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: Q1QGY

Calculation Name: 4FZS-A-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 4FZS

Chain ID: A

ChEMBL ID:

UniProt ID: Q13596

Base Structure: X-ray

Registration Date: 2023-06-20

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 209
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -2085786.522813
FMO2-HF: Nuclear repulsion 1999634.531475
FMO2-HF: Total energy -86151.991337
FMO2-MP2: Total energy -86407.672239


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(A:305:SER)


Summations of interaction energy for fragment #1(A:305: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.
-13.18-6.7562.589-3.518-5.4950.028
Interaction energy analysis for fragmet #1(A:305:SER)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.017 / q_NPA : -0.007
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].
3A307ILE00.0150.0242.352-6.531-2.3571.761-2.389-3.5460.018
4A308TRP00.0580.0282.473-7.288-5.5010.828-0.998-1.6160.010
5A309PHE0-0.064-0.0504.365-2.780-2.3670.001-0.129-0.2860.000
6A310GLU-1-0.903-0.9526.4352.1702.1700.0000.0000.0000.000
7A311GLU-1-0.908-0.9477.6622.3802.3800.0000.0000.0000.000
8A312LYS10.7950.9008.080-1.470-1.4700.0000.0000.0000.000
9A313LEU0-0.032-0.00810.104-0.284-0.2840.0000.0000.0000.000
10A314GLN00.0860.04612.369-0.070-0.0700.0000.0000.0000.000
11A315GLU-1-0.936-0.96912.3930.6970.6970.0000.0000.0000.000
12A316VAL0-0.024-0.01513.870-0.133-0.1330.0000.0000.0000.000
13A317GLU-1-0.896-0.95816.1530.5520.5520.0000.0000.0000.000
14A318CYS0-0.051-0.00617.952-0.085-0.0850.0000.0000.0000.000
15A319GLU-1-0.891-0.97218.1940.3030.3030.0000.0000.0000.000
16A320GLU-1-0.830-0.90720.2450.2590.2590.0000.0000.0000.000
17A321GLN0-0.010-0.00322.133-0.027-0.0270.0000.0000.0000.000
18A322ARG10.8700.92821.022-0.396-0.3960.0000.0000.0000.000
19A323LEU0-0.009-0.02323.481-0.027-0.0270.0000.0000.0000.000
20A324ARG10.9891.01125.255-0.240-0.2400.0000.0000.0000.000
21A325LYS10.9390.97228.075-0.225-0.2250.0000.0000.0000.000
22A326LEU0-0.010-0.00128.637-0.012-0.0120.0000.0000.0000.000
23A327HIS00.0430.01829.763-0.007-0.0070.0000.0000.0000.000
24A328ALA00.0140.01531.550-0.011-0.0110.0000.0000.0000.000
25A329VAL0-0.030-0.00633.914-0.009-0.0090.0000.0000.0000.000
26A330VAL00.010-0.01232.855-0.009-0.0090.0000.0000.0000.000
27A331GLU-1-0.903-0.96934.9410.0960.0960.0000.0000.0000.000
28A332THR0-0.089-0.03237.018-0.008-0.0080.0000.0000.0000.000
29A333LEU0-0.005-0.00437.899-0.006-0.0060.0000.0000.0000.000
30A334VAL00.004-0.00237.100-0.006-0.0060.0000.0000.0000.000
31A335ASN0-0.007-0.01339.762-0.008-0.0080.0000.0000.0000.000
32A336HIS00.0490.04342.539-0.003-0.0030.0000.0000.0000.000
