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: 1N14Z

Calculation Name: 4QLP-B-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 4QLP

Chain ID: B

ChEMBL ID:

UniProt ID: O05442

Base Structure: X-ray

Registration Date: 2023-09-23

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 199
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -2243411.057405
FMO2-HF: Nuclear repulsion 2163601.396598
FMO2-HF: Total energy -79809.660807
FMO2-MP2: Total energy -80043.89437


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:648:SER)


Summations of interaction energy for fragment #1(B:648:SER)
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.
-0.9061.315-0.005-1.22-0.9960.003
Interaction energy analysis for fragmet #1(B:648:SER)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : -0.006 / q_NPA : -0.001
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].
3B650MET00.0190.0013.718-0.1172.104-0.005-1.220-0.9960.003
4B651ARG10.8230.8966.319-0.281-0.2810.0000.0000.0000.000
5B652LEU0-0.033-0.0098.3140.0230.0230.0000.0000.0000.000
6B653SER0-0.022-0.01611.3240.0600.0600.0000.0000.0000.000
7B654ASP-1-0.758-0.84913.951-0.046-0.0460.0000.0000.0000.000
8B655GLU-1-0.790-0.85416.853-0.174-0.1740.0000.0000.0000.000
9B656ALA0-0.047-0.02620.0660.0210.0210.0000.0000.0000.000
10B657VAL0-0.037-0.02622.4360.0160.0160.0000.0000.0000.000
11B658ASP-1-0.923-0.94122.759-0.071-0.0710.0000.0000.0000.000
12B659PRO0-0.009-0.00324.5040.0060.0060.0000.0000.0000.000
13B660GLN0-0.055-0.04027.4900.0110.0110.0000.0000.0000.000
14B661TYR0-0.019-0.03227.356-0.006-0.0060.0000.0000.0000.000
15B662GLY00.0210.00729.7520.0060.0060.0000.0000.0000.000
16B663GLU-1-0.908-0.93729.885-0.078-0.0780.0000.0000.0000.000
17B664PRO0-0.052-0.03327.474-0.003-0.0030.0000.0000.0000.000
18B665LEU0-0.0110.00422.0560.0060.0060.0000.0000.0000.000
19B666SER0-0.080-0.06819.983-0.012-0.0120.0000.0000.0000.000
20B667ARG10.8000.86714.8940.2330.2330.0000.0000.0000.000
21B668HIS0-0.029-0.01919.4630.0170.0170.0000.0000.0000.000
22B669TRP0-0.044-0.02418.095-0.040-0.0400.0000.0000.0000.000
23B670ASP-1-0.819-0.89220.036-0.206-0.2060.0000.0000.0000.000
24B671PHE0-0.050-0.02022.248-0.007-0.0070.0000.0000.0000.000
25B672THR00.0170.00221.838-0.001-0.0010.0000.0000.0000.000
26B673ASP-1-0.814-0.85624.664-0.107-0.1070.0000.0000.0000.000
27B674ASN00.0790.03828.324-0.001-0.0010.0000.0000.0000.000
28B675PRO00.0010.00028.5000.0070.0070.0000.0000.0000.000
29B676ALA00.0420.01430.4550.0080.0080.0000.0000.0000.000
30B677ASP-1-0.838-0.88833.659-0.072-0.0720.0000.0000.0000.000
31B678ARG10.9050.92235.4700.0550.0550.0000.0000.0000.000
32B679SER0-0.092-0.05337.2220.0040.0040.0000.0000.0000.000
33B680ARG10.7440.83229.6060.0940.0940.0000.0000.0000.000
34B681ILE0-0.0320.01133.695-0.001-0.0010.0000.0000.0000.000
35B682ASN0-0.012-0.02534.8150.0040.0040.0000.0000.0000.000
36B683PRO00.008-0.01136.4720.0010.0010.0000.0000.0000.000
37B684VAL0-0.006-0.00739.1630.0010.0010.0000.0000.0000.000
38B685VAL00.0330.02035.2270.0020.0020.0000.0000.0000.000
39B686ALA0-0.021-0.01538.5690.0000.0000.0000.0000.0000.000
40B687GLN0-0.078-0.03640.5420.0020.0020.0000.0000.0000.000
