Contacts of the helix formed by residues 155 - 184 (chain C) in PDB entry 3OLJ
Residue contacts within the protein are
derived with the CSU software (Sobolev V., Sorokine A.,
Prilusky J., Abola E.E. and Edelman M. (1999) Automated
analysis of interatomic contacts in proteins.
Bioinformatics, 15, 327-332). A
short description of the analytical approach
is given at the end of the page.
Note:
Non-standard 3 letter residue
codes indicate a heterogroup. To identify
and analyse, use LPC software
Legend:
Dist - nearest distance (Å) between atoms of two residues
Surf - contact surface area (Å2) between two residues
HB - hydrophilic-hydrophilic contact (hydrogen bond)
Arom - aromatic-aromatic contact
Phob - hydrophobic-hydrophobic contact
DC - hydrophobic-hydrophilic contact (destabilizing contact)
+/- - indicates presence/absence of a specific contacts
* - indicates residues forming contacts by their side chain
(including CA atoms)
Residues in contact with ILE 155 (chain C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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71C PRO 3.4 26.0 - - - +
72C LEU* 3.7 20.4 - - + -
76C ASN* 4.1 8.3 - - + +
87C TYR* 3.9 28.9 - - + +
90C ILE* 3.3 34.5 - - + -
153C VAL* 3.9 2.9 - - + +
154C GLN* 1.3 78.5 - - - +
156C THR* 1.3 65.4 + - - +
157C GLU* 4.1 7.6 - - - +
158C ALA* 3.6 29.1 - - + +
159C ARG* 3.1 22.4 + - - +
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Residues in contact with THR 156 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1C NA 2.6 23.1 - - - -
76C ASN* 4.1 3.3 + - - +
78C ARG 3.3 2.6 + - - -
79C ARG* 2.7 26.9 + - - +
80C PHE 5.5 0.4 - - - -
81C VAL 3.6 14.8 - - - +
82C ILE* 3.9 27.4 - - + +
91C TRP* 5.5 0.9 - - + -
154C GLN 3.6 1.4 + - - -
155C ILE* 1.3 72.1 - - - +
157C GLU* 1.3 74.0 + - + +
159C ARG* 3.1 7.4 + - + +
160C CYS* 2.9 30.4 + - - -
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Residues in contact with GLU 157 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82C ILE 5.7 0.2 - - - -
84C PRO 4.5 1.6 - - - +
85C ILE* 3.7 10.2 - - + -
86C GLU* 2.8 32.4 + - - +
87C TYR* 3.0 37.2 + - + +
90C ILE* 3.6 22.8 - - + +
91C TRP* 3.8 36.1 - - + +
94C TYR* 4.3 5.9 - - - +
155C ILE* 4.1 3.4 - - + +
156C THR* 1.3 88.5 + - + +
158C ALA* 1.3 57.7 + - - +
160C CYS* 3.6 3.6 + - - +
161C PHE* 3.1 23.7 + - - +
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Residues in contact with ALA 158 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
90C ILE* 3.6 6.6 - - + +
153C VAL* 3.5 27.8 - - + -
155C ILE* 3.2 18.7 + - + +
156C THR 3.2 0.2 - - - -
157C GLU* 1.3 77.0 - - - +
159C ARG* 1.3 61.1 + - - +
161C PHE* 3.1 1.9 + - - +
162C TYR* 2.8 37.5 + - + -
272C PHE* 3.8 9.6 - - + -
276C MET* 3.8 18.6 - - - -
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Residues in contact with ARG 159 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146B VAL* 3.8 19.2 - - - +
147B GLU* 5.2 2.4 + - - +
166B ILE* 6.0 0.3 - - - +
170B ASN* 4.7 3.8 + - - +
79C ARG* 3.9 39.4 - - - +
80C PHE* 3.6 25.8 - - - -
150C SER* 3.4 24.0 + - - +
151C GLN* 2.8 30.5 + - - +
153C VAL* 2.9 23.7 + - + +
154C GLN* 3.5 18.3 + - - +
155C ILE 3.1 14.3 + - - +
156C THR* 3.5 9.4 - - - +
158C ALA* 1.3 78.1 - - - +
160C CYS* 1.3 57.4 + - - +
162C TYR* 3.4 6.8 + - - +
163C GLY* 2.9 27.4 + - - -
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Residues in contact with CYS 160 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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170B ASN* 3.7 34.5 + - - +
82C ILE* 3.8 24.0 - - - -
91C TRP* 3.9 9.4 - - + -
94C TYR* 3.5 31.6 - - + -
156C THR* 2.9 26.6 + - - +
