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: NNYRQ

Calculation Name: 1UT9-A-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 1UT9

Chain ID: A

ChEMBL ID:

UniProt ID: Q6RSN8

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:


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 605
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -14582164.518687
FMO2-HF: Nuclear repulsion 14342336.02287
FMO2-HF: Total energy -239828.495817
FMO2-MP2: Total energy -240530.004524


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:208:ILE)


Summations of interaction energy for fragment #1(A:208:ILE)
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.
-1.7251.2440.253-1.229-1.993-0.004
Interaction energy analysis for fragmet #1(A:208:ILE)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : -0.043 / q_NPA : -0.037
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].
3A210PRO00.0390.0162.941-3.350-0.8940.236-1.151-1.542-0.004
4A211GLN00.0130.0034.7290.4790.610-0.001-0.005-0.1240.000
5A212PRO0-0.0140.0196.7910.0100.0100.0000.0000.0000.000
6A213ASP-1-0.762-0.83810.270-0.441-0.4410.0000.0000.0000.000
7A214VAL0-0.071-0.03013.1170.0440.0440.0000.0000.0000.000
8A215ARG10.8480.9229.7420.4700.4700.0000.0000.0000.000
9A216VAL00.016-0.01114.5250.0170.0170.0000.0000.0000.000
10A217ASN00.0230.00615.3790.0200.0200.0000.0000.0000.000
11A218GLN0-0.043-0.02410.0990.1030.1030.0000.0000.0000.000
12A219VAL00.0020.02915.3680.0360.0360.0000.0000.0000.000
13A220GLY00.011-0.01518.166-0.003-0.0030.0000.0000.0000.000
14A221TYR0-0.027-0.01120.271-0.008-0.0080.0000.0000.0000.000
15A222LEU00.0360.02324.4920.0060.0060.0000.0000.0000.000
16A223PRO0-0.019-0.01928.018-0.007-0.0070.0000.0000.0000.000
17A224GLU-1-0.906-0.94130.2990.0030.0030.0000.0000.0000.000
18A225GLY00.0260.00430.1910.0040.0040.0000.0000.0000.000
19A226LYS10.9020.96226.9830.0320.0320.0000.0000.0000.000
20A227LYS10.7490.88624.4890.0060.0060.0000.0000.0000.000
21A228VAL00.0140.01122.940-0.007-0.0070.0000.0000.0000.000
22A229ALA0-0.0060.00918.4650.0030.0030.0000.0000.0000.000
23A230THR00.009-0.01417.3300.0080.0080.0000.0000.0000.000
24A231VAL0-0.010-0.01316.446-0.023-0.0230.0000.0000.0000.000
25A232VAL00.0200.01713.0220.0180.0180.0000.0000.0000.000
26A233CYS0-0.030-0.01815.650-0.020-0.0200.0000.0000.0000.000
27A234ASN00.018-0.00318.1550.0110.0110.0000.0000.0000.000
28A235SER0-0.066-0.02420.2390.0170.0170.0000.0000.0000.000
29A236THR00.025-0.00123.2680.0000.0000.0000.0000.0000.000
30A237GLN0-0.043-0.00126.2720.0080.0080.0000.0000.0000.000
31A238PRO00.0540.02725.782-0.011-0.0110.0000.0000.0000.000
32A239VAL0-0.031-0.01221.5180.0000.0000.0000.0000.0000.000
33A240LYS10.8170.90924.9990.0820.0820.0000.0000.0000.000
