Manual

About

FMODB

FMODB: The database of quantum mechanical data based on the FMO method

Last updated: 2024-05-02

All entries: 37386

Number of unique PDB entries: 7781

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FMODB ID: P4JYN

Calculation Name: 2IWN-A-Xray17

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 2IWN

Chain ID: A

ChEMBL ID:

UniProt ID: O75970

Base Structure: X-ray

Registration Date: 2018-06-01

Reference:

DOI:


IFIE MAP

IFIE Diagram


Modeling method
Optimization MOE:Amber10:EHT
Restraint OptH
Protonation MOE:Protonate 3D
Complement Missing residues were capped by ACE, NME. Missing atoms were corrected by Structure prepareation by MOE.
Water Apo structure with with a 3 angstrom solvent shell.
Procedure Auto-FMO protocol ver. 1.20180227
FMO calculation
FMO method FMO2-MP2/6-31G(d)
Fragmentation Auto
Number of fragment 192
LigandCharge
Software MIZUHO/ABINIT-MP 3.0
Total energy (hartree)
FMO2-HF: Electronic energy -845812.888242
FMO2-HF: Nuclear repulsion 802039.498489
FMO2-HF: Total energy -43773.389753
FMO2-MP2: Total energy -43898.904469


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:371:SER)


Summations of interaction energy for fragment #1(A:371: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.
-41.926-63.34658.451-24.103-12.926-0.051
Interaction energy analysis for fragmet #1(A:371:SER)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : -0.045 / q_NPA : 0.022
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].
3A373SER0-0.028-0.0243.7851.4213.479-0.025-1.062-0.9700.005
4A374GLU-1-0.842-0.8736.321-1.630-1.6300.0000.0000.0000.000
5A375THR00.004-0.0179.8030.3870.3870.0000.0000.0000.000
6A376PHE0-0.036-0.00512.034-0.054-0.0540.0000.0000.0000.000
7A377ASP-1-0.801-0.88815.773-0.205-0.2050.0000.0000.0000.000
8A378VAL0-0.0060.00019.046-0.036-0.0360.0000.0000.0000.000
9A379GLU-1-0.826-0.90822.151-0.067-0.0670.0000.0000.0000.000
10A380LEU0-0.019-0.00823.827-0.009-0.0090.0000.0000.0000.000
11A381THR00.0210.01227.6360.0120.0120.0000.0000.0000.000
12A382LYS10.7910.91029.782-0.019-0.0190.0000.0000.0000.000
13A383ASN00.0750.03732.2920.0040.0040.0000.0000.0000.000
14A384VAL00.004-0.01635.2060.0070.0070.0000.0000.0000.000
15A385GLN0-0.0580.00733.3170.0110.0110.0000.0000.0000.000
16A386GLY00.0220.01631.8060.0070.0070.0000.0000.0000.000
17A387LEU00.0440.00925.426-0.010-0.0100.0000.0000.0000.000
18A388GLY00.0310.01528.342-0.016-0.0160.0000.0000.0000.000
19A389ILE00.0000.01422.329-0.011-0.0110.0000.0000.0000.000
20A390THR0-0.024-0.00324.9170.0190.0190.0000.0000.0000.000
21A391ILE00.0040.00121.255-0.005-0.0050.0000.0000.0000.000
22A392ALA0-0.022-0.02120.6650.0020.0020.0000.0000.0000.000
23A393GLY00.0640.03519.1510.0230.0230.0000.0000.0000.000
24A394TYR0-0.0080.01419.225-0.042-0.0420.0000.0000.0000.000
25A395ILE0-0.0040.02021.0730.0160.0160.0000.0000.0000.000
26A396GLY00.0160.00024.128-0.012-0.0120.0000.0000.0000.000
27A397ASP-1-0.838-0.90125.5600.3900.3900.0000.0000.0000.000
28A398LYS10.8080.88324.582-0.363-0.3630.0000.0000.0000.000
29A399LYS10.8310.92916.402-0.874-0.8740.0000.0000.0000.000
30A400LEU0-0.042-0.04216.463-0.056-0.0560.0000.0000.0000.000
31A401GLU-1-0.772-0.86613.7460.9880.9880.0000.0000.0000.000