157C GLU 3.7 5.8 - - - +
159C ARG* 1.3 75.2 - - - +
161C PHE* 1.3 64.7 + - - +
163C GLY* 3.5 0.7 + - - -
164C PHE* 3.1 18.4 + - - +
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Residues in contact with PHE 161 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
90C ILE 5.2 0.2 - - - +
93C MET* 3.5 19.3 - - + -
94C TYR* 3.6 30.0 - - + -
97C ALA* 4.1 13.4 - - + +
157C GLU 3.1 11.3 + - - +
158C ALA 3.1 4.4 + - - +
160C CYS* 1.3 76.6 - - - +
162C TYR* 1.3 57.6 + - - +
164C PHE* 3.2 5.1 + - - +
165C GLN* 2.9 47.3 + - + -
268C LEU* 4.1 11.4 - - + -
269C HIS* 3.9 23.6 - + - -
272C PHE* 3.3 73.6 - + + -
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Residues in contact with TYR 162 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
145C LEU* 3.6 30.1 - - + +
149C PHE* 3.6 35.6 - + + -
150C SER* 4.2 16.6 - - - -
153C VAL* 3.9 19.1 - - + -
158C ALA* 2.8 27.6 + - + +
159C ARG* 3.9 3.8 - - - +
161C PHE* 1.3 73.7 - + - +
163C GLY* 1.3 58.2 + - - +
165C GLN* 3.2 16.9 + - - +
166C ILE* 2.9 36.1 + - + +
221C TYR* 2.6 29.1 + - - -
225C VAL* 4.0 6.2 - - - +
272C PHE* 3.6 27.5 - + - -
273C ALA* 5.4 0.2 - - - -
276C MET* 3.8 7.8 - - + +
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Residues in contact with GLY 163 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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163B GLY 4.4 7.4 - - - +
166B ILE* 4.7 17.7 - - - -
167B ALA* 4.5 7.0 - - - +
170B ASN* 5.2 2.2 - - - -
150C SER* 5.2 2.1 - - - -
159C ARG 2.9 17.9 + - - -
160C CYS* 3.9 2.0 - - - -
162C TYR* 1.3 76.1 - - - +
164C PHE* 1.3 59.5 + - - +
166C ILE* 3.5 12.1 + - - +
167C ALA* 3.3 19.6 + - - +
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Residues in contact with PHE 164 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
101B PHE* 3.8 23.6 - + - -
164B PHE* 6.4 0.4 - + - -
167B ALA* 4.3 19.6 - - + +
170B ASN* 5.9 0.2 - - - +
171B ILE* 4.8 2.2 - - + -
94C TYR* 4.0 24.7 - + + -
97C ALA* 3.4 37.7 - - + -
98C GLU* 3.7 17.7 - - + -
101C PHE* 3.7 27.8 - + + -
160C CYS 3.1 17.6 + - - +
161C PHE 3.7 3.6 - - - +
163C GLY* 1.3 73.3 - - - +
165C GLN* 1.3 60.8 + - - +
167C ALA* 3.2 7.3 + - + +
168C MET* 2.9 49.7 + - + +
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Residues in contact with GLN 165 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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97C ALA* 6.5 0.2 - - - -
141C VAL* 4.0 1.8 - - - +
145C LEU* 3.6 22.2 - - + +
161C PHE* 2.9 34.0 + - + +
162C TYR* 3.2 23.2 + - - +
164C PHE* 1.3 76.0 - - - +
166C ILE* 1.3 53.2 + - - +
168C MET* 3.2 3.2 + - - +
169C GLU* 2.8 44.1 + - - +
232C GLU* 3.0 39.4 + - - -
269C HIS* 3.4 38.5 + - + +
272C PHE* 5.1 0.3 - - - -
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Residues in contact with ILE 166 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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163B GLY* 4.7 15.7 - - - -
166B ILE* 6.4 2.2 - - + -
142C ASN* 3.3 22.9 + - - +
145C LEU* 3.5 34.5 - - + +
146C VAL* 3.9 32.8 - - + +
150C SER* 4.2 12.3 - - - +
162C TYR 2.9 20.1 + - - +
163C GLY* 3.6 11.7 - - - +
164C PHE 3.2 0.2 - - - -
165C GLN* 1.3 76.3 - - - +
167C ALA* 1.3 62.2 + - - +
169C GLU* 3.2 1.6 + - - -
170C ASN* 3.2 27.6 + - - +
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Residues in contact with ALA 167 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
94B TYR* 4.7 1.0 + - - -
163B GLY 4.5 12.8 + - - +
164B PHE* 4.3 25.6 - - + +
167B ALA* 4.5 9.9 - - + -
101C PHE* 6.0 0.9 - - + -
163C GLY 3.3 9.1 + - - +
164C PHE* 3.2 13.5 + - + +
166C ILE* 1.3 79.1 - - - +
168C MET* 1.3 66.3 + - + +
170C ASN* 3.3 11.6 + - - +