34A241TRP00.0200.00622.343-0.015-0.0150.0000.0000.0000.000
35A242GLN0-0.061-0.05622.6200.0080.0080.0000.0000.0000.000
36A243LEU00.0240.02621.745-0.010-0.0100.0000.0000.0000.000
37A244LYS10.8480.92121.8810.0880.0880.0000.0000.0000.000
38A245ASN00.0590.02222.8550.0040.0040.0000.0000.0000.000
39A246ALA00.1010.04622.123-0.008-0.0080.0000.0000.0000.000
40A247ALA0-0.090-0.04022.9710.0020.0020.0000.0000.0000.000
41A248GLY00.0120.01123.401-0.005-0.0050.0000.0000.0000.000
42A249VAL0-0.071-0.03724.344-0.010-0.0100.0000.0000.0000.000
43A250VAL0-0.023-0.01625.8240.0010.0010.0000.0000.0000.000
44A251VAL0-0.046-0.02526.4910.0050.0050.0000.0000.0000.000
45A252LEU00.0160.01727.1290.0030.0030.0000.0000.0000.000
46A253GLU-1-0.843-0.90326.938-0.072-0.0720.0000.0000.0000.000
47A254GLY00.0360.02227.2560.0070.0070.0000.0000.0000.000
48A255TYR0-0.036-0.02526.699-0.008-0.0080.0000.0000.0000.000
49A256THR0-0.009-0.01721.8150.0090.0090.0000.0000.0000.000
50A257GLU-1-0.843-0.92025.056-0.070-0.0700.0000.0000.0000.000
51A258PRO0-0.070-0.04024.603-0.005-0.0050.0000.0000.0000.000
52A259LYS10.8610.95323.7160.0970.0970.0000.0000.0000.000
53A260GLY00.0120.00424.110-0.008-0.0080.0000.0000.0000.000
54A261LEU0-0.045-0.02020.308-0.011-0.0110.0000.0000.0000.000
55A262ASP-1-0.747-0.84519.680-0.127-0.1270.0000.0000.0000.000
56A263LYS10.8860.94120.5320.0720.0720.0000.0000.0000.000
57A264ASP-1-0.711-0.81719.669-0.099-0.0990.0000.0000.0000.000
58A265SER0-0.032-0.04815.637-0.012-0.0120.0000.0000.0000.000
59A266GLN0-0.090-0.05915.985-0.034-0.0340.0000.0000.0000.000
60A267ASP-1-0.751-0.82514.161-0.365-0.3650.0000.0000.0000.000
61A268TYR0-0.023-0.02017.0860.0360.0360.0000.0000.0000.000
62A269VAL00.0080.00717.280-0.021-0.0210.0000.0000.0000.000
63A270HIS0-0.0010.01119.8260.0210.0210.0000.0000.0000.000
64A271TRP0-0.012-0.00220.759-0.005-0.0050.0000.0000.0000.000
65A272LEU0-0.011-0.01220.556-0.003-0.0030.0000.0000.0000.000
66A273ASP-1-0.799-0.86623.291-0.038-0.0380.0000.0000.0000.000
67A274PHE0-0.027-0.02821.9420.0000.0000.0000.0000.0000.000
68A275SER00.032-0.02526.9770.0090.0090.0000.0000.0000.000
69A276ASP-1-0.931-0.95229.011-0.017-0.0170.0000.0000.0000.000
70A277PHE0-0.098-0.04327.3460.0030.0030.0000.0000.0000.000
71A278ALA00.0830.03229.2340.0020.0020.0000.0000.0000.000
72A279THR0-0.074-0.03330.0050.0050.0050.0000.0000.0000.000
73A280GLU-1-0.759-0.86528.7030.0460.0460.0000.0000.0000.000
74A281GLY0-0.054-0.03026.933-0.004-0.0040.0000.0000.0000.000
75A282ILE0-0.031-0.01322.1410.0020.0020.0000.0000.0000.000
76A283GLY00.0190.00319.703-0.005-0.0050.0000.0000.0000.000
77A284TYR0-0.107-0.06120.699-0.017-0.0170.0000.0000.0000.000
78A285TYR0-0.037-0.02117.0400.0160.0160.0000.0000.0000.000
79A286PHE00.0350.00917.976-0.001-0.0010.0000.0000.0000.000
