FMODB

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

Last updated: 2024-07-23

All entries: 37450

Number of unique PDB entries: 7783

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FMODB ID: 82M5Y

Calculation Name: 1XQR-A-Xray372

Preferred Name:

Target Type:

Ligand Name:

ligand 3-letter code:

PDB ID: 1XQR

Chain ID: A

ChEMBL ID:

UniProt ID: Q9NZL4

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 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 268
LigandResidueName
LigandFragmentNumber 0
LigandCharge
Software ABINIT-MP - Open Ver. 1 Rev. 23Q2 / 20200603(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -3495590.464772
FMO2-HF: Nuclear repulsion 3386850.924891
FMO2-HF: Total energy -108739.539881
FMO2-MP2: Total energy -109044.36428


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:83:MET)


Summations of interaction energy for fragment #1(A:83:MET)
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.
-46.258-41.05316.79-9.495-12.5-0.015
Interaction energy analysis for fragmet #1(A:83:MET)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : -0.055 / q_NPA : -0.026
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].
3A85GLY00.0240.0282.9970.2883.1100.033-1.485-1.370-0.001
4A86GLN0-0.025-0.0283.842-0.0200.2490.003-0.117-0.155-0.001
5A87ARG10.8850.9245.972-4.223-4.2230.0000.0000.0000.000
6A88GLY00.009-0.0016.8620.8550.8550.0000.0000.0000.000
7A89GLU-1-0.717-0.8326.598-1.352-1.3520.0000.0000.0000.000
8A90VAL00.0160.0052.5950.5660.1484.097-0.668-3.010-0.001
9A91GLU-1-0.782-0.8974.8949.4919.755-0.001-0.015-0.2480.000
10A92GLN00.0260.0397.796-0.386-0.3860.0000.0000.0000.000
11A93MET00.0390.0336.128-0.133-0.1330.0000.0000.0000.000
12A94LYS10.8480.9082.401-23.040-25.2307.875-2.592-3.0930.036
13A95SER0-0.057-0.0448.030-0.328-0.3280.0000.0000.0000.000
14A96CYS0-0.0120.01311.333-0.234-0.2340.0000.0000.0000.000
15A97LEU00.0120.0087.822-0.157-0.1570.0000.0000.0000.000
16A98ARG10.8470.9248.234-3.635-3.6350.0000.0000.0000.000
17A99VAL00.0610.03913.581-0.140-0.1400.0000.0000.0000.000
18A100LEU0-0.011-0.00114.203-0.095-0.0950.0000.0000.0000.000
19A101SER00.0090.01414.431-0.081-0.0810.0000.0000.0000.000
20A102GLN0-0.066-0.01416.463-0.127-0.1270.0000.0000.0000.000
21A103PRO0-0.0020.00219.629-0.055-0.0550.0000.0000.0000.000
22A104MET00.0230.02023.0760.0270.0270.0000.0000.0000.000
23A105PRO00.003-0.00425.2830.0020.0020.0000.0000.0000.000
24A106PRO0-0.0110.00227.388-0.028-0.0280.0000.0000.0000.000
25A107THR0-0.048-0.03530.195-0.032-0.0320.0000.0000.0000.000
26A108ALA0-0.039-0.00731.2440.0180.0180.0000.0000.0000.000
27A109GLY00.0450.03133.385-0.018-0.0180.0000.0000.0000.000
28A110GLU-1-0.948-0.98133.5220.1780.1780.0000.0000.0000.000
