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: 1NZ9Z

Calculation Name: 4CTI-C-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 4CTI

Chain ID: C

ChEMBL ID:

UniProt ID: P0AEJ4

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 217
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -2181777.426177
FMO2-HF: Nuclear repulsion 2097067.222574
FMO2-HF: Total energy -84710.203603
FMO2-MP2: Total energy -84956.562545


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(C:280:ILE)


Summations of interaction energy for fragment #1(C:280:ILE)
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.
-6.505-2.6663.442-1.812-5.470
Interaction energy analysis for fragmet #1(C:280:ILE)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.041 / 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].
3C282ARG10.8650.9193.890-3.262-1.665-0.003-0.655-0.9390.002
4C283PRO00.0350.0082.637-1.162-0.4070.486-0.180-1.061-0.001
5C284ILE00.0260.0272.811-0.7260.1210.231-0.190-0.889-0.001
6C285ILE0-0.0010.0236.2380.2370.2370.0000.0000.0000.000
7C286GLU-1-0.726-0.8347.7940.6410.6410.0000.0000.0000.000
8C287LEU0-0.0180.0017.757-0.001-0.0010.0000.0000.0000.000
9C288SER0-0.024-0.0209.8320.0210.0210.0000.0000.0000.000
10C289ASN0-0.039-0.03112.2560.0840.0840.0000.0000.0000.000
11C290THR0-0.024-0.02013.0220.0370.0370.0000.0000.0000.000
12C291PHE0-0.017-0.02612.0260.0000.0000.0000.0000.0000.000
13C292ASP-1-0.854-0.91016.199-0.031-0.0310.0000.0000.0000.000
14C293LYS10.9050.95317.419-0.023-0.0230.0000.0000.0000.000
15C294ILE0-0.033-0.02017.2580.0020.0020.0000.0000.0000.000
16C295ALA0-0.037-0.01620.3500.0020.0020.0000.0000.0000.000
17C296GLU-1-0.950-0.97921.9810.0070.0070.0000.0000.0000.000
18C297GLY00.0070.01323.9650.0090.0090.0000.0000.0000.000
19C298ASN0-0.024-0.00622.7900.0010.0010.0000.0000.0000.000
20C299LEU0-0.011-0.02422.314-0.006-0.0060.0000.0000.0000.000
21C300GLU-1-0.837-0.91323.242-0.040-0.0400.0000.0000.0000.000
22C301ALA0-0.069-0.01919.4420.0080.0080.0000.0000.0000.000
23C302GLU-1-0.948-0.97616.1600.0380.0380.0000.0000.0000.000
24C303VAL0-0.010-0.00413.493-0.009-0.0090.0000.0000.0000.000
25C304PRO00.0500.03211.052-0.002-0.0020.0000.0000.0000.000
26C305HIS0-0.046-0.0606.868-0.200-0.2000.0000.0000.0000.000
27C306GLN00.0710.0229.733-0.087-0.0870.0000.0000.0000.000
28C307ASN0-0.045-0.00512.417-0.076-0.0760.0000.0000.0000.000
29C308ARG10.8260.9002.860-0.1760.3630.065-0.128-0.4760.001
30C309ALA00.002-0.0158.908-0.017-0.0170.0000.0000.0000.000
31C310ASP-1-0.723-0.8114.252-1.549-1.362-0.001-0.024-0.1620.000
32C311GLU-1-0.852-0.9445.234-1.592-1.5920.0000.0000.0000.000
33C312ILE0-0.010-0.0022.318-0.389-0.4752.664-0.635-1.943-0.001
34C313GLY00.0570.0176.1880.2870.2870.0000.0000.0000.000
