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: P942X

Calculation Name: 3W16-A-Xray8

Preferred Name: Serine/threonine-protein kinase Aurora-A

Target Type: SINGLE PROTEIN

Ligand Name: 4-[(5-methyl-1h-pyrazol-3-yl)amino]-2-phenylphthalazin-1(2h)-one

ligand 3-letter code: P9J

PDB ID: 3W16

Chain ID: A

ChEMBL ID: CHEMBL4722

UniProt ID: O14965

Base Structure: X-ray

Registration Date: 2017-03-09

Reference:

DOI:


IFIE MAP

IFIE Diagram


Modeling method
Optimization MOE:Amber10:EHT
Restraint OptH
Protonation MOE:Protonate 3D
Complement MOE:Homology modeling
Water No
Procedure Auto-FMO protocol ver. 1.20160629
FMO calculation
FMO method FMO2-MP2/6-31G(d)
Fragmentation Auto
Number of fragment 261
LigandResidueName P9J
LigandFragmentNumber 261
LigandCharge
Software MIZUHO/ABINIT-MP 4.0(SMP)
Total energy (hartree)
FMO2-HF: Electronic energy -3752727.802477
FMO2-HF: Nuclear repulsion 3647160.639302
FMO2-HF: Total energy -105567.163175
FMO2-MP2: Total energy -105880.248686


3D Structure
Snapshot
 
Ligand structure

P9J

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.
-98.247-86.52170.142-27.189-54.6790.052


Interactive mode: IFIE and PIEDA for fragment #261(A:501:P9J)


Summations of interaction energy for fragment #261(A:501:P9J)
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.
-98.247-86.52170.142-27.189-54.679-0.052
Interaction energy analysis for fragmet #261(A:501:P9J)
Snapshot

