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: R5J18

Calculation Name: 4NUX-A-Xray372

Preferred Name: Interleukin-17 receptor A

Target Type: SINGLE PROTEIN

Ligand Name:

ligand 3-letter code:

PDB ID: 4NUX

Chain ID: A

ChEMBL ID: CHEMBL3580485

UniProt ID: Q96F46

Base Structure: X-ray

Registration Date: 2023-06-20

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 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 201
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -2438130.760082
FMO2-HF: Nuclear repulsion 2355674.64976
FMO2-HF: Total energy -82456.110322
FMO2-MP2: Total energy -82691.157613


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:376:LYS)


Summations of interaction energy for fragment #1(A:376: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.
-88.841-86.823-0.001-1.01-1.0070.003
Interaction energy analysis for fragmet #1(A:376:LYS)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 1 / q_Mulliken : 0.967 / q_NPA : 0.976
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].
3A378ARG10.8790.9393.55422.85324.871-0.001-1.010-1.0070.003
4A379LYS10.9200.9645.85032.98532.9850.0000.0000.0000.000
5A380VAL00.003-0.0077.4351.2921.2920.0000.0000.0000.000
6A381TRP00.0450.02211.1570.1830.1830.0000.0000.0000.000
7A382ILE0-0.022-0.00714.2030.7200.7200.0000.0000.0000.000
8A383ILE0-0.0220.00417.4470.3330.3330.0000.0000.0000.000
9A384TYR0-0.045-0.05720.6760.5570.5570.0000.0000.0000.000
10A385SER0-0.004-0.01323.9130.0240.0240.0000.0000.0000.000
11A386ALA00.0510.02027.1710.0640.0640.0000.0000.0000.000
12A387ASP-1-0.753-0.85928.477-9.717-9.7170.0000.0000.0000.000
13A388HIS00.0730.03031.0480.1580.1580.0000.0000.0000.000
14A389PRO00.0320.02430.802-0.305-0.3050.0000.0000.0000.000
15A390LEU0-0.036-0.02129.990-0.289-0.2890.0000.0000.0000.000
16A391TYR0-0.0010.01926.510-0.240-0.2400.0000.0000.0000.000
17A392VAL00.0400.01125.628-0.413-0.4130.0000.0000.0000.000
18A393ASP-1-0.837-0.90725.163-11.458-11.4580.0000.0000.0000.000
19A394VAL0-0.0040.00525.191-0.353-0.3530.0000.0000.0000.000
20A395VAL0-0.0080.00321.439-0.485-0.4850.0000.0000.0000.000
21A396LEU00.0050.00820.204-0.731-0.7310.0000.0000.0000.000
22A397LYS10.7990.88320.45810.80410.8040.0000.0000.0000.000
23A398PHE00.0130.01318.529-0.395-0.3950.0000.0000.0000.000
24A399ALA00.0290.01216.714-0.638-0.6380.0000.0000.0000.000
25A400GLN0-0.016-0.01315.864-0.481-0.4810.0000.0000.0000.000
26A401PHE0-0.013-0.00116.595-0.361-0.3610.0000.0000.0000.000
27A402LEU00.0300.01313.759-0.363-0.3630.0000.0000.0000.000
28A403LEU00.0130.02110.631-0.887-0.8870.0000.0000.0000.000
29A404THR0-0.056-0.04612.549-0.395-0.3950.0000.0000.0000.000
30A405ALA0-0.089-0.04215.2150.3010.3010.0000.0000.0000.000
31A406CYS0-0.062-0.02912.9810.4560.4560.0000.0000.0000.000
32A407GLY00.0110.0219.680-1.283-1.2830.0000.0000.0000.000
33A408THR0-0.091-0.0448.080-2.459-2.4590.0000.0000.0000.000
34A409GLU-1-0.860-0.9265.640-35.135-35.1350.0000.0000.0000.000
35A410VAL0-0.025-0.0309.186-0.194-0.1940.0000.0000.0000.000
36A411ALA0-0.0010.02112.1290.1570.1570.0000.0000.0000.000
37A412LEU00.011-0.02613.5620.8600.8600.0000.0000.0000.000
38A413ASP-1-0.765-0.87017.178-13.911-13.9110.0000.0000.0000.000
39A414LEU0-0.010-0.00820.1350.2210.2210.0000.0000.0000.000
