FMODB

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

Last updated: 2024-05-02

All entries: 37386

Number of unique PDB entries: 7781

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FMODB ID: G6611

Calculation Name: 5HXN-A-Xray372

Preferred Name:
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Target Type:
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Ligand Name:
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ligand 3-letter code:
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PDB ID: 5HXN

Chain ID: A

ChEMBL ID:
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UniProt ID: B8XA40

Base Structure: X-ray

Registration Date: 2023-06-21

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 220
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -2741108.357731
FMO2-HF: Nuclear repulsion 2652217.805158
FMO2-HF: Total energy -88890.552573
FMO2-MP2: Total energy -89147.960756


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:76:LEU)


Summations of interaction energy for fragment #1(A:76:LEU)
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.
-7.605-2.1183.001-3.468-5.019-0.012
Interaction energy analysis for fragmet #1(A:76:LEU)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : -0.005 / q_NPA : -0.002
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].
3A78PRO0-0.0130.0052.771-3.1050.1650.396-1.656-2.009-0.007
4A79LYS10.9710.9855.3641.1411.234-0.001-0.003-0.0880.000
5A80HIS0-0.037-0.0266.6040.3490.3490.0000.0000.0000.000
6A81ILE00.0230.0219.685-0.140-0.1400.0000.0000.0000.000
7A82ALA00.0010.00211.9140.1570.1570.0000.0000.0000.000
8A83LEU00.0370.00515.511-0.038-0.0380.0000.0000.0000.000
9A84ILE0-0.046-0.02118.1050.0620.0620.0000.0000.0000.000
10A85MET00.0030.02321.501-0.009-0.0090.0000.0000.0000.000
11A86ASP-1-0.849-0.90123.375-0.221-0.2210.0000.0000.0000.000
12A87GLY00.037-0.00125.169-0.013-0.0130.0000.0000.0000.000
13A88ASN00.0440.02426.7440.0140.0140.0000.0000.0000.000
14A89ARG10.8370.86229.8100.1770.1770.0000.0000.0000.000
15A90ARG10.8050.88330.7210.1480.1480.0000.0000.0000.000
16A91TRP00.0490.02228.9490.0190.0190.0000.0000.0000.000
17A92ALA00.0090.00831.7710.0090.0090.0000.0000.0000.000
18A93LYS10.9170.94735.1730.1400.1400.0000.0000.0000.000
19A94ASP-1-0.815-0.89232.848-0.150-0.1500.0000.0000.0000.000
20A95LYS10.8440.94331.3340.1700.1700.0000.0000.0000.000
21A96GLY0-0.0190.00437.5170.0060.0060.0000.0000.0000.000
22A97LEU0-0.0140.00236.6080.0050.0050.0000.0000.0000.000
23A98ASP-1-0.809-0.90639.229-0.123-0.1230.0000.0000.0000.000
24A99VAL0-0.086-0.05435.636-0.006-0.0060.0000.0000.0000.000
25A100SER0-0.001-0.01235.723-0.010-0.0100.0000.0000.0000.000
