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: 98152

Calculation Name: 1US7-B-Xray372

Preferred Name: Hsp90 co-chaperone Cdc37

Target Type: SINGLE PROTEIN

Ligand Name:

ligand 3-letter code:

PDB ID: 1US7

Chain ID: B

ChEMBL ID: CHEMBL1795123

UniProt ID: Q16543

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 OptAll
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 193
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -1936512.820583
FMO2-HF: Nuclear repulsion 1854163.708185
FMO2-HF: Total energy -82349.112398
FMO2-MP2: Total energy -82582.042902


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:148:HIS)


Summations of interaction energy for fragment #1(B:148:HIS)
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.
-10.825-6.9361.389-2.114-3.164-0.002
Interaction energy analysis for fragmet #1(B:148:HIS)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.040 / q_NPA : 0.018
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].
3B150THR00.0750.0283.896-2.445-0.8310.009-0.728-0.8950.004
4B151PHE0-0.039-0.0113.097-2.740-1.8110.096-0.257-0.7670.001
5B152VAL00.0310.0134.743-1.781-1.604-0.001-0.020-0.1570.000
6B153GLU-1-0.884-0.9556.7233.9853.9850.0000.0000.0000.000
7B154LYS10.8660.9548.376-2.945-2.9450.0000.0000.0000.000
8B155TYR00.0360.0107.666-0.275-0.2750.0000.0000.0000.000
9B156GLU-1-0.730-0.83410.1990.5820.5820.0000.0000.0000.000
10B157LYS10.8670.91811.178-1.049-1.0490.0000.0000.0000.000
11B158GLN00.0240.01512.799-0.002-0.0020.0000.0000.0000.000
12B159ILE0-0.014-0.0067.817-0.125-0.1250.0000.0000.0000.000
13B160LYS10.8780.93312.220-0.732-0.7320.0000.0000.0000.000
14B161HIS0-0.034-0.00615.101-0.091-0.0910.0000.0000.0000.000
15B162PHE00.006-0.01214.380-0.044-0.0440.0000.0000.0000.000
16B163GLY00.0330.00815.792-0.063-0.0630.0000.0000.0000.000
17B164MET0-0.012-0.01016.989-0.042-0.0420.0000.0000.0000.000
18B165LEU0-0.056-0.00119.664-0.016-0.0160.0000.0000.0000.000
19B166ARG10.9290.95722.011-0.027-0.0270.0000.0000.0000.000
20B167ARG10.9050.95824.189-0.138-0.1380.0000.0000.0000.000
21B168TRP00.0720.03823.4880.0240.0240.0000.0000.0000.000
22B169ASP-1-0.802-0.89124.0510.0970.0970.0000.0000.0000.000
23B170ASP-1-0.826-0.91024.5730.1690.1690.0000.0000.0000.000
24B171SER0-0.009-0.00920.2000.0370.0370.0000.0000.0000.000
25B172GLN00.0000.00619.9620.0220.0220.0000.0000.0000.000
26B173LYS10.8380.90621.338-0.287-0.2870.0000.0000.0000.000
27B174TYR00.0640.03115.8990.0590.0590.0000.0000.0000.000
28B175LEU00.0340.01214.5790.0720.0720.0000.0000.0000.000
29B176SER0-0.086-0.05617.2080.0190.0190.0000.0000.0000.000
30B177ASP-1-0.843-0.90119.8500.3740.3740.0000.0000.0000.000
31B178ASN0-0.061-0.02714.6560.1490.1490.0000.0000.0000.000
32B179VAL00.0480.03014.0650.0450.0450.0000.0000.0000.000
33B180HIS0-0.036-0.02510.268-0.093-0.0930.0000.0000.0000.000
34B181LEU0-0.005-0.0109.6310.0890.0890.0000.0000.0000.000
35B182VAL0-0.0290.00210.748-0.161-0.1610.0000.0000.0000.000
36B183CYS0-0.080-0.0466.0390.0660.0660.0000.0000.0000.000
37B184GLU-1-0.749-0.8736.539-1.367-1.3670.0000.0000.0000.000
38B185GLU-1-0.876-0.9232.445-3.360-2.1821.286-1.104-1.360-0.007
