Manual

About

FMODB

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

Last updated: 2024-04-05

All entries: 36946

Number of unique PDB entries: 7781

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FMODB ID: N9NZQ

Calculation Name: 1FS0-G-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 1FS0

Chain ID: G

ChEMBL ID:

UniProt ID: P0A6E6

Base Structure: X-ray

Registration Date: 2023-06-22

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 OptHSide
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 223
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -2616482.625629
FMO2-HF: Nuclear repulsion 2527346.101479
FMO2-HF: Total energy -89136.52415
FMO2-MP2: Total energy -89390.184879


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(G:19:LYS)


Summations of interaction energy for fragment #1(G:19:LYS)
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.
99.393103.4120.686-1.94-2.765-0.002
Interaction energy analysis for fragmet #1(G:19:LYS)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 1 / q_Mulliken : 1.030 / q_NPA : 0.989
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].
3G21THR00.0560.0302.899-2.0850.7320.038-1.366-1.489-0.001
4G22LYS10.9010.9502.50631.74132.6890.648-0.505-1.092-0.001
5G23ALA00.0180.0094.0262.9363.1900.000-0.069-0.1840.000
6G24MET0-0.002-0.0015.7983.5153.5150.0000.0000.0000.000
7G25GLU-1-0.818-0.9087.157-24.676-24.6760.0000.0000.0000.000
8G26MET0-0.036-0.0137.7122.4142.4140.0000.0000.0000.000
9G27VAL0-0.020-0.0079.8232.0402.0400.0000.0000.0000.000
10G28ALA00.0230.00611.8521.5811.5810.0000.0000.0000.000
11G29ALA00.009-0.00112.7031.2901.2900.0000.0000.0000.000
12G30SER0-0.011-0.01614.0561.0781.0780.0000.0000.0000.000
13G31LYS10.8460.92515.95615.80315.8030.0000.0000.0000.000
14G32MET0-0.0250.01217.4420.7860.7860.0000.0000.0000.000
15G33ARG10.9960.99514.03718.64118.6410.0000.0000.0000.000
16G34LYS10.9871.00720.24312.93012.9300.0000.0000.0000.000
17G35SER0-0.023-0.04522.0890.7240.7240.0000.0000.0000.000
18G36GLN00.014-0.00820.7840.0980.0980.0000.0000.0000.000
19G37ASP-1-0.867-0.91924.058-11.923-11.9230.0000.0000.0000.000
20G38ARG10.8080.90325.62711.48911.4890.0000.0000.0000.000
21G39MET0-0.0120.01225.2330.4310.4310.0000.0000.0000.000
22G40ALA00.0170.02028.6260.4030.4030.0000.0000.0000.000
23G41ALA0-0.018-0.01730.2010.3280.3280.0000.0000.0000.000
24G42SER0-0.055-0.03932.1310.3700.3700.0000.0000.0000.000
25G43ARG10.8470.88933.2588.8308.8300.0000.0000.0000.000
26G44PRO00.0340.02535.3800.2670.2670.0000.0000.0000.000
27G45TYR00.0240.02438.4210.2580.2580.0000.0000.0000.000
28G46ALA00.0690.03638.8150.2160.2160.0000.0000.0000.000
29G47GLU-1-0.810-0.89037.572-7.852-7.8520.0000.0000.0000.000
30G48THR0-0.073-0.05541.6530.2120.2120.0000.0000.0000.000
