Contacts of the helix formed by residues 155 - 186 (chain A) in PDB entry 6M85
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 CYS 155 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
104A ILE* 4.9 1.3 - - + -
108A HIS* 3.6 21.5 - - - -
123A CYS* 2.0 59.0 - - + +
152A THR* 4.6 2.5 + - - +
153A GLU 3.5 0.8 - - - -
154A GLU* 1.3 81.0 - - - +
156A PRO* 1.3 67.1 - - - +
157A LEU* 3.1 3.9 + - + +
158A ALA* 3.1 10.5 + - + +
159A VAL* 3.1 25.6 + - - +
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Residues in contact with PRO 156 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
153A GLU 5.0 2.4 - - - +
154A GLU 3.3 12.1 - - - +
155A CYS* 1.3 82.2 - - - +
157A LEU* 1.3 57.1 + - - +
159A VAL* 3.7 10.3 - - + +
160A PHE* 2.9 27.7 + - - +
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Residues in contact with LEU 157 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
100A ILE* 6.0 0.4 - - + -
104A ILE* 4.1 24.0 - - + -
155A CYS* 3.1 4.1 + - + -
156A PRO* 1.3 75.8 - - - +
158A ALA* 1.3 55.6 + - - +
160A PHE* 3.2 15.9 + - + +
161A MET* 2.8 60.1 + - + +
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Residues in contact with ALA 158 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
101A PHE* 3.8 4.2 - - + -
104A ILE* 4.1 18.0 - - + +
123A CYS* 4.0 18.8 - - + +
124A VAL* 4.3 16.6 - - + -
151A VAL* 4.4 3.8 - - + -
152A THR 5.9 0.2 - - - +
155A CYS* 3.1 22.7 + - + +
157A LEU* 1.3 73.3 - - - +
159A VAL* 1.3 65.4 + - - +
161A MET* 3.2 4.7 + - - +
162A VAL* 3.0 28.1 + - - +
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Residues in contact with VAL 159 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
151A VAL* 4.6 9.0 - - + -
152A THR 3.7 21.5 - - - +
153A GLU* 4.9 7.4 - - - +
155A CYS 3.1 16.5 + - - +
156A PRO* 3.7 11.0 - - + +
158A ALA* 1.3 71.9 - - - +
160A PHE* 1.3 68.4 + - - +
162A VAL* 3.2 6.3 + - - +
163A VAL* 3.1 30.6 + - + +
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Residues in contact with PHE 160 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
156A PRO 2.9 20.7 + - - +
157A LEU* 3.4 14.4 - - + +
159A VAL* 1.3 76.6 - - - +
161A MET* 1.3 82.3 + - + +
163A VAL* 3.2 15.7 + - + +
164A VAL* 2.9 51.5 + - + +
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Residues in contact with MET 161 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
97A PHE* 4.0 24.4 - - + -
100A ILE* 3.7 39.5 - - + -
101A PHE* 3.7 17.9 - - + -
104A ILE* 4.6 0.7 - - + -
157A LEU* 2.8 55.0 + - + +
158A ALA* 3.6 7.2 - - - +
159A VAL 3.2 0.4 - - - -
160A PHE* 1.3 89.0 - - + +
162A VAL* 1.3 59.6 + - - +
164A VAL* 3.9 5.3 - - - +
165A GLN* 2.9 30.8 + - - +
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Residues in contact with VAL 162 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
101A PHE* 3.9 16.8 - - + -
136A PHE* 4.1 19.1 - - + -
140A THR* 4.0 17.2 - - + +
151A VAL* 4.1 21.5 - - + -
158A ALA 3.0 18.7 + - - +
159A VAL* 3.2 8.0 + - + +
161A MET* 1.3 72.6 - - - +
163A VAL* 1.3 67.1 + - + +
165A GLN* 4.0 4.1 - - - +
166A SER* 2.9 36.8 + - - +
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Residues in contact with VAL 163 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
159A VAL* 3.1 28.6 + - + +
160A PHE* 3.3 17.5 - - + +
162A VAL* 1.3 78.2 - - + +
164A VAL* 1.3 63.6 + - + +
166A SER* 3.6 5.3 + - - -
167A ILE* 3.3 37.6 + - + +
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Residues in contact with VAL 164 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
97A PHE* 3.9 20.6 - - + -
160A PHE* 2.9 55.0 + - + +
161A MET* 3.9 7.2 - - - +
162A VAL 3.3 0.2 - - - -
163A VAL* 1.3 77.6 - - + +
165A GLN* 1.3 60.5 + - - +
167A ILE* 3.1 10.2 + - + +
168A VAL* 2.9 35.5 + - + +
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Residues in contact with GLN 165 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
94A TRP* 4.6 0.2 - - - -
97A PHE* 3.2 32.1 - - + +
101A PHE* 3.3 23.9 - - - -