26A101GLU-1-0.837-0.92035.716-0.128-0.1280.0000.0000.0000.000
27A102GLY0-0.030-0.00432.518-0.006-0.0060.0000.0000.0000.000
28A103HIS0-0.062-0.06931.328-0.020-0.0200.0000.0000.0000.000
29A104LYS10.9010.93831.0350.1160.1160.0000.0000.0000.000
30A105HIS0-0.0050.01128.268-0.007-0.0070.0000.0000.0000.000
31A106LEU0-0.060-0.01625.680-0.017-0.0170.0000.0000.0000.000
32A107PHE00.0220.00125.382-0.025-0.0250.0000.0000.0000.000
33A108PRO00.0550.03225.088-0.015-0.0150.0000.0000.0000.000
34A109LYS10.8060.90622.0850.2930.2930.0000.0000.0000.000
35A110LEU00.007-0.00719.605-0.034-0.0340.0000.0000.0000.000
36A111LYS10.8250.90420.2090.1760.1760.0000.0000.0000.000
37A112GLU-1-0.803-0.87320.499-0.314-0.3140.0000.0000.0000.000
38A113ILE0-0.004-0.01116.263-0.030-0.0300.0000.0000.0000.000
39A114CYS0-0.045-0.00916.045-0.078-0.0780.0000.0000.0000.000
40A115ASP-1-0.906-0.95215.967-0.295-0.2950.0000.0000.0000.000
41A116ILE0-0.060-0.03414.331-0.003-0.0030.0000.0000.0000.000
42A117SER00.010-0.02112.214-0.087-0.0870.0000.0000.0000.000
43A118SER0-0.040-0.02311.195-0.062-0.0620.0000.0000.0000.000
44A119LYS10.8850.95412.4180.3180.3180.0000.0000.0000.000
45A120LEU0-0.023-0.0079.1980.0730.0730.0000.0000.0000.000
46A121GLY00.0080.0107.893-0.138-0.1380.0000.0000.0000.000
47A122ILE0-0.046-0.0137.719-0.032-0.0320.0000.0000.0000.000
48A123GLN0-0.031-0.0277.5000.2030.2030.0000.0000.0000.000
49A124VAL0-0.036-0.01810.4880.1310.1310.0000.0000.0000.000
50A125ILE00.0380.02612.026-0.137-0.1370.0000.0000.0000.000
51A126THR0-0.009-0.00714.7850.1050.1050.0000.0000.0000.000
52A127ALA00.004-0.00417.551-0.041-0.0410.0000.0000.0000.000
53A128PHE0-0.069-0.03120.1140.0410.0410.0000.0000.0000.000
54A129ALA0-0.0040.00123.2560.0040.0040.0000.0000.0000.000
55A130PHE0-0.019-0.02426.2140.0180.0180.0000.0000.0000.000
56A131SER00.0290.01428.5600.0030.0030.0000.0000.0000.000
57A132THR00.041-0.00129.6640.0090.0090.0000.0000.0000.000
58A133GLU-1-0.892-0.92330.927-0.180-0.1800.0000.0000.0000.000
59A134ASN0-0.074-0.04030.7910.0010.0010.0000.0000.0000.000
60A135TRP00.0520.01634.1140.0070.0070.0000.0000.0000.000
61A136LYS10.8960.95935.9310.1520.1520.0000.0000.0000.000
62A137ARG10.8730.96131.8820.1810.1810.0000.0000.0000.000
63A138ALA00.0440.02038.9330.0050.0050.0000.0000.0000.000
64A139LYS10.8730.90740.9680.1000.1000.0000.0000.0000.000
65A140GLY00.0620.03742.071-0.002-0.0020.0000.0000.0000.000
66A141GLU-1-0.739-0.82036.041-0.153-0.1530.0000.0000.0000.000
67A142VAL0-0.003-0.00737.303-0.005-0.0050.0000.0000.0000.000
68A143ASP-1-0.798-0.88437.841-0.109-0.1090.0000.0000.0000.000
69A144PHE00.0090.00235.332-0.001-0.0010.0000.0000.0000.000
70A145LEU0-0.023-0.01432.405-0.003-0.0030.0000.0000.0000.000
71A146MET0-0.019-0.00434.084-0.005-0.0050.0000.0000.0000.000
