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: P2LYR

Calculation Name: 2G1Y-B-Xray38

Preferred Name: Renin

Target Type: SINGLE PROTEIN

Ligand Name: 6-(2,4-diamino-6-ethylpyrimidin-5-yl)-4-(3-methoxypropyl)-2,2-dimethyl-2h-1,4-benzoxazin-3(4h)-one

ligand 3-letter code: 5IG

PDB ID: 2G1Y

Chain ID: B

ChEMBL ID: CHEMBL286

UniProt ID: P00797

Base Structure: X-ray

Registration Date: 2019-02-14

Reference:

DOI:


IFIE MAP

IFIE Diagram


Modeling method
Optimization MOE:Amber10:EHT
Restraint OptH
Protonation MOE:Protonate 3D
Complement MOE:Homology modeling
Water No
Procedure Auto-FMO protocol ver. 1.20171228
FMO calculation
FMO method FMO2-MP2/6-31G(d)
Fragmentation Auto
Number of fragment 331
LigandResidueName 5IG
LigandFragmentNumber 331
LigandCharge 5IG=1
Software MIZUHO/ABINIT-MP 4.0(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -5186168.900137
FMO2-HF: Nuclear repulsion 5055610.142784
FMO2-HF: Total energy -130558.757353
FMO2-MP2: Total energy -130936.880301


3D Structure
Snapshot
 
Ligand structure

5IG

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.
-304.269-297.578133.084-48.447-91.3300.257


Interactive mode: IFIE and PIEDA for fragment #331(B:886:5IG)


