FMODB

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

Last updated: 2025-07-23

All entries: 44592

Number of unique PDB entries: 7794

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FMODB ID: 6GJLZ

Calculation Name: 1V1H-A-Xray540

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 1V1H

Chain ID: A

ChEMBL ID:

UniProt ID: P03275

Base Structure: X-ray

Registration Date: 2025-07-11

Reference: C. Watanabe, N. Tani, K. Kamisaka, T. Honma et al., Interaction energy analysis of Apo structure dataset on FMODB, To be published.

DOI:

Apendix: None


IFIE MAP

IFIE Diagram


Modeling method
Optimization MOE:Amber10:EHT
Restraint OptHSide
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 188
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -505855.755261
FMO2-HF: Nuclear repulsion 468399.7541
FMO2-HF: Total energy -37456.001161
FMO2-MP2: Total energy -37566.117116


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:319:VAL)


Summations of interaction energy for fragment #1(A:319:VAL)
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.
-0.1752.9250.01-1.541-1.5710.009
Interaction energy analysis for fragmet #1(A:319:VAL)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : 0.142 / 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].
4A320SER0-0.0700.0584.3460.0060.2870.000-0.140-0.1410.000
5A321ILE00.048-0.0943.766-1.9050.497-0.017-1.331-1.0550.008
6A321ILE0-0.0640.1194.4020.0660.145-0.001-0.010-0.0680.000
7A322LYS00.162-0.0746.4320.3180.3180.0000.0000.0000.000
8A322LYS10.7691.01010.4310.7310.7310.0000.0000.0000.000
9A323LYS00.115-0.11410.1220.0610.0610.0000.0000.0000.000
10A323LYS10.8551.0768.7031.4321.4320.0000.0000.0000.000
11A324SER00.051-0.05512.0090.0920.0920.0000.0000.0000.000
12A324SER0-0.0530.07514.912-0.013-0.0130.0000.0000.0000.000
13A325SER0-0.081-0.11613.5940.1230.1230.0000.0000.0000.000
14A325SER0-0.0570.08013.4170.0180.0180.0000.0000.0000.000
15A326GLY00.088-0.07513.855-0.052-0.0520.0000.0000.0000.000
16A327LEU00.0850.02810.1890.1570.1570.0000.0000.0000.000
17A327LEU0-0.0390.1148.623-0.089-0.0890.0000.0000.0000.000
18A328ASN00.078-0.07310.3810.0080.0080.0000.0000.0000.000
19A328ASN0-0.0460.08211.423-0.085-0.0850.0000.0000.0000.000
20A329PHE00.092-0.0978.270-0.235-0.2350.0000.0000.0000.000
21A329PHE0-0.1250.0723.4050.1930.4440.003-0.070-0.1850.000
22A330ASP00.115-0.1079.1960.1660.1660.0000.0000.0000.000
23A330ASP-1-0.943-0.80712.647-0.599-0.5990.0000.0000.0000.000
24A331ASN00.130-0.04511.585-0.013-0.0130.0000.0000.0000.000
25A331ASN0-0.1680.02812.4610.0940.0940.0000.0000.0000.000
26A332THR00.010-0.0907.855-0.147-0.1470.0000.0000.0000.000
27A332THR0-0.0380.0626.7550.2150.2150.0000.0000.0000.000
28A333ALA00.074-0.1276.536-0.449-0.4490.0000.0000.0000.000
29A333ALA0-0.0540.1319.7290.0680.0680.0000.0000.0000.000
30A334ILE00.041-0.0996.8600.1450.1450.0000.0000.0000.000
31A334ILE0-0.0830.0783.572-0.290-0.2030.0250.010-0.1220.001
32A335ALA00.096-0.1007.7530.1970.1970.0000.0000.0000.000
33A335ALA0-0.0230.14812.1310.0400.0400.0000.0000.0000.000
