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: 59MMZ

Calculation Name: 1US7-B-Xray307

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: 2021-09-06

Reference: C. Watanabe, S. Koyama, K. Kamisaka, D. Takaya, T. Honma et. al., Interaction energy analysis of Apo structure dataset on FMODB, To be pubulished.

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. 1.20200116
FMO calculation
FMO method FMO2-MP2/6-31G(d)
Fragmentation Auto
Number of fragment 197
LigandCharge
Software ABINIT-MP - Open Ver.1 Rev. 15 / 20190524
Total energy (hartree)
FMO2-HF: Electronic energy -1942412.098403
FMO2-HF: Nuclear repulsion 1859724.95063
FMO2-HF: Total energy -82687.147774
FMO2-MP2: Total energy -82921.369102


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:147:ACE )


Summations of interaction energy for fragment #1(B:147:ACE )
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.
-2.538-1.0770.028-0.529-0.9590
Interaction energy analysis for fragmet #1(B:147:ACE )
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : -0.025 / q_NPA : -0.021
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].
3B149LYS 10.9320.9733.8410.2041.059-0.005-0.361-0.4880.000
4B150THR 00.0620.0265.3340.2510.2510.0000.0000.0000.000
5B151PHE 0-0.019-0.0113.194-0.0180.2520.029-0.089-0.2100.000
6B152VAL 00.0600.0185.1360.0510.0850.000-0.004-0.0300.000
7B153GLU -1-0.903-0.9548.245-0.016-0.0160.0000.0000.0000.000
8B154LYS 10.8860.9738.505-0.522-0.5220.0000.0000.0000.000
9B155TYR 00.000-0.0137.3610.0810.0810.0000.0000.0000.000
10B156GLU -1-0.852-0.91311.083-0.167-0.1670.0000.0000.0000.000
11B157LYS 10.9510.96112.9570.0460.0460.0000.0000.0000.000
12B158GLN 00.0650.04013.3540.0040.0040.0000.0000.0000.000
13B159ILE 00.0180.0099.461-0.007-0.0070.0000.0000.0000.000
14B160LYS 10.9290.97314.0530.1700.1700.0000.0000.0000.000
15B161HIS 0-0.054-0.01917.1790.0110.0110.0000.0000.0000.000
16B162PHE 00.0250.00616.2830.0100.0100.0000.0000.0000.000
17B163GLY 00.0260.00417.789-0.001-0.0010.0000.0000.0000.000
18B164MET 0-0.009-0.01019.1170.0090.0090.0000.0000.0000.000
19B165LEU 0-0.0550.01620.9220.0140.0140.0000.0000.0000.000
20B166ARG 10.9900.98823.6920.0800.0800.0000.0000.0000.000
21B167ARG 10.9380.97425.8560.0400.0400.0000.0000.0000.000
22B168TRP 00.0850.03224.806-0.001-0.0010.0000.0000.0000.000
23B169ASP -1-0.896-0.95125.308-0.032-0.0320.0000.0000.0000.000
24B170ASP -1-0.897-0.95925.411-0.032-0.0320.0000.0000.0000.000
25B171SER 00.0110.02421.486-0.003-0.0030.0000.0000.0000.000
26B172GLN 00.014-0.00420.711-0.002-0.0020.0000.0000.0000.000
27B173LYS 10.9160.96621.2700.0000.0000.0000.0000.0000.000