Summations of interaction energy for fragment #331(B:886:5IG)
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.
-304.269-297.578133.084-48.447-91.33-0.257
Interaction energy analysis for fragmet #331(B:886:5IG)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 1 / q_Mulliken : 0.743 / q_NPA : 0.876
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].
1B3SER10.7320.83817.05715.08715.0870.0000.0000.0000.000
2B4SER00.0590.03714.167-0.552-0.5520.0000.0000.0000.000
3B5VAL00.0320.0349.9490.6520.6520.0000.0000.0000.000
4B6ILE00.002-0.00510.778-0.914-0.9140.0000.0000.0000.000
5B7LEU0-0.054-0.0315.264-0.573-0.5730.0000.0000.0000.000
6B8THR0-0.008-0.0027.8971.5171.5170.0000.0000.0000.000
7B9ASN0-0.025-0.0206.755-2.271-2.2710.0000.0000.0000.000
8B10TYR00.0430.0215.5111.3811.3810.0000.0000.0000.000
9B11MET00.0560.0226.730-1.088-1.0880.0000.0000.0000.000
10B12ASP-1-0.803-0.8877.127-19.458-19.4580.0000.0000.0000.000
11B13THR0-0.094-0.0403.976-2.536-2.1830.001-0.070-0.2840.000
12B14GLN00.0490.0551.988-16.498-12.0789.495-4.455-9.460-0.003
13B15TYR00.006-0.0032.070-3.260-3.1725.241-1.070-4.2590.015
14B16TYR00.025-0.0072.755-4.384-3.0320.470-0.544-1.279-0.011
15B17GLY00.0590.0335.4472.1622.1620.0000.0000.0000.000
16B18GLU-1-0.987-0.9818.837-17.382-17.3820.0000.0000.0000.000
17B19ILE0-0.024-0.0059.9270.0550.0550.0000.0000.0000.000
18B20GLY0-0.033-0.01513.2190.3280.3280.0000.0000.0000.000
19B21ILE0-0.0100.00712.327-0.218-0.2180.0000.0000.0000.000
20B22GLY00.0340.00816.7320.3340.3340.0000.0000.0000.000
21B23THR0-0.102-0.02120.3280.0860.0860.0000.0000.0000.000
22B24PRO00.025-0.02423.7710.3610.3610.0000.0000.0000.000
23B25PRO00.0030.00719.421-0.253-0.2530.0000.0000.0000.000
24B26GLN00.0140.00217.584-0.197-0.1970.0000.0000.0000.000
25B27THR0-0.005-0.02115.242-0.520-0.5200.0000.0000.0000.000
26B28PHE0-0.007-0.00111.0530.2630.2630.0000.0000.0000.000
27B29LYS10.9911.0059.63317.65317.6530.0000.0000.0000.000
28B30VAL00.0100.0076.147-1.223-1.2230.0000.0000.0000.000
29B31VAL00.0730.0402.359-1.8730.6083.384-1.364-4.5020.003
30B32PHE0-0.017-0.0093.890-2.690-2.2680.004-0.112-0.313-0.001
31B33ASP-1-0.663-0.7821.459-124.767-160.65166.624-19.066-11.674-0.116
32B34THR0-0.0300.0053.8931.1061.4040.004-0.058-0.2430.000
33B35GLY00.014-0.0042.1568.9338.9442.307-1.207-1.111-0.001
34B36SER0-0.096-0.0682.7637.8209.5801.183-0.378-2.566-0.006
35B37SER00.028-0.0094.3172.0092.1240.000-0.016-0.0990.000
36B38ASN0-0.013-0.0086.9082.6142.6140.0000.0000.0000.000
37B39VAL00.0170.0166.740-3.436-3.4360.0000.0000.0000.000
38B40TRP0-0.051-0.0234.2094.4964.920-0.001-0.022-0.4020.000
39B41VAL00.0580.0278.041-1.915-1.9150.0000.0000.0000.000
40B42PRO00.0460.02410.1700.6410.6410.0000.0000.0000.000
41B43SER0-0.008-0.03212.6541.0851.0850.0000.0000.0000.000
42B44SER00.0370.01116.1580.0040.0040.0000.0000.0000.000
43B45LYS10.8800.94319.19013.61613.6160.0000.0000.0000.000
44B53CYS00.0140.0179.955-0.545-0.5450.0000.0000.0000.000
45B47SER00.0220.00717.0330.4290.4290.0000.0000.0000.000
46B48ARG10.9150.94816.80513.02513.0250.0000.0000.0000.000
47B49LEU0-0.009-0.00417.2250.0490.0490.0000.0000.0000.000
