Contacts of the helix formed by residues 166 - 187 (chain A) in PDB entry 4NW5
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 THR 166 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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164A MET 4.3 0.2 + - - -
165A PHE* 1.3 77.7 - - - +
167A GLU* 1.3 63.3 + - - +
168A GLU* 3.6 9.0 + - - +
169A ASP* 3.0 32.7 + - - +
170A VAL* 3.0 20.7 + - - +
262A LEU* 4.6 0.2 - - - -
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Residues in contact with GLU 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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165A PHE 3.8 0.8 + - - -
166A THR* 1.3 72.2 - - - +
168A GLU* 1.4 58.0 + - - +
170A VAL* 3.3 0.9 + - - +
171A LYS* 2.8 41.1 + - - +
262A LEU* 3.8 19.4 - - + +
292A SER* 2.6 38.1 + - - -
294A GLU* 4.9 5.0 - - - +
295A ALA* 3.9 5.4 - - - +
326A PHE* 3.5 31.5 - - + +
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Residues in contact with GLU 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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166A THR* 3.2 9.2 + - - +
167A GLU* 1.4 78.3 - - - +
169A ASP* 1.4 63.7 + - - +
171A LYS* 3.6 15.4 + - - +
172A PHE* 3.2 20.6 + - - +
343A PRO* 5.3 1.7 - - + +
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Residues in contact with ASP 169 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
158A ARG* 2.8 39.1 + - - +
165A PHE* 4.0 12.2 - - + +
166A THR* 3.0 28.2 + - - +
168A GLU* 1.4 73.8 - - - +
170A VAL* 1.3 66.0 + - - +
172A PHE* 3.2 4.9 + - - +
173A TYR* 3.0 30.7 + - + -
343A PRO* 3.1 34.5 - - + +
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Residues in contact with VAL 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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165A PHE* 3.7 19.7 - - + +
166A THR 3.0 19.6 + - - +
167A GLU 3.7 4.0 - - - +
169A ASP* 1.3 71.7 - - - +
171A LYS* 1.3 60.8 + - - +
173A TYR* 3.4 6.4 + - - +
174A LEU* 2.9 56.1 + - + +
258A MET* 4.3 3.8 - - + +
261A MET* 3.7 26.9 - - + -
262A LEU* 3.7 34.5 - - + -
326A PHE* 4.2 7.0 - - + -
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Residues in contact with LYS 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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167A GLU* 2.8 35.1 + - - +
168A GLU* 3.6 13.2 - - - +
170A VAL* 1.3 73.5 - - - +
172A PHE* 1.4 56.5 + - - +
175A ALA* 2.9 32.6 + - - +
326A PHE* 3.4 40.8 + - + +
327A PHE* 3.5 19.2 - - + -
329A THR* 2.8 38.2 + - - +
330A ILE* 3.8 17.7 - - + -
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Residues in contact with PHE 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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168A GLU 3.2 10.8 + - - +
169A ASP 3.2 8.4 + - - +
171A LYS* 1.4 78.9 - - - +
173A TYR* 1.3 78.3 + + - +
175A ALA* 3.3 6.6 + - - +
176A GLU* 3.1 63.1 + - - +
205A GLY 3.8 10.3 - - - -
206A HIS* 3.7 5.2 - - - -
330A ILE* 4.8 6.7 - - + +
335A LEU* 4.2 7.0 - - + -
340A ILE* 4.0 33.2 - - + -
341A HIS 4.4 0.9 - - - -
342A PRO* 3.5 36.8 - - + -
343A PRO* 3.3 24.0 - - + -
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Residues in contact with TYR 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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155A LEU* 3.6 40.5 - - + +
158A ARG* 3.1 34.7 + - - -
165A PHE* 4.0 14.1 - + - -
169A ASP* 3.0 28.1 + - + +
170A VAL 4.0 2.7 - - - +