28B174TYR 00.0550.02216.6670.0110.0110.0000.0000.0000.000
29B175LEU 00.0340.02215.4130.0090.0090.0000.0000.0000.000
30B176SER 0-0.066-0.04317.0030.0210.0210.0000.0000.0000.000
31B177ASP -1-0.918-0.95218.9260.0380.0380.0000.0000.0000.000
32B178ASN 0-0.091-0.05914.5480.0350.0350.0000.0000.0000.000
33B179VAL 00.0000.01914.187-0.020-0.0200.0000.0000.0000.000
34B180HIS 0-0.030-0.0229.2890.0080.0080.0000.0000.0000.000
35B181LEU 0-0.019-0.0179.348-0.059-0.0590.0000.0000.0000.000
36B182VAL 0-0.0230.02711.261-0.104-0.1040.0000.0000.0000.000
37B183CYS 0-0.056-0.0396.5610.1410.1410.0000.0000.0000.000
38B184GLU -1-0.837-0.9237.880-0.952-0.9520.0000.0000.0000.000
39B185GLU -1-0.884-0.9333.967-2.813-2.5110.004-0.075-0.2310.000
40B186THR 0-0.052-0.0607.4760.1680.1680.0000.0000.0000.000
41B187ALA 00.0280.02810.3360.0590.0590.0000.0000.0000.000
42B188ASN 0-0.008-0.0268.9890.2260.2260.0000.0000.0000.000
43B189TYR 00.0340.01310.2200.0970.0970.0000.0000.0000.000
44B190LEU 0-0.029-0.01512.0950.0970.0970.0000.0000.0000.000
45B191VAL 00.0200.01414.9650.0480.0480.0000.0000.0000.000
46B192ILE 0-0.065-0.02913.8440.0420.0420.0000.0000.0000.000
47B193TRP 00.0450.01615.9930.0490.0490.0000.0000.0000.000
48B194CYS 0-0.042-0.01217.7900.0430.0430.0000.0000.0000.000
49B195ILE 00.006-0.00218.6140.0200.0200.0000.0000.0000.000
50B196ASP -1-0.854-0.92218.594-0.222-0.2220.0000.0000.0000.000
51B197LEU 0-0.034-0.01721.5760.0210.0210.0000.0000.0000.000
52B198GLU -1-0.844-0.93523.855-0.108-0.1080.0000.0000.0000.000
53B199VAL 0-0.065-0.04224.3650.0090.0090.0000.0000.0000.000
54B200GLU -1-1.030-1.01923.357-0.117-0.1170.0000.0000.0000.000
55B201GLU -1-0.886-0.92927.404-0.070-0.0700.0000.0000.0000.000
56B202LYS 10.8470.92525.7360.1000.1000.0000.0000.0000.000
57B203CYS 00.0570.03327.041-0.007-0.0070.0000.0000.0000.000
58B204ALA 00.0200.01128.578-0.004-0.0040.0000.0000.0000.000
59B205LEU 0-0.025-0.02323.923-0.001-0.0010.0000.0000.0000.000
60B206MET 00.0220.02823.350-0.013-0.0130.0000.0000.0000.000
61B207GLU -1-0.844-0.92024.175-0.110-0.1100.0000.0000.0000.000
62B208GLN 0-0.085-0.04124.4440.0000.0000.0000.0000.0000.000
63B209VAL 0-0.003-0.01719.147-0.004-0.0040.0000.0000.0000.000
64B210ALA 00.0460.01220.709-0.020-0.0200.0000.0000.0000.000
65B211HIS 0-0.048-0.01421.961-0.002-0.0020.0000.0000.0000.000
66B212GLN 0-0.037-0.02719.4870.0010.0010.0000.0000.0000.000
67B213THR 0-0.055-0.04016.798-0.029-0.0290.0000.0000.0000.000
68B214ILE 00.0590.04118.082-0.022-0.0220.0000.0000.0000.000
69B215VAL 00.0030.01619.5860.0030.0030.0000.0000.0000.000