32A402PRO00.0030.04510.3360.0820.0820.0000.0000.0000.000
33A403SER00.030-0.01712.518-0.229-0.2290.0000.0000.0000.000
34A404GLY00.0150.02113.6970.0690.0690.0000.0000.0000.000
35A405ILE0-0.066-0.03315.462-0.021-0.0210.0000.0000.0000.000
36A406PHE00.001-0.00511.831-0.019-0.0190.0000.0000.0000.000
37A407VAL00.0230.01917.1380.0020.0020.0000.0000.0000.000
38A408LYS10.8500.92618.958-0.243-0.2430.0000.0000.0000.000
39A409SER00.0210.00421.588-0.016-0.0160.0000.0000.0000.000
40A410ILE00.0560.03821.5740.0090.0090.0000.0000.0000.000
41A411THR0-0.063-0.02725.6810.0010.0010.0000.0000.0000.000
42A412LYS10.9860.99629.4650.0620.0620.0000.0000.0000.000
43A413SER0-0.014-0.03931.5300.0140.0140.0000.0000.0000.000
44A414SER0-0.0350.01628.7480.0000.0000.0000.0000.0000.000
45A415ALA00.0480.02429.471-0.014-0.0140.0000.0000.0000.000
46A416VAL00.0320.01823.514-0.019-0.0190.0000.0000.0000.000
47A417GLU-1-0.748-0.82925.449-0.135-0.1350.0000.0000.0000.000
48A418HIS00.0260.05227.207-0.027-0.0270.0000.0000.0000.000
49A419ASP-1-0.743-0.84123.792-0.257-0.2570.0000.0000.0000.000
50A420GLY00.0230.02524.521-0.028-0.0280.0000.0000.0000.000
51A421ARG10.8240.91219.7870.2710.2710.0000.0000.0000.000
52A422ILE00.0140.01118.732-0.041-0.0410.0000.0000.0000.000
53A423GLN00.0100.00816.431-0.011-0.0110.0000.0000.0000.000
54A424ILE0-0.028-0.02617.7520.0430.0430.0000.0000.0000.000
55A425GLY0-0.043-0.02115.074-0.038-0.0380.0000.0000.0000.000
56A426ASP-1-0.723-0.82313.486-0.276-0.2760.0000.0000.0000.000
57A427GLN0-0.015-0.01611.1790.1860.1860.0000.0000.0000.000
58A428ILE00.0250.01213.984-0.088-0.0880.0000.0000.0000.000
59A429ILE0-0.008-0.01112.0540.0910.0910.0000.0000.0000.000
60A430ALA0-0.004-0.00115.5320.0370.0370.0000.0000.0000.000
61A431VAL00.0190.01318.784-0.031-0.0310.0000.0000.0000.000
62A432ASP-1-0.750-0.84722.3740.0190.0190.0000.0000.0000.000
63A433GLY00.0190.01323.0760.0060.0060.0000.0000.0000.000
64A434THR0-0.050-0.00322.4740.0200.0200.0000.0000.0000.000
65A435ASN00.0310.00615.2720.0620.0620.0000.0000.0000.000
66A436LEU00.0220.01117.7340.0250.0250.0000.0000.0000.000
67A437GLN00.0180.00810.834-0.069-0.0690.0000.0000.0000.000
68A438GLY00.0360.04115.6930.1140.1140.0000.0000.0000.000
69A439PHE0-0.028-0.01018.138-0.025-0.0250.0000.0000.0000.000
70A440THR00.0490.03119.4070.0480.0480.0000.0000.0000.000
71A441ASN00.048-0.00618.360-0.016-0.0160.0000.0000.0000.000
72A442GLN00.0580.02621.108-0.015-0.0150.0000.0000.0000.000
73A443GLN00.0170.01723.5530.0010.0010.0000.0000.0000.000
74A444ALA00.0430.02120.405-0.034-0.0340.0000.0000.0000.000
75A445VAL00.0140.00322.366-0.037-0.0370.0000.0000.0000.000
76A446GLU-1-0.790-0.89524.3910.1260.1260.0000.0000.0000.000
77A447VAL00.0220.04424.080-0.022-0.0220.0000.0000.0000.000
78A448LEU00.0310.02221.810-0.026-0.0260.0000.0000.0000.000
79A449ARG10.8330.92125.831-0.142-0.1420.0000.0000.0000.000
80A450HIS10.7880.88129.103-0.126-0.1260.0000.0000.0000.000
81A451THR00.0540.05726.734-0.010-0.0100.0000.0000.0000.000
82A452GLY00.0230.02030.0090.0010.0010.0000.0000.0000.000
83A453GLN0-0.009-0.01131.4600.0020.0020.0000.0000.0000.000
84A454THR0-0.0120.00129.947-0.010-0.0100.0000.0000.0000.000
85A455VAL0-0.0140.00424.8400.0140.0140.0000.0000.0000.000
86A456LEU00.0470.04922.307-0.016-0.0160.0000.0000.0000.000