172A PHE* 1.3 93.1 - + - +
174A LEU* 1.3 61.5 + - - +
176A GLU* 3.4 3.9 + - - +
177A LEU* 3.0 29.5 + - - +
199A ILE* 5.9 0.2 - - + -
201A LEU* 3.8 22.1 - - + +
205A GLY 4.0 2.4 + - - -
207A ILE* 3.5 24.8 - - + +
261A MET* 4.4 10.1 - - + -
343A PRO* 4.2 6.3 - - + +
344A PHE* 3.9 19.1 + - - +
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Residues in contact with LEU 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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170A VAL* 2.9 37.5 + - + +
173A TYR* 1.3 76.5 - - - +
175A ALA* 1.4 58.5 + - - +
177A LEU* 3.3 3.5 + - + -
178A ALA* 2.8 27.9 + - - +
254A PHE* 3.4 50.3 - - + +
257A LEU* 4.2 10.3 - - + -
258A MET* 3.6 29.6 - - + -
261A MET* 3.6 23.8 - - + -
326A PHE* 4.2 9.2 - - + -
327A PHE* 3.8 11.7 - - + -
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Residues in contact with ALA 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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171A LYS 2.9 20.9 + - - +
172A PHE 3.3 4.5 + - - +
174A LEU* 1.4 75.5 - - - +
176A GLU* 1.3 63.4 + - - +
178A ALA 3.3 7.3 + - - -
179A LEU* 3.3 4.9 + - - +
327A PHE* 3.8 4.9 - - + -
330A ILE* 4.1 17.3 - - + -
332A TRP* 3.2 38.2 - - + -
335A LEU* 3.5 21.4 - - + +
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Residues in contact with GLU 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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129A PHE* 3.3 41.0 - - + -
172A PHE* 3.1 36.2 + - - +
173A TYR 3.9 3.6 - - - +
175A ALA* 1.3 73.8 - - - +
177A LEU* 1.3 62.7 + - - +
179A LEU* 3.3 2.6 + - - -
180A ALA* 3.1 18.9 + - - +
206A HIS* 2.7 28.4 + - - -
207A ILE* 2.9 44.6 + - + +
335A LEU* 3.8 20.0 - - + +
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Residues in contact with LEU 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 TYR 3.0 18.8 + - - +
174A LEU* 3.6 6.7 - - + +
176A GLU* 1.3 75.1 - - - +
178A ALA* 1.3 58.5 + - - +
180A ALA* 3.2 1.5 + - - +
181A LEU* 2.8 41.8 + - + +
194A LEU* 3.7 27.8 - - + -
199A ILE* 4.6 6.1 - - + -
207A ILE* 3.5 15.2 - - + +
209A LEU* 4.0 24.9 - - + -
254A PHE* 3.8 18.6 - - + -
257A LEU* 3.4 33.4 - - + -
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Residues in contact with ALA 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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174A LEU 2.8 19.5 + - - +
175A ALA 3.7 4.9 - - - +
177A LEU* 1.3 71.7 - - - +
179A LEU* 1.4 58.7 + - - +
181A LEU 3.5 0.2 + - - -
182A ASP* 2.9 30.7 + - - +
251A TRP* 3.8 22.2 - - + -
254A PHE* 3.9 16.4 - - + -
318A VAL* 3.9 7.7 - - + +
321A ILE* 4.5 8.1 - - + -
322A LYS* 5.4 0.2 - - + -
327A PHE* 5.7 0.2 - - + -
332A TRP* 4.2 17.0 - - + -
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Residues in contact with LEU 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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127A HIS* 3.5 22.0 + - + +
129A PHE* 4.2 6.5 - - + -
175A ALA 3.3 8.9 + - - +
176A GLU 3.3 7.0 + - - +
177A LEU 3.3 0.6 - - - -
178A ALA* 1.4 78.4 - - - +
180A ALA* 1.3 60.6 + - - +
182A ASP* 3.4 5.3 + - + +
183A HIS* 3.1 19.1 + - - +
318A VAL* 5.9 1.6 - - + -
322A LYS* 4.3 21.8 - - + +
332A TRP* 3.8 25.1 - - + +
335A LEU* 3.8 21.8 - - + -
336A TYR* 4.0 36.8 - - + +
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Residues in contact with ALA 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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127A HIS* 3.7 10.7 - - - -