72A147GLN00.0000.00535.9950.0000.0000.0000.0000.0000.000
73A148MET00.0000.01230.9910.0000.0000.0000.0000.0000.000
74A149PHE00.006-0.02030.055-0.007-0.0070.0000.0000.0000.000
75A150GLU-1-0.841-0.90431.677-0.120-0.1200.0000.0000.0000.000
76A151GLU-1-0.931-0.96932.230-0.141-0.1410.0000.0000.0000.000
77A152LEU0-0.027-0.01026.397-0.005-0.0050.0000.0000.0000.000
78A153TYR00.014-0.00528.679-0.003-0.0030.0000.0000.0000.000
79A154ASP-1-0.819-0.91530.142-0.118-0.1180.0000.0000.0000.000
80A155GLU-1-0.836-0.89127.249-0.192-0.1920.0000.0000.0000.000
81A156PHE00.009-0.01721.887-0.010-0.0100.0000.0000.0000.000
82A157SER0-0.0510.01425.5740.0010.0010.0000.0000.0000.000
83A158ARG10.8130.88027.6610.1230.1230.0000.0000.0000.000
84A159SER0-0.010-0.01722.903-0.002-0.0020.0000.0000.0000.000
85A160GLY00.0070.00922.165-0.006-0.0060.0000.0000.0000.000
86A161VAL0-0.017-0.00618.502-0.009-0.0090.0000.0000.0000.000
87A162ARG10.9090.97717.5510.2620.2620.0000.0000.0000.000
88A163VAL00.008-0.00319.926-0.035-0.0350.0000.0000.0000.000
89A164SER0-0.017-0.01621.2100.0320.0320.0000.0000.0000.000
90A165ILE0-0.046-0.02122.981-0.019-0.0190.0000.0000.0000.000
91A166ILE0-0.028-0.00321.5150.0070.0070.0000.0000.0000.000
92A167GLY0-0.008-0.02725.447-0.009-0.0090.0000.0000.0000.000
93A168CYS0-0.083-0.02028.4450.0090.0090.0000.0000.0000.000
94A169LYS10.8850.90627.5420.1810.1810.0000.0000.0000.000
95A170THR00.0120.00133.0440.0030.0030.0000.0000.0000.000
96A171ASP-1-0.856-0.90835.867-0.125-0.1250.0000.0000.0000.000
97A172LEU0-0.053-0.01431.9210.0010.0010.0000.0000.0000.000
98A173PRO00.0480.02136.6570.0070.0070.0000.0000.0000.000
99A174MET00.0280.00737.839-0.004-0.0040.0000.0000.0000.000
100A175THR0-0.073-0.06438.4970.0010.0010.0000.0000.0000.000
101A176LEU00.0580.04332.282-0.002-0.0020.0000.0000.0000.000
102A177GLN0-0.042-0.03134.012-0.006-0.0060.0000.0000.0000.000
103A178LYS10.9260.95634.2000.0840.0840.0000.0000.0000.000
104A179CYS00.0180.03731.8810.0000.0000.0000.0000.0000.000
105A180ILE0-0.0130.00528.852-0.006-0.0060.0000.0000.0000.000
106A181ALA00.0080.00729.906-0.004-0.0040.0000.0000.0000.000
107A182LEU0-0.0080.00231.2590.0010.0010.0000.0000.0000.000
108A183THR00.036-0.00526.7480.0020.0020.0000.0000.0000.000
109A184GLU-1-0.784-0.85626.068-0.186-0.1860.0000.0000.0000.000
110A185GLU-1-0.830-0.89726.907-0.104-0.1040.0000.0000.0000.000
111A186THR0-0.063-0.05828.9170.0020.0020.0000.0000.0000.000
112A187THR0-0.0160.00123.820-0.002-0.0020.0000.0000.0000.000
113A188LYS10.8000.89523.5130.0950.0950.0000.0000.0000.000
114A189GLY0-0.010-0.00923.3270.0000.0000.0000.0000.0000.000
115A190ASN0-0.032-0.01121.0220.0250.0250.0000.0000.0000.000
116A191LYS10.8730.90917.6800.0990.0990.0000.0000.0000.000