40A415LEU0-0.074-0.04115.9310.4280.4280.0000.0000.0000.000
41A416GLU-1-0.847-0.91215.131-20.493-20.4930.0000.0000.0000.000
42A417GLU-1-0.826-0.92519.470-12.206-12.2060.0000.0000.0000.000
43A418GLN0-0.073-0.03121.6970.5360.5360.0000.0000.0000.000
44A419ALA00.0260.00918.3700.2040.2040.0000.0000.0000.000
45A420ILE0-0.062-0.03920.3420.2570.2570.0000.0000.0000.000
46A421SER0-0.053-0.04022.4180.6350.6350.0000.0000.0000.000
47A422GLU-1-0.941-0.93322.372-13.278-13.2780.0000.0000.0000.000
48A423ALA0-0.062-0.02920.6510.1720.1720.0000.0000.0000.000
49A424GLY00.0620.02822.6750.3220.3220.0000.0000.0000.000
50A425VAL00.0850.02922.801-0.608-0.6080.0000.0000.0000.000
51A426MET0-0.018-0.01322.961-0.361-0.3610.0000.0000.0000.000
52A427THR0-0.018-0.01319.672-0.294-0.2940.0000.0000.0000.000
53A428TRP0-0.049-0.02817.259-0.531-0.5310.0000.0000.0000.000
54A429VAL00.0420.02317.813-0.966-0.9660.0000.0000.0000.000
55A430GLY0-0.027-0.02718.339-0.564-0.5640.0000.0000.0000.000
56A431ARG10.9420.98013.47418.60018.6000.0000.0000.0000.000
57A432GLN00.0290.01413.712-2.598-2.5980.0000.0000.0000.000
58A433LYS10.7890.87013.67314.21214.2120.0000.0000.0000.000
59A434GLN0-0.083-0.03612.5360.5690.5690.0000.0000.0000.000
60A435GLU-1-0.869-0.9379.488-29.184-29.1840.0000.0000.0000.000
61A436MET0-0.0510.0039.458-3.292-3.2920.0000.0000.0000.000
62A437VAL0-0.020-0.01811.074-0.908-0.9080.0000.0000.0000.000
63A438GLU-1-0.920-0.9498.840-28.341-28.3410.0000.0000.0000.000
64A439SER0-0.083-0.0536.317-2.200-2.2000.0000.0000.0000.000
65A440ASN0-0.048-0.0187.9570.0790.0790.0000.0000.0000.000
66A441SER0-0.016-0.0077.8960.4020.4020.0000.0000.0000.000
67A442LYS10.7750.87810.11824.50024.5000.0000.0000.0000.000
68A443ILE00.003-0.00213.132-0.529-0.5290.0000.0000.0000.000
69A444ILE0-0.027-0.01315.1270.9120.9120.0000.0000.0000.000
70A445VAL00.0100.00217.9210.1130.1130.0000.0000.0000.000
71A446LEU0-0.033-0.02020.8590.4040.4040.0000.0000.0000.000
72A447CYS0-0.062-0.03623.4220.2450.2450.0000.0000.0000.000
73A448SER0-0.002-0.04827.079-0.050-0.0500.0000.0000.0000.000
74A449ARG10.8840.95330.1258.3068.3060.0000.0000.0000.000
75A450GLY00.009-0.01331.7710.2090.2090.0000.0000.0000.000
76A451THR00.0040.02126.969-0.025-0.0250.0000.0000.0000.000
77A452ARG10.8110.91030.2358.7408.7400.0000.0000.0000.000
78A453ALA0-0.054-0.03133.4420.1620.1620.0000.0000.0000.000
79A454LYS10.8210.87929.49910.56510.5650.0000.0000.0000.000
80A455TRP0-0.024-0.01231.299-0.146-0.1460.0000.0000.0000.000
81A456GLN00.015-0.01333.1050.2710.2710.0000.0000.0000.000
82A457ALA0-0.0080.01535.7370.1940.1940.0000.0000.0000.000
83A458LEU0-0.025-0.00130.8450.1230.1230.0000.0000.0000.000
84A459LEU0-0.061-0.02035.1470.1320.1320.0000.0000.0000.000
85A460GLY0-0.017-0.00637.5340.2430.2430.0000.0000.0000.000
86A461ARG10.8520.91939.8258.0668.0660.0000.0000.0000.000
87A462GLY00.0150.00840.3380.1190.1190.0000.0000.0000.000
88A463ALA0-0.028-0.00740.484-0.085-0.0850.0000.0000.0000.000
89A464PRO00.0310.00438.158-0.174-0.1740.0000.0000.0000.000
90A465VAL0-0.0050.00335.0250.1570.1570.0000.0000.0000.000
91A466ARG10.8890.94936.0628.0098.0090.0000.0000.0000.000
92A467LEU00.0380.03231.7710.2440.2440.0000.0000.0000.000
93A468ARG10.8480.91934.3797.6767.6760.0000.0000.0000.000
94A469CYS0-0.039-0.01230.160-0.075-0.0750.0000.0000.0000.000
