Contacts of the helix formed by residues 148 - 169 (chain A) 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 A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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146A ARG* 3.9 15.7 + - - +
147A MET* 1.3 73.4 - - - +
149A GLU* 1.3 67.5 + - - +
150A LYS* 3.1 18.2 - - + +
151A GLU* 2.9 23.7 + - + +
152A ALA* 3.0 9.2 + - - -
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Residues in contact with GLU 149 (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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146A ARG* 5.7 2.1 + - - +
147A MET 3.5 2.4 + - - -
148A LYS* 1.3 70.6 - - - +
150A LYS* 1.3 56.3 + - - +
152A ALA* 4.4 6.3 - - - -
153A ARG* 2.8 39.8 + - - +
244A VAL* 4.6 13.7 - - + +
272A TYR* 4.4 5.9 - - - +
273A MET* 4.1 7.3 - - - -
274A SER* 2.5 50.4 + - - -
277A CYS* 3.4 12.7 - - + +
303A TRP* 3.2 31.8 + - + +
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Residues in contact with LYS 150 (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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148A LYS* 2.9 19.5 + - + +
149A GLU* 1.3 74.9 - - - +
151A GLU* 1.3 64.0 + - - +
153A ARG* 3.6 19.4 + - - +
154A ALA* 3.3 20.6 + - - +
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Residues in contact with GLU 151 (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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140A TYR* 3.4 26.4 + - - -
147A MET* 3.5 28.6 - - + +
148A LYS* 2.9 14.7 + - + +
150A LYS* 1.3 79.2 - - - +
152A ALA* 1.3 64.1 + - - +
154A ALA* 3.5 5.5 + - - +
155A LYS* 3.2 56.0 + - - +
187A MET* 4.3 6.1 - - - +
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Residues in contact with ALA 152 (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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147A MET* 4.0 17.4 - - + +
148A LYS 3.0 11.3 + - - +
149A GLU* 3.8 6.5 - - - +
151A GLU* 1.3 75.2 - - - +
153A ARG* 1.3 64.8 + - - +
155A LYS* 3.2 2.1 + - - -
156A PHE* 2.9 25.5 + - - +
240A LEU* 5.4 0.2 - - + -
243A LEU* 3.8 30.0 - - + +
244A VAL* 3.9 19.7 - - + -
303A TRP* 4.2 4.9 - - + -
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Residues in contact with ARG 153 (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 GLU* 2.8 22.9 + - - +
150A LYS* 3.6 28.8 + - - +
152A ALA* 1.3 77.1 - - - +
154A ALA* 1.3 57.6 + - - +
156A PHE* 3.7 0.5 - - - +
157A ARG* 2.9 41.6 + - + +
303A TRP* 2.6 74.4 + - + +
304A MET* 3.9 14.6 - - - +
306A VAL* 3.4 51.8 + - - +
308A HIS* 5.0 0.7 - - - -
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Residues in contact with ALA 154 (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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150A LYS 3.3 11.0 + - - +
151A GLU* 3.8 9.9 - - + +
152A ALA 3.2 0.8 - - - -
153A ARG* 1.3 84.1 - - - +
155A LYS* 1.3 67.6 + - + +
157A ARG* 3.4 14.6 + - - +
158A GLN* 3.5 19.6 + - - +
308A HIS* 6.1 1.1 - - - +
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Residues in contact with LYS 155 (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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137A VAL* 5.2 0.9 - - + -
147A MET* 4.1 21.5 - - + -
151A GLU* 3.2 49.5 + - - +
152A ALA 3.2 3.9 + - - +
154A ALA* 1.3 80.7 - - - +
156A PHE* 1.3 56.9 + - - +
158A GLN* 3.2 9.7 + - - +
159A ILE* 2.9 35.4 + - + +
183A LEU* 3.9 20.2 - - + -
187A MET* 3.5 43.7 + - - +
189A ILE* 3.4 19.3 - - + +
243A LEU* 4.6 6.7 - - + -
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Residues in contact with PHE 156 (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 ALA 2.9 18.8 + - - +
153A ARG* 3.8 5.2 - - - +
155A LYS* 1.3 75.8 - - - +
157A ARG* 1.3 64.9 + - - +
159A ILE* 4.0 12.8 - - + -
160A VAL* 2.9 43.2 + - + +
236A LEU* 3.6 22.0 - - + -
239A ILE* 4.4 4.9 - - + -
240A LEU* 3.5 37.2 - - + -
243A LEU* 4.1 15.0 - - + +
280A LEU* 4.1 4.3 - - + -
284A PHE* 3.7 30.1 - + - -
303A TRP* 4.2 9.9 - + + -
304A MET* 3.5 28.9 - - - -