117A192GLY00.0100.02815.5890.0030.0030.0000.0000.0000.000
118A193LEU00.0070.01013.000-0.003-0.0030.0000.0000.0000.000
119A194HIS0-0.029-0.00514.6080.0800.0800.0000.0000.0000.000
120A195LEU00.0270.00215.875-0.061-0.0610.0000.0000.0000.000
121A196VAL00.002-0.00417.8240.0460.0460.0000.0000.0000.000
122A197ILE00.006-0.00720.017-0.029-0.0290.0000.0000.0000.000
123A198ALA0-0.011-0.00422.6770.0230.0230.0000.0000.0000.000
124A199LEU00.023-0.00724.3640.0000.0000.0000.0000.0000.000
125A200ASN0-0.043-0.02128.0040.0080.0080.0000.0000.0000.000
126A201TYR0-0.008-0.02523.619-0.002-0.0020.0000.0000.0000.000
127A202GLY00.0420.00727.2220.0000.0000.0000.0000.0000.000
128A203GLY00.0260.02025.6500.0040.0040.0000.0000.0000.000
129A204TYR0-0.039-0.03426.4240.0100.0100.0000.0000.0000.000
130A205TYR0-0.054-0.04728.4870.0150.0150.0000.0000.0000.000
131A206ASP-1-0.671-0.81024.082-0.236-0.2360.0000.0000.0000.000
132A207ILE00.0470.02025.8490.0090.0090.0000.0000.0000.000
133A208LEU0-0.040-0.01528.6240.0150.0150.0000.0000.0000.000
134A209GLN0-0.089-0.04527.5420.0230.0230.0000.0000.0000.000
135A210ALA00.0650.04027.7790.0090.0090.0000.0000.0000.000
136A211THR0-0.005-0.02529.8610.0110.0110.0000.0000.0000.000
137A212LYS10.9200.95732.4990.1250.1250.0000.0000.0000.000
138A213SER0-0.029-0.01831.4710.0120.0120.0000.0000.0000.000
139A214ILE00.0360.02029.0700.0070.0070.0000.0000.0000.000
140A215VAL0-0.001-0.00333.4660.0080.0080.0000.0000.0000.000
141A216ASN0-0.067-0.04736.9070.0100.0100.0000.0000.0000.000
142A217LYS10.8650.92330.7980.1110.1110.0000.0000.0000.000
143A218ALA00.0190.03036.8460.0050.0050.0000.0000.0000.000
144A219MET0-0.074-0.04538.5000.0050.0050.0000.0000.0000.000
145A220ASN0-0.113-0.06239.9960.0060.0060.0000.0000.0000.000
146A221GLY00.0160.01641.2390.0020.0020.0000.0000.0000.000
147A222LEU0-0.077-0.04436.2380.0020.0020.0000.0000.0000.000
148A223LEU0-0.073-0.02532.537-0.002-0.0020.0000.0000.0000.000
149A224ASP-1-0.838-0.91536.053-0.049-0.0490.0000.0000.0000.000
150A225VAL0-0.035-0.04535.359-0.005-0.0050.0000.0000.0000.000
151A226GLU-1-0.979-0.98834.368-0.052-0.0520.0000.0000.0000.000
152A227ASP-1-0.836-0.90131.855-0.060-0.0600.0000.0000.0000.000
153A228ILE0-0.104-0.05330.301-0.010-0.0100.0000.0000.0000.000
154A229ASN00.0140.00425.998-0.010-0.0100.0000.0000.0000.000
155A230LYS10.8710.90718.0480.2530.2530.0000.0000.0000.000
156A231ASN00.0460.01621.300-0.027-0.0270.0000.0000.0000.000
157A232LEU00.0120.02623.090-0.007-0.0070.0000.0000.0000.000
158A233PHE00.0510.01024.768-0.005-0.0050.0000.0000.0000.000
159A234ASP-1-0.806-0.88819.985-0.256-0.2560.0000.0000.0000.000
160A235GLN0-0.051-0.02621.640-0.005-0.0050.0000.0000.0000.000