39B186THR0-0.019-0.0314.9940.1700.161-0.001-0.0050.0150.000
40B187ALA00.0410.0308.3140.0230.0230.0000.0000.0000.000
41B188ASN0-0.035-0.0386.6880.0510.0510.0000.0000.0000.000
42B189TYR00.0240.0047.1000.1640.1640.0000.0000.0000.000
43B190LEU0-0.005-0.0058.6920.1260.1260.0000.0000.0000.000
44B191VAL00.0200.02211.3730.0310.0310.0000.0000.0000.000
45B192ILE0-0.061-0.0269.2190.0060.0060.0000.0000.0000.000
46B193TRP00.0380.00712.1630.0810.0810.0000.0000.0000.000
47B194CYS0-0.027-0.01314.2270.0330.0330.0000.0000.0000.000
48B195ILE0-0.023-0.01714.2500.0010.0010.0000.0000.0000.000
49B196ASP-1-0.835-0.90614.1850.1200.1200.0000.0000.0000.000
50B197LEU0-0.034-0.02017.4180.0160.0160.0000.0000.0000.000
51B198GLU-1-0.761-0.88520.088-0.063-0.0630.0000.0000.0000.000
52B199VAL0-0.052-0.02520.162-0.009-0.0090.0000.0000.0000.000
53B200GLU-1-0.889-0.92820.7660.2240.2240.0000.0000.0000.000
54B201GLU-1-0.895-0.93823.4360.0280.0280.0000.0000.0000.000
55B202LYS10.7670.88422.029-0.194-0.1940.0000.0000.0000.000
56B203CYS00.003-0.01224.1420.0060.0060.0000.0000.0000.000
57B204ALA0-0.023-0.01425.211-0.008-0.0080.0000.0000.0000.000
58B205LEU0-0.042-0.01321.2290.0080.0080.0000.0000.0000.000
59B206MET0-0.0040.01619.808-0.006-0.0060.0000.0000.0000.000
60B207GLU-1-0.768-0.88521.380-0.090-0.0900.0000.0000.0000.000
61B208GLN0-0.072-0.01521.916-0.033-0.0330.0000.0000.0000.000
62B209VAL00.002-0.00916.423-0.006-0.0060.0000.0000.0000.000
63B210ALA00.0640.03817.836-0.031-0.0310.0000.0000.0000.000
64B211HIS0-0.0120.00319.378-0.045-0.0450.0000.0000.0000.000
65B212GLN0-0.030-0.01417.538-0.049-0.0490.0000.0000.0000.000
66B213THR0-0.056-0.04813.811-0.008-0.0080.0000.0000.0000.000
67B214ILE00.0420.02315.971-0.059-0.0590.0000.0000.0000.000
68B215VAL0-0.0130.00318.290-0.017-0.0170.0000.0000.0000.000
69B216MET0-0.049-0.01212.019-0.002-0.0020.0000.0000.0000.000
70B217GLN00.010-0.00713.1220.0050.0050.0000.0000.0000.000
71B218PHE00.0840.04315.648-0.029-0.0290.0000.0000.0000.000
72B219ILE0-0.069-0.02615.6750.0150.0150.0000.0000.0000.000
73B220LEU0-0.036-0.02211.1130.0060.0060.0000.0000.0000.000
74B221GLU-1-0.907-0.95115.111-0.555-0.5550.0000.0000.0000.000
75B222LEU0-0.0050.01617.8030.0110.0110.0000.0000.0000.000
76B223ALA00.000-0.00616.2480.0150.0150.0000.0000.0000.000
77B224LYS10.8830.92812.0880.9980.9980.0000.0000.0000.000
78B225SER0-0.013-0.00917.8370.0050.0050.0000.0000.0000.000
79B226LEU0-0.079-0.03821.4100.0250.0250.0000.0000.0000.000
80B227LYS10.8360.91819.9520.3000.3000.0000.0000.0000.000
81B228VAL0-0.025-0.00419.3990.0200.0200.0000.0000.0000.000
82B229ASP-1-0.754-0.87913.294-0.006-0.0060.0000.0000.0000.000
83B230PRO00.0810.02112.6980.0460.0460.0000.0000.0000.000
84B231ARG10.8680.9318.868-0.327-0.3270.0000.0000.0000.000
85B232ALA0-0.027-0.00915.9600.0390.0390.0000.0000.0000.000
86B233CYS0-0.089-0.03418.701-0.020-0.0200.0000.0000.0000.000
87B234PHE00.0530.01617.375-0.009-0.0090.0000.0000.0000.000
88B235ARG10.9500.97819.480-0.218-0.2180.0000.0000.0000.000
89B236GLN00.0100.01722.775-0.013-0.0130.0000.0000.0000.000
90B237PHE00.0510.03021.242-0.008-0.0080.0000.0000.0000.000