31G49MET00.0390.03443.7780.1840.1840.0000.0000.0000.000
32G50ARG10.9350.97544.0646.5896.5890.0000.0000.0000.000
33G51LYS10.9080.95943.7227.1397.1390.0000.0000.0000.000
34G52VAL0-0.0110.00947.9240.1350.1350.0000.0000.0000.000
35G53ILE00.0190.01347.3930.1290.1290.0000.0000.0000.000
36G54GLY0-0.038-0.01950.0680.1150.1150.0000.0000.0000.000
37G55HIS0-0.064-0.03651.6740.0110.0110.0000.0000.0000.000
38G56LEU0-0.009-0.01953.6050.1010.1010.0000.0000.0000.000
39G57ALA0-0.026-0.01253.8950.0960.0960.0000.0000.0000.000
40G58HIS0-0.063-0.01255.7610.0700.0700.0000.0000.0000.000
41G59GLY00.006-0.00957.5700.0790.0790.0000.0000.0000.000
42G60ASN0-0.044-0.01059.2110.0770.0770.0000.0000.0000.000
43G61LEU00.0340.01760.952-0.017-0.0170.0000.0000.0000.000
44G62GLU-1-0.930-0.96163.992-4.560-4.5600.0000.0000.0000.000
45G63TYR0-0.032-0.03759.8770.0080.0080.0000.0000.0000.000
46G64LYS10.9550.99756.4415.3115.3110.0000.0000.0000.000
47G65HIS00.009-0.01353.9410.0240.0240.0000.0000.0000.000
48G66PRO00.1000.03655.995-0.051-0.0510.0000.0000.0000.000
49G67TYR0-0.076-0.06150.161-0.093-0.0930.0000.0000.0000.000
50G68LEU0-0.074-0.03952.052-0.120-0.1200.0000.0000.0000.000
51G69GLU-1-0.928-0.96554.227-5.109-5.1090.0000.0000.0000.000
52G70ASP-1-0.839-0.90653.653-5.726-5.7260.0000.0000.0000.000
53G71ARG10.7980.88755.3035.5425.5420.0000.0000.0000.000
54G72ASP-1-0.876-0.93556.673-5.138-5.1380.0000.0000.0000.000
55G73VAL0-0.032-0.02052.241-0.044-0.0440.0000.0000.0000.000
56G74LYS10.8920.93855.5635.0365.0360.0000.0000.0000.000
57G75ARG10.7440.82151.7975.6945.6940.0000.0000.0000.000
58G76VAL00.0030.00447.677-0.016-0.0160.0000.0000.0000.000
59G77GLY00.0380.02146.704-0.017-0.0170.0000.0000.0000.000
60G78TYR00.007-0.00941.289-0.040-0.0400.0000.0000.0000.000
61G79LEU00.0150.02639.551-0.027-0.0270.0000.0000.0000.000
62G80VAL0-0.011-0.02735.710-0.115-0.1150.0000.0000.0000.000
63G81VAL0-0.0120.00231.341-0.080-0.0800.0000.0000.0000.000
64G82SER0-0.035-0.00931.085-0.112-0.1120.0000.0000.0000.000
65G83THR0-0.028-0.02325.5740.0310.0310.0000.0000.0000.000
66G84ASP-1-0.704-0.83527.672-9.315-9.3150.0000.0000.0000.000
67G85ARG10.7640.85522.76812.00212.0020.0000.0000.0000.000
68G86GLY00.0320.01524.3090.1350.1350.0000.0000.0000.000
69G87LEU00.0420.02018.002-0.267-0.2670.0000.0000.0000.000
70G88CYS00.0220.01519.877-0.382-0.3820.0000.0000.0000.000
71G89GLY00.0590.02721.6440.2600.2600.0000.0000.0000.000
72G90GLY00.0150.00122.9330.2510.2510.0000.0000.0000.000
73G91LEU0-0.0140.01924.3060.3200.3200.0000.0000.0000.000
74G92ASN00.024-0.00226.6700.3690.3690.0000.0000.0000.000
75G93ILE00.0400.02228.2590.2430.2430.0000.0000.0000.000
76G94ASN0-0.002-0.01328.1520.4670.4670.0000.0000.0000.000
77G95LEU0-0.0150.02031.3490.2230.2230.0000.0000.0000.000