161A236GLU-1-0.815-0.86324.210-0.119-0.1190.0000.0000.0000.000
162A237LEU0-0.0440.00222.7260.0000.0000.0000.0000.0000.000
163A238GLU-1-0.780-0.87723.912-0.197-0.1970.0000.0000.0000.000
164A239SER0-0.066-0.01918.967-0.018-0.0180.0000.0000.0000.000
165A240LYS10.8460.91018.8910.2120.2120.0000.0000.0000.000
166A241CYS0-0.037-0.00415.126-0.037-0.0370.0000.0000.0000.000
167A242PRO0-0.035-0.02010.7810.0450.0450.0000.0000.0000.000
168A243ASN00.0690.03212.9230.0100.0100.0000.0000.0000.000
169A244PRO0-0.028-0.00911.662-0.085-0.0850.0000.0000.0000.000
170A245ASP-1-0.795-0.8667.464-1.709-1.7090.0000.0000.0000.000
171A246LEU0-0.004-0.0058.776-0.045-0.0450.0000.0000.0000.000
172A247LEU0-0.034-0.01710.8810.1270.1270.0000.0000.0000.000
173A248ILE00.0170.01512.5300.0040.0040.0000.0000.0000.000
174A249ARG10.7390.85515.9040.3740.3740.0000.0000.0000.000
175A250THR00.0120.00319.560-0.007-0.0070.0000.0000.0000.000
176A251GLY0-0.017-0.02121.5510.0170.0170.0000.0000.0000.000
177A252GLY0-0.061-0.01923.3200.0280.0280.0000.0000.0000.000
178A253ASP-1-0.809-0.89224.573-0.237-0.2370.0000.0000.0000.000
179A254GLN0-0.010-0.00221.382-0.043-0.0430.0000.0000.0000.000
180A255ARG10.8420.91123.3060.2280.2280.0000.0000.0000.000
181A256VAL00.1190.05220.282-0.018-0.0180.0000.0000.0000.000
182A257SER0-0.062-0.04222.9040.0030.0030.0000.0000.0000.000
183A258ASN00.011-0.00826.494-0.002-0.0020.0000.0000.0000.000
184A259PHE00.0960.05619.0800.0110.0110.0000.0000.0000.000
185A260LEU00.0180.01117.8640.0250.0250.0000.0000.0000.000
186A261LEU0-0.050-0.03220.677-0.023-0.0230.0000.0000.0000.000
187A262TRP0-0.013-0.00320.684-0.004-0.0040.0000.0000.0000.000
188A263GLN0-0.012-0.03417.524-0.015-0.0150.0000.0000.0000.000
189A264LEU0-0.017-0.01216.383-0.058-0.0580.0000.0000.0000.000
190A265ALA0-0.047-0.00617.271-0.017-0.0170.0000.0000.0000.000
191A266TYR0-0.020-0.02613.6090.0520.0520.0000.0000.0000.000
192A267THR0-0.046-0.01912.334-0.042-0.0420.0000.0000.0000.000
193A268GLU-1-0.790-0.8869.056-0.718-0.7180.0000.0000.0000.000
194A269PHE0-0.050-0.02811.794-0.015-0.0150.0000.0000.0000.000
195A270TYR0-0.038-0.04012.757-0.004-0.0040.0000.0000.0000.000
196A271PHE0-0.009-0.00714.7990.0260.0260.0000.0000.0000.000
197A272THR00.0740.04218.0760.0280.0280.0000.0000.0000.000
198A273LYS10.9510.94519.8770.2380.2380.0000.0000.0000.000
199A274THR0-0.0080.02321.0260.0320.0320.0000.0000.0000.000
200A275LEU00.0030.00522.985-0.020-0.0200.0000.0000.0000.000
201A276PHE00.0210.00020.830-0.004-0.0040.0000.0000.0000.000
202A277PRO00.008-0.01323.929-0.012-0.0120.0000.0000.0000.000
203A278ASP-1-0.872-0.92725.056-0.202-0.2020.0000.0000.0000.000
204A279PHE0-0.0240.00415.635-0.005-0.0050.0000.0000.0000.000
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