34A336ILE00.062-0.10911.374-0.184-0.1840.0000.0000.0000.000
35A336ILE0-0.0520.10813.4860.0150.0150.0000.0000.0000.000
36A337ASN00.102-0.05613.7570.0660.0660.0000.0000.0000.000
37A337ASN0-0.1670.02914.3990.0290.0290.0000.0000.0000.000
38A338ALA00.075-0.13115.7860.0020.0020.0000.0000.0000.000
39A338ALA0-0.0460.14518.9070.0060.0060.0000.0000.0000.000
40A339GLY0-0.007-0.10219.1990.0210.0210.0000.0000.0000.000
41A340LYS00.0650.00122.1500.0090.0090.0000.0000.0000.000
42A340LYS10.8811.05126.3590.2750.2750.0000.0000.0000.000
43A341GLY00.038-0.08625.365-0.007-0.0070.0000.0000.0000.000
44A342LEU00.0530.01722.6990.0240.0240.0000.0000.0000.000
45A342LEU0-0.0470.09120.698-0.010-0.0100.0000.0000.0000.000
46A343GLU00.037-0.08922.782-0.006-0.0060.0000.0000.0000.000
47A343GLU-1-0.870-0.81024.675-0.243-0.2430.0000.0000.0000.000
48A344PHE00.102-0.07620.963-0.010-0.0100.0000.0000.0000.000
49A344PHE0-0.1160.07016.742-0.011-0.0110.0000.0000.0000.000
50A345ASP00.117-0.12322.0220.0170.0170.0000.0000.0000.000
51A345ASP-1-0.918-0.81424.717-0.229-0.2290.0000.0000.0000.000
52A346THR0-0.003-0.07424.168-0.010-0.0100.0000.0000.0000.000
53A346THR0-0.0700.05223.671-0.003-0.0030.0000.0000.0000.000
54A347ASN00.079-0.06125.6000.0120.0120.0000.0000.0000.000
55A347ASN0-0.1650.03028.7320.0110.0110.0000.0000.0000.000
56A348THR00.058-0.05926.2580.0170.0170.0000.0000.0000.000
57A348THR0-0.0470.03124.973-0.002-0.0020.0000.0000.0000.000
58A349SER00.064-0.06227.5260.0010.0010.0000.0000.0000.000
59A349SER0-0.0500.04127.6860.0000.0000.0000.0000.0000.000
60A350GLU00.122-0.04323.9320.0180.0180.0000.0000.0000.000
61A350GLU-1-1.048-0.88022.412-0.179-0.1790.0000.0000.0000.000
62A351SER0-0.018-0.09523.247-0.018-0.0180.0000.0000.0000.000
63A351SER0-0.0140.08923.9010.0030.0030.0000.0000.0000.000
64A352PRO0-0.046-0.11323.1820.0220.0220.0000.0000.0000.000
65A353ASP00.1050.00220.301-0.038-0.0380.0000.0000.0000.000
66A353ASP-1-0.993-0.84520.273-0.194-0.1940.0000.0000.0000.000
67A354ILE00.054-0.11118.611-0.053-0.0530.0000.0000.0000.000
68A354ILE0-0.1000.08918.179-0.005-0.0050.0000.0000.0000.000
69A355ASN00.050-0.09519.0050.0340.0340.0000.0000.0000.000
70A355ASN0-0.1160.06320.0360.0290.0290.0000.0000.0000.000
71A356PRO00.034-0.07019.109-0.055-0.0550.0000.0000.0000.000
72A357ILE00.1270.02719.5330.0170.0170.0000.0000.0000.000
73A357ILE0-0.1130.07218.120-0.014-0.0140.0000.0000.0000.000
74A358LYS00.023-0.12620.5950.0090.0090.0000.0000.0000.000
75A358LYS10.7971.04824.5810.2470.2470.0000.0000.0000.000
76A359THR00.043-0.06624.081-0.025-0.0250.0000.0000.0000.000
77A359THR00.0000.03326.0510.0040.0040.0000.0000.0000.000
78A360LYS00.113-0.06826.3920.0100.0100.0000.0000.0000.000
79A360LYS10.7331.01826.7320.2530.2530.0000.0000.0000.000
80A361ILE0-0.036-0.15328.416-0.003-0.0030.0000.0000.0000.000
81A361ILE0-0.0510.13630.4810.0000.0000.0000.0000.0000.000
82A362GLY00.052-0.09732.0620.0030.0030.0000.0000.0000.000
83A363SER00.0520.00935.3320.0010.0010.0000.0000.0000.000
84A363SER0-0.0520.06439.6110.0000.0000.0000.0000.0000.000
85A364GLY00.013-0.08038.466-0.002-0.0020.0000.0000.0000.000