91B238PHE00.0280.00119.2400.0000.0000.0000.0000.0000.000
92B239THR0-0.052-0.03824.4370.0060.0060.0000.0000.0000.000
93B240LYS10.9150.95726.4890.0900.0900.0000.0000.0000.000
94B241ILE0-0.0030.00724.717-0.002-0.0020.0000.0000.0000.000
95B242LYS10.8070.88027.421-0.056-0.0560.0000.0000.0000.000
96B243THR0-0.051-0.02229.9380.0090.0090.0000.0000.0000.000
97B244ALA0-0.0150.01329.471-0.007-0.0070.0000.0000.0000.000
98B245ASP-1-0.868-0.93131.626-0.082-0.0820.0000.0000.0000.000
99B246ARG10.7920.86032.9070.0810.0810.0000.0000.0000.000
100B247GLN00.0470.01333.8520.0020.0020.0000.0000.0000.000
101B248TYR0-0.0060.00424.468-0.005-0.0050.0000.0000.0000.000
102B249MET0-0.014-0.01627.515-0.006-0.0060.0000.0000.0000.000
103B250GLU-1-0.794-0.85030.031-0.100-0.1000.0000.0000.0000.000
104B251GLY00.0760.04329.204-0.005-0.0050.0000.0000.0000.000
105B252PHE0-0.016-0.01922.763-0.015-0.0150.0000.0000.0000.000
106B253ASN0-0.053-0.04825.4310.0010.0010.0000.0000.0000.000
107B254ASP-1-0.870-0.92127.367-0.168-0.1680.0000.0000.0000.000
108B255GLU-1-0.957-0.99222.886-0.341-0.3410.0000.0000.0000.000
109B256LEU0-0.050-0.00922.146-0.026-0.0260.0000.0000.0000.000
110B257GLU-1-0.819-0.91023.559-0.121-0.1210.0000.0000.0000.000
111B258ALA00.0050.00024.319-0.013-0.0130.0000.0000.0000.000
112B259PHE0-0.075-0.04615.912-0.037-0.0370.0000.0000.0000.000
113B260LYS10.8080.88720.4550.0840.0840.0000.0000.0000.000
114B261GLU-1-0.835-0.90322.485-0.167-0.1670.0000.0000.0000.000
115B262ARG10.9030.96018.8620.4090.4090.0000.0000.0000.000
116B263VAL0-0.054-0.02617.345-0.031-0.0310.0000.0000.0000.000
117B264ARG10.8390.88919.5270.1200.1200.0000.0000.0000.000
118B265GLY00.0150.01622.7420.0120.0120.0000.0000.0000.000
119B266ARG10.9190.95012.5230.6470.6470.0000.0000.0000.000
120B267ALA00.0180.00819.6680.0110.0110.0000.0000.0000.000
121B268LYS10.8470.89921.1840.2270.2270.0000.0000.0000.000
122B269LEU0-0.0040.00320.8560.0070.0070.0000.0000.0000.000
123B270ARG10.7930.87715.5330.0780.0780.0000.0000.0000.000
124B271ILE00.0350.02421.3870.0210.0210.0000.0000.0000.000
125B272GLU-1-0.756-0.87524.894-0.183-0.1830.0000.0000.0000.000
126B273LYS10.7380.86321.3290.1080.1080.0000.0000.0000.000
127B274ALA00.0240.01124.7110.0090.0090.0000.0000.0000.000
128B275MET0-0.014-0.00126.2630.0100.0100.0000.0000.0000.000
129B276LYS10.9940.99827.8540.1770.1770.0000.0000.0000.000
130B277GLU-1-0.815-0.89424.803-0.088-0.0880.0000.0000.0000.000
131B278TYR0-0.055-0.03929.3810.0090.0090.0000.0000.0000.000
132B279GLU-1-0.921-0.97031.985-0.086-0.0860.0000.0000.0000.000
133B280GLU-1-0.878-0.94432.054-0.086-0.0860.0000.0000.0000.000
134B281GLU-1-0.839-0.89932.444-0.018-0.0180.0000.0000.0000.000
135B282GLU-1-0.795-0.86835.092-0.012-0.0120.0000.0000.0000.000
136B283ARG10.7470.87136.9940.0930.0930.0000.0000.0000.000
137B284LYS10.8180.87733.5790.0450.0450.0000.0000.0000.000
138B285LYS10.7640.86137.9190.0150.0150.0000.0000.0000.000
139B286ARG10.7910.88739.6680.0670.0670.0000.0000.0000.000
140B287LEU0-0.051-0.00839.778-0.003-0.0030.0000.0000.0000.000
141B288GLY00.0310.02644.0210.0060.0060.0000.0000.0000.000
142B289PRO0-0.074-0.04046.5120.0000.0000.0000.0000.0000.000