48B50TYR00.0250.01412.6190.0440.0440.0000.0000.0000.000
49B51THR00.0360.00312.040-0.531-0.5310.0000.0000.0000.000
50B52ALA00.015-0.0098.4150.1490.1490.0000.0000.0000.000
51B54VAL0-0.081-0.02612.6570.4200.4200.0000.0000.0000.000
52B55TYR0-0.053-0.03010.5260.8960.8960.0000.0000.0000.000
53B56HIS00.0100.0266.2350.3360.3360.0000.0000.0000.000
54B57LYS10.8920.96611.38516.10816.1080.0000.0000.0000.000
55B58LEU0-0.048-0.03113.314-0.681-0.6810.0000.0000.0000.000
56B59PHE0-0.035-0.01415.4060.5120.5120.0000.0000.0000.000
57B60ASP-1-0.865-0.88317.188-12.012-12.0120.0000.0000.0000.000
58B61ALA00.000-0.01720.8330.2570.2570.0000.0000.0000.000
59B62SER0-0.196-0.13021.9480.4380.4380.0000.0000.0000.000
60B63ASP-1-0.833-0.90923.348-10.870-10.8700.0000.0000.0000.000
61B64SER0-0.061-0.02921.9050.1120.1120.0000.0000.0000.000
62B65SER0-0.067-0.03524.2370.1310.1310.0000.0000.0000.000
63B66SER0-0.039-0.03722.2970.3610.3610.0000.0000.0000.000
64B67TYR00.0200.02820.280-0.107-0.1070.0000.0000.0000.000
65B68LYS10.9030.94222.07112.02412.0240.0000.0000.0000.000
66B69HIS00.0500.02822.188-0.491-0.4910.0000.0000.0000.000
67B70ASN00.8840.90920.38213.60913.6090.0000.0000.0000.000
68B71GLY00.0640.04220.045-0.566-0.5660.0000.0000.0000.000
69B72THR0-0.072-0.01618.5910.3330.3330.0000.0000.0000.000
70B73GLU-1-0.897-0.93917.582-15.367-15.3670.0000.0000.0000.000
71B74LEU0-0.058-0.02411.786-0.252-0.2520.0000.0000.0000.000
72B75THR00.025-0.00410.7850.4700.4700.0000.0000.0000.000
73B76LEU0-0.048-0.0136.679-0.191-0.1910.0000.0000.0000.000
74B77ARG10.9470.9656.90723.20623.2060.0000.0000.0000.000
75B78TYR00.0470.0362.740-10.368-3.3693.330-2.112-8.217-0.008
76B79SER00.008-0.0062.4191.1273.6130.694-1.097-2.0840.000
77B80THR0-0.0130.0112.342-3.140-0.9086.320-2.579-5.9730.018
78B81GLY00.0450.0233.2463.0434.0090.026-0.459-0.5330.004
79B82THR0-0.055-0.0514.594-2.881-2.681-0.001-0.015-0.1840.000
80B83VAL00.0020.0246.0601.9931.9930.0000.0000.0000.000
81B84SER00.0360.0118.553-1.082-1.0820.0000.0000.0000.000
82B85GLY00.0430.02812.0880.1650.1650.0000.0000.0000.000
83B86PHE0-0.038-0.00414.6240.3720.3720.0000.0000.0000.000
84B87LEU0-0.029-0.02314.285-0.586-0.5860.0000.0000.0000.000
85B88SER0-0.077-0.06216.3901.0851.0850.0000.0000.0000.000
86B89GLN0-0.022-0.01317.113-0.295-0.2950.0000.0000.0000.000
87B90ASP-1-0.713-0.82418.214-12.983-12.9830.0000.0000.0000.000
88B91ILE0-0.021-0.00718.336-0.650-0.6500.0000.0000.0000.000
89B92ILE00.0300.00512.795-0.128-0.1280.0000.0000.0000.000
90B93THR0-0.062-0.03516.4350.7080.7080.0000.0000.0000.000
91B94VAL00.025-0.00212.826-0.744-0.7440.0000.0000.0000.000
92B95GLY00.1070.05615.3240.4460.4460.0000.0000.0000.000
93B96GLY0-0.0280.00916.6400.2340.2340.0000.0000.0000.000
94B97ILE00.0090.00718.0960.6110.6110.0000.0000.0000.000
95B98THR0-0.017-0.00918.409-0.396-0.3960.0000.0000.0000.000
96B99VAL00.0060.00916.3560.6130.6130.0000.0000.0000.000
97B100THR0-0.016-0.00418.053-0.426-0.4260.0000.0000.0000.000
98B101GLN00.0180.01613.4600.5710.5710.0000.0000.0000.000
99B102MET0-0.053-0.02516.3710.7240.7240.0000.0000.0000.000
100B103PHE0-0.006-0.00611.999-1.288-1.2880.0000.0000.0000.000
