Contacts of the helix formed by residues 165 - 187 (chain A) in PDB entry 2O23
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 GLN 165 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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96A VAL 4.8 5.2 - - - +
97A ALA* 6.5 0.2 - - + -
157A ALA* 3.7 14.6 - - - +
160A GLU 4.6 0.2 - - - +
161A GLY* 3.6 5.6 - - - -
162A GLN* 2.9 58.9 + - + +
163A VAL 4.4 2.0 - - - +
164A GLY* 1.3 78.2 - - - +
166A ALA* 1.3 64.7 + - - +
167A ALA 3.3 2.5 - - - -
168A TYR* 3.3 33.5 + - + -
169A SER* 2.8 30.5 + - - +
259A MET* 5.6 1.6 - - - +
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Residues in contact with ALA 166 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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98A SER 4.8 1.5 + - - +
100A THR* 4.0 21.5 - - - +
109A HIS* 5.2 9.0 - - + -
114A PHE* 4.2 8.1 - - + -
162A GLN 4.5 0.8 + - - -
164A GLY 3.5 3.8 + - - +
165A GLN* 1.3 77.2 - - - +
167A ALA* 1.3 59.7 + - - +
169A SER* 3.8 4.5 - - - -
170A ALA* 2.9 30.5 + - - +
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Residues in contact with ALA 167 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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96A VAL* 4.0 18.2 - - + -
109A HIS* 3.9 18.5 + - - +
114A PHE* 3.6 39.0 - - + +
117A VAL* 3.9 11.5 - - + +
118A LEU* 4.7 2.6 - - - +
164A GLY 5.2 0.6 + - - -
165A GLN 3.3 0.6 - - - -
166A ALA* 1.3 78.8 - - - +
168A TYR* 1.3 63.9 + - - +
170A ALA* 3.3 4.2 + - - +
171A SER* 3.0 23.0 + - - -
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Residues in contact with TYR 168 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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94A ILE 3.5 24.9 - - - -
95A ALA* 4.2 15.7 - - + -
96A VAL* 4.6 15.3 + - - +
117A VAL* 3.9 6.6 - - + +
121A ASN* 3.7 5.6 - - - -
155A SER* 3.6 24.0 - - - -
157A ALA* 3.8 9.0 - - + -
165A GLN* 3.3 32.6 + - + +
167A ALA* 1.3 79.5 - - - +
169A SER* 1.3 56.5 + - - +
171A SER* 2.8 21.7 + - - -
172A LYS* 3.0 33.7 + - + +
802A NAD 2.7 52.7 + + - -
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Residues in contact with SER 169 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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157A ALA* 3.0 33.4 + - - +
158A ALA* 4.3 3.3 - - - +
161A GLY* 3.3 18.7 - - - -
165A GLN* 2.8 28.5 + - - +
166A ALA* 3.9 4.7 - - - -
168A TYR* 1.3 70.4 - - - +
170A ALA* 1.3 59.1 + - - +
172A LYS* 4.5 0.9 - - - +
173A GLY* 2.8 29.1 + - - -
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Residues in contact with ALA 170 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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114A PHE* 3.7 26.5 - - + -
118A LEU* 4.2 8.9 - - + +
122A LEU* 4.4 1.7 - - - +
166A ALA 2.9 18.8 + - - +
167A ALA 3.6 4.5 - - - +
169A SER* 1.3 75.0 - - - +
171A SER* 1.3 64.0 + - - +
173A GLY* 3.8 1.0 - - - -
174A GLY* 3.0 20.4 + - - -
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Residues in contact with SER 171 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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117A VAL* 4.0 11.2 - - - -
118A LEU* 3.8 18.8 - - - +
121A ASN* 3.1 39.5 + - - +
122A LEU* 3.9 9.5 - - - +
167A ALA 3.0 12.2 + - - -
168A TYR* 2.8 18.5 + - - -
170A ALA* 1.3 78.4 - - - +
172A LYS* 1.3 62.1 + - - +
174A GLY* 3.3 3.1 + - - -
175A ILE* 3.2 23.8 + - - +
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Residues in contact with LYS 172 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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92A ALA 5.3 1.0 + - - -
121A ASN* 4.0 16.6 + - + +
153A THR 2.9 19.5 + - - +
154A ALA* 3.5 16.8 + - - +
155A SER* 3.9 22.4 - - - +
158A ALA* 3.8 16.8 - - + +
168A TYR* 3.0 39.8 + - + +