35C314ILE0-0.037-0.0129.2500.1580.1580.0000.0000.0000.000
36C315LEU00.0120.0198.1760.1120.1120.0000.0000.0000.000
37C316ALA00.0650.0379.8920.1060.1060.0000.0000.0000.000
38C317LYS10.7890.87111.6530.4660.4660.0000.0000.0000.000
39C318SER0-0.070-0.05513.8520.0640.0640.0000.0000.0000.000
40C319ILE00.0220.02311.9010.0320.0320.0000.0000.0000.000
41C320GLU-1-0.727-0.81215.820-0.073-0.0730.0000.0000.0000.000
42C321ARG10.8630.93616.2850.3060.3060.0000.0000.0000.000
43C322LEU00.0040.02218.5340.0190.0190.0000.0000.0000.000
44C323ARG10.8750.91519.2340.0960.0960.0000.0000.0000.000
45C324ARG10.8530.89921.1640.1210.1210.0000.0000.0000.000
46C325SER0-0.037-0.02823.5590.0120.0120.0000.0000.0000.000
47C326LEU0-0.014-0.01822.3490.0090.0090.0000.0000.0000.000
48C327LYS10.8510.92925.5710.0480.0480.0000.0000.0000.000
49C328GLN0-0.015-0.00727.3550.0070.0070.0000.0000.0000.000
50C329LEU0-0.017-0.00927.8760.0050.0050.0000.0000.0000.000
51C330ALA0-0.054-0.02829.3390.0010.0010.0000.0000.0000.000
52C331ASP-1-0.853-0.92431.204-0.038-0.0380.0000.0000.0000.000
53C332ASP-1-0.847-0.91433.443-0.054-0.0540.0000.0000.0000.000
54C333ARG10.8270.91629.2530.0640.0640.0000.0000.0000.000
55C334THR00.0180.00035.6450.0020.0020.0000.0000.0000.000
56C335LEU0-0.018-0.00238.3850.0020.0020.0000.0000.0000.000
57C336LEU00.0280.01238.4310.0020.0020.0000.0000.0000.000
58C337MET00.0310.00940.9780.0020.0020.0000.0000.0000.000
59C338ALA00.0030.00843.1140.0020.0020.0000.0000.0000.000
60C339GLY00.0180.01044.1390.0020.0020.0000.0000.0000.000
61C340VAL00.0130.00344.9130.0020.0020.0000.0000.0000.000
62C341SER00.0150.00947.3780.0020.0020.0000.0000.0000.000
63C342HIS0-0.040-0.02148.8050.0030.0030.0000.0000.0000.000
64C343ASP-1-0.891-0.95548.655-0.035-0.0350.0000.0000.0000.000
65C344LEU0-0.019-0.01250.8990.0010.0010.0000.0000.0000.000
66C345ARG10.9460.97949.7520.0270.0270.0000.0000.0000.000
67C346THR00.0440.03455.1980.0020.0020.0000.0000.0000.000
68C347PRO0-0.079-0.02555.8870.0010.0010.0000.0000.0000.000
69C348LEU00.0850.04455.4170.0010.0010.0000.0000.0000.000
70C349THR0-0.002-0.00958.5960.0010.0010.0000.0000.0000.000
71C350ARG10.8660.91659.0540.0250.0250.0000.0000.0000.000
72C351ILE00.0060.01060.5270.0010.0010.0000.0000.0000.000
73C352ARG10.8420.89060.4120.0170.0170.0000.0000.0000.000
74C353LEU0-0.016-0.00764.7690.0010.0010.0000.0000.0000.000
75C354ALA0-0.008-0.00566.9370.0010.0010.0000.0000.0000.000
76C355THR0-0.039-0.04167.1460.0010.0010.0000.0000.0000.000
77C356GLU-1-0.932-0.95469.184-0.012-0.0120.0000.0000.0000.000
78C357MET0-0.107-0.04471.7710.0000.0000.0000.0000.0000.000
79C358MET0-0.072-0.00771.1060.0000.0000.0000.0000.0000.000
80C359SER0-0.056-0.05474.6040.0010.0010.0000.0000.0000.000
81C360GLU-1-0.878-0.95577.118-0.011-0.0110.0000.0000.0000.000
