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: 7MJYK

Calculation Name: 1HWG-B-Xray372

Preferred Name: Growth hormone receptor

Target Type: SINGLE PROTEIN

Ligand Name:

ligand 3-letter code:

PDB ID: 1HWG

Chain ID: B

ChEMBL ID: CHEMBL1976

UniProt ID: P10912

Base Structure: X-ray

Registration Date: 2023-09-26

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 194
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -2133103.893986
FMO2-HF: Nuclear repulsion 2052327.503604
FMO2-HF: Total energy -80776.390382
FMO2-MP2: Total energy -81009.760986


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:32:GLU)


Summations of interaction energy for fragment #1(B:32:GLU)
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.
174.053178.0929.075-5.533-7.5780.017
Interaction energy analysis for fragmet #1(B:32:GLU)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : -1 / q_Mulliken : -0.952 / q_NPA : -0.986
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].
3B34LYS10.8400.9163.838-39.293-37.410-0.010-0.859-1.0140.005
4B35PHE00.0560.0265.945-1.992-1.9920.0000.0000.0000.000
5B36THR0-0.095-0.0459.623-0.693-0.6930.0000.0000.0000.000
6B37LYS10.8370.90312.151-15.418-15.4180.0000.0000.0000.000
7B38CYS-1-0.755-0.85815.18017.84817.8480.0000.0000.0000.000
8B39ARG10.7420.84217.671-12.255-12.2550.0000.0000.0000.000
9B40SER0-0.0200.00421.357-0.141-0.1410.0000.0000.0000.000
10B41PRO0-0.044-0.03624.745-0.233-0.2330.0000.0000.0000.000
11B42GLU-1-0.785-0.93327.25910.11510.1150.0000.0000.0000.000
12B43ARG10.8870.95528.612-9.632-9.6320.0000.0000.0000.000
13B44GLU-1-0.981-0.97329.2288.9148.9140.0000.0000.0000.000
14B45THR0-0.074-0.03026.3630.1490.1490.0000.0000.0000.000
15B46PHE0-0.003-0.02519.671-0.315-0.3150.0000.0000.0000.000
16B47SER0-0.056-0.00919.799-0.030-0.0300.0000.0000.0000.000
17B48CYS-1-0.685-0.84314.61317.07317.0730.0000.0000.0000.000
18B49HIS0-0.057-0.02314.0540.4130.4130.0000.0000.0000.000
19B50TRP0-0.010-0.0108.5090.9590.9590.0000.0000.0000.000
20B51THR0-0.031-0.0145.493-1.075-1.0750.0000.0000.0000.000
21B52ASP-1-0.914-0.9576.77327.56927.5690.0000.0000.0000.000
22B53GLU-1-1.019-1.0042.00028.81827.3127.141-2.425-3.210-0.017
23B63PRO0-0.029-0.02110.0860.7950.7950.0000.0000.0000.000
24B64ILE00.0520.0185.9762.9682.9680.0000.0000.0000.000
25B65GLN0-0.097-0.0309.135-1.234-1.2340.0000.0000.0000.000
26B66LEU00.0450.02710.9932.7202.7200.0000.0000.0000.000
27B67PHE0-0.023-0.01412.733-1.716-1.7160.0000.0000.0000.000
28B68TYR00.0400.01315.4320.1040.1040.0000.0000.0000.000
29B69THR0-0.054-0.04718.144-1.160-1.1600.0000.0000.0000.000
30B70ARG10.9921.00921.062-11.602-11.6020.0000.0000.0000.000
31B71ARG10.9230.98023.828-11.741-11.7410.0000.0000.0000.000
32B72ASN0-0.075-0.05926.512-0.121-0.1210.0000.0000.0000.000
33B73THR0-0.031-0.03427.884-0.583-0.5830.0000.0000.0000.000
34B74GLN00.0390.02627.3240.0840.0840.0000.0000.0000.000
35B75GLU-1-0.920-0.93927.08011.88211.8820.0000.0000.0000.000
36B76TRP00.031-0.00221.488-0.255-0.2550.0000.0000.0000.000
37B77THR00.0000.01921.0210.3740.3740.0000.0000.0000.000
38B78GLN0-0.022-0.02719.9261.1241.1240.0000.0000.0000.000