171C ILE* 3.2 25.6 + - - +
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Residues in contact with MET 168 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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97C ALA* 5.5 2.2 - - + +
100C SER 5.1 0.4 - - - +
101C PHE* 3.9 28.3 - - - -
102C TRP* 3.4 51.4 - - + +
164C PHE* 2.9 38.5 + - + +
165C GLN* 3.2 7.8 + - - +
167C ALA* 1.3 76.8 - - - +
169C GLU* 1.3 59.0 + - - +
171C ILE* 3.3 15.3 + - + +
172C HIS* 2.8 43.1 + - - +
265C ASP* 3.8 9.6 - - - +
269C HIS* 4.6 11.7 - - + +
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Residues in contact with GLU 169 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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138C ASP* 3.3 30.0 - - - +
141C VAL* 3.9 14.8 - - + +
142C ASN* 3.5 22.9 - - + +
145C LEU* 4.2 15.3 - - + -
165C GLN* 2.8 32.1 + - - +
166C ILE 3.2 0.2 + - - -
168C MET* 1.3 72.7 - - - +
170C ASN* 1.3 59.1 + - - +
172C HIS* 3.2 8.3 + - - +
173C SER* 2.8 33.1 + - - -
232C GLU* 3.0 14.1 - - - +
266C GLU* 3.0 24.6 - - - +
269C HIS* 3.2 11.3 + - - -
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Residues in contact with ASN 170 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82B ILE* 3.4 14.5 - - + +
94B TYR* 4.3 11.8 + - + +
159B ARG 4.7 3.0 + - - -
160B CYS* 3.8 45.2 + - - +
163B GLY* 5.2 1.2 - - - -
164B PHE 5.8 0.2 - - - +
142C ASN* 3.1 21.5 + - - +
166C ILE* 3.2 24.3 + - - +
167C ALA* 3.6 10.4 - - - +
168C MET 3.3 0.2 - - - -
169C GLU* 1.3 74.7 - - - +
171C ILE* 1.3 58.0 + - - +
173C SER* 3.5 5.7 + - - -
174C GLU* 2.9 24.9 + - - +
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Residues in contact with ILE 171 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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94B TYR* 3.7 11.2 - - - +
98B GLU* 3.4 26.5 - - + +
164B PHE* 4.8 3.8 - - + -
101C PHE* 3.7 24.0 - - + -
102C TRP* 3.5 42.0 - - + +
103C THR* 4.2 9.6 - - - -
104C ALA* 4.2 6.2 - - + +
167C ALA 3.2 14.9 + - - +
168C MET* 3.6 22.0 - - + +
169C GLU 3.2 0.2 - - - -
170C ASN* 1.3 76.4 - - - +
172C HIS* 1.3 59.2 + - - +
174C GLU* 3.3 8.2 + - - +
175C MET* 2.9 27.5 + - - +
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Residues in contact with HIS 172 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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102C TRP* 3.7 18.6 - + - -
138C ASP* 3.3 18.0 + - - +
168C MET* 2.8 33.9 + - + +
169C GLU* 3.2 12.1 + - - +
171C ILE* 1.3 72.2 - - - +
173C SER* 1.3 61.7 + - - +
175C MET* 3.2 8.4 + - - +
176C TYR* 3.0 33.3 + - + -
262C ILE* 3.7 23.1 - - + +
265C ASP* 2.6 43.9 + - + +
266C GLU* 3.2 27.8 + - - -
269C HIS* 4.2 7.2 - + - -
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Residues in contact with SER 173 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
80B PHE 5.4 2.1 + - - -
82B ILE* 3.8 22.9 - - - -
135C ALA* 3.8 12.6 + - - +
138C ASP* 3.0 32.9 + - - +
139C GLY* 4.4 1.9 + - - -
169C GLU 2.8 17.7 + - - -
170C ASN* 3.6 7.6 + - - -
172C HIS* 1.3 71.9 - - - +
174C GLU* 1.3 61.3 + - - +
176C TYR* 3.4 6.0 + - - +
177C SER* 2.9 29.3 + - - -
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Residues in contact with GLU 174 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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82B ILE* 4.1 15.4 - - + +
83B PHE* 4.5 17.2 - - + -
91B TRP* 3.6 18.3 + - + -
94B TYR* 4.5 7.3 + - + -
95B LYS* 2.7 34.3 + - - -
98B GLU* 3.9 12.1 - - - +
104C ALA* 4.3 16.5 - - + +
105C GLU* 3.9 2.8 - - - +
170C ASN 2.9 17.7 + - - +
171C ILE* 3.6 7.0 - - - +
173C SER* 1.3 76.3 - - - +
175C MET* 1.3 58.0 + - - +
177C SER* 3.3 2.9 + - - -
