Contacts of the helix formed by residues 148 - 170 (chain F) in PDB entry 2HAK
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 LYS 148 (chain F).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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61E LYS* 6.4 0.2 - - - +
146F ARG 3.9 1.6 + - - +
147F MET* 1.3 76.4 - - - +
149F GLU* 1.3 66.4 + - - +
150F LYS* 3.1 8.7 - - + +
151F GLU* 3.0 22.6 + - + +
152F ALA* 3.0 8.7 + - - +
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Residues in contact with GLU 149 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
147F MET 3.7 1.6 + - - -
148F LYS* 1.3 71.1 - - - +
150F LYS* 1.3 56.9 + - - +
152F ALA* 3.1 8.5 + - - +
153F ARG* 2.8 40.4 + - - +
244F VAL* 4.5 14.9 - - + +
272F TYR* 4.2 3.4 - - + +
273F MET* 3.5 9.7 - - - +
274F SER* 2.4 54.4 + - - -
277F CYS* 3.7 9.4 - - - +
303F TRP* 2.6 31.9 + - + +
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Residues in contact with LYS 150 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
148F LYS* 3.1 6.1 - - + +
149F GLU* 1.3 81.2 - - - +
151F GLU* 1.3 63.7 + - + +
153F ARG* 3.5 22.6 + - - +
154F ALA* 3.4 17.2 + - - +
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Residues in contact with GLU 151 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
140F TYR* 4.1 13.6 + - - -
147F MET* 3.3 39.5 - - + +
148F LYS* 3.0 16.0 + - + +
150F LYS* 1.3 79.0 - - + +
152F ALA* 1.3 67.5 + - - +
153F ARG 3.2 0.4 - - - -
154F ALA* 3.1 13.7 + - + +
155F LYS* 3.2 35.9 + - + +
187F MET* 4.4 13.0 - - - +
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Residues in contact with ALA 152 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
147F MET* 4.1 16.4 - - + +
148F LYS 3.0 11.7 + - - +
149F GLU 3.4 8.1 - - - +
151F GLU* 1.3 74.6 - - - +
153F ARG* 1.3 58.9 + - - +
155F LYS* 3.1 5.7 + - - +
156F PHE* 2.8 30.8 + - - +
240F LEU* 4.8 1.1 - - + -
243F LEU* 4.4 14.7 - - + +
244F VAL* 3.8 30.1 - - + -
303F TRP* 3.8 7.4 - - + -
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Residues in contact with ARG 153 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149F GLU* 2.8 17.1 + - - +
150F LYS* 3.6 30.5 - - - +
151F GLU 3.2 0.2 - - - -
152F ALA* 1.3 76.5 - - - +
154F ALA* 1.3 58.8 + - - +
157F ARG* 2.8 49.9 + - + +
303F TRP* 2.6 73.8 + - + +
304F MET 3.6 9.6 - - - +
306F VAL* 3.2 50.0 + - - +
308F HIS* 4.0 7.4 - - - +
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Residues in contact with ALA 154 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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150F LYS 3.4 9.1 + - - +
151F GLU* 3.1 12.4 + - + +
153F ARG* 1.3 81.4 - - - +
155F LYS* 1.3 75.7 + - + +
157F ARG* 3.8 9.2 + - - +
158F GLN* 3.0 30.0 + - - +
308F HIS* 6.0 2.2 - - + -
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Residues in contact with LYS 155 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137F VAL* 5.9 0.2 - - + -
147F MET* 4.0 20.9 - - + -
151F GLU* 3.2 29.3 + - + +
152F ALA* 3.1 9.1 + - - +
154F ALA* 1.3 96.9 - - - +
156F PHE* 1.3 59.7 + - - +
158F GLN* 3.0 23.5 + - - +
159F ILE* 3.0 30.3 + - + +
183F LEU* 4.3 5.8 - - + -
187F MET* 2.8 43.2 + - - +
188F ASN* 4.4 4.4 + - - +
189F ILE* 3.5 26.4 - - + +
243F LEU* 4.8 12.1 - - + -
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Residues in contact with PHE 156 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
152F ALA 2.8 18.9 + - - +
153F ARG 4.0 1.8 - - - +
155F LYS* 1.3 71.5 - - - +
157F ARG* 1.3 69.3 + - - +
158F GLN 3.0 0.9 - - - -
159F ILE* 2.9 18.8 + - + +
160F VAL* 2.9 35.3 + - + +