80A287GLU-1-0.811-0.87917.609-0.129-0.1290.0000.0000.0000.000
81A288LEU0-0.002-0.00817.3980.0210.0210.0000.0000.0000.000
82A289PRO0-0.010-0.00220.034-0.017-0.0170.0000.0000.0000.000
83A290THR0-0.037-0.02622.3670.0000.0000.0000.0000.0000.000
84A291VAL0-0.0200.00217.5170.0020.0020.0000.0000.0000.000
85A292ASN0-0.047-0.02619.049-0.019-0.0190.0000.0000.0000.000
86A293SER0-0.029-0.05014.057-0.018-0.0180.0000.0000.0000.000
87A294PRO0-0.022-0.01010.7850.0420.0420.0000.0000.0000.000
88A295THR0-0.031-0.0398.367-0.062-0.0620.0000.0000.0000.000
89A296ASN00.0040.03211.6730.0100.0100.0000.0000.0000.000
90A297TYR0-0.002-0.01210.2220.0180.0180.0000.0000.0000.000
91A298SER0-0.0100.00113.674-0.042-0.0420.0000.0000.0000.000
92A299HIS0-0.029-0.0318.1360.0570.0570.0000.0000.0000.000
93A300PRO0-0.020-0.01813.320-0.012-0.0120.0000.0000.0000.000
94A301PHE00.0220.02516.1190.0170.0170.0000.0000.0000.000
95A302ASP-1-0.776-0.88518.8080.1150.1150.0000.0000.0000.000
96A303ILE0-0.047-0.01222.242-0.008-0.0080.0000.0000.0000.000
97A304ARG10.8160.86921.578-0.122-0.1220.0000.0000.0000.000
98A305LYS10.8860.90827.382-0.045-0.0450.0000.0000.0000.000
99A306ASP-1-0.810-0.88126.9370.1000.1000.0000.0000.0000.000
100A307ILE0-0.071-0.01622.1680.0140.0140.0000.0000.0000.000
101A308TYR00.047-0.00822.3210.0150.0150.0000.0000.0000.000
102A309THR0-0.035-0.03025.6240.0020.0020.0000.0000.0000.000
103A310GLN0-0.056-0.03924.314-0.014-0.0140.0000.0000.0000.000
104A311MET00.0140.02620.194-0.002-0.0020.0000.0000.0000.000
105A312LYS10.8160.91323.947-0.086-0.0860.0000.0000.0000.000
106A313TYR0-0.021-0.01727.217-0.007-0.0070.0000.0000.0000.000
107A314ASP-1-0.811-0.88122.6260.1890.1890.0000.0000.0000.000
108A315ALA0-0.0040.00424.2560.0020.0020.0000.0000.0000.000
109A316LEU00.000-0.01025.136-0.004-0.0040.0000.0000.0000.000
110A317ALA00.0070.01226.119-0.005-0.0050.0000.0000.0000.000
111A318PHE00.003-0.00123.1150.0030.0030.0000.0000.0000.000
112A319PHE00.001-0.01126.0040.0000.0000.0000.0000.0000.000
113A320TYR00.0850.04729.554-0.001-0.0010.0000.0000.0000.000
114A321HIS00.003-0.00525.773-0.004-0.0040.0000.0000.0000.000
115A322LYS10.8000.92723.975-0.140-0.1400.0000.0000.0000.000
116A323ARG10.7340.85928.956-0.094-0.0940.0000.0000.0000.000
117A324SER0-0.045-0.01232.5780.0040.0040.0000.0000.0000.000
118A325GLY0-0.024-0.04034.544-0.003-0.0030.0000.0000.0000.000
119A326ILE0-0.020-0.01335.004-0.004-0.0040.0000.0000.0000.000
120A327PRO0-0.024-0.01234.7160.0050.0050.0000.0000.0000.000
121A328ILE0-0.0080.02028.738-0.001-0.0010.0000.0000.0000.000
122A329GLU-1-0.905-0.94831.7630.1030.1030.0000.0000.0000.000
123A330MET0-0.0660.01328.5040.0070.0070.0000.0000.0000.000
124A331PRO00.016-0.02032.136-0.007-0.0070.0000.0000.0000.000
125A332TYR00.0570.02330.9870.0080.0080.0000.0000.0000.000