IFIE Diagram

Base fragment(s) of PIEDA/IFIE
Single fragment Multi fragments
Fragment list
Charge [e] FCHARGE : 0 / q_Mulliken : -0.051 / q_NPA : 0.000
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].
1A128TRP10.8260.90914.3040.4720.4720.0000.0000.0000.000
2A129ALA00.0990.04816.6300.0360.0360.0000.0000.0000.000
3A130LEU0-0.026-0.01213.878-0.042-0.0420.0000.0000.0000.000
4A131GLU-1-0.930-0.96016.043-0.006-0.0060.0000.0000.0000.000
5A132ASP-1-0.770-0.89516.036-0.311-0.3110.0000.0000.0000.000
6A133PHE0-0.079-0.03012.081-0.105-0.1050.0000.0000.0000.000
7A134GLU-1-0.890-0.93114.328-0.064-0.0640.0000.0000.0000.000
8A135ILE0-0.012-0.01211.311-0.032-0.0320.0000.0000.0000.000
9A136GLY00.0440.01911.400-0.079-0.0790.0000.0000.0000.000
10A137ARG10.9140.9612.925-5.208-2.9040.394-1.243-1.4550.018
11A138PRO00.008-0.0037.3880.2420.2420.0000.0000.0000.000
12A139LEU0-0.051-0.0412.837-5.033-0.4181.228-1.201-4.6410.012
13A140GLY00.0470.0362.6360.9634.6265.353-3.426-5.5910.013
14A141LYS10.9080.9383.599-10.112-11.1140.1072.375-1.4800.003
15A142GLY00.0630.0283.724-0.531-0.0950.007-0.123-0.320-0.001
16A143LYS10.9170.9643.894-3.249-3.119-0.001-0.012-0.1180.000
17A144PHE00.1060.0705.389-0.001-0.0010.0000.0000.0000.000
18A145GLY00.0360.0247.916-0.274-0.2740.0000.0000.0000.000
19A146ASN0-0.079-0.0424.896-0.237-0.2370.0000.0000.0000.000
20A147VAL00.0300.0192.289-3.682-1.9382.384-0.878-3.2490.002
21A148TYR0-0.006-0.0034.4751.6891.865-0.001-0.017-0.1580.000
22A149LEU00.0090.0175.471-0.362-0.3620.0000.0000.0000.000
23A150ALA0-0.005-0.0047.624-0.062-0.0620.0000.0000.0000.000
24A151ARG10.9140.9589.4420.1300.1300.0000.0000.0000.000
25A152GLU-1-0.780-0.83812.088-0.453-0.4530.0000.0000.0000.000
26A153LYS10.9100.94314.2340.0550.0550.0000.0000.0000.000
27A154GLN0-0.0310.00317.8200.0350.0350.0000.0000.0000.000
28A155SER0-0.076-0.09115.652-0.034-0.0340.0000.0000.0000.000
29A156LYS10.9000.94115.7080.4420.4420.0000.0000.0000.000
30A157PHE00.0100.0178.658-0.035-0.0350.0000.0000.0000.000
31A158ILE0-0.010-0.0037.6990.1010.1010.0000.0000.0000.000
32A159LEU0-0.044-0.0295.727-0.375-0.3750.0000.0000.0000.000
33A160ALA00.0080.0042.919-0.1091.2750.535-0.493-1.4260.003
34A161LEU00.0410.0134.832-1.226-1.107-0.001-0.008-0.1110.000
35A162LYS10.8980.9774.323-0.396-0.1130.000-0.017-0.2660.000
36A163VAL0-0.003-0.0126.122-0.278-0.2780.0000.0000.0000.000
37A164LEU00.000-0.0018.5460.3230.3230.0000.0000.0000.000
38A165PHE0-0.012-0.03311.027-0.182-0.1820.0000.0000.0000.000
39A166LYS10.9410.98614.270-0.068-0.0680.0000.0000.0000.000
40A167ALA00.0360.03216.9860.0290.0290.0000.0000.0000.000
41A168GLN0-0.050-0.05211.999-0.025-0.0250.0000.0000.0000.000
42A169LEU00.013-0.01212.0620.0640.0640.0000.0000.0000.000
43A170GLU-1-0.832-0.93716.2040.1220.1220.0000.0000.0000.000
44A171LYS10.9460.97519.698-0.403-0.4030.0000.0000.0000.000
45A172ALA0-0.051-0.00816.3150.0290.0290.0000.0000.0000.000
46A173GLY0-0.003-0.00118.341-0.006-0.0060.0000.0000.0000.000
47A174VAL0-0.044-0.02414.678-0.040-0.0400.0000.0000.0000.000
48A175GLU-1-0.921-0.94717.5830.0590.0590.0000.0000.0000.000
49A176HIS0-0.052-0.02717.941-0.071-0.0710.0000.0000.0000.000