41B688LEU0-0.0100.00939.7760.0020.0020.0000.0000.0000.000
42B689MET0-0.0250.02637.949-0.002-0.0020.0000.0000.0000.000
43B690GLU-1-0.836-0.92842.061-0.023-0.0230.0000.0000.0000.000
44B691ASP-1-0.852-0.91341.736-0.045-0.0450.0000.0000.0000.000
45B692PRO0-0.021-0.02040.926-0.004-0.0040.0000.0000.0000.000
46B693ASN0-0.055-0.02441.107-0.004-0.0040.0000.0000.0000.000
47B694ALA0-0.0200.00039.223-0.003-0.0030.0000.0000.0000.000
48B695PRO0-0.0010.00935.6980.0010.0010.0000.0000.0000.000
49B696PHE0-0.014-0.01630.565-0.002-0.0020.0000.0000.0000.000
50B697GLY00.0540.02634.124-0.002-0.0020.0000.0000.0000.000
51B698ARG10.7560.83036.5210.0440.0440.0000.0000.0000.000
52B699ASP-1-0.702-0.82036.581-0.064-0.0640.0000.0000.0000.000
53B700PRO00.002-0.01436.4040.0040.0040.0000.0000.0000.000
54B701GLN0-0.040-0.01238.9910.0000.0000.0000.0000.0000.000
55B702GLY00.0020.01441.3420.0020.0020.0000.0000.0000.000
56B703GLN0-0.074-0.04039.5430.0000.0000.0000.0000.0000.000
57B704PRO00.002-0.00938.910-0.002-0.0020.0000.0000.0000.000
58B705TYR0-0.0120.00433.408-0.005-0.0050.0000.0000.0000.000
59B706THR00.0250.00534.0580.0010.0010.0000.0000.0000.000
60B707GLN0-0.010-0.02028.0340.0070.0070.0000.0000.0000.000
61B708GLU-1-0.931-0.96329.136-0.131-0.1310.0000.0000.0000.000
62B709ARG10.8820.92428.9580.0770.0770.0000.0000.0000.000
63B710TYR00.0120.01028.258-0.001-0.0010.0000.0000.0000.000
64B711GLN00.008-0.00424.8250.0090.0090.0000.0000.0000.000
65B712GLU-1-0.827-0.91024.696-0.144-0.1440.0000.0000.0000.000
66B713ARG10.7860.89125.7050.1020.1020.0000.0000.0000.000
67B714PHE00.007-0.01426.1480.0070.0070.0000.0000.0000.000
68B715ASN0-0.021-0.00222.0270.0270.0270.0000.0000.0000.000
69B716SER00.0960.03920.081-0.023-0.0230.0000.0000.0000.000
70B717VAL0-0.009-0.00114.238-0.011-0.0110.0000.0000.0000.000
71B718GLY0-0.0040.00414.4170.0210.0210.0000.0000.0000.000
72B719PRO00.017-0.01411.068-0.078-0.0780.0000.0000.0000.000
73B720TRP0-0.079-0.0345.304-0.017-0.0170.0000.0000.0000.000
74B721GLY00.0320.0158.957-0.141-0.1410.0000.0000.0000.000
75B722GLN0-0.028-0.00211.400-0.028-0.0280.0000.0000.0000.000
76B723GLN00.0460.02613.621-0.002-0.0020.0000.0000.0000.000
77B724TYR0-0.026-0.01315.2440.0300.0300.0000.0000.0000.000
78B725SER00.0510.02819.634-0.010-0.0100.0000.0000.0000.000
79B726ASN0-0.047-0.02023.2220.0160.0160.0000.0000.0000.000
80B727PHE00.0140.00623.5130.0060.0060.0000.0000.0000.000
81B728PRO00.0520.03726.183-0.001-0.0010.0000.0000.0000.000
82B729PRO00.0390.01027.4430.0060.0060.0000.0000.0000.000
83B730ASN0-0.011-0.00228.4750.0060.0060.0000.0000.0000.000
84B731ASN00.013-0.01027.8790.0080.0080.0000.0000.0000.000
85B732GLY00.0400.03528.8590.0000.0000.0000.0000.0000.000
86B733ALA00.0310.04531.336-0.001-0.0010.0000.0000.0000.000
87B734VAL00.0170.02134.292-0.001-0.0010.0000.0000.0000.000
88B735PRO0-0.021-0.02034.6260.0040.0040.0000.0000.0000.000
89B736GLY0-0.026-0.00936.870-0.001-0.0010.0000.0000.0000.000
90B737THR0-0.021-0.02038.6500.0020.0020.0000.0000.0000.000
91B738ARG10.7780.88532.126-0.020-0.0200.0000.0000.0000.000
92B739ILE00.0010.01139.3730.0010.0010.0000.0000.0000.000
93B740ALA0-0.007-0.01040.5300.0010.0010.0000.0000.0000.000
94B741TYR0-0.051-0.03442.011-0.001-0.0010.0000.0000.0000.000
