0.009-0.1260.000
8B56ASN0-0.1340.0615.071-0.698-0.650-0.001-0.002-0.0440.000
9B57ILE00.076-0.1046.7830.3070.3070.0000.0000.0000.000
10B57ILE0-0.0840.1009.3120.0390.0390.0000.0000.0000.000
11B58PHE00.073-0.09110.099-0.096-0.0960.0000.0000.0000.000
12B58PHE0-0.1270.0629.798-0.058-0.0580.0000.0000.0000.000
13B59ALA00.095-0.09313.0140.0620.0620.0000.0000.0000.000
14B59ALA0-0.0280.10715.9470.0150.0150.0000.0000.0000.000
15B60VAL00.017-0.10916.527-0.043-0.0430.0000.0000.0000.000
16B60VAL0-0.0360.10418.813-0.001-0.0010.0000.0000.0000.000
17B61ALA00.086-0.10819.9350.0130.0130.0000.0000.0000.000
18B61ALA0-0.0370.12721.7690.0050.0050.0000.0000.0000.000
19B62GLU00.038-0.11922.828-0.011-0.0110.0000.0000.0000.000
20B62GLU-1-1.012-0.86025.847-0.241-0.2410.0000.0000.0000.000
21B63TYR00.126-0.09926.4260.0060.0060.0000.0000.0000.000
22B63TYR0-0.1090.08329.1830.0040.0040.0000.0000.0000.000
23B64THR0-0.007-0.08629.967-0.009-0.0090.0000.0000.0000.000
24B64THR0-0.0700.03029.7590.0020.0020.0000.0000.0000.000
25B65ASP00.087-0.09632.1770.0010.0010.0000.0000.0000.000
26B65ASP-1-0.965-0.83735.625-0.091-0.0910.0000.0000.0000.000
27B66THR0-0.017-0.07533.924-0.007-0.0070.0000.0000.0000.000
28B66THR0-0.0350.06637.2060.0010.0010.0000.0000.0000.000
29B67GLN00.043-0.10633.674-0.005-0.0050.0000.0000.0000.000
30B67GLN0-0.1300.08334.6310.0020.0020.0000.0000.0000.000
31B68LYS00.152-0.10332.1890.0080.0080.0000.0000.0000.000
32B68LYS10.8541.06832.8050.0800.0800.0000.0000.0000.000
33B69ILE00.035-0.08327.837-0.005-0.0050.0000.0000.0000.000
34B69ILE0-0.0600.12025.4100.0000.0000.0000.0000.0000.000
35B70LYS00.135-0.09026.7440.0150.0150.0000.0000.0000.000
36B70LYS10.8231.05525.6560.2130.2130.0000.0000.0000.000
37B71VAL00.049-0.12322.459-0.013-0.0130.0000.0000.0000.000
38B71VAL0-0.0370.11720.4130.0010.0010.0000.0000.0000.000
39B72THR00.011-0.06820.9010.0290.0290.0000.0000.0000.000
40B72THR0-0.0570.05420.956-0.015-0.0150.0000.0000.0000.000
41B73VAL00.061-0.09816.859-0.039-0.0390.0000.0000.0000.000
42B73VAL0-0.0430.10915.1660.0080.0080.0000.0000.0000.000
43B74LYS00.146-0.09315.1080.0750.0750.0000.0000.0000.000
44B74LYS10.8151.08114.5530.5710.5710.0000.0000.0000.000
45B75GLY00.022-0.08211.274-0.084-0.0840.0000.0000.0000.000
46B76LYS00.1250.0079.7940.2400.2400.0000.0000.0000.000
47B76LYS10.8241.0549.9991.4071.4070.0000.0000.0000.000
48B77ILE00.112-0.0838.074-0.606-0.6060.0000.0000.0000.000
49B77ILE0-0.1000.0868.3070.0630.0630.0000.0000.0000.000
50B78LEU00.010-0.1556.1650.5560.5560.0000.0000.0000.000
51B78LEU0-0.0860.1293.4590.2760.0830.0030.300-0.1100.000
52B79GLU00.109-0.1447.5210.3660.3660.0000.0000.0000.000
53B79GLU-1-1.007-0.82910.648-0.795-0.7950.0000.0000.0000.000
54B80GLY0-0.051-0.1168.618-0.190-0.1900.0000.0000.0000.000
55B81ASN00.0200.0057.1360.3500.3500.0000.0000.0000.000
56B81ASN0-0.0770.0825.2990.7080.7080.0000.0000.0000.000
57B82THR00.039-0.0818.380-0.197-0.1970.0000.0000.0000.000
58B82THR0-0.0360.06811.5150.0890.0890.0000.0000.0000.000
59B83LEU00.044-0.1578.8890.3470.3470.0000.0000.0000.000