86A365ILE00.0610.02135.7700.0070.0070.0000.0000.0000.000
87A365ILE0-0.0750.08533.848-0.002-0.0020.0000.0000.0000.000
88A366ASP00.067-0.07936.126-0.002-0.0020.0000.0000.0000.000
89A366ASP-1-0.901-0.81137.000-0.133-0.1330.0000.0000.0000.000
90A367TYR00.111-0.13133.673-0.004-0.0040.0000.0000.0000.000
91A367TYR0-0.0770.08528.968-0.002-0.0020.0000.0000.0000.000
92A368ASN00.044-0.03134.7210.0080.0080.0000.0000.0000.000
93A368ASN0-0.0910.04335.134-0.008-0.0080.0000.0000.0000.000
94A369GLU00.065-0.11435.124-0.010-0.0100.0000.0000.0000.000
95A369GLU-1-0.866-0.79237.753-0.118-0.1180.0000.0000.0000.000
96A370ASN0-0.007-0.10633.7190.0000.0000.0000.0000.0000.000
97A370ASN0-0.1570.02933.541-0.001-0.0010.0000.0000.0000.000
98A371GLY00.043-0.09130.742-0.010-0.0100.0000.0000.0000.000
99A372ALA00.1040.00730.567-0.018-0.0180.0000.0000.0000.000
100A372ALA0-0.0600.10833.0410.0020.0020.0000.0000.0000.000
101A373MET00.054-0.09432.2100.0090.0090.0000.0000.0000.000
102A373MET0-0.0810.12329.490-0.006-0.0060.0000.0000.0000.000
103A374ILE0-0.005-0.10933.563-0.001-0.0010.0000.0000.0000.000
104A374ILE0-0.0290.12136.7830.0020.0020.0000.0000.0000.000
105A375THR00.070-0.08937.234-0.006-0.0060.0000.0000.0000.000
106A375THR0-0.0020.08838.9560.0010.0010.0000.0000.0000.000
107A376LYS00.108-0.08739.6850.0050.0050.0000.0000.0000.000
108A376LYS10.7251.00239.8600.1220.1220.0000.0000.0000.000
109A377LEU0-0.020-0.14841.667-0.001-0.0010.0000.0000.0000.000
110A377LEU0-0.0800.12143.8910.0010.0010.0000.0000.0000.000
111A378GLY00.040-0.08945.3610.0010.0010.0000.0000.0000.000
112A379ALA00.095-0.01348.2980.0000.0000.0000.0000.0000.000
113A379ALA0-0.0790.10452.7230.0010.0010.0000.0000.0000.000
114A380GLY0-0.016-0.10851.946-0.001-0.0010.0000.0000.0000.000
115A381LEU00.0760.00948.6840.0020.0020.0000.0000.0000.000
116A381LEU0-0.0860.08746.749-0.001-0.0010.0000.0000.0000.000
117A382SER0-0.022-0.07248.5900.0000.0000.0000.0000.0000.000
118A382SER0-0.0150.06650.3060.0020.0020.0000.0000.0000.000
119A383PHE00.096-0.09846.013-0.001-0.0010.0000.0000.0000.000
120A383PHE0-0.0720.08741.7330.0000.0000.0000.0000.0000.000
121A384ASP00.105-0.05647.1550.0030.0030.0000.0000.0000.000
122A384ASP-1-0.874-0.79647.688-0.086-0.0860.0000.0000.0000.000
123A385ASN00.075-0.08847.412-0.003-0.0030.0000.0000.0000.000
124A385ASN0-0.1140.05549.7010.0010.0010.0000.0000.0000.000
125A386SER0-0.037-0.13445.6500.0000.0000.0000.0000.0000.000
126A386SER0-0.0770.04445.133-0.001-0.0010.0000.0000.0000.000
127A387GLY0-0.012-0.09142.781-0.004-0.0040.0000.0000.0000.000
128A388ALA00.083-0.01442.707-0.007-0.0070.0000.0000.0000.000
129A388ALA0-0.0640.13144.7340.0000.0000.0000.0000.0000.000
130A389ILE00.078-0.12344.6200.0040.0040.0000.0000.0000.000
131A389ILE0-0.0890.10141.8520.0000.0000.0000.0000.0000.000
132A390THR00.035-0.06245.9770.0000.0000.0000.0000.0000.000
133A390THR0-0.0300.08249.6220.0010.0010.0000.0000.0000.000
134A391ILE00.056-0.10149.748-0.001-0.0010.0000.0000.0000.000
135A391ILE0-0.0740.10750.9590.0000.0000.0000.0000.0000.000
136A392GLY0-0.059-0.10252.6150.0030.0030.0000.0000.0000.000
137A401GLY00.0430.00354.1330.0010.0010.0000.0000.0000.000