95A470ASP-1-0.821-0.88329.417-10.883-10.8830.0000.0000.0000.000
96A471HIS00.026-0.01831.2810.0810.0810.0000.0000.0000.000
97A472GLY00.0020.00934.0180.3580.3580.0000.0000.0000.000
98A473LYS10.8320.93627.18211.33011.3300.0000.0000.0000.000
99A474PRO00.001-0.01030.9400.0170.0170.0000.0000.0000.000
100A475VAL00.0100.02726.1250.0990.0990.0000.0000.0000.000
101A476GLY0-0.003-0.00428.462-0.062-0.0620.0000.0000.0000.000
102A477ASP-1-0.790-0.89828.704-10.894-10.8940.0000.0000.0000.000
103A478LEU00.0800.03722.318-0.059-0.0590.0000.0000.0000.000
104A479PHE0-0.0230.01424.712-0.336-0.3360.0000.0000.0000.000
105A480THR00.018-0.03326.149-0.129-0.1290.0000.0000.0000.000
106A481ALA0-0.024-0.00625.366-0.035-0.0350.0000.0000.0000.000
107A482ALA00.0470.00922.073-0.283-0.2830.0000.0000.0000.000
108A483MET0-0.033-0.00623.609-0.393-0.3930.0000.0000.0000.000
109A484ASN0-0.019-0.01926.2340.2330.2330.0000.0000.0000.000
110A485MET0-0.0260.01220.572-0.039-0.0390.0000.0000.0000.000
111A486ILE00.0060.00320.444-0.247-0.2470.0000.0000.0000.000
112A487LEU00.0390.04722.9880.0700.0700.0000.0000.0000.000
113A488PRO0-0.052-0.03924.4370.2710.2710.0000.0000.0000.000
114A489ASP-1-0.755-0.84820.659-15.039-15.0390.0000.0000.0000.000
115A490PHE00.0320.00222.761-0.087-0.0870.0000.0000.0000.000
116A491LYS10.9350.97326.73110.92510.9250.0000.0000.0000.000
117A492ARG10.8710.93124.17912.47112.4710.0000.0000.0000.000
118A493PRO00.0870.04224.399-0.498-0.4980.0000.0000.0000.000
119A494ALA0-0.029-0.01521.413-0.252-0.2520.0000.0000.0000.000
120A495CYS0-0.016-0.00820.001-0.774-0.7740.0000.0000.0000.000
121A496PHE00.0210.01720.174-0.340-0.3400.0000.0000.0000.000
122A497GLY00.0230.01918.7490.0290.0290.0000.0000.0000.000
123A498THR00.0300.01915.109-0.871-0.8710.0000.0000.0000.000
124A499TYR0-0.037-0.03616.373-0.656-0.6560.0000.0000.0000.000
125A500VAL0-0.008-0.00216.6110.4990.4990.0000.0000.0000.000
126A501VAL00.0360.02619.629-0.027-0.0270.0000.0000.0000.000
127A502CYS0-0.0110.01121.2050.2050.2050.0000.0000.0000.000
128A503TYR00.0310.00224.0800.1290.1290.0000.0000.0000.000
129A504PHE00.0160.00322.657-0.015-0.0150.0000.0000.0000.000
130A505SER00.000-0.00427.8460.2130.2130.0000.0000.0000.000
131A506GLU-1-0.888-0.93830.735-8.962-8.9620.0000.0000.0000.000
132A507VAL0-0.028-0.00830.0140.2030.2030.0000.0000.0000.000
133A508SER0-0.0130.00629.6250.1460.1460.0000.0000.0000.000
134A509CYS0-0.078-0.03132.2980.1620.1620.0000.0000.0000.000
135A510ASP-1-0.732-0.84631.548-9.801-9.8010.0000.0000.0000.000
136A511GLY00.0180.00532.660-0.110-0.1100.0000.0000.0000.000
137A512ASP-1-0.781-0.90631.269-9.007-9.0070.0000.0000.0000.000
138A513VAL0-0.035-0.02027.991-0.282-0.2820.0000.0000.0000.000
139A514PRO0-0.017-0.00428.4540.2790.2790.0000.0000.0000.000
140A515ASP-1-0.872-0.93530.212-9.437-9.4370.0000.0000.0000.000
141A516LEU0-0.0180.00027.2050.0020.0020.0000.0000.0000.000
142A517PHE00.005-0.01324.707-0.277-0.2770.0000.0000.0000.000
143A518GLY00.0040.00728.022-0.091-0.0910.0000.0000.0000.000
144A519ALA0-0.056-0.03530.2000.0460.0460.0000.0000.0000.000
145A520ALA0-0.0190.01424.690-0.171-0.1710.0000.0000.0000.000
146A521PRO0-0.024-0.02023.6530.3180.3180.0000.0000.0000.000
147A522ARG10.8930.94024.9949.6009.6000.0000.0000.0000.000
148A523TYR00.013-0.02221.859-0.151-0.1510.0000.0000.0000.000