60B83LEU0-0.0650.1527.096-0.025-0.0250.0000.0000.0000.000
61B84PRO0-0.021-0.0989.678-0.132-0.1320.0000.0000.0000.000
62B85LYS00.2090.02912.418-0.064-0.0640.0000.0000.0000.000
63B85LYS10.8671.08916.564-0.153-0.1530.0000.0000.0000.000
64B86SER0-0.077-0.08112.3300.0920.0920.0000.0000.0000.000
65B86SER00.0070.05111.4870.0400.0400.0000.0000.0000.000
66B87MET00.053-0.12613.810-0.076-0.0760.0000.0000.0000.000
67B87MET0-0.0890.13416.158-0.008-0.0080.0000.0000.0000.000
68B88VAL00.100-0.08013.8160.0500.0500.0000.0000.0000.000
69B88VAL0-0.0900.08514.409-0.018-0.0180.0000.0000.0000.000
70B89GLN00.100-0.10215.081-0.008-0.0080.0000.0000.0000.000
71B89GLN0-0.1020.11216.3810.0370.0370.0000.0000.0000.000
72B90VAL00.064-0.12016.322-0.026-0.0260.0000.0000.0000.000
73B90VAL0-0.0880.09917.846-0.008-0.0080.0000.0000.0000.000
74B91TYR00.060-0.14918.9570.0220.0220.0000.0000.0000.000
75B91TYR0-0.0490.10118.9060.0100.0100.0000.0000.0000.000
76B92LEU00.138-0.06520.895-0.034-0.0340.0000.0000.0000.000
77B92LEU0-0.1080.10525.0620.0000.0000.0000.0000.0000.000
78B93LEU0-0.011-0.15822.9440.0270.0270.0000.0000.0000.000
79B93LEU0-0.0600.12019.6230.0040.0040.0000.0000.0000.000
80B94GLU00.125-0.09524.105-0.022-0.0220.0000.0000.0000.000
81B94GLU-1-0.960-0.83328.558-0.037-0.0370.0000.0000.0000.000
82B95ASP0-0.103-0.16226.7500.0230.0230.0000.0000.0000.000
83B95ASP-1-0.883-0.91026.704-0.064-0.0640.0000.0000.0000.000
84B115HIS00.1240.04123.2210.0020.0020.0000.0000.0000.000
85B115HIS0-0.1140.05221.4590.0000.0000.0000.0000.0000.000
86B116VAL00.047-0.11424.5760.0220.0220.0000.0000.0000.000
87B116VAL0-0.0840.10827.5990.0020.0020.0000.0000.0000.000
88B117LEU00.184-0.11024.239-0.023-0.0230.0000.0000.0000.000
89B117LEU0-0.1340.11622.2470.0030.0030.0000.0000.0000.000
90B118ARG0-0.034-0.14724.9550.0120.0120.0000.0000.0000.000
91B118ARG10.7331.03227.1720.0250.0250.0000.0000.0000.000
92B119GLY0-0.004-0.11925.5410.0020.0020.0000.0000.0000.000
93B120ALA00.1110.01623.200-0.013-0.0130.0000.0000.0000.000
94B120ALA0-0.0800.10323.8260.0040.0040.0000.0000.0000.000
95B121VAL00.030-0.09523.1590.0100.0100.0000.0000.0000.000
96B121VAL0-0.0830.08122.617-0.005-0.0050.0000.0000.0000.000
97B122ASN00.049-0.09722.213-0.001-0.0010.0000.0000.0000.000
98B122ASN0-0.0920.05318.9970.0140.0140.0000.0000.0000.000
99B123GLY00.047-0.07622.8890.0070.0070.0000.0000.0000.000
100B124ILE00.079-0.02422.868-0.002-0.0020.0000.0000.0000.000
101B124ILE0-0.0720.10423.991-0.001-0.0010.0000.0000.0000.000
102B125TRP00.050-0.10220.4980.0160.0160.0000.0000.0000.000
103B125TRP0-0.0550.09819.1950.0000.0000.0000.0000.0000.000
104B126GLY00.054-0.04418.8460.0160.0160.0000.0000.0000.000
105B127GLU00.046-0.04818.7620.0220.0220.0000.0000.0000.000
106B127GLU-1-0.920-0.76619.858-0.117-0.1170.0000.0000.0000.000
107B128GLU00.180-0.07417.736-0.004-0.0040.0000.0000.0000.000
108B128GLU-1-1.033-0.85717.9230.0390.0390.0000.0000.0000.000
109B129PHE00.067-0.09113.940-0.049-0.0490.0000.0000.0000.000