33A337ARG10.8970.94244.139-0.070-0.0700.0000.0000.0000.000
34A338LYS10.9390.98841.678-0.078-0.0780.0000.0000.0000.000
35A339GLU-1-0.924-0.97745.5530.0610.0610.0000.0000.0000.000
36A340LEU0-0.036-0.01148.362-0.003-0.0030.0000.0000.0000.000
37A341ALA00.0580.03448.812-0.003-0.0030.0000.0000.0000.000
38A342LEU0-0.046-0.00748.546-0.003-0.0030.0000.0000.0000.000
39A343ASN00.002-0.02851.312-0.003-0.0030.0000.0000.0000.000
40A344THR0-0.0020.00153.460-0.002-0.0020.0000.0000.0000.000
41A345ALA00.0960.05654.111-0.002-0.0020.0000.0000.0000.000
42A346GLN0-0.103-0.04255.733-0.002-0.0020.0000.0000.0000.000
43A347PHE0-0.009-0.00357.423-0.002-0.0020.0000.0000.0000.000
44A348ALA00.0780.03559.241-0.002-0.0020.0000.0000.0000.000
45A349LYS10.9540.97959.351-0.034-0.0340.0000.0000.0000.000
46A350SER0-0.055-0.03461.596-0.002-0.0020.0000.0000.0000.000
47A351LEU00.0170.00863.115-0.001-0.0010.0000.0000.0000.000
48A352ALA00.0400.02264.775-0.001-0.0010.0000.0000.0000.000
49A353MET0-0.083-0.02865.927-0.001-0.0010.0000.0000.0000.000
50A354LEU00.020-0.01466.806-0.001-0.0010.0000.0000.0000.000
51A355GLY00.0170.00769.218-0.001-0.0010.0000.0000.0000.000
52A356SER0-0.080-0.02270.227-0.001-0.0010.0000.0000.0000.000
53A357SER0-0.048-0.03471.971-0.001-0.0010.0000.0000.0000.000
54A358GLU-1-0.892-0.92773.8930.0240.0240.0000.0000.0000.000
55A359ASP-1-0.871-0.93875.8040.0200.0200.0000.0000.0000.000
56A360ASN0-0.083-0.02578.6280.0000.0000.0000.0000.0000.000
57A361THR00.043-0.00577.8190.0010.0010.0000.0000.0000.000
58A362ALA0-0.036-0.00777.2260.0000.0000.0000.0000.0000.000
59A363LEU0-0.006-0.01373.5690.0010.0010.0000.0000.0000.000
60A364SER00.0170.00573.4170.0010.0010.0000.0000.0000.000
61A365ARG10.9530.97572.424-0.021-0.0210.0000.0000.0000.000
62A366ALA0-0.0050.00971.4210.0010.0010.0000.0000.0000.000
63A367LEU0-0.0070.00368.8740.0010.0010.0000.0000.0000.000
64A368SER00.025-0.00567.5440.0010.0010.0000.0000.0000.000
65A369GLN0-0.010-0.00967.0690.0000.0000.0000.0000.0000.000
66A370LEU0-0.014-0.00863.6510.0010.0010.0000.0000.0000.000
67A371ALA0-0.0200.00063.1620.0010.0010.0000.0000.0000.000
68A372GLU-1-0.912-0.95962.0650.0270.0270.0000.0000.0000.000
69A373VAL0-0.088-0.04561.4350.0010.0010.0000.0000.0000.000
70A374GLU-1-0.893-0.97458.7260.0430.0430.0000.0000.0000.000
71A375GLU-1-0.939-0.94757.5100.0320.0320.0000.0000.0000.000
72A376LYS10.9330.95956.638-0.032-0.0320.0000.0000.0000.000
73A377ILE0-0.046-0.03054.9460.0020.0020.0000.0000.0000.000
74A378GLU-1-0.910-0.93552.6100.0420.0420.0000.0000.0000.000
75A379GLN00.0580.00451.8140.0020.0020.0000.0000.0000.000
76A380LEU0-0.0160.00951.1480.0010.0010.0000.0000.0000.000