101B104GLY00.027-0.00111.4521.2371.2370.0000.0000.0000.000
102B105GLU-1-0.768-0.82911.990-16.166-16.1660.0000.0000.0000.000
103B106VAL0-0.008-0.0029.2940.5870.5870.0000.0000.0000.000
104B107THR0-0.044-0.03812.6910.5020.5020.0000.0000.0000.000
105B108GLU-1-0.894-0.95812.147-16.820-16.8200.0000.0000.0000.000
106B109MET00.010-0.0077.714-1.435-1.4350.0000.0000.0000.000
107B110PRO00.0010.0017.2781.3321.3320.0000.0000.0000.000
108B111ALA00.0340.0147.654-1.047-1.0470.0000.0000.0000.000
109B112LEU0-0.0320.0276.002-0.671-0.6710.0000.0000.0000.000
110B113PRO00.029-0.0232.127-2.288-0.5352.241-1.050-2.9440.006
111B114PHE00.0750.0012.813-5.758-2.7810.410-1.211-2.176-0.013
112B115MET0-0.0530.0194.3720.7140.872-0.001-0.008-0.1490.000
113B116LEU0-0.047-0.0252.8020.3641.3000.205-0.196-0.9450.001
114B117ALA0-0.039-0.0192.220-2.114-1.6874.727-2.212-2.941-0.006
115B118GLU-1-0.881-0.9442.918-14.332-17.4000.3533.190-0.475-0.003
116B119PHE0-0.132-0.0552.107-4.788-1.1793.864-1.523-5.950-0.007
117B120ASP-1-0.796-0.9146.072-20.294-20.2940.0000.0000.0000.000
118B121GLY00.001-0.0296.756-0.024-0.0240.0000.0000.0000.000
119B122VAL0-0.072-0.0192.188-3.542-4.9075.639-0.845-3.429-0.006
120B123VAL00.0240.0054.1844.5144.7150.000-0.016-0.1850.000
121B124GLY0-0.017-0.0075.847-2.805-2.8050.0000.0000.0000.000
122B125MET0-0.057-0.0376.5105.7135.7130.0000.0000.0000.000
123B126GLY00.0280.0097.2192.0002.0000.0000.0000.0000.000
124B127PHE0-0.053-0.0107.9832.7552.7550.0000.0000.0000.000
125B128ILE00.0620.03110.791-1.564-1.5640.0000.0000.0000.000
126B129GLU-1-0.893-0.95713.368-19.153-19.1530.0000.0000.0000.000
127B130GLN0-0.035-0.0088.3682.0122.0120.0000.0000.0000.000
128B131ALA0-0.029-0.0039.805-2.048-2.0480.0000.0000.0000.000
129B132ILE00.0010.0049.8322.3912.3910.0000.0000.0000.000
130B133GLY00.0240.00512.3390.2200.2200.0000.0000.0000.000
131B134ARG10.8870.94015.46415.24815.2480.0000.0000.0000.000
132B135VAL0-0.028-0.01013.6411.0591.0590.0000.0000.0000.000
133B136THR00.0150.00914.233-1.108-1.1080.0000.0000.0000.000
134B137PRO00.0510.03911.468-0.060-0.0600.0000.0000.0000.000
135B138ILE00.0480.01410.5221.4441.4440.0000.0000.0000.000
136B139PHE00.025-0.00212.9361.2911.2910.0000.0000.0000.000
137B140ASP-1-0.770-0.86614.604-18.485-18.4850.0000.0000.0000.000
138B141ASN0-0.021-0.03016.5131.9871.9870.0000.0000.0000.000
139B142ILE0-0.030-0.01914.9050.9410.9410.0000.0000.0000.000
140B143ILE0-0.0070.00817.8440.7870.7870.0000.0000.0000.000
141B144SER0-0.028-0.02020.5030.9880.9880.0000.0000.0000.000
142B145GLN0-0.097-0.03921.3600.6670.6670.0000.0000.0000.000
143B146GLY0-0.015-0.00324.0290.4440.4440.0000.0000.0000.000
144B147VAL0-0.026-0.01122.5380.4290.4290.0000.0000.0000.000
145B148LEU0-0.071-0.03318.6610.1140.1140.0000.0000.0000.000
146B149LYS10.9300.96522.72611.94111.9410.0000.0000.0000.000
147B150GLU-1-0.910-0.95321.564-12.539-12.5390.0000.0000.0000.000
148B151ASP-1-0.898-0.93619.325-14.894-14.8940.0000.0000.0000.000
149B152VAL0-0.007-0.00916.787-0.668-0.6680.0000.0000.0000.000
150B153PHE0-0.021-0.01110.1660.4360.4360.0000.0000.0000.000
151B154SER00.000-0.00312.639-0.562-0.5620.0000.0000.0000.000