70B216MET 0-0.037-0.00613.6590.0110.0110.0000.0000.0000.000
71B217GLN 0-0.019-0.02815.9830.0130.0130.0000.0000.0000.000
72B218PHE 00.0550.02216.9970.0080.0080.0000.0000.0000.000
73B219ILE 0-0.071-0.02416.0650.0220.0220.0000.0000.0000.000
74B220LEU 0-0.048-0.02511.9100.0090.0090.0000.0000.0000.000
75B221GLU -1-0.897-0.95315.262-0.176-0.1760.0000.0000.0000.000
76B222LEU 00.0100.01118.3510.0210.0210.0000.0000.0000.000
77B223ALA 0-0.046-0.03215.6790.0190.0190.0000.0000.0000.000
78B224LYS 10.9690.97713.3520.3430.3430.0000.0000.0000.000
79B225SER 0-0.050-0.00617.6340.0190.0190.0000.0000.0000.000
80B226LEU 0-0.056-0.03620.7510.0130.0130.0000.0000.0000.000
81B227LYS 10.8920.95319.2620.0610.0610.0000.0000.0000.000
82B228VAL 0-0.0140.00317.9480.0070.0070.0000.0000.0000.000
83B229ASP -1-0.812-0.91812.0580.0020.0020.0000.0000.0000.000
84B230PRO 00.0720.01711.6700.0110.0110.0000.0000.0000.000
85B231ARG 10.9320.9757.069-0.114-0.1140.0000.0000.0000.000
86B232ALA 0-0.034-0.01514.7920.0170.0170.0000.0000.0000.000
87B233CYS 0-0.022-0.01517.833-0.002-0.0020.0000.0000.0000.000
88B234PHE 00.0330.02117.116-0.004-0.0040.0000.0000.0000.000
89B235ARG 10.9450.97519.195-0.012-0.0120.0000.0000.0000.000
90B236GLN 0-0.029-0.02522.462-0.003-0.0030.0000.0000.0000.000
91B237PHE 00.0540.04121.4910.0000.0000.0000.0000.0000.000
92B238PHE 00.0280.00520.2930.0020.0020.0000.0000.0000.000
93B239THR 0-0.055-0.01725.1680.0050.0050.0000.0000.0000.000
94B240LYS 10.9620.97526.8410.0540.0540.0000.0000.0000.000
95B241ILE 0-0.0020.00525.8510.0020.0020.0000.0000.0000.000
96B242LYS 10.8750.94028.3560.0350.0350.0000.0000.0000.000
97B243THR 0-0.079-0.03330.8930.0040.0040.0000.0000.0000.000
98B244ALA 0-0.0010.01830.5070.0010.0010.0000.0000.0000.000
99B245ASP -1-0.897-0.94432.531-0.044-0.0440.0000.0000.0000.000
100B246ARG 10.9430.95334.2160.0410.0410.0000.0000.0000.000
101B247GLN 00.0510.02635.300-0.003-0.0030.0000.0000.0000.000
102B248TYR 00.0180.01425.726-0.005-0.0050.0000.0000.0000.000
103B249MET 0-0.022-0.00829.168-0.008-0.0080.0000.0000.0000.000
104B250GLU -1-0.913-0.96431.711-0.062-0.0620.0000.0000.0000.000
105B251GLY 00.0440.04330.774-0.003-0.0030.0000.0000.0000.000
106B252PHE 0-0.007-0.02124.432-0.009-0.0090.0000.0000.0000.000
107B253ASN 0-0.040-0.04527.684-0.013-0.0130.0000.0000.0000.000
108B254ASP -1-0.887-0.91729.950-0.089-0.0890.0000.0000.0000.000
109B255GLU -1-0.936-0.97824.762-0.146-0.1460.0000.0000.0000.000
110B256LEU 0-0.060-0.02324.767-0.014-0.0140.0000.0000.0000.000
111B257GLU -1-0.867-0.95326.303-0.111-0.1110.0000.0000.0000.000
112B258ALA 00.0230.01027.110-0.004-0.0040.0000.0000.0000.000