39B79GLU-1-0.964-0.96221.46913.04513.0450.0000.0000.0000.000
40B80TRP0-0.088-0.05315.952-0.037-0.0370.0000.0000.0000.000
41B81LYS10.8610.94620.025-14.206-14.2060.0000.0000.0000.000
42B82GLU-1-0.864-0.92116.48719.38319.3830.0000.0000.0000.000
43B83CYS-1-0.823-0.87816.68115.51615.5160.0000.0000.0000.000
44B84PRO0-0.125-0.05918.637-0.497-0.4970.0000.0000.0000.000
45B85ASP-1-0.921-0.96820.59612.21212.2120.0000.0000.0000.000
46B86TYR00.1250.05013.9150.7940.7940.0000.0000.0000.000
47B87VAL0-0.073-0.02317.6990.2270.2270.0000.0000.0000.000
48B88SER0-0.050-0.04920.412-0.304-0.3040.0000.0000.0000.000
49B89ALA0-0.082-0.02619.767-0.484-0.4840.0000.0000.0000.000
50B90GLY0-0.025-0.01819.5010.2400.2400.0000.0000.0000.000
51B91GLU-1-0.979-0.99214.30616.74616.7460.0000.0000.0000.000
52B92ASN0-0.051-0.02210.9490.5450.5450.0000.0000.0000.000
53B93SER00.000-0.00513.3240.3610.3610.0000.0000.0000.000
54B94CYS-1-0.765-0.87215.48916.94816.9480.0000.0000.0000.000
55B95TYR0-0.060-0.04117.499-0.700-0.7000.0000.0000.0000.000
56B96PHE00.0600.01618.356-0.554-0.5540.0000.0000.0000.000
57B97ASN00.0390.00123.477-0.493-0.4930.0000.0000.0000.000
58B98SER00.0890.02427.1640.1490.1490.0000.0000.0000.000
59B99SER0-0.073-0.02429.737-0.147-0.1470.0000.0000.0000.000
60B100PHE0-0.050-0.01724.744-0.039-0.0390.0000.0000.0000.000
61B101THR00.0270.03825.3630.6650.6650.0000.0000.0000.000
62B102SER0-0.072-0.03226.844-0.565-0.5650.0000.0000.0000.000
63B103ILE00.0040.00227.1980.3750.3750.0000.0000.0000.000
64B104TRP0-0.046-0.03128.670-0.356-0.3560.0000.0000.0000.000
65B105ILE0-0.065-0.01725.982-0.144-0.1440.0000.0000.0000.000
66B106PRO0-0.015-0.00823.4910.1330.1330.0000.0000.0000.000
67B107TYR0-0.050-0.05620.011-0.602-0.6020.0000.0000.0000.000
68B108CYS-1-0.778-0.87617.38716.87016.8700.0000.0000.0000.000
69B109ILE0-0.093-0.06113.345-0.403-0.4030.0000.0000.0000.000
70B110LYS10.9410.97311.374-22.771-22.7710.0000.0000.0000.000
71B111LEU00.0050.0136.259-1.317-1.3170.0000.0000.0000.000
72B112THR0-0.022-0.0267.6333.2463.2460.0000.0000.0000.000
73B113SER00.0530.0323.986-8.777-8.4360.002-0.111-0.2300.001
74B114ASN0-0.034-0.0336.075-0.242-0.2420.0000.0000.0000.000
75B115GLY0-0.017-0.0078.610-0.339-0.3390.0000.0000.0000.000
76B116GLY0-0.039-0.0196.946-2.673-2.6730.0000.0000.0000.000
77B117THR0-0.040-0.0236.3722.7542.7540.0000.0000.0000.000
78B118VAL00.0220.0232.688-2.6130.6501.943-2.127-3.0790.028
79B119ASP-1-0.855-0.9484.84331.23831.296-0.001-0.011-0.0450.000
80B120GLU-1-0.960-0.9687.27621.16421.1640.0000.0000.0000.000
81B121LYS10.8810.95111.104-18.671-18.6710.0000.0000.0000.000
82B122CYS-1-0.727-0.85013.95417.15317.1530.0000.0000.0000.000
83B123PHE0-0.107-0.04916.492-0.469-0.4690.0000.0000.0000.000
84B124SER00.0130.00120.509-0.203-0.2030.0000.0000.0000.000
85B125VAL00.0310.00423.5420.0070.0070.0000.0000.0000.000
86B126ASP-1-0.930-0.99124.70910.75610.7560.0000.0000.0000.000
87B127GLU-1-0.921-0.95522.84112.66212.6620.0000.0000.0000.000
88B128ILE0-0.0270.01619.3000.0540.0540.0000.0000.0000.000
89B129VAL00.0040.00623.123-0.070-0.0700.0000.0000.0000.000
90B130GLN0-0.030-0.04522.011-0.075-0.0750.0000.0000.0000.000