152B155PHE0-0.017-0.0135.059-0.236-0.2360.0000.0000.0000.000
153B156TYR00.0300.0298.8640.5930.5930.0000.0000.0000.000
154B157TYR0-0.031-0.0242.648-1.1080.4870.621-0.783-1.432-0.005
155B158ASN00.0530.0287.7100.8660.8660.0000.0000.0000.000
156B159ARG10.8820.9408.95014.18314.1830.0000.0000.0000.000
157B160ASP-1-0.845-0.92310.918-15.548-15.5480.0000.0000.0000.000
158B161SER0-0.102-0.05712.3560.8310.8310.0000.0000.0000.000
159B162GLU-1-0.877-0.92916.052-13.437-13.4370.0000.0000.0000.000
160B163ASN0-0.112-0.05218.4280.1380.1380.0000.0000.0000.000
161B164SER0-0.019-0.03118.1130.3750.3750.0000.0000.0000.000
162B165GLN00.0190.04117.158-0.875-0.8750.0000.0000.0000.000
163B166SER0-0.021-0.02015.4370.1720.1720.0000.0000.0000.000
164B167LEU0-0.0080.01512.056-0.414-0.4140.0000.0000.0000.000
165B168GLY00.0640.0299.779-0.094-0.0940.0000.0000.0000.000
166B169GLY00.053-0.0047.989-1.092-1.0920.0000.0000.0000.000
167B170GLN0-0.097-0.0539.0641.2891.2890.0000.0000.0000.000
168B171ILE00.0230.0318.281-0.513-0.5130.0000.0000.0000.000
169B172VAL0-0.045-0.03110.2051.2411.2410.0000.0000.0000.000
170B173LEU0-0.006-0.00912.395-0.493-0.4930.0000.0000.0000.000
171B174GLY00.009-0.01915.5220.9760.9760.0000.0000.0000.000
172B175GLY0-0.003-0.00817.3200.9750.9750.0000.0000.0000.000
173B176SER00.0230.01116.287-1.087-1.0870.0000.0000.0000.000
174B177ASP-1-0.807-0.91816.059-13.079-13.0790.0000.0000.0000.000
175B178PRO00.0210.00317.577-0.233-0.2330.0000.0000.0000.000
176B179GLN0-0.037-0.01319.0240.4640.4640.0000.0000.0000.000
177B180HIS0-0.047-0.01314.6630.1580.1580.0000.0000.0000.000
178B181TYR00.0110.00115.795-0.749-0.7490.0000.0000.0000.000
179B182GLU-1-0.954-0.96218.110-11.331-11.3310.0000.0000.0000.000
180B183GLY0-0.033-0.02021.284-0.255-0.2550.0000.0000.0000.000
181B184ASN0-0.044-0.03723.254-0.114-0.1140.0000.0000.0000.000
182B185PHE00.0130.01616.423-0.130-0.1300.0000.0000.0000.000
183B186HIS0-0.0280.00320.6670.9540.9540.0000.0000.0000.000
184B187TYR0-0.068-0.05819.191-0.426-0.4260.0000.0000.0000.000
185B188ILE0-0.045-0.00617.1930.8380.8380.0000.0000.0000.000
186B189ASN0-0.008-0.02117.599-1.020-1.0200.0000.0000.0000.000
187B190LEU0-0.024-0.00213.067-0.250-0.2500.0000.0000.0000.000
188B191ILE0-0.063-0.01815.5691.0281.0280.0000.0000.0000.000
189B192LYS10.9400.95614.14919.95819.9580.0000.0000.0000.000
190B193THR0-0.0030.00415.134-0.743-0.7430.0000.0000.0000.000
191B194GLY00.0290.01213.2770.3100.3100.0000.0000.0000.000
192B195VAL0-0.030-0.0278.878-1.919-1.9190.0000.0000.0000.000
193B196TRP00.0180.0257.6423.1483.1480.0000.0000.0000.000
194B197GLN0-0.021-0.0269.154-2.203-2.2030.0000.0000.0000.000
195B198ILE00.017-0.00211.2291.7801.7800.0000.0000.0000.000
196B199GLN0-0.008-0.01214.516-0.163-0.1630.0000.0000.0000.000
197B200MET0-0.0150.00515.017-0.040-0.0400.0000.0000.0000.000
198B201LYS10.8380.91018.12713.45313.4530.0000.0000.0000.000
199B202GLY00.0840.04820.2570.6400.6400.0000.0000.0000.000
200B203VAL0-0.038-0.03017.650-0.507-0.5070.0000.0000.0000.000
201B204SER00.0100.00920.7870.5390.5390.0000.0000.0000.000
202B205VAL00.0300.02822.200-0.494-0.4940.0000.0000.0000.000
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