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: 98NY2

Calculation Name: 1UIJ-B-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 1UIJ

Chain ID: B

ChEMBL ID:

UniProt ID: P25974

Base Structure: X-ray

Registration Date: 2023-09-20

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 370
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 22 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -6252566.343162
FMO2-HF: Nuclear repulsion 6105736.472457
FMO2-HF: Total energy -146829.870704
FMO2-MP2: Total energy -147270.793144


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(B:4:ARG)


Summations of interaction energy for fragment #1(B:4:ARG)
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.
-97.703-101.1242.686-16.12-23.147-0.139
Interaction energy analysis for fragmet #1(B:4:ARG)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 1 / q_Mulliken : 0.807 / q_NPA : 0.881
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].
3B6ASP-1-0.850-0.9433.816-33.217-31.433-0.027-0.768-0.989-0.001
4B7GLU-1-0.925-0.9485.828-26.009-26.0090.0000.0000.0000.000
5B8ASN00.0000.0012.616-16.408-12.0880.702-2.363-2.658-0.021
6B9ASN0-0.060-0.0301.663-43.850-52.51923.474-7.754-7.051-0.080
7B10PRO0-0.062-0.0402.5646.5967.1292.182-0.478-2.2360.000
8B11PHE0-0.014-0.0095.3974.6574.807-0.001-0.004-0.1440.000
9B12TYR0-0.030-0.0197.1222.9282.9280.0000.0000.0000.000
10B13PHE0-0.063-0.0398.556-1.413-1.4130.0000.0000.0000.000
11B14ARG11.0141.03410.67924.52024.5200.0000.0000.0000.000
12B15SER00.0390.00413.5900.4560.4560.0000.0000.0000.000
13B16SER0-0.036-0.03116.6050.1200.1200.0000.0000.0000.000
14B17ASN0-0.041-0.02111.9940.5560.5560.0000.0000.0000.000
15B18SER00.0190.00513.623-1.462-1.4620.0000.0000.0000.000
16B19PHE0-0.058-0.01815.4470.0790.0790.0000.0000.0000.000
17B20GLN0-0.034-0.01519.0450.0730.0730.0000.0000.0000.000
18B21THR0-0.009-0.01221.463-0.052-0.0520.0000.0000.0000.000
19B22LEU0-0.0220.00224.8790.0440.0440.0000.0000.0000.000
20B23PHE00.0290.02327.4510.4430.4430.0000.0000.0000.000
21B24GLU-1-0.939-0.99129.017-11.236-11.2360.0000.0000.0000.000
22B25ASN0-0.0160.01931.7780.0440.0440.0000.0000.0000.000
23B26GLN00.0610.02134.238-0.468-0.4680.0000.0000.0000.000
24B27ASN0-0.020-0.02536.6080.0300.0300.0000.0000.0000.000
25B28GLY0-0.022-0.01833.1860.0110.0110.0000.0000.0000.000
26B29ARG10.8720.94124.64312.04612.0460.0000.0000.0000.000
27B30ILE00.0280.02527.431-0.120-0.1200.0000.0000.0000.000
28B31ARG10.8550.92120.67013.98213.9820.0000.0000.0000.000
29B32LEU00.0370.03320.681-0.075-0.0750.0000.0000.0000.000
30B33LEU00.0220.01815.403-0.321-0.3210.0000.0000.0000.000
31B34GLN0-0.006-0.00811.0130.7580.7580.0000.0000.0000.000