149A524PRO00.0320.02425.393-0.182-0.1820.0000.0000.0000.000
150A525LEU0-0.0230.02021.668-0.225-0.2250.0000.0000.0000.000
151A526MET00.022-0.01921.3180.2350.2350.0000.0000.0000.000
152A527ASP-1-0.893-0.93825.520-10.033-10.0330.0000.0000.0000.000
153A528ARG10.8720.91925.27410.38910.3890.0000.0000.0000.000
154A529PHE00.015-0.02116.918-0.462-0.4620.0000.0000.0000.000
155A530GLU-1-0.947-0.96020.127-12.609-12.6090.0000.0000.0000.000
156A531GLU-1-0.802-0.90019.894-12.037-12.0370.0000.0000.0000.000
157A532VAL0-0.022-0.01317.497-0.618-0.6180.0000.0000.0000.000
158A533TYR0-0.039-0.01913.500-1.127-1.1270.0000.0000.0000.000
159A534PHE00.0790.02515.044-1.193-1.1930.0000.0000.0000.000
160A535ARG10.8320.91315.14614.55914.5590.0000.0000.0000.000
161A536ILE0-0.047-0.03111.158-1.050-1.0500.0000.0000.0000.000
162A537GLN0-0.023-0.01410.059-3.360-3.3600.0000.0000.0000.000
163A538ASP-1-0.877-0.89210.693-24.780-24.7800.0000.0000.0000.000
164A539LEU0-0.043-0.02413.027-0.037-0.0370.0000.0000.0000.000
165A540GLU-1-0.959-0.96915.807-12.383-12.3830.0000.0000.0000.000
166A556ASP-1-0.760-0.86628.238-9.774-9.7740.0000.0000.0000.000
167A557ASN00.0440.00524.8760.1480.1480.0000.0000.0000.000
168A558TYR00.0420.03022.425-0.091-0.0910.0000.0000.0000.000
169A559LEU0-0.0020.01223.603-0.236-0.2360.0000.0000.0000.000
170A560ARG10.8440.90623.94511.03211.0320.0000.0000.0000.000
171A561SER00.0090.01919.6720.0650.0650.0000.0000.0000.000
172A562PRO00.0420.01318.3200.4170.4170.0000.0000.0000.000
173A563GLY00.0540.02619.485-0.539-0.5390.0000.0000.0000.000
174A564GLY00.0160.01021.4410.0860.0860.0000.0000.0000.000
175A565ARG10.9600.96923.44510.17410.1740.0000.0000.0000.000
176A566GLN00.0320.02023.7240.3170.3170.0000.0000.0000.000
177A567LEU00.0140.02122.0370.2170.2170.0000.0000.0000.000
178A568ARG10.8410.88925.1459.6569.6560.0000.0000.0000.000
179A569ALA00.0130.01328.2890.2930.2930.0000.0000.0000.000
180A570ALA0-0.027-0.02027.2180.2820.2820.0000.0000.0000.000
181A571LEU0-0.017-0.01226.5630.1630.1630.0000.0000.0000.000
182A572ASP-1-0.778-0.87230.165-8.579-8.5790.0000.0000.0000.000
183A573ARG10.9160.96432.3959.1499.1490.0000.0000.0000.000
184A574PHE0-0.029-0.02530.9450.2430.2430.0000.0000.0000.000
185A575ARG10.7990.86333.8368.4948.4940.0000.0000.0000.000
186A576ASP-1-0.822-0.90235.648-7.620-7.6200.0000.0000.0000.000
187A577TRP0-0.028-0.01436.9600.3230.3230.0000.0000.0000.000
188A578GLN0-0.021-0.02134.3820.2520.2520.0000.0000.0000.000
189A579VAL0-0.0030.01038.9810.1770.1770.0000.0000.0000.000
190A580ARG10.8510.92741.6267.2547.2540.0000.0000.0000.000
191A581CYS0-0.094-0.05041.3450.2030.2030.0000.0000.0000.000
192A582PRO00.0630.03941.340-0.220-0.2200.0000.0000.0000.000
193A583ASP-1-0.892-0.93642.193-6.941-6.9410.0000.0000.0000.000
194A584TRP0-0.019-0.02833.728-0.191-0.1910.0000.0000.0000.000
195A585PHE0-0.025-0.01033.998-0.122-0.1220.0000.0000.0000.000
196A586GLU-1-0.787-0.90838.301-7.796-7.7960.0000.0000.0000.000
197A587CYS0-0.047-0.00741.0170.1290.1290.0000.0000.0000.000
198A588GLU-1-0.856-0.94435.375-8.635-8.6350.0000.0000.0000.000
199A589ASN00.0020.01037.627-0.355-0.3550.0000.0000.0000.000
200A590LEU0-0.026-0.01438.3250.2710.2710.0000.0000.0000.000
201A591TYR0-0.010-0.00540.998-0.025-0.0250.0000.0000.0000.000