178C LEU* 2.8 34.4 + - + +
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Residues in contact with MET 175 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
102C TRP* 4.0 11.7 - - + -
104C ALA* 3.8 26.2 - - + +
107C VAL* 3.7 43.7 - - + -
109C LEU* 4.2 13.5 - - + -
171C ILE 2.9 14.3 + - - +
172C HIS 3.2 9.2 + - - +
174C GLU* 1.3 77.0 - - - +
176C TYR* 1.3 57.2 + - - +
178C LEU* 3.3 7.0 + - + +
179C LEU* 2.9 55.0 + - + +
258C SER* 3.9 17.7 - - - +
262C ILE* 4.1 12.1 - - + -
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Residues in contact with TYR 176 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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131C LEU* 3.8 27.5 - - + +
134C PHE* 3.3 56.6 - + + -
135C ALA* 3.8 20.9 - - + -
138C ASP* 3.5 21.8 - - - -
172C HIS* 3.0 25.3 + - + +
173C SER 3.8 1.1 - - - +
175C MET* 1.3 75.1 - - - +
177C SER* 1.3 55.4 + - - +
179C LEU* 3.2 14.0 + - + +
180C ILE* 2.9 33.9 + - - +
240C PHE* 3.8 6.1 - - - -
243C ILE* 5.4 3.8 - - + -
255C LEU* 5.9 0.7 - - + -
258C SER* 5.9 0.2 - - - -
259C ASN* 5.0 3.1 + - - -
262C ILE* 3.3 43.7 - - + +
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Residues in contact with SER 177 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82B ILE* 3.3 12.5 - - - +
83B PHE* 3.5 35.6 + - - +
135C ALA* 4.3 9.7 - - - +
173C SER 2.9 17.5 + - - -
174C GLU 3.7 4.0 - - - -
176C TYR* 1.3 72.5 - - - +
178C LEU* 1.3 60.7 + - - +
180C ILE* 3.5 4.6 + - - +
181C ASP* 2.9 33.1 + - - +
194C PHE* 4.0 15.0 - - - -
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Residues in contact with LEU 178 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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83B PHE* 4.4 7.8 - - + -
104C ALA* 4.0 33.2 - - + +
105C GLU* 5.5 5.6 - - + -
109C LEU* 4.1 14.6 - - + -
174C GLU* 2.8 22.1 + - + +
175C MET* 3.6 9.6 - - + +
177C SER* 1.3 76.5 - - - +
179C LEU* 1.3 60.4 + - - +
181C ASP* 3.4 8.7 + - + +
182C THR* 2.6 42.8 + - - +
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Residues in contact with LEU 179 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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109C LEU* 3.6 27.1 - - + -
131C LEU* 4.0 20.6 - - + -
175C MET* 2.9 29.4 + - + +
176C TYR* 3.5 17.0 - - + +
178C LEU* 1.3 76.8 - - - +
180C ILE* 1.3 64.0 + - - +
182C THR* 3.1 4.5 + - - -
183C TYR* 3.0 60.0 + - + +
254C GLY 4.6 0.4 - - - -
255C LEU* 4.0 24.0 - - + -
258C SER* 3.7 19.5 - - - +
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Residues in contact with ILE 180 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
128C SER* 4.8 1.3 - - - +
131C LEU* 3.9 22.6 - - + +
132C ALA* 4.0 28.0 - - + +
135C ALA* 4.9 4.0 - - + -
176C TYR 2.9 19.9 + - - +
177C SER* 3.6 7.0 - - - +
179C LEU* 1.3 76.3 - - - +
181C ASP* 1.3 58.8 + - - +
183C TYR* 5.0 0.7 - - - -
184C ILE* 2.8 37.1 + - + +
190C ARG* 4.4 11.7 - - + -
193C LEU* 3.9 33.7 - - + -
194C PHE* 3.8 33.9 - - + -
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Residues in contact with ASP 181 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
83B PHE* 3.3 26.3 - - - -
177C SER 2.9 17.3 + - - +
178C LEU* 3.9 11.0 - - + +
180C ILE* 1.3 76.3 - - - +
182C THR* 1.3 59.5 + - - +
184C ILE 3.3 3.6 - - - +
185C LYS* 3.1 10.0 + - - -
190C ARG* 2.7 56.7 + - - +
194C PHE* 3.2 22.3 - - - -
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Residues in contact with THR 182 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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109C LEU* 3.6 33.5 - - + +
113C ILE* 3.5 31.8 - - + +
178C LEU* 2.6 29.7 + - - +
179C LEU* 3.6 4.5 - - - -