113B259PHE 0-0.083-0.05018.975-0.013-0.0130.0000.0000.0000.000
114B260LYS 10.8670.91624.2780.0990.0990.0000.0000.0000.000
115B261GLU -1-0.870-0.90226.193-0.110-0.1100.0000.0000.0000.000
116B262ARG 10.9360.96721.7120.1930.1930.0000.0000.0000.000
117B263VAL 0-0.062-0.01521.472-0.010-0.0100.0000.0000.0000.000
118B264ARG 10.9430.95523.9280.1120.1120.0000.0000.0000.000
119B265GLY 0-0.0040.00727.2140.0060.0060.0000.0000.0000.000
120B266ARG 10.9160.93517.5840.3030.3030.0000.0000.0000.000
121B267ALA 00.0390.03024.468-0.002-0.0020.0000.0000.0000.000
122B268LYS 10.9380.95425.7640.1100.1100.0000.0000.0000.000
123B269LEU 0-0.022-0.00125.0680.0040.0040.0000.0000.0000.000
124B270ARG 10.7770.89220.2300.2050.2050.0000.0000.0000.000
125B271ILE 00.0410.01726.4480.0060.0060.0000.0000.0000.000
126B272GLU -1-0.845-0.92929.847-0.095-0.0950.0000.0000.0000.000
127B273LYS 10.9140.96324.0730.1470.1470.0000.0000.0000.000
128B274ALA 00.0400.02529.6700.0060.0060.0000.0000.0000.000
129B275MET 00.005-0.00431.1900.0050.0050.0000.0000.0000.000
130B276LYS 10.9500.99132.5030.0880.0880.0000.0000.0000.000
131B277GLU -1-0.954-0.98929.423-0.095-0.0950.0000.0000.0000.000
132B278TYR 0-0.010-0.00534.0940.0050.0050.0000.0000.0000.000
133B279GLU -1-0.925-0.97336.654-0.055-0.0550.0000.0000.0000.000
134B280GLU -1-0.952-0.97236.133-0.053-0.0530.0000.0000.0000.000
135B281GLU -1-0.906-0.96836.934-0.045-0.0450.0000.0000.0000.000
136B282GLU -1-0.908-0.95639.658-0.042-0.0420.0000.0000.0000.000
137B283ARG 10.8680.95341.4410.0490.0490.0000.0000.0000.000
138B284LYS 10.8550.92038.5620.0490.0490.0000.0000.0000.000
139B285LYS 10.8730.93842.9610.0440.0440.0000.0000.0000.000
140B286ARG 10.8210.89244.9270.0450.0450.0000.0000.0000.000
141B287LEU 0-0.093-0.02544.2700.0010.0010.0000.0000.0000.000
142B288GLY 00.0350.01648.3370.0010.0010.0000.0000.0000.000
143B289PRO 0-0.069-0.04250.5250.0000.0000.0000.0000.0000.000
144B290GLY 0-0.0130.00052.0480.0010.0010.0000.0000.0000.000
145B291GLY 0-0.057-0.02648.133-0.001-0.0010.0000.0000.0000.000
146B292LEU 0-0.029-0.00147.628-0.002-0.0020.0000.0000.0000.000
147B293ASP -1-0.717-0.82546.968-0.039-0.0390.0000.0000.0000.000
148B294PRO 00.0210.00749.3290.0000.0000.0000.0000.0000.000
149B295VAL 00.018-0.00149.2040.0010.0010.0000.0000.0000.000
150B296GLU -1-0.884-0.96845.919-0.042-0.0420.0000.0000.0000.000
151B297VAL 0-0.065-0.02750.6500.0010.0010.0000.0000.0000.000
152B298TYR 00.0190.01853.7480.0020.0020.0000.0000.0000.000
153B299GLU -1-0.923-0.96051.814-0.034-0.0340.0000.0000.0000.000
154B300SER 0-0.144-0.06053.3800.0000.0000.0000.0000.0000.000
155B301LEU 0-0.055-0.02755.2220.0010.0010.0000.0000.0000.000