29A111ALA00.0120.00733.1360.0050.0050.0000.0000.0000.000
30A112GLU-1-0.858-0.93930.3840.2780.2780.0000.0000.0000.000
31A113GLN0-0.009-0.00728.6200.0360.0360.0000.0000.0000.000
32A114ALA00.0310.01328.3190.0090.0090.0000.0000.0000.000
33A115ALA0-0.0060.01127.535-0.001-0.0010.0000.0000.0000.000
34A116ASP-1-0.754-0.87424.3730.4780.4780.0000.0000.0000.000
35A117GLN0-0.054-0.04723.3940.0240.0240.0000.0000.0000.000
36A118GLN0-0.031-0.02523.717-0.007-0.0070.0000.0000.0000.000
37A119GLU-1-0.946-0.96220.8160.5510.5510.0000.0000.0000.000
38A120ARG10.7470.85919.138-0.517-0.5170.0000.0000.0000.000
39A121GLU-1-0.812-0.91319.0850.1880.1880.0000.0000.0000.000
40A122GLY00.0600.03419.776-0.035-0.0350.0000.0000.0000.000
41A123ALA0-0.034-0.02015.3920.0060.0060.0000.0000.0000.000
42A124LEU0-0.032-0.03214.8020.0040.0040.0000.0000.0000.000
43A125GLU-1-0.832-0.89316.1550.0890.0890.0000.0000.0000.000
44A126LEU00.0320.01413.818-0.053-0.0530.0000.0000.0000.000
45A127LEU0-0.054-0.0279.939-0.034-0.0340.0000.0000.0000.000
46A128ALA0-0.024-0.01612.310-0.180-0.1800.0000.0000.0000.000
47A129ASP-1-0.885-0.94114.727-0.171-0.1710.0000.0000.0000.000
48A130LEU0-0.075-0.0328.592-0.095-0.0950.0000.0000.0000.000
49A131CYS0-0.074-0.04310.747-0.309-0.3090.0000.0000.0000.000
50A132GLU-1-0.844-0.90911.905-0.518-0.5180.0000.0000.0000.000
51A133ASN0-0.041-0.0109.121-0.054-0.0540.0000.0000.0000.000
52A134MET00.0530.00810.625-0.194-0.1940.0000.0000.0000.000
53A135ASP-1-0.881-0.9366.880-3.874-3.8740.0000.0000.0000.000
54A136ASN0-0.065-0.0435.763-0.755-0.7550.0000.0000.0000.000
55A137ALA00.0590.0327.2330.2910.2910.0000.0000.0000.000
56A138ALA00.0160.0126.4710.3560.3560.0000.0000.0000.000
57A139ASP-1-0.779-0.8782.298-19.062-15.3024.768-4.505-4.024-0.048
58A140PHE00.0410.0004.7521.4711.577-0.001-0.011-0.0940.000
59A141CYS0-0.076-0.0397.6190.5340.5340.0000.0000.0000.000
60A142GLN00.0010.0144.156-0.786-0.656-0.001-0.008-0.1210.000
61A143LEU0-0.064-0.0393.8240.5781.0400.017-0.094-0.3850.000
62A144SER0-0.026-0.0117.0540.0570.0570.0000.0000.0000.000
63A145GLY00.0370.0169.9220.0050.0050.0000.0000.0000.000
64A146MET00.0290.02111.512-0.027-0.0270.0000.0000.0000.000
65A147HIS00.0410.01312.6600.0280.0280.0000.0000.0000.000
66A148LEU0-0.028-0.00113.970-0.025-0.0250.0000.0000.0000.000
67A149LEU00.002-0.00514.716-0.022-0.0220.0000.0000.0000.000
68A150VAL0-0.023-0.01617.543-0.022-0.0220.0000.0000.0000.000
69A151GLY0-0.009-0.00519.181-0.022-0.0220.0000.0000.0000.000
70A152ARG10.8140.90419.552-0.535-0.5350.0000.0000.0000.000
71A153TYR0-0.011-0.03617.925-0.055-0.0550.0000.0000.0000.000
72A154LEU00.0020.00521.243-0.029-0.0290.0000.0000.0000.000
73A155GLU-1-0.795-0.89123.3910.0860.0860.0000.0000.0000.000
74A156ALA00.0200.03324.0430.0060.0060.0000.0000.0000.000