126A333ALA0-0.014-0.01027.9840.0050.0050.0000.0000.0000.000
127A334GLY00.0200.00426.5140.0140.0140.0000.0000.0000.000
128A335GLY00.011-0.01924.9430.0160.0160.0000.0000.0000.000
129A336GLU-1-0.954-0.97226.0330.1770.1770.0000.0000.0000.000
130A337GLN00.0050.00621.278-0.024-0.0240.0000.0000.0000.000
131A338TRP0-0.089-0.05519.5020.0000.0000.0000.0000.0000.000
132A339THR0-0.043-0.02525.245-0.015-0.0150.0000.0000.0000.000
133A340ARG10.8060.88928.161-0.119-0.1190.0000.0000.0000.000
134A341PRO00.0160.01030.576-0.006-0.0060.0000.0000.0000.000
135A342ALA0-0.0050.00633.0610.0030.0030.0000.0000.0000.000
136A343GLY00.0020.00233.5890.0000.0000.0000.0000.0000.000
137A344HIS00.0540.03932.264-0.002-0.0020.0000.0000.0000.000
138A345ILE00.0190.01737.077-0.004-0.0040.0000.0000.0000.000
139A346GLY0-0.062-0.03040.174-0.002-0.0020.0000.0000.0000.000
140A347ILE0-0.044-0.01739.587-0.003-0.0030.0000.0000.0000.000
141A348GLU-1-0.766-0.87739.1140.0590.0590.0000.0000.0000.000
142A349PRO0-0.047-0.01535.3220.0020.0020.0000.0000.0000.000
143A350ASN0-0.011-0.00534.074-0.002-0.0020.0000.0000.0000.000
144A351LYS10.7570.86337.526-0.059-0.0590.0000.0000.0000.000
145A352GLY00.0370.03039.385-0.004-0.0040.0000.0000.0000.000
146A353ASP-1-0.770-0.88637.4910.0650.0650.0000.0000.0000.000
147A354THR00.014-0.00540.731-0.002-0.0020.0000.0000.0000.000
148A355ASN0-0.076-0.03944.069-0.004-0.0040.0000.0000.0000.000
149A356VAL00.0130.02641.0430.0000.0000.0000.0000.0000.000
150A357PRO0-0.0030.00143.568-0.002-0.0020.0000.0000.0000.000
151A358THR00.022-0.00243.9370.0020.0020.0000.0000.0000.000
152A359TRP0-0.073-0.05136.5000.0010.0010.0000.0000.0000.000
153A360PRO00.0050.01042.232-0.002-0.0020.0000.0000.0000.000
154A361GLN00.008-0.00944.637-0.002-0.0020.0000.0000.0000.000
155A362ASP-1-0.938-0.96445.7400.0190.0190.0000.0000.0000.000
156A363ASP-1-0.824-0.86739.6450.0240.0240.0000.0000.0000.000
157A364GLU-1-0.864-0.91139.6140.0100.0100.0000.0000.0000.000
158A365TYR0-0.047-0.05137.474-0.001-0.0010.0000.0000.0000.000
159A366ALA00.0000.01340.0880.0020.0020.0000.0000.0000.000
160A367GLY00.0340.03142.6160.0010.0010.0000.0000.0000.000
161A368ILE0-0.060-0.03243.571-0.001-0.0010.0000.0000.0000.000
162A369PRO00.006-0.01046.9860.0010.0010.0000.0000.0000.000
163A370GLN0-0.011-0.00344.2020.0010.0010.0000.0000.0000.000
164A371LYS10.8600.91749.626-0.018-0.0180.0000.0000.0000.000
165A372ASN0-0.0160.00450.1840.0020.0020.0000.0000.0000.000
166A373TYR0-0.026-0.02348.184-0.001-0.0010.0000.0000.0000.000
167A374THR0-0.016-0.01447.5410.0000.0000.0000.0000.0000.000
168A375LYS10.8200.91645.527-0.034-0.0340.0000.0000.0000.000
169A376ASP-1-0.816-0.86444.6880.0510.0510.0000.0000.0000.000
170A377VAL0-0.005-0.02540.498-0.001-0.0010.0000.0000.0000.000