95B742THR00.018-0.00342.9500.0000.0000.0000.0000.0000.000
96B743ASN0-0.012-0.00244.6350.0000.0000.0000.0000.0000.000
97B744LEU00.0580.04445.094-0.001-0.0010.0000.0000.0000.000
98B745GLU-1-0.868-0.94147.2860.0190.0190.0000.0000.0000.000
99B746LYS10.8190.88149.315-0.014-0.0140.0000.0000.0000.000
100B747PHE00.0470.02442.804-0.001-0.0010.0000.0000.0000.000
101B748LEU0-0.022-0.01647.485-0.002-0.0020.0000.0000.0000.000
102B749SER0-0.071-0.03949.763-0.001-0.0010.0000.0000.0000.000
103B750ASP-1-0.802-0.84148.6000.0100.0100.0000.0000.0000.000
104B751TYR0-0.036-0.03745.523-0.002-0.0020.0000.0000.0000.000
105B752GLY0-0.0040.02148.382-0.001-0.0010.0000.0000.0000.000
106B753PRO00.008-0.02147.1910.0010.0010.0000.0000.0000.000
107B754GLN0-0.042-0.03145.4930.0010.0010.0000.0000.0000.000
108B755LEU00.0220.01439.9310.0000.0000.0000.0000.0000.000
109B756ASP-1-0.739-0.84139.624-0.011-0.0110.0000.0000.0000.000
110B757ARG10.8100.90229.1230.0080.0080.0000.0000.0000.000
111B758ILE00.0350.03032.546-0.001-0.0010.0000.0000.0000.000
112B759GLY00.0210.02030.170-0.001-0.0010.0000.0000.0000.000
113B760GLY0-0.009-0.00928.5370.0050.0050.0000.0000.0000.000
114B761ASP-1-0.849-0.93029.5190.0130.0130.0000.0000.0000.000
115B762GLN00.019-0.00323.9270.0120.0120.0000.0000.0000.000
116B763GLY0-0.0040.01326.6330.0050.0050.0000.0000.0000.000
117B764LYS10.8760.91326.141-0.053-0.0530.0000.0000.0000.000
118B765TYR00.0060.01129.3240.0030.0030.0000.0000.0000.000
119B766LEU0-0.023-0.00132.743-0.003-0.0030.0000.0000.0000.000
120B767ALA00.0290.01735.9640.0000.0000.0000.0000.0000.000
121B768ILE00.0410.02138.7160.0020.0020.0000.0000.0000.000
122B769MET0-0.0570.00342.405-0.002-0.0020.0000.0000.0000.000
123B770GLU-1-0.820-0.92244.135-0.005-0.0050.0000.0000.0000.000
124B771HIS0-0.061-0.04547.151-0.001-0.0010.0000.0000.0000.000
125B772GLY00.0320.02549.097-0.001-0.0010.0000.0000.0000.000
126B773ARG10.8790.94147.7830.0080.0080.0000.0000.0000.000
127B774PRO0-0.0120.00942.9030.0010.0010.0000.0000.0000.000
128B775ALA00.0590.03441.125-0.001-0.0010.0000.0000.0000.000
129B776SER00.015-0.01241.699-0.001-0.0010.0000.0000.0000.000
130B777TRP0-0.017-0.03132.0860.0020.0020.0000.0000.0000.000
131B778GLU-1-0.743-0.85537.279-0.037-0.0370.0000.0000.0000.000
132B779GLN00.0340.00938.3830.0020.0020.0000.0000.0000.000
133B780ARG10.7100.84835.7040.0210.0210.0000.0000.0000.000
134B781ALA0-0.012-0.00433.8900.0000.0000.0000.0000.0000.000
135B782LEU0-0.0170.00231.299-0.002-0.0020.0000.0000.0000.000
136B783HIS00.0490.03425.0310.0040.0040.0000.0000.0000.000
137B784VAL0-0.002-0.00628.6820.0020.0020.0000.0000.0000.000
138B785THR0-0.009-0.02724.8950.0030.0030.0000.0000.0000.000
139B786SER0-0.013-0.01928.2420.0020.0020.0000.0000.0000.000
140B787LEU0-0.015-0.00630.2920.0070.0070.0000.0000.0000.000
141B788ARG10.8030.87928.5610.0960.0960.0000.0000.0000.000
142B789ASP-1-0.806-0.87328.866-0.043-0.0430.0000.0000.0000.000
143B790PRO0-0.067-0.01330.7940.0010.0010.0000.0000.0000.000
144B791TYR0-0.014-0.04033.8630.0010.0010.0000.0000.0000.000
145B792HIS0-0.056-0.02533.1480.0030.0030.0000.0000.0000.000
146B793ALA00.0240.00437.959-0.001-0.0010.0000.0000.0000.000
