Contacts of the helix formed by residues 160 - 181 (chain A) in PDB entry 2Z7S
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 160 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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159A PHE* 1.3 77.4 - - - +
161A GLU* 1.3 66.2 + - - +
162A GLU* 3.7 10.4 + - - +
163A ASP* 3.1 28.9 + - - +
164A VAL* 2.9 20.1 + - - +
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Residues in contact with GLU 161 (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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159A PHE 3.9 0.6 + - - -
160A THR* 1.3 72.4 - - - +
162A GLU* 1.3 54.8 + - - +
164A VAL* 3.6 0.7 - - - +
165A LYS* 2.7 41.2 + - - +
256A LEU* 3.7 21.5 - - + +
284A PHE 4.6 1.6 - - - +
285A LEU* 3.7 9.4 - - + +
286A SER* 2.8 52.8 + - - -
289A ALA* 3.6 12.2 - - - +
320A PHE* 3.6 18.1 - - + -
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Residues in contact with GLU 162 (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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160A THR* 3.7 8.7 - - - +
161A GLU* 1.3 80.5 - - - +
163A ASP* 1.3 77.2 + - - +
165A LYS* 3.4 11.2 + - - +
166A PHE* 3.2 21.8 + - - +
337A PRO* 4.3 14.0 - - + +
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Residues in contact with ASP 163 (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 ARG* 2.9 36.3 + - - +
159A PHE* 3.7 15.4 - - + +
160A THR* 3.1 23.7 + - - +
162A GLU* 1.3 79.3 - - - +
164A VAL* 1.3 63.5 + - - +
166A PHE* 3.3 3.6 + - - +
167A TYR* 3.1 29.9 + - + -
337A PRO* 3.0 36.9 - - + +
338A PHE* 4.7 0.2 - - - +
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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
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159A PHE* 3.8 11.9 - - + +
160A THR 2.9 16.8 + - - +
161A GLU 3.6 5.6 - - - +
163A ASP* 1.3 74.1 - - - +
165A LYS* 1.3 66.1 + - - +
167A TYR* 3.4 2.3 + - - +
168A LEU* 3.0 56.3 + - + +
252A MET* 4.3 4.0 - - + +
255A MET* 3.8 34.3 - - + -
256A LEU* 3.5 35.9 - - + -
320A PHE* 4.5 4.0 - - + -
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Residues in contact with LYS 165 (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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161A GLU* 2.7 23.5 + - - +
162A GLU* 3.8 10.1 - - - +
164A VAL* 1.3 72.9 - - - +
166A PHE* 1.3 57.6 + - - +
168A LEU* 3.9 1.4 - - - +
169A ALA* 2.9 31.8 + - - +
320A PHE* 3.5 50.5 + - + +
321A TYR* 4.0 6.1 - - + -
322A SER* 5.7 0.2 + - - -
323A THR* 2.9 34.6 + - - +
324A ILE* 3.8 24.0 - - + -
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Residues in contact with PHE 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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162A GLU* 3.2 14.6 + - - +
163A ASP 3.5 6.5 - - - +
164A VAL 3.1 0.6 - - - -
165A LYS* 1.3 78.4 - - - +
167A TYR* 1.3 90.0 + + - +
169A ALA* 3.3 5.2 + - - +
170A GLU* 3.1 61.6 + - - +
199A GLY 4.1 3.6 - - - -
200A HIS* 3.8 1.1 - + - -
324A ILE* 5.2 6.3 - - + -
329A LEU* 4.1 8.1 - - + -
334A ILE* 3.7 37.7 - - + -
335A LYS 4.5 0.9 - - - -
336A PRO* 3.7 28.7 - - + -
337A PRO* 3.6 26.0 - - + -
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Residues in contact with TYR 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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149A LEU* 3.8 32.8 - - + -
152A ARG* 2.7 34.4 + - - -
159A PHE* 4.0 15.9 - + - -
