Contacts of the helix formed by residues 148 - 169 (chain B) in PDB entry 2WZJ
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 B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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146B ARG* 4.1 8.4 + - - +
147B MET* 1.3 72.0 - - - +
149B GLU* 1.3 67.9 + - - +
150B LYS* 3.0 6.1 - - + +
151B GLU* 2.8 23.8 + - + +
152B ALA 3.0 8.5 + - - -
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Residues in contact with GLU 149 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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147B MET 3.5 3.2 + - - -
148B LYS* 1.3 71.2 - - - +
150B LYS* 1.3 57.0 + - - +
152B ALA* 3.4 9.4 + - - +
153B ARG* 3.0 31.1 + - - +
244B VAL* 4.9 10.9 - - + +
272B TYR* 4.1 9.4 - - - +
273B MET* 4.1 3.8 - - - +
274B SER* 2.4 50.9 + - - -
277B CYS* 3.1 12.9 - - - +
303B TRP* 2.9 41.2 + - + +
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Residues in contact with LYS 150 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
148B LYS* 2.8 9.7 + - + +
149B GLU* 1.3 72.5 - - - +
151B GLU* 1.3 65.4 + - - +
153B ARG* 3.3 21.3 + - - +
154B ALA* 3.3 19.4 + - - +
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Residues in contact with GLU 151 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
140B TYR* 3.3 26.4 + - - -
147B MET* 3.5 37.3 - - + +
148B LYS* 2.8 18.1 + - + +
150B LYS* 1.3 75.5 - - - +
152B ALA* 1.3 63.5 + - - +
154B ALA* 3.1 15.8 + - - +
155B LYS* 3.3 37.1 + - - +
187B MET* 4.9 3.5 - - - +
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Residues in contact with ALA 152 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
147B MET* 4.0 17.0 - - + +
148B LYS 3.0 10.7 + - - +
149B GLU* 3.4 11.7 - - - +
151B GLU* 1.3 78.5 - - - +
153B ARG* 1.3 57.7 + - - +
154B ALA 3.2 0.5 + - - -
155B LYS* 3.2 2.8 + - - +
156B PHE* 2.8 29.7 + - - +
243B LEU* 4.3 17.4 - - + +
244B VAL* 4.1 26.2 - - + -
303B TRP* 4.0 8.3 - - + -
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Residues in contact with ARG 153 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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149B GLU* 3.0 14.1 + - - +
150B LYS* 3.7 28.5 - - - +
151B GLU 3.3 0.2 - - - -
152B ALA* 1.3 76.4 - - - +
154B ALA* 1.3 63.1 + - - +
156B PHE* 4.1 0.4 - - - +
157B ARG* 2.9 39.0 + - + +
303B TRP* 2.6 74.0 + - + +
304B MET 3.8 9.9 - - - +
306B VAL* 3.3 46.6 + - - +
308B HIS* 4.1 9.6 - - - +
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Residues in contact with ALA 154 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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150B LYS 3.3 8.4 + - - +
151B GLU* 3.1 12.4 + - - +
153B ARG* 1.3 81.9 - - - +
155B LYS* 1.3 71.5 + - - +
157B ARG* 3.7 6.8 + - - +
158B GLN* 3.5 23.9 + - - +
308B HIS* 6.0 1.8 - - - -
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Residues in contact with LYS 155 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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137B VAL* 6.1 0.2 - - + -
147B MET* 4.1 22.4 - - + -
151B GLU* 3.3 40.2 + - - +
152B ALA 3.2 4.4 + - - +
154B ALA* 1.3 81.9 - - - +
156B PHE* 1.3 59.8 + - - +
158B GLN* 3.1 9.3 + - - +
159B ILE* 3.0 34.1 + - + +
183B LEU* 4.2 10.8 - - + -
187B MET* 3.4 41.8 + - - +
189B ILE* 3.8 29.1 - - + +
243B LEU* 4.8 8.5 - - + -
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Residues in contact with PHE 156 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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152B ALA 2.8 23.9 + - - +