78G96PHE00.001-0.01132.7490.1810.1810.0000.0000.0000.000
79G97LYS10.9720.99634.1798.2038.2030.0000.0000.0000.000
80G98LYS10.8650.93535.7307.6347.6340.0000.0000.0000.000
81G99LEU00.0310.01237.4340.1510.1510.0000.0000.0000.000
82G100LEU00.009-0.00338.6680.1790.1790.0000.0000.0000.000
83G101ALA0-0.021-0.00240.6530.1790.1790.0000.0000.0000.000
84G102GLU-1-0.821-0.92241.072-6.859-6.8590.0000.0000.0000.000
85G103MET00.0020.01043.0520.0900.0900.0000.0000.0000.000
86G104LYS10.8480.91745.2886.0676.0670.0000.0000.0000.000
87G105THR0-0.036-0.01546.7120.1440.1440.0000.0000.0000.000
88G106TRP00.0390.00447.0190.2260.2260.0000.0000.0000.000
89G107THR00.0410.00649.0380.0820.0820.0000.0000.0000.000
90G108ASP-1-0.870-0.90850.749-5.715-5.7150.0000.0000.0000.000
91G109LYS10.8350.92852.5085.7215.7210.0000.0000.0000.000
92G110GLY00.0070.01654.8660.0800.0800.0000.0000.0000.000
93G111VAL0-0.052-0.00851.5510.0290.0290.0000.0000.0000.000
94G112GLN00.0360.02051.783-0.147-0.1470.0000.0000.0000.000
95G113CYS0-0.036-0.00846.575-0.051-0.0510.0000.0000.0000.000
96G114ASP-1-0.758-0.83047.401-5.982-5.9820.0000.0000.0000.000
97G115LEU0-0.041-0.04141.444-0.108-0.1080.0000.0000.0000.000
98G116ALA00.0310.01742.1350.0380.0380.0000.0000.0000.000
99G117MET0-0.057-0.00836.740-0.207-0.2070.0000.0000.0000.000
100G118ILE00.0510.02433.548-0.013-0.0130.0000.0000.0000.000
101G119GLY00.0160.01532.264-0.176-0.1760.0000.0000.0000.000
102G120SER00.005-0.05030.9660.2240.2240.0000.0000.0000.000
103G121LYS10.8820.94827.34710.02910.0290.0000.0000.0000.000
104G122GLY00.1010.03831.8230.1580.1580.0000.0000.0000.000
105G123VAL00.0220.01334.7350.2030.2030.0000.0000.0000.000
106G124SER0-0.102-0.04633.9370.0940.0940.0000.0000.0000.000
107G125PHE0-0.013-0.02534.5950.1150.1150.0000.0000.0000.000
108G126PHE00.036-0.01536.4940.1220.1220.0000.0000.0000.000
109G127ASN0-0.0070.01939.5870.2550.2550.0000.0000.0000.000
110G128SER0-0.053-0.02038.8700.1100.1100.0000.0000.0000.000
111G129VAL0-0.075-0.03239.4410.1150.1150.0000.0000.0000.000
112G130GLY00.0300.04442.1860.1560.1560.0000.0000.0000.000
113G131GLY00.023-0.01043.301-0.139-0.1390.0000.0000.0000.000
114G132ASN0-0.035-0.02045.1620.0010.0010.0000.0000.0000.000
115G133VAL0-0.019-0.01241.470-0.045-0.0450.0000.0000.0000.000
116G134VAL00.0170.01444.4360.0470.0470.0000.0000.0000.000
117G135ALA00.002-0.00144.0820.0460.0460.0000.0000.0000.000
118G136GLN0-0.008-0.01838.988-0.026-0.0260.0000.0000.0000.000
119G137VAL00.0120.01636.1970.0650.0650.0000.0000.0000.000
120G138THR0-0.032-0.01333.810-0.051-0.0510.0000.0000.0000.000
121G139GLY0-0.018-0.01230.8560.0560.0560.0000.0000.0000.000
122G140MET00.0500.05430.825-0.061-0.0610.0000.0000.0000.000
123G141GLY0-0.028-0.01526.833-0.325-0.3250.0000.0000.0000.000