87A457LEU0-0.039-0.02320.1900.0370.0370.0000.0000.0000.000
88A458THR00.0390.02015.201-0.063-0.0630.0000.0000.0000.000
89A459LEU0-0.038-0.02215.0230.0970.0970.0000.0000.0000.000
90A460MET0-0.023-0.0038.3020.0340.0340.0000.0000.0000.000
91A461ARG10.8180.89610.2770.8090.8090.0000.0000.0000.000
92A462ARG10.8470.8995.563-1.909-1.9090.0000.0000.0000.000
93A463GLY00.0140.0056.0730.4440.4440.0000.0000.0000.000
94A464GLU-1-0.785-0.8721.840-22.058-23.60311.076-5.585-3.947-0.062
95A465THR0-0.049-0.0362.427-1.6010.1792.609-2.387-2.002-0.021
96A466SER00.0070.0163.198-3.626-3.0180.005-0.251-0.3620.001
97A467VAL-1-0.839-0.9005.3402.6872.690-0.001-0.001-0.0010.000
98A2007HOH00.0170.00131.711-0.004-0.0040.0000.0000.0000.000
99A2036HOH00.018-0.0011.593-8.319-22.22422.692-6.567-2.2190.040
100A2037HOH00.033-0.0231.784-7.830-19.99821.891-7.178-2.544-0.008
101A2039HOH0-0.067-0.06313.196-0.011-0.0110.0000.0000.0000.000
102A2042HOH0-0.022-0.02010.3170.1010.1010.0000.0000.0000.000
103A2044HOH00.0040.0087.5880.2100.2100.0000.0000.0000.000
104A2045HOH0-0.0010.00821.8610.0050.0050.0000.0000.0000.000
105A2046HOH0-0.017-0.01919.638-0.015-0.0150.0000.0000.0000.000
106A2047HOH0-0.051-0.03621.360-0.004-0.0040.0000.0000.0000.000
107A2048HOH0-0.031-0.01628.5120.0070.0070.0000.0000.0000.000
108A2049HOH0-0.043-0.03026.949-0.007-0.0070.0000.0000.0000.000
109A2051HOH0-0.045-0.03031.9920.0010.0010.0000.0000.0000.000
110A2052HOH00.0160.00429.5680.0070.0070.0000.0000.0000.000
111A2054HOH00.0100.01033.337-0.002-0.0020.0000.0000.0000.000
112A2055HOH00.015-0.01331.431-0.003-0.0030.0000.0000.0000.000
113A2057HOH00.0260.01738.7290.0000.0000.0000.0000.0000.000
114A2058HOH00.000-0.01531.633-0.004-0.0040.0000.0000.0000.000
115A2059HOH0-0.0050.00428.3520.0050.0050.0000.0000.0000.000
116A2061HOH0-0.024-0.01622.912-0.001-0.0010.0000.0000.0000.000
117A2062HOH00.001-0.00321.6890.0080.0080.0000.0000.0000.000
118A2065HOH0-0.002-0.01614.610-0.037-0.0370.0000.0000.0000.000
119A2067HOH0-0.025-0.01710.9170.1360.1360.0000.0000.0000.000
120A2068HOH0-0.005-0.01418.2500.0110.0110.0000.0000.0000.000
121A2070HOH00.0550.04311.379-0.108-0.1080.0000.0000.0000.000
122A2071HOH0-0.006-0.00616.545-0.008-0.0080.0000.0000.0000.000
123A2072HOH00.0060.00117.0550.0120.0120.0000.0000.0000.000
124A2073HOH00.0340.02023.5560.0070.0070.0000.0000.0000.000
125A2074HOH0-0.018-0.00722.0520.0150.0150.0000.0000.0000.000
126A2075HOH0-0.006-0.01519.2280.0200.0200.0000.0000.0000.000
127A2077HOH0-0.022-0.01923.7570.0050.0050.0000.0000.0000.000
128A2078HOH0-0.009-0.02027.355-0.002-0.0020.0000.0000.0000.000
129A2079HOH00.0340.03427.027-0.002-0.0020.0000.0000.0000.000
130A2080HOH00.0290.01624.9510.0100.0100.0000.0000.0000.000
131A2081HOH0-0.005-0.00828.0700.0050.0050.0000.0000.0000.000
132A2082HOH0-0.029-0.01633.9910.0040.0040.0000.0000.0000.000
133A2083HOH00.0290.02331.065-0.005-0.0050.0000.0000.0000.000
134A2084HOH0-0.007-0.01234.2800.0020.0020.0000.0000.0000.000
135A2085HOH0-0.024-0.02529.0110.0060.0060.0000.0000.0000.000
136A2086HOH0-0.036-0.04230.0870.0020.0020.0000.0000.0000.000
137A2087HOH0-0.046-0.02527.686-0.003-0.0030.0000.0000.0000.000
138A2088HOH0-0.059-0.04727.697-0.002-0.0020.0000.0000.0000.000
139A2090HOH0-0.048-0.02327.585-0.001-0.0010.0000.0000.0000.000