169A SER* 4.2 1.3 - - - +
171A SER* 1.3 81.3 + - - +
173A GLY* 1.3 66.0 + - - +
174A GLY 3.2 0.2 - - - -
175A ILE* 3.2 12.6 + - + +
176A VAL* 3.1 25.5 + - - +
802A NAD 2.8 43.5 + - - -
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Residues in contact with GLY 173 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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158A ALA* 3.8 18.7 - - - +
169A SER 2.8 18.5 + - - -
170A ALA* 3.8 1.1 - - - -
172A LYS* 1.3 75.2 - - - +
174A GLY* 1.3 56.9 + - - +
176A VAL* 3.4 5.1 + - - +
177A GLY* 2.8 26.0 + - - -
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Residues in contact with GLY 174 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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122A LEU* 3.6 20.9 - - - +
170A ALA 3.0 14.3 + - - -
171A SER 3.3 4.9 + - - -
172A LYS 3.2 0.2 - - - -
173A GLY* 1.3 75.6 - - - +
175A ILE* 1.3 63.8 + - - +
177A GLY* 3.3 1.8 + - - -
178A MET* 3.0 26.9 + - - +
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Residues in contact with ILE 175 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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121A ASN 3.6 23.6 - - - +
122A LEU* 3.6 13.0 - - + +
125A THR* 3.6 26.2 - - + +
152A ASN* 3.9 18.2 + - + -
153A THR 4.3 10.3 - - - +
154A ALA* 3.9 9.2 - - + +
171A SER 3.2 14.8 + - - +
172A LYS* 3.2 16.3 + - + +
174A GLY* 1.3 72.1 - - - +
176A VAL* 1.3 66.0 + - - +
178A MET* 3.4 10.4 + - + +
179A THR* 2.8 26.0 + - - -
195A THR* 3.8 25.4 - - + +
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Residues in contact with VAL 176 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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154A ALA* 3.9 15.3 - - + -
158A ALA* 3.7 18.8 - - + -
159A PHE* 4.1 26.5 - - + -
172A LYS 3.1 12.9 + - - +
173A GLY* 3.7 9.6 - - - +
175A ILE* 1.3 76.9 - - - +
177A GLY* 1.3 65.3 + - - +
179A THR* 3.2 21.1 + - - -
180A LEU 4.5 1.4 + - - -
250A VAL* 4.1 24.0 - - + +
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Residues in contact with GLY 177 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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173A GLY 2.8 16.9 + - - -
174A GLY* 3.3 2.9 + - - -
176A VAL* 1.3 80.6 - - - +
178A MET* 1.3 56.5 + - - +
180A LEU* 4.4 0.9 + - - +
181A PRO* 3.4 19.1 - - - +
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Residues in contact with MET 178 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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122A LEU* 4.0 16.6 - - + -
125A THR* 3.9 16.6 - - + -
126A PHE* 4.1 24.0 - - + +
129A ILE* 4.1 15.3 - - + -
152A ASN* 5.7 2.7 - - - +
174A GLY 3.0 15.1 + - - +
175A ILE* 3.6 34.3 - - + +
177A GLY* 1.3 75.5 - - - +
179A THR* 1.3 64.3 + - - +
180A LEU 3.4 1.6 - - - -
181A PRO* 3.6 9.4 - - + -
182A ILE* 3.1 42.6 + - + +
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Residues in contact with THR 179 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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152A ASN* 4.4 3.4 + - - +
175A ILE 2.8 18.3 + - - -
176A VAL* 3.2 12.1 + - - -
178A MET* 1.3 78.1 - - - +
180A LEU* 1.3 58.0 + - - +
182A ILE* 3.9 2.1 - - - +
183A ALA* 3.0 28.5 + - - +
193A VAL* 4.0 29.4 - - + +
194A MET 4.4 0.7 - - - -
195A THR* 2.7 33.6 + - - +
248A GLY 4.0 16.8 - - - +
249A GLU 4.0 10.3 - - - +
250A VAL* 4.7 3.8 - - + -
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Residues in contact with LEU 180 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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176A VAL 4.5 1.4 + - - -
177A GLY 4.4 1.5 + - - +
179A THR* 1.3 77.0 - - - +
181A PRO* 1.4 69.0 - - + +
183A ALA* 3.2 4.7 + - - +
184A ARG* 2.8 64.3 + - + +
248A GLY* 4.1 12.8 - - - +