77A381HIS0-0.011-0.00449.0170.0050.0050.0000.0000.0000.000
78A382GLN0-0.030-0.02847.3240.0060.0060.0000.0000.0000.000
79A383GLU-1-0.975-0.98946.5860.0470.0470.0000.0000.0000.000
80A384GLN0-0.032-0.02044.7430.0060.0060.0000.0000.0000.000
81A385ALA00.0230.02443.3420.0050.0050.0000.0000.0000.000
82A386ASN0-0.094-0.03241.7220.0060.0060.0000.0000.0000.000
83A387ASN00.0150.02441.164-0.003-0.0030.0000.0000.0000.000
84A388ASP-1-0.917-0.97636.7740.0720.0720.0000.0000.0000.000
85A389PHE0-0.069-0.04435.9230.0080.0080.0000.0000.0000.000
86A390PHE00.0330.00335.9310.0060.0060.0000.0000.0000.000
87A391LEU00.0650.04933.6730.0010.0010.0000.0000.0000.000
88A392LEU0-0.020-0.02430.4740.0060.0060.0000.0000.0000.000
89A393ALA00.022-0.00331.3270.0110.0110.0000.0000.0000.000
90A394GLU-1-0.905-0.95332.2820.0960.0960.0000.0000.0000.000
91A395LEU0-0.063-0.02128.4040.0050.0050.0000.0000.0000.000
92A396LEU0-0.032-0.00627.1070.0130.0130.0000.0000.0000.000
93A397SER00.0240.00027.6480.0170.0170.0000.0000.0000.000
94A398ASP-1-0.953-0.95926.3270.1170.1170.0000.0000.0000.000
95A399TYR00.0440.01818.7550.0240.0240.0000.0000.0000.000
96A400ILE0-0.043-0.02823.0680.0230.0230.0000.0000.0000.000
97A401ARG10.9320.96324.148-0.114-0.1140.0000.0000.0000.000
98A402LEU00.0190.01919.2850.0020.0020.0000.0000.0000.000
99A403LEU0-0.018-0.02418.5000.0190.0190.0000.0000.0000.000
100A404ALA00.0090.00919.6020.0290.0290.0000.0000.0000.000
101A405ILE0-0.038-0.01319.6450.0050.0050.0000.0000.0000.000
102A406VAL0-0.017-0.00615.3600.0000.0000.0000.0000.0000.000
103A407ARG10.8760.93215.942-0.364-0.3640.0000.0000.0000.000
104A408ALA00.0040.01717.6170.0180.0180.0000.0000.0000.000
105A409ALA00.0240.02515.564-0.015-0.0150.0000.0000.0000.000
106A410PHE0-0.021-0.0309.554-0.040-0.0400.0000.0000.0000.000
107A411ASP-1-0.874-0.91814.3060.2930.2930.0000.0000.0000.000
108A412GLN00.014-0.01217.191-0.004-0.0040.0000.0000.0000.000
109A413ARG10.8490.9356.843-0.351-0.3510.0000.0000.0000.000
110A414MET0-0.0020.01511.485-0.070-0.0700.0000.0000.0000.000
111A415LYS10.9090.93514.598-0.280-0.2800.0000.0000.0000.000
112A416THR0-0.070-0.04015.538-0.040-0.0400.0000.0000.0000.000
113A417TRP00.0190.0109.3460.0090.0090.0000.0000.0000.000
114A418GLN00.0540.01013.826-0.069-0.0690.0000.0000.0000.000
115A419ARG10.9100.98516.5420.0000.0000.0000.0000.0000.000
116A420TRP0-0.011-0.0069.8070.0260.0260.0000.0000.0000.000
117A421GLN00.0090.00611.820-0.006-0.0060.0000.0000.0000.000
118A422ASP-1-0.859-0.92315.9480.0480.0480.0000.0000.0000.000
119A423ALA0-0.071-0.03719.469-0.011-0.0110.0000.0000.0000.000
120A424GLN00.007-0.00713.168-0.030-0.0300.0000.0000.0000.000
121A425ALA00.0280.01918.570-0.012-0.0120.0000.0000.0000.000