140A2091HOH00.002-0.01929.7230.0020.0020.0000.0000.0000.000
141A2092HOH0-0.033-0.02623.1110.0000.0000.0000.0000.0000.000
142A2093HOH0-0.048-0.04227.1700.0040.0040.0000.0000.0000.000
143A2094HOH0-0.036-0.02324.349-0.016-0.0160.0000.0000.0000.000
144A2097HOH0-0.002-0.00220.397-0.022-0.0220.0000.0000.0000.000
145A2098HOH00.0200.01223.9760.0000.0000.0000.0000.0000.000
146A2099HOH0-0.018-0.01218.352-0.032-0.0320.0000.0000.0000.000
147A2100HOH00.006-0.01221.502-0.002-0.0020.0000.0000.0000.000
148A2101HOH0-0.038-0.02522.586-0.002-0.0020.0000.0000.0000.000
149A2102HOH0-0.028-0.01416.8810.0280.0280.0000.0000.0000.000
150A2103HOH0-0.022-0.02013.747-0.047-0.0470.0000.0000.0000.000
151A2104HOH00.0130.01120.4330.0150.0150.0000.0000.0000.000
152A2105HOH0-0.033-0.03112.605-0.004-0.0040.0000.0000.0000.000
153A2106HOH00.000-0.00115.8590.0360.0360.0000.0000.0000.000
154A2107HOH0-0.033-0.03627.2650.0030.0030.0000.0000.0000.000
155A2108HOH0-0.075-0.04627.8350.0040.0040.0000.0000.0000.000
156A2109HOH0-0.027-0.03828.8850.0040.0040.0000.0000.0000.000
157A2110HOH0-0.029-0.02925.7250.0060.0060.0000.0000.0000.000
158A2112HOH0-0.004-0.00525.426-0.002-0.0020.0000.0000.0000.000
159A2113HOH00.0380.03522.0620.0100.0100.0000.0000.0000.000
160A2114HOH00.0250.01215.4060.0280.0280.0000.0000.0000.000
161A2115HOH0-0.049-0.03421.4480.0060.0060.0000.0000.0000.000
162A2116HOH0-0.021-0.02119.3320.0260.0260.0000.0000.0000.000
163A2117HOH0-0.019-0.02417.615-0.014-0.0140.0000.0000.0000.000
164A2118HOH00.0270.0168.8800.0560.0560.0000.0000.0000.000
165A2119HOH0-0.026-0.01515.4180.0390.0390.0000.0000.0000.000
166A2120HOH0-0.045-0.03020.1500.0020.0020.0000.0000.0000.000
167A2121HOH0-0.008-0.00417.9240.0070.0070.0000.0000.0000.000
168A2122HOH00.0150.00320.881-0.005-0.0050.0000.0000.0000.000
169A2123HOH00.0510.03226.3400.0090.0090.0000.0000.0000.000
170A2124HOH0-0.036-0.02622.750-0.004-0.0040.0000.0000.0000.000
171A2125HOH00.0180.01325.388-0.003-0.0030.0000.0000.0000.000
172A2126HOH0-0.058-0.03726.417-0.007-0.0070.0000.0000.0000.000
173A2127HOH0-0.038-0.02829.2670.0090.0090.0000.0000.0000.000
174A2128HOH0-0.049-0.03527.9430.0030.0030.0000.0000.0000.000
175A2130HOH00.0250.01636.0720.0020.0020.0000.0000.0000.000
176A2131HOH0-0.044-0.02331.3570.0020.0020.0000.0000.0000.000
177A2133HOH0-0.054-0.04532.172-0.003-0.0030.0000.0000.0000.000
178A2134HOH0-0.030-0.02337.7110.0000.0000.0000.0000.0000.000
179A2135HOH00.0090.01035.9760.0000.0000.0000.0000.0000.000
180A2136HOH0-0.010-0.01437.6700.0020.0020.0000.0000.0000.000
181A2137HOH00.0170.01132.499-0.002-0.0020.0000.0000.0000.000
182A2138HOH00.0130.00620.9490.0070.0070.0000.0000.0000.000
183A2139HOH0-0.064-0.05018.7260.0060.0060.0000.0000.0000.000
184A2141HOH00.0240.0184.060-0.709-0.6810.000-0.004-0.0240.000
185A2142HOH0-0.028-0.0202.919-0.6930.4380.186-0.719-0.598-0.006
186A2143HOH0-0.094-0.0964.7240.4840.501-0.001-0.001-0.0160.000
187A2144HOH0-0.037-0.0225.2000.4380.4380.0000.0000.0000.000
188A2145HOH00.0090.0482.8441.2851.6870.019-0.237-0.1840.000
189A2146HOH0-0.021-0.0126.525-0.115-0.1150.0000.0000.0000.000
190A2148HOH0-0.053-0.0403.946-1.243-1.0720.000-0.111-0.0590.000
191A2149HOH0-0.037-0.0238.1920.2020.2020.0000.0000.0000.000
192A2150HOH0-0.054-0.03611.0350.0700.0700.0000.0000.0000.000