236F LEU* 3.2 46.2 - - + -
239F ILE* 4.6 5.4 - - + -
240F LEU* 3.8 25.6 - - + -
243F LEU* 4.5 11.4 - - + -
280F LEU* 3.9 9.6 - - + -
284F LEU* 4.1 13.2 - - + -
298F ILE* 4.3 7.0 - - + -
303F TRP* 4.1 11.4 - + + -
304F MET* 3.3 35.7 - - + -
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Residues in contact with ARG 157 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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153F ARG* 2.8 26.6 + - + +
154F ALA* 3.9 7.0 - - - +
156F PHE* 1.3 77.4 - - - +
158F GLN* 1.3 61.9 + - + +
161F SER* 3.1 25.6 + - - -
304F MET* 2.9 45.6 + - - +
305F ASN* 3.1 18.6 + - - -
308F HIS* 3.4 46.0 + - - +
311F GLU* 3.9 13.7 + - - -
313F LEU* 3.6 42.3 - - + +
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Residues in contact with GLN 158 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
111F ASN* 3.3 43.1 + - - +
154F ALA* 3.0 16.9 + - - +
155F LYS* 3.0 18.0 + - - +
157F ARG* 1.3 77.2 - - + +
159F ILE* 1.3 63.6 + - - +
161F SER* 3.4 4.0 + - - -
162F ALA* 3.0 24.4 + - - +
188F ASN* 3.0 27.9 + - - -
189F ILE* 2.8 35.7 + - + +
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Residues in contact with ILE 159 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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137F VAL* 5.7 1.8 - - + -
155F LYS* 3.0 18.3 + - + +
156F PHE* 2.9 15.1 + - + +
158F GLN* 1.3 74.0 - - - +
160F VAL* 1.3 67.4 + - + +
162F ALA* 2.9 4.3 + - - +
163F VAL* 2.9 35.4 + - + +
176F LEU* 4.6 1.3 - - + -
181F LEU* 4.3 19.3 - - + -
189F ILE* 3.8 25.6 - - + -
191F ILE* 4.2 12.6 - - + -
236F LEU* 3.5 29.6 - - + -
239F ILE* 3.9 25.1 - - + -
243F LEU* 4.6 7.2 - - + -
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Residues in contact with VAL 160 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
156F PHE* 2.9 50.2 + - + +
157F ARG 4.2 1.8 - - - +
159F ILE* 1.3 76.2 - - + +
161F SER* 1.3 65.5 + - - +
163F VAL* 3.3 6.5 + - - +
164F GLN* 2.9 22.9 + - - +
236F LEU* 4.5 10.3 - - + -
295F LEU* 4.3 22.2 - - + +
298F ILE* 4.4 13.2 - - + -
299F MET* 3.9 26.9 - - + -
304F MET* 4.6 2.0 - - - -
313F LEU* 4.8 6.1 - - + -
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Residues in contact with SER 161 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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109F HIS* 2.8 21.6 + - - -
111F ASN* 5.6 0.2 - - - -
157F ARG 3.1 18.8 + - - -
158F GLN* 3.9 4.0 - - - -
160F VAL* 1.3 81.0 - - - +
162F ALA* 1.3 61.5 + - - +
164F GLN* 4.0 1.6 - - - +
165F TYR* 3.0 23.9 + - - +
299F MET* 3.7 19.2 - - - +
313F LEU* 4.4 12.1 - - - -
314F LYS 5.0 1.7 + - - -
316F TYR* 3.8 13.3 + - - +
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Residues in contact with ALA 162 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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109F HIS* 3.6 16.2 - - + -
111F ASN 3.8 7.0 - - - +
112F ILE* 3.7 23.6 - - + +
158F GLN 3.0 15.5 + - - +
159F ILE 2.9 5.1 + - - +
161F SER* 1.3 77.8 - - - +
163F VAL* 1.3 58.6 + - - +
165F TYR* 3.3 2.9 - - - +
166F CYS* 2.8 32.3 + - - -
191F ILE* 3.8 19.1 - - + -
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Residues in contact with VAL 163 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
159F ILE* 2.9 25.2 + - + +
160F VAL* 3.6 4.3 - - - +
162F ALA* 1.3 74.6 - - - +
164F GLN* 1.3 68.4 + - - +
166F CYS* 2.8 20.3 + - - +
167F HIS* 3.0 13.9 + - + -
176F LEU* 4.0 27.8 - - + -
191F ILE* 4.6 7.9 - - + -
194F PHE* 4.2 15.5 - - + -
232F ASP* 3.9 26.9 - - + +
236F LEU* 4.6 5.2 - - + -
295F LEU* 4.1 18.2 - - + -