153B ARG 3.3 2.4 + - - +
155B LYS* 1.3 74.1 - - - +
157B ARG* 1.3 56.8 + - - +
159B ILE* 3.5 13.8 - - + +
160B VAL* 2.8 52.3 + - + +
236B LEU* 3.5 31.0 - - + -
239B ILE* 4.0 12.3 - - + -
240B LEU* 3.7 24.2 - - + -
243B LEU* 4.1 19.5 - - + -
284B PHE* 3.7 28.7 - + - -
303B TRP* 3.9 15.7 - + + -
304B MET* 3.7 23.8 - - - -
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Residues in contact with ARG 157 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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153B ARG* 2.9 31.7 + - + +
154B ALA* 4.0 7.0 - - - +
156B PHE* 1.3 74.7 - - - +
158B GLN* 1.3 66.6 + - + +
160B VAL* 4.0 0.7 - - - +
161B SER* 3.0 24.1 + - - -
304B MET* 3.1 46.4 + - + +
305B ASN* 3.1 19.8 + - - -
308B HIS* 3.6 39.2 + - - +
311B ASP* 3.5 26.9 + - - -
313B LEU* 3.8 29.9 - - + +
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Residues in contact with GLN 158 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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111B ASN* 3.3 37.6 - - - +
154B ALA 3.5 15.5 + - - +
155B LYS* 3.1 8.6 + - - +
157B ARG* 1.3 77.7 - - + +
159B ILE* 1.3 62.8 + - - +
161B SER* 3.2 7.8 + - - -
162B ALA* 2.9 23.4 + - - +
187B MET 4.5 1.6 + - - +
188B ASN* 3.0 29.1 + - - +
189B ILE* 2.7 34.5 + - + +
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Residues in contact with ILE 159 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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137B VAL* 5.9 0.2 - - + -
155B LYS* 3.0 23.1 + - + +
156B PHE* 3.5 24.2 - - + +
158B GLN* 1.3 76.0 - - - +
160B VAL* 1.3 62.5 + - - +
162B ALA* 3.3 3.1 + - - +
163B VAL* 3.0 24.3 + - + +
176B LEU* 6.0 0.2 - - + -
181B LEU* 3.8 33.2 - - + -
189B ILE* 3.9 29.4 - - + -
191B ILE* 4.4 14.6 - - + -
236B LEU* 3.5 29.2 - - + -
239B ILE* 4.3 7.0 - - + -
243B LEU* 4.5 8.1 - - + -
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Residues in contact with VAL 160 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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156B PHE* 2.8 57.1 + - + +
157B ARG 4.1 2.2 - - - +
159B ILE* 1.3 69.9 - - + +
161B SER* 1.3 60.9 + - - +
163B VAL* 4.9 3.1 - - - -
164B GLN* 2.8 33.8 + - - +
236B LEU* 5.1 7.2 - - + -
284B PHE* 4.8 6.3 - - + -
295B LEU* 4.1 21.8 - - + +
298B ILE* 5.3 3.1 - - + -
299B MET* 3.9 28.7 - - + +
304B MET* 4.1 11.0 - - + -
313B LEU* 4.1 4.3 - - + -
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Residues in contact with SER 161 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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109B HIS* 2.9 23.7 + - - -
111B ASN* 5.0 0.2 - - - -
157B ARG 3.0 15.4 + - - -
158B GLN* 3.2 11.2 - - - -
160B VAL* 1.3 77.1 - - - +
162B ALA* 1.3 57.6 + - - +
164B GLN* 3.7 1.9 - - - +
165B TYR* 2.9 31.5 + - - +
299B MET* 4.0 13.5 - - - +
313B LEU* 4.6 9.1 - - - +
314B LYS 5.1 1.9 + - - -
316B TYR* 4.0 16.3 + - - +
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Residues in contact with ALA 162 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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109B HIS* 3.5 19.0 + - + -
111B ASN* 4.0 8.3 - - + +
112B ILE* 3.7 21.2 - - + +
158B GLN 2.9 12.1 + - - +
159B ILE 3.6 3.1 - - - +
161B SER* 1.3 78.1 - - - +
163B VAL* 1.3 62.4 + - - +
165B TYR* 3.4 14.4 - - - +
166B CYS* 3.4 15.1 + - - -
191B ILE* 3.5 24.9 - - + -
194B PHE* 4.8 0.2 - - - -