50A177GLN0-0.012-0.03015.364-0.088-0.0880.0000.0000.0000.000
51A178LEU00.0860.04911.470-0.081-0.0810.0000.0000.0000.000
52A179ARG10.9390.97314.4080.0890.0890.0000.0000.0000.000
53A180ARG10.9550.97516.7010.1660.1660.0000.0000.0000.000
54A181GLU-1-0.840-0.91812.354-0.294-0.2940.0000.0000.0000.000
55A182VAL0-0.024-0.01510.967-0.175-0.1750.0000.0000.0000.000
56A183GLU-1-0.971-0.98312.991-0.666-0.6660.0000.0000.0000.000
57A184ILE00.007-0.00514.942-0.032-0.0320.0000.0000.0000.000
58A185GLN00.0320.0077.8270.0430.0430.0000.0000.0000.000
59A186SER0-0.095-0.03912.426-0.123-0.1230.0000.0000.0000.000
60A187HIS0-0.028-0.00213.484-0.023-0.0230.0000.0000.0000.000
61A188LEU0-0.032-0.00412.6730.0810.0810.0000.0000.0000.000
62A189ARG10.8570.90613.0430.9520.9520.0000.0000.0000.000
63A190HIS00.0690.03712.8510.0580.0580.0000.0000.0000.000
64A191PRO00.0050.00511.883-0.242-0.2420.0000.0000.0000.000
65A192ASN00.0060.00111.251-0.018-0.0180.0000.0000.0000.000
66A193ILE0-0.031-0.0059.3960.1150.1150.0000.0000.0000.000
67A194LEU0-0.0230.0002.575-1.510-0.4030.903-0.441-1.569-0.002
68A195ARG10.9330.9716.7072.4732.4730.0000.0000.0000.000
69A196LEU00.007-0.0016.421-1.158-1.1580.0000.0000.0000.000
70A197TYR0-0.026-0.0196.8510.3660.3660.0000.0000.0000.000
71A198GLY00.0290.0139.8430.3270.3270.0000.0000.0000.000
72A199TYR0-0.019-0.0089.993-0.174-0.1740.0000.0000.0000.000
73A200PHE0-0.018-0.01211.8220.0590.0590.0000.0000.0000.000
74A201HIS00.0220.00014.0170.0600.0600.0000.0000.0000.000
75A202ASP-1-0.756-0.87016.7000.1870.1870.0000.0000.0000.000
76A203ALA00.008-0.00119.1870.0040.0040.0000.0000.0000.000
77A204THR0-0.0050.00018.6020.0200.0200.0000.0000.0000.000
78A205ARG10.8600.93713.777-0.537-0.5370.0000.0000.0000.000
79A206VAL00.0110.01112.068-0.099-0.0990.0000.0000.0000.000
80A207TYR0-0.013-0.01010.3000.2070.2070.0000.0000.0000.000
81A208LEU00.0060.0016.547-0.089-0.0890.0000.0000.0000.000
82A209ILE0-0.0010.0036.665-0.081-0.0810.0000.0000.0000.000
83A210LEU0-0.005-0.0062.750-0.8040.0970.440-0.275-1.065-0.002
84A211GLU-1-0.770-0.8844.267-3.056-2.4790.000-0.334-0.243-0.001
85A212TYR0-0.034-0.0121.881-25.213-21.92411.180-6.551-7.918-0.043
86A213ALA00.0540.0021.714-3.065-21.25830.742-7.930-4.6190.033
87A214PRO0-0.017-0.0271.974-23.923-21.6447.652-4.095-5.837-0.067
88A215LEU00.0120.0142.751-5.663-2.9320.519-1.411-1.838-0.019
89A216GLY0-0.058-0.0102.7440.3012.0084.537-2.535-3.709-0.001
90A217THR00.004-0.0102.697-0.308-0.5150.7722.529-3.094-0.001
91A218VAL00.1040.0405.391-0.208-0.025-0.001-0.012-0.1700.000
92A219TYR00.0330.0205.8070.1480.1480.0000.0000.0000.000
93A220ARG10.8680.9234.956-2.321-2.3210.0000.0000.0000.000
94A221GLU-1-0.836-0.9287.246-0.814-0.8140.0000.0000.0000.000
95A222LEU00.0440.0369.481-0.073-0.0730.0000.0000.0000.000
96A223GLN00.002-0.0099.1210.3220.3220.0000.0000.0000.000
97A224LYS10.8200.9195.923-0.298-0.2980.0000.0000.0000.000
98A225LEU00.0390.01411.954-0.059-0.0590.0000.0000.0000.000
99A226SER0-0.0650.00214.715-0.038-0.0380.0000.0000.0000.000
100A227LYS10.9320.95216.731-0.064-0.0640.0000.0000.0000.000
101A228PHE0-0.044-0.01712.205-0.060-0.0600.0000.0000.0000.000