32B35ARG10.9380.94515.46816.92316.9230.0000.0000.0000.000
33B36PHE00.1080.05413.156-1.272-1.2720.0000.0000.0000.000
34B37ASN00.0620.02911.512-1.791-1.7910.0000.0000.0000.000
35B38LYS10.8340.91111.22617.22217.2220.0000.0000.0000.000
36B39ARG10.9331.0116.69933.01233.0120.0000.0000.0000.000
37B40SER00.011-0.0055.419-3.286-3.2860.0000.0000.0000.000
38B41PRO00.0330.0036.8191.9671.9670.0000.0000.0000.000
39B42GLN00.0160.0125.0995.3035.3030.0000.0000.0000.000
40B43LEU0-0.0020.0078.7521.7021.7020.0000.0000.0000.000
41B44GLU-1-0.957-0.98611.651-17.112-17.1120.0000.0000.0000.000
42B45ASN00.009-0.00613.9731.5841.5840.0000.0000.0000.000
43B46LEU00.0430.02914.3880.6530.6530.0000.0000.0000.000
44B47ARG10.8530.94016.76315.70415.7040.0000.0000.0000.000
45B48ASP-1-0.866-0.93917.845-13.683-13.6830.0000.0000.0000.000
46B49TYR00.0080.00319.3950.4160.4160.0000.0000.0000.000
47B50ARG10.7900.88518.50414.58014.5800.0000.0000.0000.000
48B51ILE00.0390.03818.9590.5090.5090.0000.0000.0000.000
49B52VAL00.009-0.00121.185-0.285-0.2850.0000.0000.0000.000
50B53GLN00.0180.02122.925-0.125-0.1250.0000.0000.0000.000
51B54PHE00.0230.00124.9310.2230.2230.0000.0000.0000.000
52B55GLN00.0280.02326.425-0.316-0.3160.0000.0000.0000.000
53B56SER00.0250.01230.2050.1960.1960.0000.0000.0000.000
54B57LYS10.9780.98733.4319.1299.1290.0000.0000.0000.000
55B58PRO0-0.0410.00436.5450.0490.0490.0000.0000.0000.000
56B59ASN00.000-0.02439.4330.2300.2300.0000.0000.0000.000
57B60THR00.012-0.00438.173-0.022-0.0220.0000.0000.0000.000
58B61ILE0-0.009-0.01839.8650.0250.0250.0000.0000.0000.000
59B62LEU0-0.045-0.00233.554-0.036-0.0360.0000.0000.0000.000
60B63LEU00.014-0.02037.7390.1330.1330.0000.0000.0000.000
61B64PRO0-0.007-0.01338.588-0.213-0.2130.0000.0000.0000.000
62B65HIS10.8740.95133.0849.1909.1900.0000.0000.0000.000
63B66HIS00.0620.05736.120-0.158-0.1580.0000.0000.0000.000
64B67ALA00.0760.03231.107-0.091-0.0910.0000.0000.0000.000
65B68ASP-1-0.796-0.86030.565-10.272-10.2720.0000.0000.0000.000
66B69ALA0-0.020-0.04127.874-0.397-0.3970.0000.0000.0000.000
67B70ASP-1-0.798-0.88329.328-9.892-9.8920.0000.0000.0000.000
68B71PHE00.003-0.01127.387-0.553-0.5530.0000.0000.0000.000
69B72LEU00.0020.01626.7880.3550.3550.0000.0000.0000.000
70B73LEU0-0.002-0.01627.877-0.460-0.4600.0000.0000.0000.000
71B74PHE00.0500.01526.8130.1310.1310.0000.0000.0000.000
72B75VAL0-0.025-0.00228.474-0.238-0.2380.0000.0000.0000.000
73B76LEU0-0.040-0.00724.0450.0770.0770.0000.0000.0000.000
74B77SER00.0430.01028.1720.1960.1960.0000.0000.0000.000
75B78GLY00.0550.03531.085-0.001-0.0010.0000.0000.0000.000
76B79ARG10.8570.92134.4867.5837.5830.0000.0000.0000.000
77B80ALA00.028-0.00135.628-0.030-0.0300.0000.0000.0000.000