110B129PHE0-0.0850.08711.549-0.014-0.0140.0000.0000.0000.000
111B130VAL00.040-0.12215.4120.0410.0410.0000.0000.0000.000
112B130VAL0-0.0950.09918.0100.0030.0030.0000.0000.0000.000
113B131ASN00.181-0.05713.663-0.047-0.0470.0000.0000.0000.000
114B131ASN0-0.0660.08512.451-0.115-0.1150.0000.0000.0000.000
115B132LEU0-0.034-0.09714.0640.0520.0520.0000.0000.0000.000
116B132LEU0-0.0970.06513.848-0.011-0.0110.0000.0000.0000.000
117B133LYS00.160-0.09015.8230.0030.0030.0000.0000.0000.000
118B133LYS10.8691.09417.8860.1850.1850.0000.0000.0000.000
119B134ASP00.033-0.11917.445-0.048-0.0480.0000.0000.0000.000
120B134ASP-1-0.994-0.84519.221-0.431-0.4310.0000.0000.0000.000
121B135TYR00.014-0.13419.2640.0420.0420.0000.0000.0000.000
122B135TYR0-0.1150.06516.300-0.008-0.0080.0000.0000.0000.000
123B136LEU00.158-0.07820.825-0.031-0.0310.0000.0000.0000.000
124B136LEU0-0.1450.08224.387-0.001-0.0010.0000.0000.0000.000
125B137TYR00.021-0.13223.8250.0220.0220.0000.0000.0000.000
126B137TYR0-0.1100.05519.984-0.002-0.0020.0000.0000.0000.000
127B138THR00.051-0.03725.187-0.019-0.0190.0000.0000.0000.000
128B138THR0-0.0480.03828.8350.0040.0040.0000.0000.0000.000
129B139TYR00.076-0.10727.9640.0100.0100.0000.0000.0000.000
130B139TYR0-0.0380.11727.0810.0000.0000.0000.0000.0000.000
131B140ALA00.111-0.08929.208-0.012-0.0120.0000.0000.0000.000
132B140ALA0-0.1040.09733.5250.0010.0010.0000.0000.0000.000
133B141VAL00.065-0.11131.1220.0100.0100.0000.0000.0000.000
134B141VAL0-0.0710.10829.147-0.001-0.0010.0000.0000.0000.000
135B142GLU00.036-0.12831.792-0.004-0.0040.0000.0000.0000.000
136B142GLU-1-0.947-0.81634.648-0.047-0.0470.0000.0000.0000.000
137B143PRO00.032-0.06833.3950.0020.0020.0000.0000.0000.000
138B144LEU00.106-0.01635.0660.0020.0020.0000.0000.0000.000
139B144LEU0-0.0660.11632.5900.0010.0010.0000.0000.0000.000
140B145SER00.014-0.08536.040-0.004-0.0040.0000.0000.0000.000
141B145SER0-0.0350.06240.0880.0000.0000.0000.0000.0000.000
142B146GLY00.000-0.09539.7780.0030.0030.0000.0000.0000.000
143B147MET00.0270.00937.9900.0010.0010.0000.0000.0000.000
144B147MET0-0.0760.09736.2260.0010.0010.0000.0000.0000.000
145B148SER00.093-0.06639.109-0.001-0.0010.0000.0000.0000.000
146B148SER0-0.0750.05539.318-0.001-0.0010.0000.0000.0000.000
147B149PHE00.117-0.09835.6440.0030.0030.0000.0000.0000.000
148B149PHE0-0.0640.11232.2920.0000.0000.0000.0000.0000.000
149B150VAL00.043-0.10934.307-0.002-0.0020.0000.0000.0000.000
150B150VAL0-0.1000.10233.0710.0010.0010.0000.0000.0000.000
151B151ALA00.152-0.08731.8730.0020.0020.0000.0000.0000.000
152B151ALA0-0.0490.12131.764-0.001-0.0010.0000.0000.0000.000
153B152GLU00.035-0.13929.221-0.009-0.0090.0000.0000.0000.000
154B152GLU-1-0.969-0.83429.786-0.110-0.1100.0000.0000.0000.000
155B153ASN00.116-0.07228.237-0.011-0.0110.0000.0000.0000.000
156B153ASN0-0.1120.07729.962-0.005-0.0050.0000.0000.0000.000
157B154TYR00.094-0.08326.8470.0110.0110.0000.0000.0000.000
158B154TYR0-0.0910.08127.0560.0040.0040.0000.0000.0000.000
159B155SER0-0.029-0.08722.645-0.017-0.0170.0000.0000.0000.000