137A SER* 2.7 41.9 + - - +
140A THR* 3.6 16.0 - - + +
141A GLN* 3.1 36.6 + - + +
161A MET 2.9 18.2 + - - +
162A VAL* 4.0 4.0 - - - +
164A VAL* 1.3 76.4 - - - +
166A SER* 1.3 57.2 + - - +
168A VAL* 3.8 1.5 - - - +
169A GLY* 2.9 26.9 + - - -
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Residues in contact with SER 166 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
140A THR* 4.6 13.1 + - - +
141A GLN* 5.7 1.6 - - - +
162A VAL* 2.9 31.6 + - - +
163A VAL* 3.7 7.6 - - - -
165A GLN* 1.3 75.6 - - - +
167A ILE* 1.3 59.5 + - - +
169A GLY* 3.3 2.7 + - - -
170A CYS* 3.1 33.0 + - - -
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Residues in contact with ILE 167 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
163A VAL* 3.3 30.7 + - + +
164A VAL* 3.1 9.9 + - + +
166A SER* 1.3 75.2 - - - +
168A VAL* 1.3 67.4 + - + +
170A CYS* 3.3 8.7 + - + +
171A ILE* 3.0 40.2 + - + +
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Residues in contact with VAL 168 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
93A SER* 4.7 6.3 - - - -
97A PHE* 4.4 19.1 - - + -
141A GLN* 4.8 2.0 - - - +
164A VAL* 2.9 33.6 + - + +
165A GLN* 3.8 6.7 - - - +
167A ILE* 1.3 77.0 - - + +
169A GLY* 1.3 57.0 + - - +
171A ILE* 3.2 11.6 + - + +
172A ILE* 2.9 50.0 + - + +
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Residues in contact with GLY 169 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
90A PHE* 6.5 0.2 - - - -
141A GLN* 3.7 30.3 - - - +
165A GLN 2.9 18.1 + - - -
166A SER* 3.6 2.9 - - - -
167A ILE 3.2 0.4 - - - -
168A VAL* 1.3 77.2 - - - +
170A CYS* 1.3 60.7 + - - +
172A ILE* 3.4 2.0 + - - +
173A ASP* 3.0 33.0 + - - +
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Residues in contact with CYS 170 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
166A SER* 3.1 19.0 + - - +
167A ILE* 3.3 10.5 + - + +
169A GLY* 1.3 74.2 - - - +
171A ILE* 1.3 57.6 + - + +
173A ASP* 3.6 5.3 + - - +
174A SER* 2.8 39.3 + - - +
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Residues in contact with ILE 171 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
167A ILE* 3.0 33.3 + - + +
168A VAL* 3.2 12.1 + - + +
170A CYS* 1.3 75.5 - - + +
172A ILE* 1.3 70.2 + - + +
174A SER* 3.3 4.5 + - - -
175A PHE* 3.0 46.6 + - + -
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Residues in contact with ILE 172 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
86A PHE* 4.6 9.4 - - + -
89A ALA* 4.2 21.1 - - + +
90A PHE* 3.6 30.5 - - + -
93A SER* 3.7 24.7 - - - +
141A GLN* 3.8 7.2 - - - +
168A VAL* 2.9 39.1 + - + +
169A GLY* 3.9 4.3 - - - +
171A ILE* 1.3 78.6 - - + +
173A ASP* 1.3 63.4 + - - +
175A PHE* 3.3 6.4 + - - +
176A MET* 3.0 20.4 + - - +
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Residues in contact with ASP 173 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
90A PHE* 3.7 24.3 - - - -
141A GLN 5.5 3.2 - - - +
169A GLY* 3.0 20.3 + - - +
170A CYS* 3.8 5.8 - - - +
172A ILE* 1.3 74.0 - - - +
174A SER* 1.3 62.9 + - - +
176A MET* 3.0 10.4 + - - +
177A ILE* 3.0 33.0 + - + +
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Residues in contact with SER 174 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
170A CYS* 2.8 24.7 + - - +
171A ILE* 3.7 5.6 - - - -
173A ASP* 1.3 76.9 - - - +
175A PHE* 1.3 60.6 + - - +
177A ILE* 3.4 12.8 + - - +
178A GLY* 3.0 23.9 + - - -
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Residues in contact with PHE 175 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
86A PHE* 4.2 9.6 - + + -
171A ILE* 3.0 44.6 + - + +
172A ILE* 3.6 6.5 - - - +
174A SER* 1.3 76.7 - - - +
176A MET* 1.3 59.9 + - - +
178A GLY* 3.7 1.1 - - - +
179A ALA* 2.8 32.9 + - - +
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Residues in contact with MET 176 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
83A LEU* 5.7 6.1 - - + -
86A PHE* 3.6 38.7 - - + -
90A PHE* 3.8 32.8 - - + -
172A ILE 3.0 12.7 + - - +
173A ASP* 3.0 11.6 + - - +