138A402SER00.036-0.01755.3390.0010.0010.0000.0000.0000.000
139A402SER0-0.0210.07854.7840.0000.0000.0000.0000.0000.000
140A457GLY0-0.047-0.10757.1390.0010.0010.0000.0000.0000.000
141A458TYR00.0500.00459.3570.0020.0020.0000.0000.0000.000
142A458TYR0-0.0700.09656.0050.0010.0010.0000.0000.0000.000
143A459ILE00.098-0.09260.608-0.001-0.0010.0000.0000.0000.000
144A459ILE0-0.1140.09764.2430.0000.0000.0000.0000.0000.000
145A460PRO00.004-0.09860.377-0.001-0.0010.0000.0000.0000.000
146A461GLU00.1940.02161.9210.0020.0020.0000.0000.0000.000
147A461GLU-1-0.955-0.79962.637-0.050-0.0500.0000.0000.0000.000
148A462ALA0-0.003-0.12664.022-0.001-0.0010.0000.0000.0000.000
149A462ALA0-0.0140.11868.6400.0000.0000.0000.0000.0000.000
150A463PRO0-0.026-0.11666.933-0.001-0.0010.0000.0000.0000.000
151A464ARG00.1090.04667.6510.0010.0010.0000.0000.0000.000
152A464ARG10.7140.97165.3290.0480.0480.0000.0000.0000.000
153A465ASP00.042-0.13368.8990.0000.0000.0000.0000.0000.000
154A465ASP-1-0.836-0.77571.381-0.039-0.0390.0000.0000.0000.000
155A466GLY0-0.018-0.11271.9400.0010.0010.0000.0000.0000.000
156A467GLN0-0.008-0.04374.3170.0010.0010.0000.0000.0000.000
157A467GLN0-0.0540.10075.2070.0010.0010.0000.0000.0000.000
158A468ALA00.127-0.05474.274-0.001-0.0010.0000.0000.0000.000
159A468ALA0-0.0850.09177.1980.0000.0000.0000.0000.0000.000
160A469TYR0-0.002-0.13872.7090.0010.0010.0000.0000.0000.000
161A469TYR0-0.0920.06872.1350.0000.0000.0000.0000.0000.000
162A470VAL00.069-0.09574.0900.0000.0000.0000.0000.0000.000
163A470VAL0-0.0730.10075.7600.0000.0000.0000.0000.0000.000
164A471ARG00.150-0.09271.1220.0000.0000.0000.0000.0000.000
165A471ARG10.7741.06865.3220.0470.0470.0000.0000.0000.000
166A472LYS00.070-0.10372.0400.0000.0000.0000.0000.0000.000
167A472LYS10.7821.00274.2120.0360.0360.0000.0000.0000.000
168A473ASP00.025-0.11171.355-0.001-0.0010.0000.0000.0000.000
169A473ASP-1-0.926-0.79571.584-0.037-0.0370.0000.0000.0000.000
170A474GLY00.026-0.11867.255-0.001-0.0010.0000.0000.0000.000
171A475GLU00.060-0.04066.555-0.002-0.0020.0000.0000.0000.000
172A475GLU-1-0.927-0.80167.122-0.045-0.0450.0000.0000.0000.000
173A476TRP00.040-0.11568.6450.0010.0010.0000.0000.0000.000
174A476TRP0-0.1200.09065.7890.0010.0010.0000.0000.0000.000
175A477VAL00.098-0.09770.2660.0000.0000.0000.0000.0000.000
176A477VAL0-0.1010.09872.8530.0000.0000.0000.0000.0000.000
177A478LEU00.137-0.09173.8980.0000.0000.0000.0000.0000.000
178A478LEU0-0.0680.11775.1070.0000.0000.0000.0000.0000.000
179A479LEU00.132-0.10076.3700.0000.0000.0000.0000.0000.000
180A479LEU0-0.0900.11178.1790.0000.0000.0000.0000.0000.000
181A480SER00.042-0.07179.0620.0010.0010.0000.0000.0000.000
182A480SER0-0.0250.05880.7280.0000.0000.0000.0000.0000.000
183A481THR0-0.074-0.07780.3150.0010.0010.0000.0000.0000.000
184A481THR0-0.0120.07579.2760.0000.0000.0000.0000.0000.000
185A482PHE00.068-0.09081.7150.0010.0010.0000.0000.0000.000
186A482PHE0-0.0930.07077.6650.0000.0000.0000.0000.0000.000
187A483LEU0-0.072-0.12883.2430.0010.0010.0000.0000.0000.000
188A483LEU00.0270.02983.1340.0000.0000.0000.0000.0000.000