160B155SER00.0010.09121.684-0.001-0.0010.0000.0000.0000.000
161B156ILE00.066-0.10320.7400.0360.0360.0000.0000.0000.000
162B156ILE0-0.0730.09418.844-0.003-0.0030.0000.0000.0000.000
163B157VAL00.131-0.05616.826-0.056-0.0560.0000.0000.0000.000
164B157VAL0-0.0730.10715.0320.0090.0090.0000.0000.0000.000
165B158ALA00.102-0.10815.1920.0670.0670.0000.0000.0000.000
166B158ALA0-0.0750.10514.827-0.014-0.0140.0000.0000.0000.000
167B159PHE00.016-0.08911.550-0.118-0.1180.0000.0000.0000.000
168B159PHE0-0.0680.08811.5490.0210.0210.0000.0000.0000.000
169B160VAL00.097-0.10810.267-0.007-0.0070.0000.0000.0000.000
170B160VAL0-0.0930.1009.225-0.021-0.0210.0000.0000.0000.000
171B161TYR00.065-0.0769.6860.1570.1570.0000.0000.0000.000
172B161TYR0-0.1120.05112.367-0.010-0.0100.0000.0000.0000.000
173B162ASP00.174-0.08311.465-0.176-0.1760.0000.0000.0000.000
174B162ASP-1-0.875-0.76511.2330.8240.8240.0000.0000.0000.000
175B163VAL00.019-0.11112.736-0.002-0.0020.0000.0000.0000.000
176B163VAL0-0.0690.06916.319-0.016-0.0160.0000.0000.0000.000
177B164GLN00.013-0.07415.770-0.054-0.0540.0000.0000.0000.000
178B164GLN0-0.1250.04216.634-0.034-0.0340.0000.0000.0000.000
179B165THR00.040-0.11714.442-0.072-0.0720.0000.0000.0000.000
180B165THR0-0.0100.07812.522-0.012-0.0120.0000.0000.0000.000
181B166PHE00.019-0.05514.6360.0550.0550.0000.0000.0000.000
182B166PHE0-0.1210.08615.903-0.023-0.0230.0000.0000.0000.000
183B167GLU00.180-0.13210.452-0.146-0.1460.0000.0000.0000.000
184B167GLU-1-1.008-0.8357.5432.8562.8560.0000.0000.0000.000
185B168VAL00.039-0.1099.577-0.070-0.0700.0000.0000.0000.000
186B168VAL0-0.0840.1018.906-0.040-0.0400.0000.0000.0000.000
187B169TYR00.027-0.1075.6860.4930.4930.0000.0000.0000.000
188B169TYR0-0.1220.0315.550-0.034-0.0340.0000.0000.0000.000
189B170ASP00.063-0.1044.5380.3450.496-0.002-0.011-0.1370.000
190B170ASP-1-0.846-0.8025.714-1.919-1.9190.0000.0000.0000.000
191B171VAL00.069-0.1306.9150.1670.1670.0000.0000.0000.000
192B171VAL0-0.0740.1019.5030.0280.0280.0000.0000.0000.000
193B172VAL00.031-0.08710.130-0.180-0.1800.0000.0000.0000.000
194B172VAL0-0.0750.10611.471-0.004-0.0040.0000.0000.0000.000
195B173HIS00.113-0.08712.6100.0870.0870.0000.0000.0000.000
196B173HIS0-0.1610.06015.7500.0010.0010.0000.0000.0000.000
197B174VAL0-0.031-0.14016.055-0.046-0.0460.0000.0000.0000.000
198B174VAL0-0.0680.10916.419-0.004-0.0040.0000.0000.0000.000
199B175LYS00.173-0.07818.6160.0460.0460.0000.0000.0000.000
200B175LYS10.8941.06421.6100.2280.2280.0000.0000.0000.000
201B176ILE00.070-0.10322.258-0.030-0.0300.0000.0000.0000.000
202B176ILE0-0.0960.12624.2000.0010.0010.0000.0000.0000.000
203B177ASN00.065-0.10124.8470.0190.0190.0000.0000.0000.000
204B177ASN0-0.1210.08122.8400.0000.0000.0000.0000.0000.000
205B178PRO00.043-0.09626.4390.0100.0100.0000.0000.0000.000
206B179GLN00.1550.02729.892-0.015-0.0150.0000.0000.0000.000
207B179GLN0-0.1050.10433.0880.0060.0060.0000.0000.0000.000
208B180SER0-0.144-0.16030.646-0.002-0.0020.0000.0000.0000.000
209B180SER00.0720.05133.6020.0060.0060.0000.0000.0000.000