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Residues in contact with GLN 164 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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160F VAL 2.9 16.3 + - - +
161F SER 4.0 0.4 - - - +
163F VAL* 1.3 73.9 - - - +
165F TYR* 1.3 71.4 + - - +
167F HIS* 3.0 12.5 + - - +
168F GLN* 3.0 40.8 + - - +
295F LEU* 3.6 30.5 - - + +
296F GLU* 3.1 30.0 + - - +
299F MET* 3.8 17.7 - - + +
315F PRO* 3.6 39.4 - - - +
316F TYR 4.1 3.8 + - - +
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Residues in contact with TYR 165 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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107F LEU* 3.6 14.0 - - + -
108F ASN* 2.8 24.9 + - - -
109F HIS* 3.6 18.2 - + + -
112F ILE* 3.2 32.8 - - + -
161F SER 3.0 17.5 + - - +
162F ALA 3.3 2.0 - - - +
164F GLN* 1.3 89.1 + - - +
166F CYS* 1.3 64.2 + - - +
168F GLN* 3.0 23.3 + - + +
169F LYS* 3.4 26.2 - - + +
316F TYR* 3.8 34.3 - + + -
318F GLU* 2.5 34.1 + - + -
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Residues in contact with CYS 166 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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107F LEU* 4.4 6.3 - - - -
112F ILE* 3.7 22.2 - - - -
162F ALA* 2.8 22.0 + - - +
163F VAL 2.8 12.1 + - - +
165F TYR* 1.3 71.6 - - - +
167F HIS* 1.3 56.1 + - - +
169F LYS* 2.8 21.9 + - - +
170F TYR* 3.1 45.4 + - + +
172F VAL* 4.4 1.6 - - + -
191F ILE* 5.5 2.5 - - - -
194F PHE* 3.7 29.4 - - + -
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Residues in contact with HIS 167 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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163F VAL* 3.0 22.4 + - + -
164F GLN* 3.0 7.8 + - - +
166F CYS* 1.3 75.0 - - - +
168F GLN* 1.3 71.6 + - - +
169F LYS 3.1 0.8 + - - -
170F TYR 3.9 10.2 + - - +
171F ILE* 6.1 0.5 - - - +
172F VAL* 3.3 27.6 + - + +
194F PHE* 3.9 5.9 - + - -
226F TYR* 3.1 23.1 + + - -
228F GLY* 4.3 1.8 - - - -
229F PRO* 4.0 25.5 - - + +
232F ASP* 2.3 28.0 + - - -
295F LEU* 4.1 17.3 - - + -
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Residues in contact with GLN 168 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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164F GLN* 3.0 50.7 + - - +
165F TYR* 3.0 15.6 + - + +
167F HIS* 1.3 90.1 + - - +
169F LYS* 1.3 66.0 + - + +
295F LEU* 6.1 0.4 - - - +
296F GLU* 4.1 7.7 + - - +
315F PRO* 5.9 0.9 - - + -
316F TYR 6.1 0.9 - - - +
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Residues in contact with LYS 169 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
106F ILE* 3.6 41.6 + - + +
107F LEU* 4.0 17.3 - - + -
165F TYR* 3.4 33.4 - - + +
166F CYS 2.8 10.2 + - - +
168F GLN* 1.3 86.1 - - + +
170F TYR* 1.3 63.2 + - + +
318F GLU* 3.2 34.1 + - - +
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Residues in contact with TYR 170 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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99F ARG* 4.7 1.6 - - - +
103F ILE* 3.4 54.7 - - + -
106F ILE* 5.0 2.7 - - + -
107F LEU* 3.9 19.6 - - + +
166F CYS* 3.1 48.7 + - - +
167F HIS* 3.9 12.0 + - - +
168F GLN 3.9 0.2 - - - -
169F LYS* 1.3 80.5 - - + +
171F ILE* 1.3 87.7 - - - +
172F VAL* 3.6 20.2 + - + +
194F PHE* 2.5 37.6 + - - +
195F GLY* 5.2 0.7 - - - -
196F PHE* 4.2 5.8 - + - -
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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) + - + + + + + -
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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