78B81ILE0-0.0200.00537.6810.1470.1470.0000.0000.0000.000
79B82LEU00.0140.01935.889-0.032-0.0320.0000.0000.0000.000
80B83THR0-0.050-0.02839.2680.2420.2420.0000.0000.0000.000
81B84LEU00.0180.00737.765-0.122-0.1220.0000.0000.0000.000
82B85VAL0-0.073-0.03741.5900.1920.1920.0000.0000.0000.000
83B86ASN00.0190.01343.441-0.299-0.2990.0000.0000.0000.000
84B87ASN0-0.047-0.03745.0150.0790.0790.0000.0000.0000.000
85B88ASP-1-0.923-0.95547.352-6.439-6.4390.0000.0000.0000.000
86B89ASP-1-0.877-0.93948.164-6.617-6.6170.0000.0000.0000.000
87B90ARG10.8710.92146.3366.4696.4690.0000.0000.0000.000
88B91ASP-1-0.830-0.87744.211-6.911-6.9110.0000.0000.0000.000
89B92SER0-0.062-0.06043.486-0.132-0.1320.0000.0000.0000.000
90B93TYR00.0440.02039.9470.0380.0380.0000.0000.0000.000
91B94ASN0-0.047-0.03440.727-0.233-0.2330.0000.0000.0000.000
92B95LEU0-0.019-0.00634.773-0.017-0.0170.0000.0000.0000.000
93B96HIS0-0.028-0.03836.4310.1580.1580.0000.0000.0000.000
94B97PRO00.0390.00932.004-0.158-0.1580.0000.0000.0000.000
95B98GLY0-0.0070.00430.3280.1780.1780.0000.0000.0000.000
96B99ASP-1-0.816-0.88131.399-8.651-8.6510.0000.0000.0000.000
97B100ALA00.006-0.00230.346-0.317-0.3170.0000.0000.0000.000
98B101GLN00.007-0.01731.9990.3360.3360.0000.0000.0000.000
99B102ARG10.8990.97232.4529.2409.2400.0000.0000.0000.000
100B103ILE0-0.042-0.01333.0410.3220.3220.0000.0000.0000.000
101B104PRO00.0160.01533.612-0.277-0.2770.0000.0000.0000.000
102B105ALA00.0250.00232.5580.0480.0480.0000.0000.0000.000
103B106GLY0-0.041-0.01734.1070.2470.2470.0000.0000.0000.000
104B107THR00.0030.01536.4460.3320.3320.0000.0000.0000.000
105B108THR0-0.034-0.01937.618-0.248-0.2480.0000.0000.0000.000
106B109TYR0-0.0100.00232.9650.0720.0720.0000.0000.0000.000
107B110TYR00.0090.00038.8470.0200.0200.0000.0000.0000.000
108B111LEU0-0.024-0.01033.9360.0450.0450.0000.0000.0000.000
109B112VAL00.0370.01738.353-0.007-0.0070.0000.0000.0000.000
110B113ASN00.0080.01736.2810.0140.0140.0000.0000.0000.000
111B114PRO0-0.070-0.05738.8210.1690.1690.0000.0000.0000.000
112B115HIS0-0.0070.01437.6240.3050.3050.0000.0000.0000.000
113B116ASP-1-0.814-0.93941.238-6.966-6.9660.0000.0000.0000.000
114B117HIS0-0.031-0.02840.380-0.079-0.0790.0000.0000.0000.000
115B118GLN0-0.0370.00434.724-0.308-0.3080.0000.0000.0000.000
116B119ASN00.0660.01432.0770.3550.3550.0000.0000.0000.000
117B120LEU0-0.057-0.00532.795-0.025-0.0250.0000.0000.0000.000
118B121LYS10.8440.91124.45611.79011.7900.0000.0000.0000.000
119B122MET0-0.012-0.00128.3080.1720.1720.0000.0000.0000.000
120B123ILE00.0190.02122.254-0.342-0.3420.0000.0000.0000.000
121B124TRP00.003-0.01925.4570.3180.3180.0000.0000.0000.000
122B125LEU0-0.041-0.00921.839-0.557-0.5570.0000.0000.0000.000