163A ASP* 3.1 22.6 + - + +
164A VAL 4.0 2.5 - - - +
166A PHE* 1.3 90.2 - + - +
168A LEU* 1.3 59.5 + - - +
170A GLU* 3.4 0.7 + - - -
171A LEU* 2.9 30.4 + - - +
193A ILE* 6.1 0.2 - - + -
195A LEU* 3.6 30.4 - - + +
199A GLY 3.9 9.4 + - - -
201A ILE* 3.3 26.6 - - + +
255A MET* 4.3 9.4 - - + -
337A PRO* 4.6 6.0 - - + +
338A PHE* 3.5 15.1 - - - +
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Residues in contact with LEU 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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164A VAL* 3.0 43.3 + - + +
165A LYS 4.0 2.7 - - - +
167A TYR* 1.3 74.3 - - - +
169A ALA* 1.3 56.3 + - - +
171A LEU* 4.0 2.7 - - + -
172A ALA* 2.7 23.7 + - - +
248A TYR* 2.6 43.1 + - + +
251A LEU* 4.0 19.7 - - + -
252A MET* 3.4 36.8 - - + +
255A MET* 3.3 25.1 - - + -
320A PHE* 4.4 6.1 - - + -
321A TYR* 3.8 10.8 - - + +
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Residues in contact with ALA 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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165A LYS 2.9 19.5 + - - +
166A PHE* 3.3 5.6 + - - +
168A LEU* 1.3 74.5 - - - +
170A GLU* 1.3 65.6 - - - +
172A ALA* 3.0 13.3 + - - +
173A LEU* 3.1 11.4 + - - +
321A TYR* 4.1 8.7 - - + -
324A ILE* 4.3 11.9 - - + -
326A TRP* 3.4 27.7 - - + -
329A LEU* 3.3 20.9 - - + -
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Residues in contact with GLU 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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123A PHE* 3.2 42.1 - - + +
166A PHE* 3.1 34.1 + - + +
167A TYR 4.6 0.2 - - - -
169A ALA* 1.3 75.7 - - - +
171A LEU* 1.3 62.9 - - - +
173A LEU 3.3 1.8 + - - +
174A GLY 3.0 18.0 + - - -
200A HIS* 2.8 28.2 + - - -
201A ILE* 3.1 44.2 + - + +
329A LEU* 3.6 23.7 - - + +
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Residues in contact with LEU 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 TYR 2.9 19.2 + - - +
168A LEU* 3.7 6.1 - - + +
169A ALA 3.2 0.2 - - - -
170A GLU* 1.3 75.8 - - - +
172A ALA* 1.3 56.4 + - - +
174A GLY* 3.2 0.8 + - - +
175A LEU* 2.7 47.0 + - + +
185A TYR* 4.8 0.4 - - + -
188A LEU* 4.4 11.4 - - + -
193A ILE* 4.1 5.4 - - + -
201A ILE* 3.4 10.7 - - + +
203A LEU* 3.1 40.4 - - + -
248A TYR* 3.6 26.0 - - + -
251A LEU* 3.2 35.9 - - + -
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Residues in contact with ALA 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 LEU 2.7 19.4 + - - +
169A ALA* 3.0 12.3 + - - +
171A LEU* 1.3 73.0 - - - +
173A LEU* 1.3 62.2 + - - +
175A LEU* 3.8 1.0 - - - +
176A ASP* 3.0 26.7 + - - +
245A TRP* 3.9 14.4 - - + -
248A TYR* 3.6 17.9 - - + +
312A ALA* 5.1 0.7 - - + +
315A ILE* 4.7 8.1 - - + -
316A LYS* 4.8 5.8 - - + -
326A TRP* 4.0 17.5 - - + -
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Residues in contact with LEU 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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121A HIS* 3.8 16.6 + - + +
123A PHE* 3.9 15.9 - - + -
169A ALA 3.1 10.0 + - - +
170A GLU 3.6 5.4 - - - +
171A LEU 3.2 0.2 - - - -
172A ALA* 1.3 78.1 - - - +
174A GLY* 1.3 65.1 + - - +
176A ASP* 3.8 4.9 - - + +
177A HIS* 3.1 23.4 + - - +
316A LYS* 3.8 22.7 - - - +
326A TRP* 3.6 26.7 - - + +
329A LEU* 3.8 23.6 - - + -
330A TYR* 4.0 28.3 - - + +
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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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121A HIS* 3.6 19.2 - - - -