129A PHE* 4.0 26.9 - - + +
130A ILE* 3.8 12.7 - - + +
176A GLU 3.1 13.1 + - - +
177A LEU* 3.2 10.3 + - + +
179A LEU* 1.3 75.9 - - - +
181A LEU* 1.4 61.8 + - - +
183A HIS* 3.2 5.7 + - - +
184A LEU* 3.2 26.3 + - - +
207A ILE* 5.2 0.7 - - + -
209A LEU* 4.0 13.7 - - + -
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Residues in contact with LEU 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 LEU* 2.8 27.8 + - + +
180A ALA* 1.4 71.4 - - - +
182A ASP* 1.3 57.6 + - - +
184A LEU* 3.1 7.4 + - + +
185A HIS* 3.0 40.0 + - + -
191A TYR* 3.7 33.2 - - + -
194A LEU* 3.8 26.5 - - + -
209A LEU* 4.4 6.7 - - + -
250A ASP* 4.1 17.0 - - + +
251A TRP* 3.9 23.3 - - + -
254A PHE* 3.8 28.5 - - + -
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Residues in contact with ASP 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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178A ALA 2.9 18.1 + - - +
179A LEU* 3.9 7.1 - - + +
181A LEU* 1.3 75.5 - - - +
183A HIS* 1.3 58.8 + - - +
185A HIS* 3.3 15.3 + - - +
186A SER* 2.9 32.4 + - - -
251A TRP* 4.6 0.8 - - - -
318A VAL* 3.4 43.2 + - + +
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Residues in contact with HIS 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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124A GLU 5.2 0.4 + - - -
125A VAL* 3.9 4.9 - - + -
126A ASN* 3.5 35.2 + - + -
127A HIS* 3.6 38.6 - + + -
130A ILE* 3.8 11.7 - - + -
179A LEU 3.1 8.5 + - - +
180A ALA 3.2 9.2 + - - +
182A ASP* 1.3 76.7 + - - +
184A LEU* 1.3 61.2 + - - +
186A SER* 2.6 27.5 + - - -
187A LEU* 3.5 33.6 + - + +
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Residues in contact with LEU 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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121A ILE* 4.4 0.9 - - + -
125A VAL* 3.8 26.9 - - + -
130A ILE* 3.9 9.4 - - + -
180A ALA 3.2 14.2 + - - +
181A LEU* 3.1 10.9 + - - +
183A HIS* 1.3 76.4 - - - +
185A HIS* 1.3 61.9 + - + +
187A LEU* 3.2 10.4 + - - +
188A GLY 3.4 0.2 + - - -
189A ILE* 2.9 52.5 + - + +
191A TYR* 4.0 19.3 - - + +
209A LEU* 4.0 19.1 - - + -
212A PHE* 3.6 35.2 - - + -
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Residues in contact with HIS 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 LEU* 3.0 26.4 + - + +
182A ASP* 3.6 14.3 + - - +
184A LEU* 1.3 78.7 - - + +
186A SER* 1.4 56.6 + - - +
188A GLY* 3.0 19.4 + - - -
189A ILE 3.3 19.5 - - - -
247A GLN* 3.5 38.7 + - + +
250A ASP* 2.8 31.6 + - + +
251A TRP* 3.5 44.1 + + - -
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Residues in contact with SER 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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182A ASP* 2.9 18.9 + - - -
183A HIS* 2.6 28.3 + - - -
185A HIS* 1.4 74.1 - - - +
187A LEU* 1.3 64.2 + - - +
188A GLY 3.4 1.4 + - - -
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Residues in contact with LEU 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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124A GLU* 3.7 39.9 - - + +
125A VAL* 3.8 33.0 - - + -
183A HIS* 3.6 31.4 - - + +
184A LEU 3.2 8.1 + - - +
186A SER* 1.3 81.5 + - - +
188A GLY* 1.3 60.3 + - - +
189A ILE* 3.4 18.1 + - + +
218A SER* 5.2 2.4 + - - -
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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