123B126ALA00.0170.00624.0170.5490.5490.0000.0000.0000.000
124B127ILE00.0130.00323.859-0.753-0.7530.0000.0000.0000.000
125B128PRO0-0.096-0.05724.1110.4510.4510.0000.0000.0000.000
126B129VAL00.0480.02826.950-0.161-0.1610.0000.0000.0000.000
127B130ASN0-0.056-0.02229.6890.1820.1820.0000.0000.0000.000
128B131LYS10.9280.95125.30010.76610.7660.0000.0000.0000.000
129B132PRO00.0220.03121.677-0.122-0.1220.0000.0000.0000.000
130B133GLY00.0670.03520.739-0.453-0.4530.0000.0000.0000.000
131B134ARG10.7840.87921.66612.60512.6050.0000.0000.0000.000
132B135TYR00.0080.01124.0530.1030.1030.0000.0000.0000.000
133B136ASP-1-0.949-0.97327.468-10.796-10.7960.0000.0000.0000.000
134B137ASP-1-0.892-0.95030.229-10.218-10.2180.0000.0000.0000.000
135B138PHE0-0.044-0.02532.5810.2020.2020.0000.0000.0000.000
136B139PHE00.008-0.03233.3440.1320.1320.0000.0000.0000.000
137B140LEU00.0290.01338.2270.1150.1150.0000.0000.0000.000
138B141SER0-0.028-0.00540.9340.1350.1350.0000.0000.0000.000
139B142SER00.0520.03241.925-0.170-0.1700.0000.0000.0000.000
140B143THR0-0.085-0.03840.2370.0670.0670.0000.0000.0000.000
141B144GLN00.0320.01041.702-0.092-0.0920.0000.0000.0000.000
142B145ALA0-0.063-0.02536.045-0.065-0.0650.0000.0000.0000.000
143B146GLN0-0.035-0.02136.385-0.217-0.2170.0000.0000.0000.000
144B147GLN00.0260.02038.4490.3200.3200.0000.0000.0000.000
145B148SER00.0650.05139.951-0.131-0.1310.0000.0000.0000.000
146B149TYR0-0.001-0.01239.0890.0240.0240.0000.0000.0000.000
147B150LEU00.016-0.01141.0150.0580.0580.0000.0000.0000.000
148B151GLN0-0.070-0.03543.7750.0520.0520.0000.0000.0000.000
149B152GLY0-0.0070.00642.730-0.017-0.0170.0000.0000.0000.000
150B153PHE0-0.046-0.01643.4550.0280.0280.0000.0000.0000.000
151B154SER00.0220.00246.9010.0760.0760.0000.0000.0000.000
152B155HIS10.9530.96049.6466.1916.1910.0000.0000.0000.000
153B156ASN00.0990.05852.7100.1010.1010.0000.0000.0000.000
154B157ILE00.0130.02249.6870.0720.0720.0000.0000.0000.000
155B158LEU0-0.0030.02448.4570.0520.0520.0000.0000.0000.000
156B159GLU-1-0.827-0.92052.231-5.580-5.5800.0000.0000.0000.000
157B160THR0-0.038-0.02955.7400.1010.1010.0000.0000.0000.000
158B161SER0-0.111-0.08052.5470.0220.0220.0000.0000.0000.000
159B162PHE0-0.052-0.02949.626-0.009-0.0090.0000.0000.0000.000
160B163HIS0-0.056-0.01155.4570.0560.0560.0000.0000.0000.000
161B164SER00.0520.01757.4210.0820.0820.0000.0000.0000.000
162B165GLU-1-0.925-0.93558.634-5.238-5.2380.0000.0000.0000.000
163B166PHE0-0.010-0.03750.909-0.092-0.0920.0000.0000.0000.000
164B167GLU-1-0.863-0.92955.131-5.561-5.5610.0000.0000.0000.000
165B168GLU-1-0.907-0.94256.526-5.469-5.4690.0000.0000.0000.000
166B169ILE00.000-0.00151.671-0.097-0.0970.0000.0000.0000.000
167B170ASN0-0.009-0.01650.882-0.258-0.2580.0000.0000.0000.000