102A229ASP-1-0.861-0.94218.257-0.245-0.2450.0000.0000.0000.000
103A230GLU-1-0.838-0.93821.157-0.144-0.1440.0000.0000.0000.000
104A231GLN00.0420.03022.096-0.004-0.0040.0000.0000.0000.000
105A232ARG10.9170.96913.0720.6440.6440.0000.0000.0000.000
106A233THR0-0.023-0.00918.484-0.019-0.0190.0000.0000.0000.000
107A234ALA00.0290.02619.697-0.028-0.0280.0000.0000.0000.000
108A235THR00.0530.04417.623-0.031-0.0310.0000.0000.0000.000
109A236TYR0-0.046-0.02712.644-0.112-0.1120.0000.0000.0000.000
110A237ILE0-0.018-0.00717.172-0.039-0.0390.0000.0000.0000.000
111A238THR00.0250.00719.449-0.005-0.0050.0000.0000.0000.000
112A239GLU-1-0.867-0.95214.990-1.105-1.1050.0000.0000.0000.000
113A240LEU0-0.020-0.02313.331-0.069-0.0690.0000.0000.0000.000
114A241ALA00.0480.02516.219-0.003-0.0030.0000.0000.0000.000
115A242ASN00.0110.01318.4180.0600.0600.0000.0000.0000.000
116A243ALA0-0.031-0.01213.983-0.002-0.0020.0000.0000.0000.000
117A244LEU00.0220.00315.706-0.027-0.0270.0000.0000.0000.000
118A245SER0-0.011-0.02117.9780.0520.0520.0000.0000.0000.000
119A246TYR0-0.044-0.02116.0730.0060.0060.0000.0000.0000.000
120A247CYS0-0.040-0.00215.479-0.007-0.0070.0000.0000.0000.000
121A248HIS00.0450.02918.4000.0160.0160.0000.0000.0000.000
122A249SER0-0.052-0.02521.8700.0190.0190.0000.0000.0000.000
123A250LYS10.8510.92820.0030.6530.6530.0000.0000.0000.000
124A251ARG10.9390.95721.5910.2710.2710.0000.0000.0000.000
125A252VAL0-0.0210.01016.2720.0310.0310.0000.0000.0000.000
126A253ILE00.001-0.00919.4380.0020.0020.0000.0000.0000.000
127A254HIS0-0.045-0.04911.3730.0580.0580.0000.0000.0000.000
128A255ARG10.8400.92511.737-0.039-0.0390.0000.0000.0000.000
129A256ASP-1-0.694-0.84714.3320.3040.3040.0000.0000.0000.000
130A257ILE00.0370.01512.207-0.025-0.0250.0000.0000.0000.000
131A258LYS10.8570.9559.365-0.768-0.7680.0000.0000.0000.000
132A259PRO00.0810.0499.531-0.033-0.0330.0000.0000.0000.000
133A260GLU-1-0.902-0.9655.2351.4631.4630.0000.0000.0000.000
134A261ASN0-0.167-0.0855.0260.4620.675-0.001-0.007-0.2050.000
135A262LEU00.0690.0497.370-0.713-0.7130.0000.0000.0000.000
136A263LEU0-0.031-0.0052.596-3.504-0.5523.390-1.035-5.3070.001
137A264LEU00.0470.0275.6940.2550.2550.0000.0000.0000.000
138A265GLY00.006-0.0015.835-1.477-1.4770.0000.0000.0000.000
139A266SER0-0.019-0.0287.849-0.121-0.1210.0000.0000.0000.000
140A267ALA0-0.055-0.0169.2920.0970.0970.0000.0000.0000.000
141A268GLY0-0.015-0.00510.2190.2260.2260.0000.0000.0000.000
142A269GLU-1-0.812-0.89811.109-1.868-1.8680.0000.0000.0000.000
143A270LEU0-0.0110.00410.096-0.341-0.3410.0000.0000.0000.000
144A271LYS10.7960.8906.7982.4092.4090.0000.0000.0000.000
145A272ILE00.0270.0077.8160.0710.0710.0000.0000.0000.000
146A273ALA0-0.014-0.0153.480-0.841-0.6060.005-0.047-0.1930.000
147A274ASP-1-0.886-0.9175.132-0.625-0.525-0.001-0.002-0.0970.000
148A275PHE0-0.049-0.0405.236-0.337-0.3370.0000.0000.0000.000
149A276GLY00.0060.0099.8220.2290.2290.0000.0000.0000.000
150A277TRP00.0250.02110.0830.0760.0760.0000.0000.0000.000
151A278SER0-0.111-0.07315.3830.0910.0910.0000.0000.0000.000
152A279VAL00.0770.03519.098-0.023-0.0230.0000.0000.0000.000