122A426THR0-0.080-0.04220.4670.0040.0040.0000.0000.0000.000
123A427LEU0-0.0020.00019.9800.0000.0000.0000.0000.0000.000
124A428GLN0-0.003-0.01120.144-0.001-0.0010.0000.0000.0000.000
125A429LYS11.0141.01822.6700.0310.0310.0000.0000.0000.000
126A430LYS10.7470.85225.8580.0680.0680.0000.0000.0000.000
127A431ARG10.9140.95420.3950.1960.1960.0000.0000.0000.000
128A432GLU-1-0.932-0.95424.970-0.076-0.0760.0000.0000.0000.000
129A433ALA0-0.051-0.03528.3010.0060.0060.0000.0000.0000.000
130A434GLU-1-0.901-0.94630.350-0.097-0.0970.0000.0000.0000.000
131A435ALA0-0.006-0.00630.0620.0040.0040.0000.0000.0000.000
132A436ARG10.8810.94931.5930.0540.0540.0000.0000.0000.000
133A437LEU0-0.016-0.02734.8090.0030.0030.0000.0000.0000.000
134A438LEU0-0.0140.00933.9140.0030.0030.0000.0000.0000.000
135A439TRP00.0180.00536.5740.0040.0040.0000.0000.0000.000
136A440ALA00.0040.00438.8250.0040.0040.0000.0000.0000.000
137A441ASN0-0.051-0.02340.5640.0050.0050.0000.0000.0000.000
138A442LYS10.9950.98741.9070.0470.0470.0000.0000.0000.000
139A443PRO0-0.008-0.02740.8600.0000.0000.0000.0000.0000.000
140A444ASP-1-0.902-0.93041.253-0.044-0.0440.0000.0000.0000.000
141A445LYS11.0090.99239.0430.0340.0340.0000.0000.0000.000
142A446LEU0-0.0150.00135.697-0.002-0.0020.0000.0000.0000.000
143A447GLN0-0.087-0.04436.033-0.003-0.0030.0000.0000.0000.000
144A448GLN00.0270.01634.893-0.001-0.0010.0000.0000.0000.000
145A449ALA00.010-0.00232.810-0.001-0.0010.0000.0000.0000.000
146A450LYS10.9570.99031.4530.0760.0760.0000.0000.0000.000
147A451ASP-1-0.861-0.93731.196-0.086-0.0860.0000.0000.0000.000
148A452GLU-1-0.863-0.89930.190-0.060-0.0600.0000.0000.0000.000
149A453ILE0-0.061-0.03526.168-0.003-0.0030.0000.0000.0000.000
150A454LEU00.0360.02526.374-0.010-0.0100.0000.0000.0000.000
151A455GLU-1-0.865-0.92627.377-0.084-0.0840.0000.0000.0000.000
152A456TRP0-0.040-0.04723.5450.0020.0020.0000.0000.0000.000
153A457GLU-1-0.785-0.89122.323-0.175-0.1750.0000.0000.0000.000
154A458SER0-0.019-0.00121.967-0.023-0.0230.0000.0000.0000.000
155A459ARG10.8230.92423.0100.0540.0540.0000.0000.0000.000
156A460VAL00.0250.00517.297-0.002-0.0020.0000.0000.0000.000
157A461THR00.0050.00517.654-0.026-0.0260.0000.0000.0000.000
158A462GLN0-0.045-0.01417.925-0.030-0.0300.0000.0000.0000.000
159A463TYR0-0.009-0.02918.1000.0100.0100.0000.0000.0000.000
160A464GLU-1-0.840-0.90511.754-0.512-0.5120.0000.0000.0000.000
161A465ARG10.9370.98313.8940.2100.2100.0000.0000.0000.000
162A466ASP-1-0.857-0.94415.340-0.132-0.1320.0000.0000.0000.000
163A467PHE00.009-0.0068.4950.0600.0600.0000.0000.0000.000
164A468GLU-1-0.916-0.96010.242-0.676-0.6760.0000.0000.0000.000
165A469ARG10.8150.90111.8710.1340.1340.0000.0000.0000.000