168B171ARG10.8350.91351.6965.3935.3930.0000.0000.0000.000
169B172VAL0-0.055-0.02853.146-0.047-0.0470.0000.0000.0000.000
170B173LEU0-0.062-0.02448.733-0.102-0.1020.0000.0000.0000.000
171B174PHE0-0.041-0.03347.249-0.152-0.1520.0000.0000.0000.000
172B175GLY0-0.0180.00947.688-0.126-0.1260.0000.0000.0000.000
173B183GLN00.021-0.01044.261-0.065-0.0650.0000.0000.0000.000
174B184GLU-1-0.870-0.93041.050-7.626-7.6260.0000.0000.0000.000
175B185GLY0-0.014-0.05837.819-0.075-0.0750.0000.0000.0000.000
176B186VAL00.0270.03234.3340.1890.1890.0000.0000.0000.000
177B187ILE0-0.0270.01533.2620.0350.0350.0000.0000.0000.000
178B188VAL00.0150.02837.846-0.003-0.0030.0000.0000.0000.000
179B189GLU-1-0.899-0.95541.334-7.472-7.4720.0000.0000.0000.000
180B190LEU0-0.049-0.03943.2510.1550.1550.0000.0000.0000.000
181B191SER00.0130.01246.192-0.001-0.0010.0000.0000.0000.000
182B192LYS11.0150.99246.9986.5486.5480.0000.0000.0000.000
183B193GLU-1-0.915-0.95548.860-5.906-5.9060.0000.0000.0000.000
184B194GLN00.016-0.00848.9470.0070.0070.0000.0000.0000.000
185B195ILE00.0510.07043.728-0.035-0.0350.0000.0000.0000.000
186B196ARG10.9160.96947.3026.0156.0150.0000.0000.0000.000
187B197GLN0-0.057-0.02349.5860.0230.0230.0000.0000.0000.000
188B198LEU0-0.070-0.03745.7540.0400.0400.0000.0000.0000.000
189B199SER0-0.007-0.01545.630-0.076-0.0760.0000.0000.0000.000
190B200ARG10.9050.96246.8666.0026.0020.0000.0000.0000.000
191B201ARG10.9490.96248.9166.4086.4080.0000.0000.0000.000
192B202ALA00.0040.02843.661-0.034-0.0340.0000.0000.0000.000
193B203LYS10.8590.93244.2887.1667.1660.0000.0000.0000.000
194B204SER00.0130.00041.832-0.205-0.2050.0000.0000.0000.000
195B205SER0-0.0050.00737.7500.1780.1780.0000.0000.0000.000
196B206SER00.004-0.02540.5210.1970.1970.0000.0000.0000.000
197B207ARG11.0130.99038.2367.8087.8080.0000.0000.0000.000
198B208LYS10.9030.96241.6586.6806.6800.0000.0000.0000.000
199B209THR00.0450.03939.0930.1640.1640.0000.0000.0000.000
200B210ILE0-0.075-0.03336.020-0.127-0.1270.0000.0000.0000.000
201B211SER0-0.021-0.05837.036-0.242-0.2420.0000.0000.0000.000
202B212SER00.0200.06939.3380.0650.0650.0000.0000.0000.000
203B213GLU-1-0.867-0.96138.709-7.857-7.8570.0000.0000.0000.000
204B214ASP-1-0.902-0.94139.054-7.785-7.7850.0000.0000.0000.000
205B215GLU-1-0.823-0.89639.586-7.345-7.3450.0000.0000.0000.000
206B216PRO0-0.052-0.02036.357-0.196-0.1960.0000.0000.0000.000
207B217PHE0-0.041-0.03031.3800.2630.2630.0000.0000.0000.000
208B218ASN0-0.011-0.01133.917-0.419-0.4190.0000.0000.0000.000
209B219LEU0-0.0160.01827.2610.1780.1780.0000.0000.0000.000
210B220ARG10.8550.89027.49510.40710.4070.0000.0000.0000.000
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