256B ALA* 3.9 31.6 - - + +
258B ARG* 3.8 38.6 - - + +
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Residues in contact with PRO 181 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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177A GLY 3.4 21.1 - - - +
178A MET* 3.4 16.8 - - + +
180A LEU* 1.4 91.9 - - + +
182A ILE* 1.3 55.8 + - + +
184A ARG* 3.3 12.8 + - + +
185A ASP* 2.8 36.5 + - - +
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Residues in contact with ILE 182 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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126A PHE* 4.0 20.6 - - + -
129A ILE* 3.9 31.2 - - + -
152A ASN* 6.1 0.2 - - - +
178A MET* 3.1 49.0 + - + +
179A THR* 4.0 2.7 - - - +
181A PRO* 1.3 73.9 - - + +
183A ALA* 1.3 67.2 + - - +
185A ASP* 3.2 12.3 + - + +
186A LEU* 3.0 46.8 + - + +
193A VAL* 3.9 14.8 - - + -
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Residues in contact with ALA 183 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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179A THR 3.0 18.2 + - - +
180A LEU* 3.5 4.9 - - - +
182A ILE* 1.3 76.7 - - - +
184A ARG* 1.3 56.7 + - - +
186A LEU 3.8 0.7 - - - -
187A ALA* 3.0 30.7 + - - +
191A ILE 4.6 2.7 - - - +
193A VAL* 3.9 16.0 - - + +
247A ASN* 3.7 27.7 + - - +
248A GLY* 3.9 17.0 - - - -
222B PRO* 5.2 0.4 - - - +
256B ALA* 4.5 8.1 - - + -
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Residues in contact with ARG 184 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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180A LEU* 2.8 51.9 + - + +
181A PRO* 3.6 12.0 - - + +
182A ILE 3.2 0.2 - - - -
183A ALA* 1.3 71.9 - - - +
185A ASP* 1.3 66.5 + - - +
186A LEU 3.3 0.2 + - - -
187A ALA* 3.5 12.9 + - - +
188A PRO* 3.6 8.3 - - - +
222B PRO* 5.0 16.1 - - + +
256B ALA* 5.0 3.0 + - + -
258B ARG* 3.6 33.3 + - - +
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Residues in contact with ASP 185 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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181A PRO* 2.8 22.8 + - - +
182A ILE* 3.4 18.6 - - + +
184A ARG* 1.3 73.0 - - - +
186A LEU* 1.3 71.3 + - + +
188A PRO* 3.4 15.4 - - - +
189A ILE* 5.5 1.4 - - - +
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Residues in contact with LEU 186 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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129A ILE* 4.8 2.0 - - + -
133A ALA* 4.1 28.3 - - + -
150A ILE* 4.2 6.7 - - + -
182A ILE* 3.0 37.3 + - + +
183A ALA 3.8 0.7 - - - +
185A ASP* 1.3 84.2 - - + +
187A ALA* 1.3 64.5 + - - +
188A PRO* 3.3 3.4 - - - -
189A ILE* 3.1 29.7 + - + +
190A GLY 3.1 9.4 + - - -
191A ILE* 3.3 38.2 + - + +
193A VAL* 4.0 11.7 - - + -
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Residues in contact with ALA 187 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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183A ALA 3.0 16.7 + - - +
184A ARG 3.7 6.1 - - - +
186A LEU* 1.3 77.1 - - - +
188A PRO* 1.3 67.9 - - + +
190A GLY 3.1 11.5 + - - +
191A ILE 4.8 2.0 - - - -
247A ASN* 5.4 0.4 - - - +
222B PRO* 3.6 38.6 - - + +
223B PHE* 3.7 25.0 - - + +
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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
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Atomic class I II III IV V VI VII VIII
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I (Hydrophilic) + + + - + + + +
II (Acceptor) + - + - + + + -
III (Donor) + + - - + + - +
IV (Hydrophobic) - - - + + + + +
V (Aromatic) + + + + + + + +
VI (Neutral) + + + + + + + +
VII (Neutral-donor) + + - + + + - +
VIII (Neutral-acceptor) + - + + + + + -
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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