156B302PRO 0-0.003-0.00158.8600.0000.0000.0000.0000.0000.000
157B303GLU -1-0.921-0.95761.920-0.025-0.0250.0000.0000.0000.000
158B304GLU -1-0.925-0.97463.144-0.020-0.0200.0000.0000.0000.000
159B305LEU 0-0.035-0.01062.2010.0000.0000.0000.0000.0000.000
160B306GLN 00.0070.03362.677-0.001-0.0010.0000.0000.0000.000
161B307LYS 10.9320.97861.1500.0240.0240.0000.0000.0000.000
162B308CYS 0-0.068-0.02863.1110.0000.0000.0000.0000.0000.000
163B309NME 0-0.0100.01865.4490.0010.0010.0000.0000.0000.000
164B315ACE 0-0.022-0.07868.7800.0000.0000.0000.0000.0000.000
165B316MET 00.0700.01767.6940.0000.0000.0000.0000.0000.000
166B317LEU 00.0230.00570.1740.0000.0000.0000.0000.0000.000
167B318GLN 0-0.022-0.00971.6610.0000.0000.0000.0000.0000.000
168B319ASP -1-0.871-0.95766.883-0.020-0.0200.0000.0000.0000.000
169B320ALA 0-0.0360.01069.7040.0000.0000.0000.0000.0000.000
170B321ILE 00.004-0.00571.6890.0000.0000.0000.0000.0000.000
171B322SER 00.0220.01869.2700.0000.0000.0000.0000.0000.000
172B323LYS 10.8280.93467.9070.0180.0180.0000.0000.0000.000
173B324MET 0-0.008-0.01970.7750.0010.0010.0000.0000.0000.000
174B325ASP -1-0.825-0.92566.595-0.020-0.0200.0000.0000.0000.000
175B326PRO 0-0.042-0.00466.6990.0000.0000.0000.0000.0000.000
176B327THR 0-0.038-0.02265.1220.0000.0000.0000.0000.0000.000
177B328ASP -1-0.850-0.94062.235-0.023-0.0230.0000.0000.0000.000
178B329ALA 00.0460.04062.746-0.001-0.0010.0000.0000.0000.000
179B330LYS 10.9390.95859.6840.0210.0210.0000.0000.0000.000
180B331TYR 0-0.061-0.02855.038-0.001-0.0010.0000.0000.0000.000
181B332HIS 00.1150.04958.569-0.001-0.0010.0000.0000.0000.000
182B333MET 00.0060.00759.5030.0000.0000.0000.0000.0000.000
183B334GLN 0-0.078-0.05557.0330.0010.0010.0000.0000.0000.000
184B335ARG 10.9320.96151.6140.0300.0300.0000.0000.0000.000
185B336CYS 00.0210.02055.702-0.001-0.0010.0000.0000.0000.000
186B337ILE 0-0.063-0.03257.8350.0000.0000.0000.0000.0000.000
187B338ASP -1-0.839-0.91353.234-0.025-0.0250.0000.0000.0000.000
188B339SER 0-0.025-0.02352.714-0.001-0.0010.0000.0000.0000.000
189B340GLY 0-0.004-0.00853.727-0.001-0.0010.0000.0000.0000.000
190B341LEU 0-0.058-0.00555.7720.0010.0010.0000.0000.0000.000
191B342TRP 00.0080.00258.1810.0010.0010.0000.0000.0000.000
192B343VAL 00.0130.00259.7290.0000.0000.0000.0000.0000.000
193B344PRO 0-0.030-0.00861.3090.0010.0010.0000.0000.0000.000
194B345ASN 00.0270.01164.5870.0000.0000.0000.0000.0000.000
195B346SER 0-0.039-0.03167.1200.0010.0010.0000.0000.0000.000
196B347LYS 10.8800.93160.0600.0190.0190.0000.0000.0000.000
197B348NME 00.0800.07165.2050.0000.0000.0000.0000.0000.000