75A157GLY00.0370.01726.102-0.024-0.0240.0000.0000.0000.000
76A158ALA00.0380.02526.600-0.021-0.0210.0000.0000.0000.000
77A159ALA00.0430.00526.7530.0020.0020.0000.0000.0000.000
78A160GLY00.0020.00526.357-0.018-0.0180.0000.0000.0000.000
79A161LEU00.0300.02121.366-0.002-0.0020.0000.0000.0000.000
80A162ARG10.7900.88422.257-0.122-0.1220.0000.0000.0000.000
81A163TRP00.018-0.00223.038-0.032-0.0320.0000.0000.0000.000
82A164ARG10.7420.85419.981-0.198-0.1980.0000.0000.0000.000
83A165ALA00.0260.01218.680-0.027-0.0270.0000.0000.0000.000
84A166ALA00.007-0.00419.103-0.043-0.0430.0000.0000.0000.000
85A167GLN00.0630.03419.605-0.025-0.0250.0000.0000.0000.000
86A168LEU00.0360.02213.422-0.060-0.0600.0000.0000.0000.000
87A169ILE00.0120.00616.022-0.091-0.0910.0000.0000.0000.000
88A170GLY0-0.0010.01717.799-0.072-0.0720.0000.0000.0000.000
89A171THR0-0.010-0.01715.012-0.023-0.0230.0000.0000.0000.000
90A172CYS0-0.071-0.03113.113-0.105-0.1050.0000.0000.0000.000
91A173SER0-0.049-0.04314.213-0.117-0.1170.0000.0000.0000.000
92A174GLN00.0520.01616.8750.0270.0270.0000.0000.0000.000
93A175ASN0-0.032-0.02317.913-0.054-0.0540.0000.0000.0000.000
94A176VAL00.0260.02212.728-0.082-0.0820.0000.0000.0000.000
95A177ALA00.0420.02216.1540.0220.0220.0000.0000.0000.000
96A178ALA00.0520.02213.5800.0540.0540.0000.0000.0000.000
97A179ILE0-0.012-0.00710.5700.0680.0680.0000.0000.0000.000
98A180GLN0-0.009-0.01514.4880.1350.1350.0000.0000.0000.000
99A181GLU-1-0.901-0.95317.880-0.474-0.4740.0000.0000.0000.000
100A182GLN0-0.014-0.00311.5380.1530.1530.0000.0000.0000.000
101A183VAL00.002-0.01116.1890.1050.1050.0000.0000.0000.000
102A184LEU0-0.039-0.01518.4140.0680.0680.0000.0000.0000.000
103A185GLY0-0.0050.00320.2320.0380.0380.0000.0000.0000.000
104A186LEU0-0.053-0.02315.6580.0510.0510.0000.0000.0000.000
105A187GLY0-0.0050.00620.3420.0400.0400.0000.0000.0000.000
106A188ALA00.0200.00320.8940.0190.0190.0000.0000.0000.000
107A189LEU00.0350.02423.0430.0160.0160.0000.0000.0000.000
108A190ARG10.9640.99025.8660.0290.0290.0000.0000.0000.000
109A191LYS10.7900.89423.693-0.093-0.0930.0000.0000.0000.000
110A192LEU00.0370.02022.6500.0100.0100.0000.0000.0000.000
111A193LEU00.0270.01726.8500.0020.0020.0000.0000.0000.000
112A194ARG10.8150.90128.591-0.049-0.0490.0000.0000.0000.000
113A195LEU0-0.0220.00326.0900.0050.0050.0000.0000.0000.000
114A196LEU00.0110.00730.4320.0030.0030.0000.0000.0000.000
115A197ASP-1-0.761-0.86532.029-0.017-0.0170.0000.0000.0000.000
116A198ARG10.8020.87434.106-0.003-0.0030.0000.0000.0000.000
117A199ASP-1-0.784-0.86830.3210.0720.0720.0000.0000.0000.000
118A200ALA00.0150.01233.484-0.008-0.0080.0000.0000.0000.000
119A201CYS0-0.046-0.01031.516-0.001-0.0010.0000.0000.0000.000
120A202ASP-1-0.779-0.91731.889-0.008-0.0080.0000.0000.0000.000