82C361GLN0-0.109-0.05778.5070.0000.0000.0000.0000.0000.000
83C362ASP-1-0.815-0.88074.537-0.014-0.0140.0000.0000.0000.000
84C363GLY00.0610.03373.7470.0000.0000.0000.0000.0000.000
85C364TYR00.011-0.00372.6690.0000.0000.0000.0000.0000.000
86C365LEU0-0.015-0.00270.334-0.001-0.0010.0000.0000.0000.000
87C366ALA00.0340.01568.920-0.001-0.0010.0000.0000.0000.000
88C367GLU-1-0.876-0.92768.227-0.013-0.0130.0000.0000.0000.000
89C368SER0-0.077-0.04265.5930.0000.0000.0000.0000.0000.000
90C369ILE00.0380.01864.1790.0000.0000.0000.0000.0000.000
91C370ASN0-0.022-0.02063.264-0.001-0.0010.0000.0000.0000.000
92C371LYS10.8750.93462.5030.0130.0130.0000.0000.0000.000
93C372ASP-1-0.824-0.90960.629-0.019-0.0190.0000.0000.0000.000
94C373ILE0-0.051-0.02558.817-0.001-0.0010.0000.0000.0000.000
95C374GLU-1-0.793-0.86857.714-0.016-0.0160.0000.0000.0000.000
96C375GLU-1-0.965-0.97355.688-0.021-0.0210.0000.0000.0000.000
97C376CYS0-0.071-0.04454.242-0.002-0.0020.0000.0000.0000.000
98C377ASN0-0.065-0.03852.955-0.002-0.0020.0000.0000.0000.000
99C378ALA00.0550.02752.137-0.001-0.0010.0000.0000.0000.000
100C379ILE0-0.010-0.00349.514-0.001-0.0010.0000.0000.0000.000
101C380ILE0-0.035-0.01848.200-0.002-0.0020.0000.0000.0000.000
102C381GLU-1-0.940-0.97447.260-0.020-0.0200.0000.0000.0000.000
103C382GLN00.002-0.00446.915-0.001-0.0010.0000.0000.0000.000
104C383PHE00.011-0.00140.759-0.001-0.0010.0000.0000.0000.000
105C384ILE0-0.021-0.01542.792-0.002-0.0020.0000.0000.0000.000
106C385ASP-1-0.828-0.91442.166-0.018-0.0180.0000.0000.0000.000
107C386TYR00.0350.02037.8090.0020.0020.0000.0000.0000.000
108C387LEU0-0.0270.00337.911-0.001-0.0010.0000.0000.0000.000
109C388ARG10.8790.96137.2970.0210.0210.0000.0000.0000.000
110C389THR0-0.119-0.06335.1500.0020.0020.0000.0000.0000.000
111C399ASP-1-0.742-0.87543.2010.0200.0200.0000.0000.0000.000
112C400LEU0-0.013-0.01343.803-0.002-0.0020.0000.0000.0000.000
113C401ASN0-0.017-0.02946.037-0.003-0.0030.0000.0000.0000.000
114C402ALA00.0280.00848.022-0.001-0.0010.0000.0000.0000.000
115C403VAL0-0.026-0.01445.080-0.002-0.0020.0000.0000.0000.000
116C404LEU0-0.017-0.01848.373-0.002-0.0020.0000.0000.0000.000
117C405GLY00.0090.00550.540-0.001-0.0010.0000.0000.0000.000
118C406GLU-1-0.869-0.91848.5950.0030.0030.0000.0000.0000.000
119C407VAL0-0.046-0.02449.681-0.001-0.0010.0000.0000.0000.000
120C408ILE0-0.0250.00652.682-0.001-0.0010.0000.0000.0000.000
121C409ALA0-0.044-0.00455.786-0.001-0.0010.0000.0000.0000.000
122C417GLU-1-0.895-0.94663.9260.0000.0000.0000.0000.0000.000
123C418ILE0-0.021-0.02057.5560.0000.0000.0000.0000.0000.000
124C419GLU-1-0.826-0.90160.1820.0060.0060.0000.0000.0000.000
125C420THR0-0.029-0.03157.4160.0000.0000.0000.0000.0000.000
126C421ALA0-0.042-0.01956.5270.0010.0010.0000.0000.0000.000