123A PHE* 4.3 5.6 - - - -
124A VAL* 4.3 4.0 - - - +
170A GLU 3.0 14.6 + - - -
171A LEU 3.6 1.8 - - - -
173A LEU* 1.3 77.2 - - - +
175A LEU* 1.3 62.8 + - - +
177A HIS* 3.3 3.6 + - - +
178A LEU* 3.1 25.3 + - - +
203A LEU* 3.9 17.3 - - - -
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Residues in contact with LEU 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 LEU* 2.7 25.6 + - + +
172A ALA 3.8 3.1 - - - +
174A GLY* 1.3 68.6 - - - +
176A ASP* 1.3 65.9 + - - +
178A LEU* 3.1 9.1 + - + +
179A HIS* 2.9 51.5 + - + +
185A TYR* 3.8 20.9 - - + -
188A LEU* 3.7 26.5 - - + -
203A LEU* 3.8 5.3 - - - +
244A ASP* 3.7 20.4 - - + +
245A TRP* 3.7 34.3 - - + -
248A TYR* 4.1 7.2 - - + -
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Residues in contact with ASP 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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172A ALA 3.0 17.9 + - - +
173A LEU* 3.8 5.8 - - + +
175A LEU* 1.3 76.5 - - - +
177A HIS* 1.3 61.6 + - - +
179A HIS* 3.1 17.3 + - - +
180A SER* 2.9 21.6 + - - -
245A TRP* 4.5 1.7 - - + -
312A ALA* 3.1 35.2 + - + +
313A GLU* 4.8 6.1 - - - +
316A LYS* 5.1 5.6 + - + +
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Residues in contact with HIS 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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119A VAL* 3.3 33.3 - - + +
120A ASN 3.6 19.7 + - - -
121A HIS* 3.6 31.4 - + + +
124A VAL* 4.7 1.2 - - - +
173A LEU 3.1 9.1 + - - +
174A GLY 3.5 8.3 - - - +
175A LEU 3.2 0.2 - - - -
176A ASP* 1.3 77.0 - - - +
178A LEU* 1.3 64.3 + - - +
180A SER* 2.5 30.5 + - - -
181A LEU* 3.0 32.8 - - + +
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Residues in contact with LEU 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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119A VAL* 4.1 35.4 - - + -
124A VAL* 4.4 9.6 - - + -
174A GLY 3.1 13.5 + - - +
175A LEU* 3.1 10.8 + - + +
177A HIS* 1.3 76.5 - - - +
179A HIS* 1.3 56.6 + - + +
181A LEU* 3.2 9.6 + - + +
183A ILE* 2.8 52.0 + - + +
185A TYR* 4.4 15.5 - - + -
203A LEU* 4.1 23.1 - - + -
206A PHE* 3.9 39.3 - - + -
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Residues in contact with HIS 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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175A LEU* 2.9 31.2 + - + +
176A ASP* 3.2 16.6 + - - +
178A LEU* 1.3 75.8 - - + +
180A SER* 1.3 59.4 + - - +
182A GLY* 2.9 18.7 + - - -
183A ILE 3.3 19.3 - - - -
184A ILE* 4.6 0.2 - - - -
241A HIS* 3.7 35.7 - - + +
244A ASP* 2.7 29.5 + - + +
245A TRP* 3.4 37.8 + + - -
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Residues in contact with SER 180 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
176A ASP* 2.9 11.3 + - - -
177A HIS* 2.5 30.1 + - - -
179A HIS* 1.3 72.1 - - - +
181A LEU* 1.3 68.1 + - - +
182A GLY* 2.9 9.6 + - - -
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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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116A LEU* 3.7 19.1 - - + +
118A ASP 5.0 0.7 - - - +
119A VAL* 3.4 42.2 - - + -
177A HIS* 3.0 45.2 + - + +
178A LEU* 3.2 11.2 + - + +
180A SER* 1.3 88.6 + - - +
182A GLY* 1.3 61.6 + - - +
183A ILE* 4.1 12.6 - - + +
209A SER* 5.2 1.0 + - - -
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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