181C ASP* 1.3 79.1 - - - +
183C TYR* 1.3 70.3 + - + +
185C LYS* 3.5 24.3 - - - +
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Residues in contact with TYR 183 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
109C LEU* 5.6 0.7 - - + -
112C ASP* 2.4 45.6 + - + -
113C ILE* 4.7 5.8 - - + -
116C TRP* 3.3 63.5 + + + +
127C ILE* 4.8 2.0 - - + -
131C LEU* 4.1 21.3 - - + -
179C LEU* 3.0 44.3 + - + +
180C ILE 4.2 1.1 - - - +
182C THR* 1.3 92.0 - - + +
184C ILE* 1.3 62.6 + - + +
185C LYS* 4.0 4.1 + - - +
252C MET* 3.4 21.4 - - + +
255C LEU* 3.4 14.7 - - + +
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Residues in contact with ILE 184 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
116C TRP* 3.8 26.0 - - + +
128C SER* 4.3 14.6 - - - -
180C ILE* 2.8 24.1 + - + +
181C ASP 3.3 6.8 - - - +
183C TYR* 1.3 78.5 - - + +
185C LYS* 1.3 54.6 + - - +
186C ASP* 3.9 11.4 - - + +
189C GLU* 3.5 40.8 - - + +
190C ARG* 2.7 37.1 + - + +
193C LEU* 4.1 14.6 - - + -
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A short description of the
analytical approach
The contact analysis used in this page
is based upon the approach
developed in:
Sobolev V., Wade R.C., Vriend G.
and Edelman M. PROTEINS (1996)
25, 120-129.
Contact legitimacy depends on the hydrophobic-hydrophilic
properties of the contacting atoms. In order to
define it, for each inter-atomic contact,
eight atom classes have been introduced:
I Hydrophilic - N and O that can donate and accept hydrogen bonds
(e.g., oxygen of hydroxyl group of Ser. or Thr)
II Acceptor - N or O that can only accept a hydrogen bond
III Donor - N that can only donate a hydrogen bond
IV Hydrophobic - Cl, Br, I and all C atoms that are not in
aromatic rings and do not have a covalent bond to
a N or O atom
V Aromatic - C in aromatic rings irrespective of any other
bonds formed by the atom
VI Neutral - C atoms that have a covalent bond to at least one
atom of class I or two or more atoms from class II
or III; atoms; S, F, P, and metal atoms in all cases
VII Neutral-donor - C atoms that have a covalent bond with only one
atom of class III
VIII Neutral-acceptor - C atoms that have a covalent bond with only
one atom of class II
For each pair of contacts the state of legitimacy
is shown below:
Legend:
+, legitimate
-, illegitimate
------------------------------------------------------------
Atomic class I II III IV V VI VII VIII
------------------------------------------------------------
I (Hydrophilic) + + + - + + + +
II (Acceptor) + - + - + + + -
III (Donor) + + - - + + - +
IV (Hydrophobic) - - - + + + + +
V (Aromatic) + + + + + + + +
VI (Neutral) + + + + + + + +
VII (Neutral-donor) + + - + + + - +
VIII (Neutral-acceptor) + - + + + + + -
------------------------------------------------------------
Warning!
Atom classes for heterogroups are automatically
assigned based on the atomic coordinates. However, in
three cases (see below) the automatic assignment
is currently ambiguous. In these
cases, the user is advised to manually analyse
the full list of contacts using
LPC software.
1. Carbon atoms belonging to a 4-, 5- or 6-member ring are
considered "aromatic" (Class V) if the ring is approximately
planar, and "hydrophobic" (Class IV) or "neutral" (Classes
VI, VII, VIII) if the ring is non-planar.
2. The oxygen atom of a carbonyl or hydroxy group is considered
"hydroxy" (Class I) if the CO bond is longer than 1.29 Å, and
"carbonyl" (Class II) if shorter.
3. All nitrogen atoms are considered "hydrophilic" (Class I).
Please E-mail any
questions and/or suggestions concerning this page to
Vladimir.Sobolev@weizmann.ac.il