121A203THR0-0.037-0.02127.936-0.019-0.0190.0000.0000.0000.000
122A204VAL00.016-0.00226.802-0.013-0.0130.0000.0000.0000.000
123A205ARG10.8180.93227.918-0.007-0.0070.0000.0000.0000.000
124A206VAL0-0.004-0.01028.665-0.018-0.0180.0000.0000.0000.000
125A207LYS10.8460.92824.0480.0470.0470.0000.0000.0000.000
126A208ALA00.0230.01324.766-0.021-0.0210.0000.0000.0000.000
127A209LEU0-0.013-0.00226.493-0.020-0.0200.0000.0000.0000.000
128A210PHE0-0.044-0.01120.908-0.005-0.0050.0000.0000.0000.000
129A211ALA00.0490.01322.285-0.032-0.0320.0000.0000.0000.000
130A212ILE0-0.026-0.02523.264-0.026-0.0260.0000.0000.0000.000
131A213SER00.014-0.00425.833-0.016-0.0160.0000.0000.0000.000
132A214CYS0-0.081-0.03320.667-0.013-0.0130.0000.0000.0000.000
133A215LEU0-0.0190.00219.624-0.040-0.0400.0000.0000.0000.000
134A216VAL0-0.022-0.02022.9590.0010.0010.0000.0000.0000.000
135A217ARG10.8070.90226.2350.3010.3010.0000.0000.0000.000
136A218GLU-1-0.837-0.90623.524-0.358-0.3580.0000.0000.0000.000
137A219GLN0-0.0050.01021.5160.0160.0160.0000.0000.0000.000
138A220GLU-1-0.725-0.87425.081-0.196-0.1960.0000.0000.0000.000
139A221ALA0-0.011-0.00524.7680.0300.0300.0000.0000.0000.000
140A222GLY00.0280.00225.5070.0280.0280.0000.0000.0000.000
141A223LEU0-0.0070.01026.1940.0310.0310.0000.0000.0000.000
142A224LEU00.0420.01429.7050.0270.0270.0000.0000.0000.000
143A225GLN0-0.094-0.03725.1400.0210.0210.0000.0000.0000.000
144A226PHE00.0370.00529.2690.0210.0210.0000.0000.0000.000
145A227LEU0-0.0030.00730.7470.0170.0170.0000.0000.0000.000
146A228ARG10.8590.91129.9600.1480.1480.0000.0000.0000.000
147A229LEU0-0.074-0.03628.9580.0180.0180.0000.0000.0000.000
148A230ASP-1-0.766-0.84533.443-0.044-0.0440.0000.0000.0000.000
149A231GLY00.0330.01233.0700.0040.0040.0000.0000.0000.000
150A232PHE00.0540.00733.9990.0000.0000.0000.0000.0000.000
151A233SER0-0.002-0.01936.6300.0000.0000.0000.0000.0000.000
152A234VAL0-0.066-0.02633.6840.0060.0060.0000.0000.0000.000
153A235LEU0-0.0170.00633.1740.0050.0050.0000.0000.0000.000
154A236MET00.0710.02536.1930.0000.0000.0000.0000.0000.000
155A237ARG10.7750.89038.2790.0430.0430.0000.0000.0000.000
156A238ALA0-0.020-0.01335.9380.0060.0060.0000.0000.0000.000
157A239MET0-0.0230.00537.899-0.001-0.0010.0000.0000.0000.000
158A240GLN0-0.005-0.00840.2550.0050.0050.0000.0000.0000.000
159A241GLN0-0.0250.00238.5040.0110.0110.0000.0000.0000.000
160A242GLN00.0530.02841.762-0.010-0.0100.0000.0000.0000.000
161A243VAL0-0.0060.00036.785-0.004-0.0040.0000.0000.0000.000
162A244GLN00.1010.05138.445-0.006-0.0060.0000.0000.0000.000
163A245LYS10.9390.96433.1420.0280.0280.0000.0000.0000.000
164A246LEU0-0.019-0.00332.747-0.011-0.0110.0000.0000.0000.000
165A247LYS10.8570.95935.3230.0380.0380.0000.0000.0000.000
166A248VAL00.0590.02236.907-0.005-0.0050.0000.0000.0000.000