91B131PRO0-0.041-0.00226.3950.1440.1440.0000.0000.0000.000
92B132ASP-1-0.815-0.89828.26510.49710.4970.0000.0000.0000.000
93B133PRO0-0.018-0.01029.248-0.217-0.2170.0000.0000.0000.000
94B134PRO0-0.054-0.02432.039-0.130-0.1300.0000.0000.0000.000
95B135ILE00.0310.00434.5620.0430.0430.0000.0000.0000.000
96B136ALA00.004-0.01537.681-0.141-0.1410.0000.0000.0000.000
97B137LEU00.0310.01937.765-0.191-0.1910.0000.0000.0000.000
98B138ASN0-0.073-0.04341.073-0.225-0.2250.0000.0000.0000.000
99B139TRP00.021-0.00344.6080.0030.0030.0000.0000.0000.000
100B140THR0-0.0070.00847.179-0.107-0.1070.0000.0000.0000.000
101B141LEU00.0030.00150.9810.0560.0560.0000.0000.0000.000
102B142LEU0-0.037-0.02052.399-0.058-0.0580.0000.0000.0000.000
103B143ASN0-0.040-0.01454.862-0.191-0.1910.0000.0000.0000.000
104B144VAL00.0450.01655.7330.0940.0940.0000.0000.0000.000
105B145SER0-0.0180.01357.928-0.119-0.1190.0000.0000.0000.000
106B146LEU00.039-0.00159.842-0.003-0.0030.0000.0000.0000.000
107B147THR0-0.053-0.03759.838-0.019-0.0190.0000.0000.0000.000
108B148GLY00.0060.00559.622-0.001-0.0010.0000.0000.0000.000
109B149ILE0-0.029-0.00254.8710.0660.0660.0000.0000.0000.000
110B150HIS0-0.007-0.00452.7630.1580.1580.0000.0000.0000.000
111B151ALA00.0470.01653.049-0.128-0.1280.0000.0000.0000.000
112B152ASP-1-0.853-0.90351.4955.7945.7940.0000.0000.0000.000
113B153ILE00.0080.00245.739-0.087-0.0870.0000.0000.0000.000
114B154GLN00.0390.01248.8880.0490.0490.0000.0000.0000.000
115B155VAL00.006-0.00242.217-0.005-0.0050.0000.0000.0000.000
116B156ARG10.8920.94944.530-6.687-6.6870.0000.0000.0000.000
117B157TRP0-0.0260.00339.7360.0220.0220.0000.0000.0000.000
118B158GLU-1-0.863-0.93040.3256.8986.8980.0000.0000.0000.000
119B159ALA00.0370.03437.5710.1590.1590.0000.0000.0000.000
120B160PRO00.0380.02233.111-0.157-0.1570.0000.0000.0000.000
121B161ARG10.7980.87035.193-7.750-7.7500.0000.0000.0000.000
122B162ASN00.0230.01630.122-0.359-0.3590.0000.0000.0000.000
123B163ALA00.0610.05134.0090.1070.1070.0000.0000.0000.000
124B164ASP-1-0.820-0.92334.9527.6047.6040.0000.0000.0000.000
125B165ILE0-0.023-0.01337.631-0.058-0.0580.0000.0000.0000.000
126B166GLN0-0.037-0.02639.685-0.087-0.0870.0000.0000.0000.000
127B167LYS10.8770.93641.298-7.519-7.5190.0000.0000.0000.000
128B168GLY0-0.012-0.00341.0850.0290.0290.0000.0000.0000.000
129B169TRP0-0.0120.01932.651-0.103-0.1030.0000.0000.0000.000
130B170MET0-0.028-0.00631.1870.2790.2790.0000.0000.0000.000
131B171VAL0-0.041-0.02835.875-0.292-0.2920.0000.0000.0000.000
132B172LEU0-0.020-0.00533.6220.2070.2070.0000.0000.0000.000
133B173GLU-1-0.950-0.96335.2858.0848.0840.0000.0000.0000.000
134B174TYR0-0.007-0.02935.5970.2780.2780.0000.0000.0000.000
135B175GLU-1-0.817-0.88233.6408.7388.7380.0000.0000.0000.000
136B176LEU00.0030.00636.1040.0900.0900.0000.0000.0000.000
137B177GLN0-0.010-0.02732.560-0.008-0.0080.0000.0000.0000.000
138B178TYR00.0090.00037.552-0.013-0.0130.0000.0000.0000.000
139B179LYS10.8090.91835.748-7.795-7.7950.0000.0000.0000.000
140B180GLU-1-0.872-0.94040.5046.4856.4850.0000.0000.0000.000
141B181VAL00.0080.01039.4510.1680.1680.0000.0000.0000.000
142B182ASN0-0.006-0.00339.3340.1800.1800.0000.0000.0000.000