166A470ILE00.0060.00913.2980.0120.0120.0000.0000.0000.000
167A471SER00.0420.0198.5040.1090.1090.0000.0000.0000.000
168A472THR0-0.066-0.02610.171-0.043-0.0430.0000.0000.0000.000
169A473VAL0-0.011-0.01011.8980.0350.0350.0000.0000.0000.000
170A474VAL00.0230.02310.1200.0300.0300.0000.0000.0000.000
171A475ARG10.9720.9874.5561.5901.640-0.001-0.002-0.0470.000
172A476LYS10.9340.96810.3550.0880.0880.0000.0000.0000.000
173A477GLU-1-0.904-0.97114.0340.0940.0940.0000.0000.0000.000
174A478VAL00.0000.0089.5770.0400.0400.0000.0000.0000.000
175A479ILE00.0110.00312.1210.0170.0170.0000.0000.0000.000
176A480ARG10.8710.93414.347-0.066-0.0660.0000.0000.0000.000
177A481PHE00.0540.02013.375-0.010-0.0100.0000.0000.0000.000
178A482GLU-1-0.838-0.92011.8840.4040.4040.0000.0000.0000.000
179A483LYS10.9230.95716.572-0.056-0.0560.0000.0000.0000.000
180A484GLU-1-0.862-0.94219.7520.1250.1250.0000.0000.0000.000
181A485LYS10.9401.01515.665-0.483-0.4830.0000.0000.0000.000
182A486SER0-0.060-0.04619.9240.0120.0120.0000.0000.0000.000
183A487LYS10.8780.94121.454-0.142-0.1420.0000.0000.0000.000
184A488ASP-1-0.896-0.95324.3300.1770.1770.0000.0000.0000.000
185A489PHE00.0270.01124.859-0.006-0.0060.0000.0000.0000.000
186A490LYS10.9350.97023.337-0.272-0.2720.0000.0000.0000.000
187A491ASN00.004-0.00528.516-0.016-0.0160.0000.0000.0000.000
188A492HIS00.0170.02729.515-0.014-0.0140.0000.0000.0000.000
189A493VAL00.0130.00632.078-0.009-0.0090.0000.0000.0000.000
190A494ILE0-0.020-0.00132.239-0.006-0.0060.0000.0000.0000.000
191A495LYS10.9730.99132.086-0.126-0.1260.0000.0000.0000.000
192A496TYR00.0170.00836.810-0.006-0.0060.0000.0000.0000.000
193A497LEU00.026-0.00637.611-0.005-0.0050.0000.0000.0000.000
194A498GLU-1-0.958-0.97238.8840.1040.1040.0000.0000.0000.000
195A499THR0-0.035-0.00440.939-0.007-0.0070.0000.0000.0000.000
196A500LEU00.0060.00842.529-0.005-0.0050.0000.0000.0000.000
197A501LEU0-0.006-0.00743.899-0.004-0.0040.0000.0000.0000.000
198A502TYR00.0030.00245.597-0.005-0.0050.0000.0000.0000.000
199A503SER00.010-0.00147.287-0.004-0.0040.0000.0000.0000.000
200A504GLN0-0.027-0.01848.223-0.004-0.0040.0000.0000.0000.000
201A505GLN0-0.029-0.01848.134-0.003-0.0030.0000.0000.0000.000
202A506GLN0-0.023-0.02151.4730.0000.0000.0000.0000.0000.000
203A507LEU00.0130.02353.345-0.002-0.0020.0000.0000.0000.000
204A508ALA0-0.014-0.01254.600-0.002-0.0020.0000.0000.0000.000
205A509LYS10.9470.97452.610-0.061-0.0610.0000.0000.0000.000
206A510TYR0-0.038-0.00857.706-0.002-0.0020.0000.0000.0000.000
207A511TRP00.002-0.01959.222-0.002-0.0020.0000.0000.0000.000
208A512GLU-1-0.985-0.97359.7470.0480.0480.0000.0000.0000.000
209A513ALA0-0.088-0.02662.993-0.002-0.0020.0000.0000.0000.000