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Residues in contact with VAL 163 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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159B ILE 3.0 17.5 + - - +
162B ALA* 1.3 71.5 - - - +
164B GLN* 1.3 66.6 + - - +
166B CYS* 3.2 3.5 + - - +
167B HIS* 3.1 44.2 + - + +
176B LEU* 3.9 19.3 - - + -
191B ILE* 3.6 19.5 - - + -
194B PHE* 4.1 12.3 - - + -
232B ASP* 4.0 11.4 - - + +
236B LEU* 4.2 18.6 - - + -
295B LEU* 3.7 17.5 - - + -
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Residues in contact with GLN 164 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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160B VAL 2.8 21.2 + - - +
161B SER 3.7 2.0 - - - +
163B VAL* 1.3 78.5 - - - +
165B TYR* 1.3 61.7 + - - +
167B HIS* 3.2 16.7 + - + +
168B GLN* 2.8 44.6 + - - +
295B LEU* 3.6 32.6 - - + +
296B GLU* 4.0 26.1 + - - +
299B MET* 4.0 11.6 - - + +
315B PRO* 3.4 27.4 - - - +
316B TYR 4.0 1.6 + - - -
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Residues in contact with TYR 165 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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106B VAL 3.8 1.6 + - - -
107B LEU* 3.9 14.1 - - + -
108B ASN* 2.9 31.2 + - - -
109B HIS* 3.5 38.1 - + + -
112B ILE* 4.0 9.9 - - + -
161B SER 2.9 13.0 + - - +
162B ALA 3.4 7.4 - - - +
164B GLN* 1.3 76.9 + - - +
166B CYS* 1.3 64.9 + - - +
168B GLN* 3.2 39.3 - - - +
169B LYS* 3.7 23.5 + - - +
316B TYR* 3.8 23.8 - + + -
318B GLU* 2.9 37.5 + - + -
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Residues in contact with CYS 166 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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107B LEU* 3.8 16.8 - - - -
112B ILE* 3.4 33.7 - - - -
162B ALA 3.4 1.5 + - - -
163B VAL 3.2 8.0 + - - +
165B TYR* 1.3 80.6 - - - +
167B HIS* 1.3 63.1 + - - +
169B LYS* 3.0 16.8 + - - -
171B ILE* 3.1 41.5 + - + +
194B PHE* 3.4 32.3 - - + -
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Residues in contact with HIS 167 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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163B VAL* 3.1 28.0 + - + +
164B GLN* 3.2 12.3 + - + +
166B CYS* 1.3 76.1 - - + +
168B GLN* 1.3 62.3 + - - +
169B LYS 3.0 0.2 - - - -
170B PHE* 3.0 27.3 + - - +
171B ILE 3.7 14.4 - - - -
172B VAL* 4.3 2.9 - - + -
229B PRO* 3.2 50.9 - - + +
232B ASP* 3.0 30.5 + - + +
233B VAL* 4.7 2.1 - - + +
295B LEU* 4.1 21.7 + - + +
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Residues in contact with GLN 168 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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98A PHE* 4.8 1.6 - - - -
120A GLU* 4.5 11.8 - - - +
164B GLN* 2.8 41.8 + - - +
165B TYR* 3.2 30.0 + - + +
166B CYS 3.1 0.4 - - - -
167B HIS* 1.3 77.4 - - - +
169B LYS* 1.3 61.3 + - + +
170B PHE* 3.4 11.5 + - - -
315B PRO* 3.9 9.7 - - + +
316B TYR 3.6 24.2 + - - +
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Residues in contact with LYS 169 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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98A PHE* 4.2 9.9 - - - +
102A ARG* 3.4 18.1 + - - +
106B VAL* 3.7 28.1 + - + +
107B LEU* 4.4 9.4 - - + -
165B TYR* 3.7 32.1 - - + +
166B CYS 3.0 6.1 + - - +
168B GLN* 1.3 83.2 - - + +
170B PHE* 1.3 59.2 + - - +
171B ILE* 2.8 37.6 + - + +
318B GLU* 3.5 25.4 + - - -
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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