124G142ASP-1-0.798-0.90021.843-13.138-13.1380.0000.0000.0000.000
125G143ASN0-0.073-0.03225.033-0.238-0.2380.0000.0000.0000.000
126G144PRO00.0870.05928.1670.2340.2340.0000.0000.0000.000
127G145SER0-0.021-0.05131.1000.0070.0070.0000.0000.0000.000
128G146LEU00.0640.01734.2160.0900.0900.0000.0000.0000.000
129G147SER00.0220.00337.3350.1550.1550.0000.0000.0000.000
130G148GLU-1-0.871-0.90634.476-8.686-8.6860.0000.0000.0000.000
131G149LEU0-0.015-0.01735.3030.0510.0510.0000.0000.0000.000
132G150ILE0-0.0030.00739.3280.1590.1590.0000.0000.0000.000
133G151GLY00.0250.02242.7810.1550.1550.0000.0000.0000.000
134G152PRO00.035-0.00139.8820.1450.1450.0000.0000.0000.000
135G153VAL00.0100.00641.2680.1130.1130.0000.0000.0000.000
136G154LYS10.9140.96743.9276.1836.1830.0000.0000.0000.000
137G155VAL0-0.0050.00046.4460.1530.1530.0000.0000.0000.000
138G156MET0-0.024-0.00244.4880.1590.1590.0000.0000.0000.000
139G157LEU0-0.011-0.00646.8020.1050.1050.0000.0000.0000.000
140G158GLN00.0140.00249.4660.0090.0090.0000.0000.0000.000
141G159ALA00.0140.01050.8040.1260.1260.0000.0000.0000.000
142G160TYR0-0.023-0.00750.8580.0880.0880.0000.0000.0000.000
143G161ASP-1-0.792-0.87452.925-5.678-5.6780.0000.0000.0000.000
144G162GLU-1-0.831-0.89155.421-5.410-5.4100.0000.0000.0000.000
145G163GLY0-0.0120.00956.5250.0870.0870.0000.0000.0000.000
146G164ARG10.8200.89452.5445.6535.6530.0000.0000.0000.000
147G165LEU0-0.024-0.00848.621-0.089-0.0890.0000.0000.0000.000
148G166ASP-1-0.753-0.85852.408-5.398-5.3980.0000.0000.0000.000
149G167LYS10.8320.90548.3475.8355.8350.0000.0000.0000.000
150G168LEU0-0.0050.01444.707-0.020-0.0200.0000.0000.0000.000
151G169TYR00.0230.00442.1330.0050.0050.0000.0000.0000.000
152G170ILE00.0040.01536.543-0.043-0.0430.0000.0000.0000.000
153G171VAL00.008-0.00635.782-0.010-0.0100.0000.0000.0000.000
154G172SER00.017-0.00532.363-0.060-0.0600.0000.0000.0000.000
155G173ASN0-0.031-0.03028.3810.1440.1440.0000.0000.0000.000
156G174LYS10.9780.99929.7268.2018.2010.0000.0000.0000.000
157G175PHE0-0.008-0.01621.512-0.263-0.2630.0000.0000.0000.000
158G176ILE0-0.035-0.00625.6250.1740.1740.0000.0000.0000.000
159G177ASN00.0570.01121.594-0.433-0.4330.0000.0000.0000.000
160G178THR0-0.001-0.01816.7570.3500.3500.0000.0000.0000.000
161G179MET0-0.031-0.01017.333-0.589-0.5890.0000.0000.0000.000
162G180SER0-0.0170.00920.2690.4190.4190.0000.0000.0000.000
163G181GLN0-0.025-0.01821.3730.0540.0540.0000.0000.0000.000
164G182VAL00.0210.01026.3260.1150.1150.0000.0000.0000.000
165G183PRO00.0080.02029.7700.1060.1060.0000.0000.0000.000
166G184THR0-0.067-0.04232.2680.2190.2190.0000.0000.0000.000
167G185ILE0-0.0160.00235.281-0.073-0.0730.0000.0000.0000.000
168G186SER0-0.032-0.01038.5800.0710.0710.0000.0000.0000.000
169G187GLN0-0.001-0.00740.680-0.015-0.0150.0000.0000.0000.000