167A249LYS10.9630.98030.2280.1140.1140.0000.0000.0000.000
168A250SER0-0.026-0.03033.740-0.011-0.0110.0000.0000.0000.000
169A251ALA00.0570.02035.206-0.007-0.0070.0000.0000.0000.000
170A252PHE00.0450.03631.485-0.009-0.0090.0000.0000.0000.000
171A253LEU0-0.024-0.00529.667-0.014-0.0140.0000.0000.0000.000
172A254LEU00.025-0.00433.032-0.010-0.0100.0000.0000.0000.000
173A255GLN0-0.015-0.01335.991-0.007-0.0070.0000.0000.0000.000
174A256ASN0-0.040-0.02631.871-0.024-0.0240.0000.0000.0000.000
175A257LEU0-0.047-0.01829.985-0.012-0.0120.0000.0000.0000.000
176A258LEU0-0.036-0.02133.524-0.003-0.0030.0000.0000.0000.000
177A259VAL0-0.022-0.00335.728-0.001-0.0010.0000.0000.0000.000
178A260GLY0-0.022-0.00532.734-0.006-0.0060.0000.0000.0000.000
179A261HIS10.7970.90129.7550.2330.2330.0000.0000.0000.000
180A262PRO00.0220.00535.1410.0150.0150.0000.0000.0000.000
181A263GLU-1-0.835-0.92534.454-0.192-0.1920.0000.0000.0000.000
182A264HIS0-0.045-0.03233.7510.0240.0240.0000.0000.0000.000
183A265LYS10.8980.96938.8690.1500.1500.0000.0000.0000.000
184A266GLY00.0720.03142.0280.0080.0080.0000.0000.0000.000
185A267THR0-0.018-0.00339.7050.0080.0080.0000.0000.0000.000
186A268LEU00.0340.00638.0760.0080.0080.0000.0000.0000.000
187A269CYS0-0.076-0.02742.3390.0060.0060.0000.0000.0000.000
188A270SER00.017-0.00145.7650.0070.0070.0000.0000.0000.000
189A271MET0-0.104-0.03639.6540.0020.0020.0000.0000.0000.000
190A272GLY00.0470.04045.1990.0040.0040.0000.0000.0000.000
191A273MET0-0.050-0.02440.1430.0010.0010.0000.0000.0000.000
192A274VAL00.0330.01445.015-0.002-0.0020.0000.0000.0000.000
193A275GLN00.0550.01247.622-0.002-0.0020.0000.0000.0000.000
194A276GLN0-0.022-0.01644.9100.0020.0020.0000.0000.0000.000
195A277LEU0-0.004-0.00842.1770.0010.0010.0000.0000.0000.000
196A278VAL00.0280.00746.1920.0010.0010.0000.0000.0000.000
197A279ALA0-0.019-0.01048.9970.0030.0030.0000.0000.0000.000
198A280LEU0-0.032-0.01343.4020.0030.0030.0000.0000.0000.000
199A281VAL00.0280.03547.7460.0020.0020.0000.0000.0000.000
200A282ARG10.8530.93049.7400.0500.0500.0000.0000.0000.000
201A283THR0-0.116-0.06248.2700.0040.0040.0000.0000.0000.000
202A284GLU-1-0.869-0.93650.458-0.045-0.0450.0000.0000.0000.000
203A285HIS0-0.076-0.04248.3940.0010.0010.0000.0000.0000.000
204A286SER0-0.022-0.03644.3470.0010.0010.0000.0000.0000.000
205A287PRO00.0840.02142.048-0.002-0.0020.0000.0000.0000.000
206A288PHE0-0.050-0.02440.870-0.006-0.0060.0000.0000.0000.000
207A289HIS0-0.009-0.00642.560-0.007-0.0070.0000.0000.0000.000
208A290GLU-1-0.708-0.83240.835-0.133-0.1330.0000.0000.0000.000
209A291HIS0-0.028-0.02838.275-0.002-0.0020.0000.0000.0000.000
210A292VAL0-0.049-0.01840.879-0.004-0.0040.0000.0000.0000.000
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