175A PHE* 1.3 77.0 - - - +
177A ILE* 1.3 58.8 + - + +
179A ALA* 3.9 0.5 - - - +
180A ILE* 3.0 51.0 + - + +
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Residues in contact with ILE 177 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
173A ASP* 3.0 26.6 + - + +
174A SER* 3.7 11.0 - - - +
175A PHE 3.3 0.4 - - - -
176A MET* 1.3 77.0 - - + +
178A GLY* 1.3 57.3 + - - +
180A ILE* 3.4 7.3 + - - +
181A MET* 3.0 49.6 + - + +
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Residues in contact with GLY 178 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
174A SER 3.0 14.7 + - - -
175A PHE* 3.7 3.1 - - - -
177A ILE* 1.3 76.0 - - - +
179A ALA* 1.3 58.8 + - - +
181A MET* 3.3 6.1 + - - +
182A ALA* 2.8 31.1 + - - +
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Residues in contact with ALA 179 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
74A CYS* 3.4 31.8 - - - -
82A MET* 4.1 6.5 - - - +
86A PHE* 3.5 29.2 - - + -
175A PHE 2.8 21.7 + - - +
176A MET 4.0 0.2 - - - +
178A GLY* 1.3 71.2 - - - +
180A ILE* 1.3 62.5 + - - +
182A ALA* 3.5 0.4 + - - -
183A LYS* 3.2 22.5 + - - +
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Residues in contact with ILE 180 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
79A TRP* 4.0 11.1 - - + -
82A MET* 3.9 20.4 - - + -
83A LEU* 4.9 10.1 - - + -
86A PHE* 5.6 0.7 - - + -
176A MET* 3.0 48.7 + - + +
177A ILE* 3.7 6.5 - - - +
179A ALA* 1.3 78.1 - - - +
181A MET* 1.3 58.3 + - + +
183A LYS* 3.9 1.9 - - - +
184A MET* 2.9 56.3 + - + +
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Residues in contact with MET 181 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
177A ILE* 3.0 37.4 + - + +
178A GLY* 3.3 6.5 + - - +
180A ILE* 1.3 77.6 - - + +
182A ALA* 1.3 58.2 + - - +
184A MET* 3.5 12.2 - - - +
185A ALA* 2.7 40.0 + - + +
----------------------------------------------------------
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Residues in contact with ALA 182 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
71A PHE* 3.5 33.7 - - + -
74A CYS* 3.8 15.9 - - - -
75A VAL* 3.6 6.8 - - + +
178A GLY 2.8 17.3 + - - +
179A ALA* 3.7 5.8 - - - +
180A ILE 3.4 0.2 - - - -
181A MET* 1.3 77.0 - - - +
183A LYS* 1.3 56.2 + - - +
185A ALA* 3.8 2.2 - - - -
186A ARG* 2.9 35.7 + - - +
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Residues in contact with LYS 183 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
74A CYS* 4.4 8.3 - - - +
75A VAL* 3.4 26.1 + - - +
76A ASP 4.1 1.6 + - - -
77A ILE 2.5 31.7 + - - +
78A ARG* 3.7 3.4 - - - +
79A TRP* 3.6 67.3 - - + +
82A MET* 4.3 12.1 - - - -
179A ALA 3.2 14.3 + - - +
182A ALA* 1.3 76.5 - - - +
184A MET* 1.3 66.6 + - - +
186A ARG 3.7 15.7 + - - +
187A PRO* 3.7 8.5 - - + +
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Residues in contact with MET 184 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
79A TRP* 4.2 17.0 - - + -
180A ILE* 2.9 50.7 + - + +
181A MET* 3.2 14.1 + - + +
183A LYS* 1.3 78.8 - - - +
185A ALA* 1.3 59.2 + - - +
187A PRO* 3.8 10.9 - - - +
----------------------------------------------------------
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Residues in contact with ALA 185 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
181A MET* 2.7 22.2 + - + +
182A ALA* 4.1 3.6 - - - +
184A MET* 1.3 75.8 - - - +
186A ARG* 1.3 78.7 + - + +
187A PRO* 3.4 7.2 - - - +
308A MET* 4.8 7.4 - - - +
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Residues in contact with ARG 186 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
71A PHE* 3.4 36.0 - - + -
75A VAL* 3.8 29.1 - - + +
182A ALA 2.9 17.3 + - - +
183A LYS* 3.7 7.4 - - - +
184A MET 3.4 0.2 - - - -
185A ALA* 1.3 96.5 + - + +
187A PRO* 1.3 64.4 - - - +
188A LYS* 4.1 6.4 + - + +
308A MET* 4.5 21.2 - - - -
----------------------------------------------------------
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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