147B794TYR0-0.023-0.02635.4480.0010.0010.0000.0000.0000.000
148B795THR0-0.067-0.04542.032-0.002-0.0020.0000.0000.0000.000
149B796ILE0-0.018-0.00741.5430.0020.0020.0000.0000.0000.000
150B797ASP-1-0.782-0.86743.9530.0140.0140.0000.0000.0000.000
151B798TRP0-0.061-0.04142.3210.0010.0010.0000.0000.0000.000
152B799LEU00.0160.00541.1390.0000.0000.0000.0000.0000.000
153B800PRO0-0.031-0.00740.1800.0000.0000.0000.0000.0000.000
154B801GLU-1-0.904-0.95343.1520.0400.0400.0000.0000.0000.000
155B802GLY00.005-0.00542.0950.0030.0030.0000.0000.0000.000
156B803TRP0-0.066-0.03336.2200.0020.0020.0000.0000.0000.000
157B804PHE0-0.031-0.01735.891-0.003-0.0030.0000.0000.0000.000
158B805ILE0-0.0040.00438.5510.0020.0020.0000.0000.0000.000
159B806GLU-1-0.791-0.86334.2610.0250.0250.0000.0000.0000.000
160B807VAL00.010-0.00338.272-0.002-0.0020.0000.0000.0000.000
161B808SER0-0.011-0.01936.2420.0030.0030.0000.0000.0000.000
162B809GLU-1-0.889-0.94039.016-0.009-0.0090.0000.0000.0000.000
163B810VAL0-0.036-0.00634.7920.0010.0010.0000.0000.0000.000
164B811ALA00.012-0.00633.964-0.002-0.0020.0000.0000.0000.000
165B812PRO00.0200.00535.044-0.003-0.0030.0000.0000.0000.000
166B813GLY00.002-0.01332.1140.0010.0010.0000.0000.0000.000
167B814CYS0-0.043-0.01528.663-0.004-0.0040.0000.0000.0000.000
168B815GLY00.0300.02431.000-0.003-0.0030.0000.0000.0000.000
169B816GLN0-0.0090.00634.2190.0050.0050.0000.0000.0000.000
170B817PRO00.003-0.00136.3350.0010.0010.0000.0000.0000.000
171B818GLY0-0.0160.00637.8150.0020.0020.0000.0000.0000.000
172B819GLY00.014-0.00538.3610.0000.0000.0000.0000.0000.000
173B820SER0-0.050-0.03839.2050.0030.0030.0000.0000.0000.000
174B821ILE00.0130.01139.8680.0010.0010.0000.0000.0000.000
175B822GLN0-0.0170.00333.4120.0000.0000.0000.0000.0000.000
176B823VAL00.026-0.00136.9770.0030.0030.0000.0000.0000.000
177B824ARG10.7860.85629.519-0.026-0.0260.0000.0000.0000.000
178B825ILE00.0200.01134.5440.0000.0000.0000.0000.0000.000
179B826PHE0-0.014-0.00231.3890.0030.0030.0000.0000.0000.000
180B827ASP-1-0.724-0.85734.2530.0640.0640.0000.0000.0000.000
181B828HIS00.0380.01336.435-0.001-0.0010.0000.0000.0000.000
182B829GLN0-0.108-0.05733.0530.0000.0000.0000.0000.0000.000
183B830ASN0-0.050-0.02231.2890.0000.0000.0000.0000.0000.000
184B831GLU-1-0.854-0.90829.5560.0890.0890.0000.0000.0000.000
185B832MET0-0.0230.00428.325-0.007-0.0070.0000.0000.0000.000
186B833ARG10.7650.86329.408-0.066-0.0660.0000.0000.0000.000
187B834LYS10.7720.88626.700-0.052-0.0520.0000.0000.0000.000
188B835VAL00.0450.02330.4690.0010.0010.0000.0000.0000.000
189B836GLU-1-0.716-0.83630.1340.0480.0480.0000.0000.0000.000
190B837GLU-1-0.849-0.89831.0940.0670.0670.0000.0000.0000.000
191B838LEU00.0280.00133.0590.0010.0010.0000.0000.0000.000
192B839ILE00.0010.01535.271-0.001-0.0010.0000.0000.0000.000
193B840ARG10.7850.87129.678-0.055-0.0550.0000.0000.0000.000
194B841ARG10.8150.89933.422-0.054-0.0540.0000.0000.0000.000
195B842GLY00.0360.02038.9550.0000.0000.0000.0000.0000.000
196B843VAL0-0.044-0.00639.151-0.002-0.0020.0000.0000.0000.000
197B844LEU0-0.017-0.01336.560-0.003-0.0030.0000.0000.0000.000
198B845ARG10.8640.92640.472-0.011-0.0110.0000.0000.0000.000
199B846GLN00.0420.02437.230-0.001-0.0010.0000.0000.0000.000