143B183GLU-1-0.843-0.91439.8826.9646.9640.0000.0000.0000.000
144B184THR00.020-0.00135.4460.0900.0900.0000.0000.0000.000
145B185LYS10.8540.93734.982-7.043-7.0430.0000.0000.0000.000
146B186TRP00.0670.01733.014-0.194-0.1940.0000.0000.0000.000
147B187LYS10.8050.92236.906-6.907-6.9070.0000.0000.0000.000
148B188MET00.0320.00634.2440.1150.1150.0000.0000.0000.000
149B189MET0-0.057-0.01938.384-0.138-0.1380.0000.0000.0000.000
150B190ASP-1-0.910-0.94739.1157.2137.2130.0000.0000.0000.000
151B191PRO0-0.016-0.01637.020-0.075-0.0750.0000.0000.0000.000
152B192ILE00.0060.02239.246-0.206-0.2060.0000.0000.0000.000
153B193LEU00.014-0.01440.0590.1480.1480.0000.0000.0000.000
154B194THR0-0.043-0.01042.034-0.016-0.0160.0000.0000.0000.000
155B195THR00.004-0.00841.3480.0930.0930.0000.0000.0000.000
156B196SER0-0.039-0.02343.401-0.109-0.1090.0000.0000.0000.000
157B197VAL00.005-0.00443.1080.0180.0180.0000.0000.0000.000
158B198PRO00.0400.03446.3390.0140.0140.0000.0000.0000.000
159B199VAL00.0030.02344.1420.0580.0580.0000.0000.0000.000
160B200TYR0-0.025-0.03346.972-0.095-0.0950.0000.0000.0000.000
161B201SER0-0.076-0.04649.0020.0510.0510.0000.0000.0000.000
162B202LEU0-0.0020.02045.9720.0590.0590.0000.0000.0000.000
163B203LYS10.9400.94749.369-6.026-6.0260.0000.0000.0000.000
164B204VAL00.011-0.01550.3340.0860.0860.0000.0000.0000.000
165B205ASP-1-0.923-0.95751.9885.7195.7190.0000.0000.0000.000
166B206LYS10.8720.94846.702-6.037-6.0370.0000.0000.0000.000
167B207GLU-1-0.886-0.93443.5736.5936.5930.0000.0000.0000.000
168B208TYR0-0.044-0.03642.7480.0620.0620.0000.0000.0000.000
169B209GLU-1-0.811-0.91036.9747.8107.8100.0000.0000.0000.000
170B210VAL0-0.036-0.03338.9880.0130.0130.0000.0000.0000.000
171B211ARG10.9220.96930.263-8.943-8.9430.0000.0000.0000.000
172B212VAL00.009-0.00835.243-0.113-0.1130.0000.0000.0000.000
173B213ARG10.9370.97528.573-9.492-9.4920.0000.0000.0000.000
174B214SER00.0470.01432.328-0.244-0.2440.0000.0000.0000.000
175B215LYS10.9450.97630.550-9.122-9.1220.0000.0000.0000.000
176B216GLN00.0660.05730.982-0.333-0.3330.0000.0000.0000.000
177B217ARG10.9380.95232.558-7.561-7.5610.0000.0000.0000.000
178B218ASN0-0.068-0.03433.3340.0260.0260.0000.0000.0000.000
179B219SER00.0380.01228.4870.0930.0930.0000.0000.0000.000
180B220GLY00.0190.00925.798-0.237-0.2370.0000.0000.0000.000
181B221ASN0-0.0060.01825.2890.0950.0950.0000.0000.0000.000
182B222TYR0-0.034-0.03127.079-0.127-0.1270.0000.0000.0000.000
183B223GLY00.0000.00626.4910.3590.3590.0000.0000.0000.000
184B224GLU-1-0.942-0.96224.06711.29911.2990.0000.0000.0000.000
185B225PHE0-0.064-0.05427.660-0.321-0.3210.0000.0000.0000.000
186B226SER00.0210.01430.4790.1170.1170.0000.0000.0000.000
187B227GLU-1-0.936-0.95831.7129.0139.0130.0000.0000.0000.000
188B228VAL0-0.056-0.03533.638-0.149-0.1490.0000.0000.0000.000
189B229LEU0-0.0320.00036.073-0.125-0.1250.0000.0000.0000.000
190B230TYR00.0180.00136.6420.0570.0570.0000.0000.0000.000
191B231VAL0-0.055-0.02841.922-0.113-0.1130.0000.0000.0000.000
192B232THR00.0470.02445.2900.0540.0540.0000.0000.0000.000
193B233LEU0-0.046-0.02148.084-0.058-0.0580.0000.0000.0000.000
194B234PRO0-0.0060.01251.199-0.076-0.0760.0000.0000.0000.000