153A280HIS00.0020.00122.0120.0250.0250.0000.0000.0000.000
154A281ALA00.0780.06022.9110.0060.0060.0000.0000.0000.000
155A282PRO00.0710.02323.2810.0150.0150.0000.0000.0000.000
156A283SER0-0.051-0.00120.6540.0410.0410.0000.0000.0000.000
157A284SER00.0680.01719.9770.0380.0380.0000.0000.0000.000
158A285ARG10.8880.93620.925-0.001-0.0010.0000.0000.0000.000
159A286ARG10.8710.92619.7880.0950.0950.0000.0000.0000.000
160A287THR00.0480.05115.8580.0650.0650.0000.0000.0000.000
161A288THR00.029-0.01617.8680.0260.0260.0000.0000.0000.000
162A289LEU0-0.0260.01016.1780.0200.0200.0000.0000.0000.000
163A290CYS0-0.096-0.02914.1040.0990.0990.0000.0000.0000.000
164A291GLY00.019-0.01514.3930.0120.0120.0000.0000.0000.000
165A292THR0-0.064-0.04912.4560.0750.0750.0000.0000.0000.000
166A293LEU0-0.024-0.00215.0730.0110.0110.0000.0000.0000.000
167A294ASP-1-0.845-0.91415.1170.5540.5540.0000.0000.0000.000
168A295TYR0-0.071-0.06312.456-0.008-0.0080.0000.0000.0000.000
169A296LEU0-0.105-0.04916.941-0.072-0.0720.0000.0000.0000.000
170A297PRO00.0310.02219.5400.0070.0070.0000.0000.0000.000
171A298PRO00.0820.03423.0080.0200.0200.0000.0000.0000.000
172A299GLU-1-0.765-0.87826.0610.0190.0190.0000.0000.0000.000
173A300MET0-0.036-0.00119.742-0.005-0.0050.0000.0000.0000.000
174A301ILE0-0.0050.00522.4670.0290.0290.0000.0000.0000.000
175A302GLU-1-0.807-0.85325.1430.1180.1180.0000.0000.0000.000
176A303GLY0-0.026-0.01629.0050.0040.0040.0000.0000.0000.000
177A304ARG10.7690.88123.140-0.201-0.2010.0000.0000.0000.000
178A305MET00.0010.01927.658-0.012-0.0120.0000.0000.0000.000
179A306HIS00.027-0.02620.2090.0260.0260.0000.0000.0000.000
180A307ASP-1-0.878-0.95025.039-0.099-0.0990.0000.0000.0000.000
181A308GLU-1-0.897-0.95823.678-0.203-0.2030.0000.0000.0000.000
182A309LYS10.8190.89423.4410.1360.1360.0000.0000.0000.000
183A310VAL00.0040.01320.4960.0250.0250.0000.0000.0000.000
184A311ASP-1-0.785-0.90318.945-0.286-0.2860.0000.0000.0000.000
185A312LEU0-0.013-0.01420.4490.0030.0030.0000.0000.0000.000
186A313TRP00.0240.02320.912-0.002-0.0020.0000.0000.0000.000
187A314SER00.018-0.00617.7500.0520.0520.0000.0000.0000.000
188A315LEU00.0040.00218.1970.0240.0240.0000.0000.0000.000
189A316GLY00.0350.03820.4320.0080.0080.0000.0000.0000.000
190A317VAL0-0.035-0.01717.1360.0230.0230.0000.0000.0000.000
191A318LEU00.0210.00113.6730.0440.0440.0000.0000.0000.000
192A319CYS0-0.075-0.02717.385-0.003-0.0030.0000.0000.0000.000
193A320TYR0-0.001-0.01220.1220.0020.0020.0000.0000.0000.000
194A321GLU-1-0.826-0.91813.8580.5890.5890.0000.0000.0000.000
195A322PHE0-0.0050.00013.3470.0260.0260.0000.0000.0000.000
196A323LEU00.0270.02917.3120.0000.0000.0000.0000.0000.000
197A324VAL0-0.092-0.05520.2590.0040.0040.0000.0000.0000.000
198A325GLY0-0.0040.00416.7640.0230.0230.0000.0000.0000.000
199A326LYS10.8980.95716.343-0.301-0.3010.0000.0000.0000.000
200A327PRO00.0310.02715.420-0.099-0.0990.0000.0000.0000.000
201A328PRO00.0030.00418.0640.0140.0140.0000.0000.0000.000
202A329PHE0-0.020-0.03620.657-0.022-0.0220.0000.0000.0000.000
203A330GLU-1-0.853-0.91716.6270.6380.6380.0000.0000.0000.000
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