170G188LEU0-0.077-0.04040.693-0.061-0.0610.0000.0000.0000.000
171G189LEU0-0.0290.02144.6560.0760.0760.0000.0000.0000.000
172G190PRO00.0810.01148.361-0.056-0.0560.0000.0000.0000.000
173G191LEU0-0.017-0.02746.549-0.120-0.1200.0000.0000.0000.000
174G192PRO0-0.059-0.00344.8180.1240.1240.0000.0000.0000.000
175G200LYS10.9440.95754.7025.3225.3220.0000.0000.0000.000
176G201HIS00.0520.02854.800-0.139-0.1390.0000.0000.0000.000
177G202LYS10.8900.95651.3625.9595.9590.0000.0000.0000.000
178G203SER00.0180.01057.2480.0300.0300.0000.0000.0000.000
179G204TRP00.0060.00953.5550.0450.0450.0000.0000.0000.000
180G205ASP-1-0.760-0.86859.082-5.335-5.3350.0000.0000.0000.000
181G206TYR0-0.075-0.04152.518-0.062-0.0620.0000.0000.0000.000
182G207LEU00.0330.04258.7060.0820.0820.0000.0000.0000.000
183G208TYR0-0.083-0.08956.810-0.146-0.1460.0000.0000.0000.000
184G209GLU-1-0.902-0.92458.546-5.189-5.1890.0000.0000.0000.000
185G210PRO0-0.072-0.04657.963-0.112-0.1120.0000.0000.0000.000
186G211ASP-1-0.752-0.89860.299-5.051-5.0510.0000.0000.0000.000
187G212PRO00.0300.00358.477-0.095-0.0950.0000.0000.0000.000
188G213LYS10.9170.98857.7704.8934.8930.0000.0000.0000.000
189G214ALA00.001-0.00457.663-0.096-0.0960.0000.0000.0000.000
190G215LEU0-0.011-0.00854.400-0.137-0.1370.0000.0000.0000.000
191G216LEU00.0080.00253.001-0.156-0.1560.0000.0000.0000.000
192G217ASP-1-0.778-0.84652.831-5.828-5.8280.0000.0000.0000.000
193G218THR00.0000.00050.020-0.130-0.1300.0000.0000.0000.000
194G219LEU0-0.027-0.03048.799-0.184-0.1840.0000.0000.0000.000
195G220LEU00.0040.00547.778-0.185-0.1850.0000.0000.0000.000
196G221ARG10.7410.82747.5355.7315.7310.0000.0000.0000.000
197G222ARG10.8650.92144.9706.4636.4630.0000.0000.0000.000
198G223TYR0-0.029-0.01741.830-0.199-0.1990.0000.0000.0000.000
199G224VAL00.0390.02342.553-0.188-0.1880.0000.0000.0000.000
200G225GLU-1-0.828-0.90541.684-7.024-7.0240.0000.0000.0000.000
201G226SER0-0.007-0.01038.767-0.251-0.2510.0000.0000.0000.000
202G227GLN0-0.0040.00037.768-0.138-0.1380.0000.0000.0000.000
203G228VAL00.0430.02137.162-0.201-0.2010.0000.0000.0000.000
204G229TYR0-0.027-0.01732.127-0.336-0.3360.0000.0000.0000.000
205G230GLN0-0.047-0.03333.420-0.123-0.1230.0000.0000.0000.000
206G231GLY00.0630.03432.293-0.255-0.2550.0000.0000.0000.000
207G232VAL00.004-0.00631.170-0.287-0.2870.0000.0000.0000.000
208G233VAL0-0.051-0.02328.822-0.395-0.3950.0000.0000.0000.000
209G234GLU-1-0.806-0.91227.468-9.730-9.7300.0000.0000.0000.000
210G235ASN00.0320.02926.980-0.233-0.2330.0000.0000.0000.000
211G236LEU0-0.0350.00124.006-0.372-0.3720.0000.0000.0000.000
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213G238SER0-0.006-0.02322.108-0.481-0.4810.0000.0000.0000.000
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