171A378THR0-0.054-0.04139.9710.0030.0030.0000.0000.0000.000
172A379GLY00.0400.02338.361-0.003-0.0030.0000.0000.0000.000
173A380GLY00.0810.03136.7720.0000.0000.0000.0000.0000.000
174A381TRP0-0.042-0.03931.2550.0040.0040.0000.0000.0000.000
175A382TYR0-0.093-0.06629.017-0.005-0.0050.0000.0000.0000.000
176A383ASP-1-0.802-0.87429.0880.0670.0670.0000.0000.0000.000
177A384ALA00.0630.02624.4150.0010.0010.0000.0000.0000.000
178A385GLY00.0280.04322.4880.0120.0120.0000.0000.0000.000
179A386ASP-1-0.852-0.91223.3650.0820.0820.0000.0000.0000.000
180A387HIS00.001-0.01426.601-0.004-0.0040.0000.0000.0000.000
181A388GLY00.0060.01130.036-0.005-0.0050.0000.0000.0000.000
182A389LYS10.7980.89731.556-0.059-0.0590.0000.0000.0000.000
183A390TYR0-0.057-0.06130.061-0.008-0.0080.0000.0000.0000.000
184A391VAL00.0410.03635.1690.0020.0020.0000.0000.0000.000
185A392VAL00.0010.00334.9010.0000.0000.0000.0000.0000.000
186A393ASN0-0.025-0.03228.906-0.002-0.0020.0000.0000.0000.000
187A394GLY00.0820.04032.7640.0030.0030.0000.0000.0000.000
188A395GLY0-0.034-0.01434.4140.0010.0010.0000.0000.0000.000
189A396ILE00.0220.01231.9990.0010.0010.0000.0000.0000.000
190A397ALA00.0000.01931.2660.0010.0010.0000.0000.0000.000
191A398VAL00.0400.00932.6570.0020.0020.0000.0000.0000.000
192A399TRP0-0.021-0.01635.4840.0000.0000.0000.0000.0000.000
193A400THR0-0.045-0.03731.265-0.003-0.0030.0000.0000.0000.000
194A401LEU00.012-0.00231.0250.0000.0000.0000.0000.0000.000
195A402MET0-0.035-0.00734.763-0.001-0.0010.0000.0000.0000.000
196A403ASN00.0330.05336.689-0.002-0.0020.0000.0000.0000.000
197A404MET0-0.0180.02231.531-0.001-0.0010.0000.0000.0000.000
198A405TYR0-0.034-0.03236.314-0.001-0.0010.0000.0000.0000.000
199A406GLU-1-0.801-0.87738.8700.0280.0280.0000.0000.0000.000
200A407ARG10.7990.87436.424-0.035-0.0350.0000.0000.0000.000
201A408ALA00.0150.01138.210-0.002-0.0020.0000.0000.0000.000
202A409LYS10.9570.98740.214-0.035-0.0350.0000.0000.0000.000
203A410ILE0-0.054-0.02043.691-0.002-0.0020.0000.0000.0000.000
204A411ARG10.7940.88439.820-0.028-0.0280.0000.0000.0000.000
205A412GLY0-0.021-0.00543.6700.0000.0000.0000.0000.0000.000
206A413LEU0-0.029-0.02338.5120.0010.0010.0000.0000.0000.000
207A414ASP-1-0.826-0.91440.0770.0430.0430.0000.0000.0000.000
208A415ASN0-0.037-0.02041.9030.0020.0020.0000.0000.0000.000
209A416TRP0-0.023-0.01432.7970.0040.0040.0000.0000.0000.000
210A417GLY00.004-0.00134.8780.0000.0000.0000.0000.0000.000
211A418PRO0-0.007-0.01432.6360.0000.0000.0000.0000.0000.000
212A419TYR0-0.020-0.01534.7920.0000.0000.0000.0000.0000.000
213A420ARG10.9050.95738.304-0.068-0.0680.0000.0000.0000.000
214A421ASP-1-0.829-0.90139.3360.0620.0620.0000.0000.0000.000
215A422GLY00.0310.00839.080-0.002-0.0020.0000.0000.0000.000
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