143B290GLY0-0.023-0.01147.5890.0020.0020.0000.0000.0000.000
144B291GLY0-0.037-0.01643.630-0.005-0.0050.0000.0000.0000.000
145B292LEU0-0.025-0.00642.914-0.007-0.0070.0000.0000.0000.000
146B293ASP-1-0.706-0.84542.133-0.061-0.0610.0000.0000.0000.000
147B294PRO00.0150.00744.451-0.004-0.0040.0000.0000.0000.000
148B295VAL00.001-0.00544.2120.0000.0000.0000.0000.0000.000
149B296GLU-1-0.849-0.90940.780-0.097-0.0970.0000.0000.0000.000
150B297VAL0-0.049-0.02145.488-0.003-0.0030.0000.0000.0000.000
151B298TYR00.0410.04548.9150.0010.0010.0000.0000.0000.000
152B299GLU-1-0.916-0.95846.909-0.075-0.0750.0000.0000.0000.000
153B300SER0-0.110-0.06048.395-0.005-0.0050.0000.0000.0000.000
154B301LEU0-0.046-0.01850.4220.0000.0000.0000.0000.0000.000
155B302PRO0-0.018-0.01354.116-0.002-0.0020.0000.0000.0000.000
156B303GLU-1-0.920-0.95757.127-0.062-0.0620.0000.0000.0000.000
157B304GLU-1-0.868-0.91258.530-0.046-0.0460.0000.0000.0000.000
158B305LEU0-0.029-0.01857.4520.0020.0020.0000.0000.0000.000
159B306GLN0-0.045-0.04857.968-0.001-0.0010.0000.0000.0000.000
160B307LYS10.9170.97156.4480.0520.0520.0000.0000.0000.000
161B308CYS0-0.072-0.02658.5160.0050.0050.0000.0000.0000.000
162B316MET00.0170.00164.1620.0000.0000.0000.0000.0000.000
163B317LEU0-0.001-0.00565.125-0.001-0.0010.0000.0000.0000.000
164B318GLN00.0330.00766.8690.0000.0000.0000.0000.0000.000
165B319ASP-1-0.836-0.91861.607-0.043-0.0430.0000.0000.0000.000
166B320ALA0-0.021-0.00764.749-0.001-0.0010.0000.0000.0000.000
167B321ILE0-0.025-0.00966.8330.0000.0000.0000.0000.0000.000
168B322SER0-0.041-0.01564.519-0.001-0.0010.0000.0000.0000.000
169B323LYS10.7530.84861.9870.0450.0450.0000.0000.0000.000
170B324MET00.004-0.00565.7450.0010.0010.0000.0000.0000.000
171B325ASP-1-0.796-0.88661.706-0.053-0.0530.0000.0000.0000.000
172B326PRO0-0.0290.00461.9660.0020.0020.0000.0000.0000.000
173B327THR0-0.021-0.03259.6980.0010.0010.0000.0000.0000.000
174B328ASP-1-0.851-0.93457.352-0.068-0.0680.0000.0000.0000.000
175B329ALA00.0480.04357.6820.0000.0000.0000.0000.0000.000
176B330LYS10.8970.94755.1330.0560.0560.0000.0000.0000.000
177B331TYR0-0.021-0.01049.6840.0000.0000.0000.0000.0000.000
178B332HIS00.0970.03553.6210.0000.0000.0000.0000.0000.000
179B333MET00.0340.02354.7450.0020.0020.0000.0000.0000.000
180B334GLN0-0.117-0.07152.0830.0030.0030.0000.0000.0000.000
181B335ARG10.9540.97446.5120.0810.0810.0000.0000.0000.000
182B336CYS00.0000.01951.0680.0010.0010.0000.0000.0000.000
183B337ILE0-0.048-0.02653.2540.0040.0040.0000.0000.0000.000
184B338ASP-1-0.847-0.91648.770-0.048-0.0480.0000.0000.0000.000
185B339SER0-0.009-0.03348.2120.0000.0000.0000.0000.0000.000
186B340GLY0-0.012-0.01149.2150.0020.0020.0000.0000.0000.000
187B341LEU0-0.046-0.00351.0220.0030.0030.0000.0000.0000.000
188B342TRP00.006-0.00253.5350.0020.0020.0000.0000.0000.000
189B343VAL00.0300.00855.4980.0000.0000.0000.0000.0000.000
190B344PRO0-0.019-0.01157.4470.0010.0010.0000.0000.0000.000
191B345ASN0-0.0090.00360.4630.0020.0020.0000.0000.0000.000
192B346SER0-0.040-0.02862.9490.0030.0030.0000.0000.0000.000
193B347LYS10.9681.00955.2610.0270.0270.0000.0000.0000.000