127C422LEU00.0160.01052.0360.0010.0010.0000.0000.0000.000
128C423TYR00.0320.01650.0340.0010.0010.0000.0000.0000.000
129C424PRO0-0.0110.00151.9220.0000.0000.0000.0000.0000.000
130C425GLY00.0320.00349.4860.0020.0020.0000.0000.0000.000
131C426SER0-0.0440.00546.3850.0020.0020.0000.0000.0000.000
132C427ILE0-0.006-0.01843.060-0.001-0.0010.0000.0000.0000.000
133C428GLU-1-0.768-0.87438.3810.0300.0300.0000.0000.0000.000
134C429VAL0-0.058-0.02636.4030.0000.0000.0000.0000.0000.000
135C430LYS10.8210.91532.333-0.024-0.0240.0000.0000.0000.000
136C431MET00.0180.00335.511-0.001-0.0010.0000.0000.0000.000
137C432HIS00.0830.05736.3430.0010.0010.0000.0000.0000.000
138C433PRO00.0240.00138.900-0.002-0.0020.0000.0000.0000.000
139C434LEU00.001-0.00141.568-0.001-0.0010.0000.0000.0000.000
140C435SER00.000-0.00739.254-0.003-0.0030.0000.0000.0000.000
141C436ILE00.0200.01440.253-0.001-0.0010.0000.0000.0000.000
142C437LYS10.8390.90343.574-0.002-0.0020.0000.0000.0000.000
143C438ARG10.8780.92640.2520.0160.0160.0000.0000.0000.000
144C439ALA00.0070.01643.208-0.001-0.0010.0000.0000.0000.000
145C440VAL00.0580.01845.2720.0000.0000.0000.0000.0000.000
146C441ALA00.0190.01648.5610.0000.0000.0000.0000.0000.000
147C442ASN0-0.038-0.03646.810-0.002-0.0020.0000.0000.0000.000
148C443MET0-0.047-0.02147.4940.0000.0000.0000.0000.0000.000
149C444VAL00.0380.01950.1730.0000.0000.0000.0000.0000.000
150C445VAL0-0.020-0.00452.1900.0000.0000.0000.0000.0000.000
151C446ASN0-0.053-0.04351.486-0.002-0.0020.0000.0000.0000.000
152C447ALA0-0.042-0.00753.5500.0000.0000.0000.0000.0000.000
153C448ALA00.1000.03255.6530.0000.0000.0000.0000.0000.000
154C449ARG10.8720.96452.7740.0120.0120.0000.0000.0000.000
155C450TYR0-0.068-0.05455.031-0.001-0.0010.0000.0000.0000.000
156C451GLY00.0000.01558.9920.0000.0000.0000.0000.0000.000
157C452ASN0-0.142-0.09560.685-0.001-0.0010.0000.0000.0000.000
158C453GLY00.0190.00963.4800.0000.0000.0000.0000.0000.000
159C454TRP0-0.136-0.05462.8330.0000.0000.0000.0000.0000.000
160C455ILE00.0230.02456.4510.0000.0000.0000.0000.0000.000
161C456LYS10.7820.87557.296-0.005-0.0050.0000.0000.0000.000
162C457VAL00.0140.01152.4570.0000.0000.0000.0000.0000.000
163C458SER0-0.034-0.02352.8010.0010.0010.0000.0000.0000.000
164C459SER0-0.018-0.02849.306-0.001-0.0010.0000.0000.0000.000
165C460GLY00.0010.00248.7320.0000.0000.0000.0000.0000.000
166C461THR0-0.049-0.04145.1200.0000.0000.0000.0000.0000.000
167C462GLU-1-0.924-0.95045.1170.0260.0260.0000.0000.0000.000
168C463PRO0-0.0150.01540.4300.0030.0030.0000.0000.0000.000
169C464ASN0-0.029-0.02938.012-0.001-0.0010.0000.0000.0000.000
170C465ARG10.8230.91039.625-0.034-0.0340.0000.0000.0000.000
171C466ALA00.023-0.00541.2120.0010.0010.0000.0000.0000.000
172C467TRP0-0.0180.00743.0950.0000.0000.0000.0000.0000.000
173C468PHE00.0350.01343.2440.0000.0000.0000.0000.0000.000
174C469GLN00.0190.01147.5530.0000.0000.0000.0000.0000.000
175C470VAL00.0000.00550.3150.0000.0000.0000.0000.0000.000
176C471GLU-1-0.838-0.90952.7070.0060.0060.0000.0000.0000.000
177C472ASP-1-0.779-0.89055.590-0.002-0.0020.0000.0000.0000.000
178C473ASP-1-0.820-0.90158.5520.0000.0000.0000.0000.0000.000
179C474GLY00.0430.03660.2630.0000.0000.0000.0000.0000.000
180C475PRO0-0.104-0.04958.4780.0010.0010.0000.0000.0000.000
181C499SER00.0270.00647.3670.0000.0000.0000.0000.0000.000
182C500GLY00.0670.01449.3360.0000.0000.0000.0000.0000.000
183C501THR00.0150.02249.7350.0000.0000.0000.0000.0000.000
184C502GLY00.0310.01647.4270.0010.0010.0000.0000.0000.000
185C503LEU0-0.037-0.00744.0540.0000.0000.0000.0000.0000.000
186C504GLY00.0870.03944.8890.0000.0000.0000.0000.0000.000
187C505LEU0-0.006-0.01045.7520.0010.0010.0000.0000.0000.000
188C506ALA0-0.0100.00741.3740.0010.0010.0000.0000.0000.000
189C507ILE0-0.022-0.00840.9110.0000.0000.0000.0000.0000.000
190C508VAL0-0.015-0.00941.4150.0010.0010.0000.0000.0000.000
191C509GLN0-0.039-0.03737.7870.0030.0030.0000.0000.0000.000
192C510ARG10.8350.90533.5770.0280.0280.0000.0000.0000.000
193C511ILE0-0.037-0.01236.6420.0000.0000.0000.0000.0000.000
194C512VAL0-0.008-0.00237.8270.0030.0030.0000.0000.0000.000
195C513ASP-1-0.787-0.87433.940-0.012-0.0120.0000.0000.0000.000
196C514ASN0-0.029-0.00932.8080.0000.0000.0000.0000.0000.000
197C515HIS0-0.079-0.04133.1940.0040.0040.0000.0000.0000.000
198C516ASN0-0.035-0.02129.4530.0010.0010.0000.0000.0000.000
199C517GLY00.0220.02033.4780.0050.0050.0000.0000.0000.000
200C518MET0-0.050-0.02236.797-0.001-0.0010.0000.0000.0000.000
201C519LEU00.0130.00639.4930.0010.0010.0000.0000.0000.000
202C520GLU-1-0.788-0.85242.6400.0110.0110.0000.0000.0000.000
203C521LEU00.005-0.00445.535-0.001-0.0010.0000.0000.0000.000
204C522GLY00.0290.01148.6870.0010.0010.0000.0000.0000.000
205C523THR00.0020.00251.7490.0010.0010.0000.0000.0000.000
206C524SER0-0.006-0.02451.4490.0000.0000.0000.0000.0000.000
207C525GLH0-0.083-0.06849.6340.0020.0020.0000.0000.0000.000
208C526ARG10.8350.90655.227-0.008-0.0080.0000.0000.0000.000
209C527GLY00.0020.03158.0550.0000.0000.0000.0000.0000.000
210C528GLY00.0550.04358.534-0.001-0.0010.0000.0000.0000.000
211C529LEU0-0.016-0.01252.2960.0010.0010.0000.0000.0000.000
212C530SER00.0430.01752.1900.0010.0010.0000.0000.0000.000
213C531ILE0-0.024-0.01747.491-0.001-0.0010.0000.0000.0000.000
214C532ARG10.7920.88846.553-0.011-0.0110.0000.0000.0000.000
215C533ALA00.0080.00943.207-0.001-0.0010.0000.0000.0000.000
216C534TRP0-0.052-0.03141.0750.0040.0040.0000.0000.0000.000
217C535LEU00.0380.01837.010-0.001-0.0010.0000.0000.0000.000