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Residues in contact with ARG 157 (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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153A ARG* 2.9 29.2 + - + +
154A ALA* 3.7 9.2 - - - +
156A PHE* 1.3 76.9 - - - +
158A GLN* 1.3 62.8 + - + +
160A VAL* 3.9 1.6 - - - +
161A SER* 3.0 25.5 + - - -
304A MET* 2.8 55.0 + - + +
305A ASN* 2.8 19.4 + - - -
308A HIS* 3.3 46.5 + - - +
311A ASP* 3.4 22.2 + - - -
313A LEU* 3.6 38.1 - - + +
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Residues in contact with GLN 158 (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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111A ASN* 3.4 40.2 + - - +
154A ALA* 3.6 14.4 - - - +
155A LYS* 3.2 8.7 + - - +
156A PHE 3.2 0.4 - - - -
157A ARG* 1.3 78.3 - - + +
159A ILE* 1.3 57.1 + - - +
161A SER* 3.1 6.0 + - - -
162A ALA* 2.8 32.0 + - - +
187A MET 4.3 2.1 - - - +
188A ASN* 3.3 26.7 + - - -
189A ILE* 3.0 29.7 + - + +
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Residues in contact with ILE 159 (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 LYS 2.9 27.7 + - - +
156A PHE* 3.3 17.2 + - + +
158A GLN* 1.3 75.6 - - - +
160A VAL* 1.3 57.6 + - - +
162A ALA* 3.4 1.2 + - - +
163A VAL* 2.9 33.8 + - + +
176A LEU* 5.9 0.2 - - + -
181A LEU* 3.9 28.7 - - + -
189A ILE* 3.6 33.7 - - + -
191A ILE* 4.2 10.5 - - + -
236A LEU* 3.3 30.7 - - + -
239A ILE* 4.5 2.0 - - + -
243A LEU* 4.4 15.5 - - + -
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Residues in contact with VAL 160 (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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156A PHE* 2.9 43.4 + - + +
157A ARG 4.0 1.6 - - - +
159A ILE* 1.3 75.1 - - + +
161A SER* 1.3 59.2 + - - +
163A VAL* 4.8 3.8 - - - -
164A GLN* 2.8 29.8 + - - +
236A LEU* 4.7 9.6 - - + -
284A PHE* 4.6 9.4 - - + -
295A LEU* 4.1 19.5 - - + +
298A ILE* 5.5 2.0 - - + -
299A MET* 3.9 29.8 - - + +
304A MET* 3.6 20.6 - - + -
313A LEU* 4.2 4.0 - - + -
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Residues in contact with SER 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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109A HIS* 3.0 19.3 + - - -
111A ASN* 5.4 0.4 - - - -
157A ARG 3.0 19.2 + - - -
158A GLN* 3.5 5.6 - - - -
160A VAL* 1.3 77.6 - - - +
162A ALA* 1.3 62.1 + - - +
164A GLN* 4.1 1.0 - - - +
165A TYR* 3.1 24.8 + - - +
299A MET* 4.0 11.6 - - - +
313A LEU* 4.4 14.5 - - - +
314A LYS 4.9 1.6 + - - -
316A TYR* 3.9 18.4 + - - +
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Residues in contact with ALA 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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109A HIS* 3.5 19.1 + - + -
111A ASN* 4.0 7.2 - - + +
112A ILE* 3.8 21.1 - - + +
158A GLN 2.8 17.9 + - - +
161A SER* 1.3 75.1 - - - +
163A VAL* 1.3 62.9 + - - +
165A TYR* 3.4 4.2 - - - +
166A CYS* 3.4 23.2 + - - -
191A ILE* 3.3 26.9 - - + -
194A PHE* 4.7 0.4 - - - -
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Residues in contact with VAL 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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159A ILE* 2.9 17.6 + - + +
162A ALA* 1.3 71.8 - - - +
164A GLN* 1.3 65.7 + - - +
166A CYS* 3.3 2.9 + - - +
167A HIS* 3.1 47.7 + - + +
176A LEU* 3.7 33.0 - - + -
191A ILE* 3.8 16.6 - - + -
194A PHE* 4.2 15.0 - - + -
232A ASP* 4.1 4.3 - - + +
236A LEU* 4.1 14.1 - - + -
295A LEU* 3.9 10.5 - - + -
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Residues in contact with GLN 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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160A VAL 2.8 21.8 + - - +
161A SER 4.3 0.4 - - - +
163A VAL* 1.3 73.8 - - - +
165A TYR* 1.3 66.0 + - - +
167A HIS* 3.1 8.3 + - + +
168A GLN* 3.0 51.7 + - - +
295A LEU* 3.6 32.4 - - + +
296A GLU* 4.2 20.1 + - + +
299A MET* 3.9 12.5 - - + +
315A PRO* 3.4 33.4 - - - +
316A TYR 4.0 1.6 + - - -
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Residues in contact with TYR 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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106A VAL 3.7 2.9 + - - -
107A LEU* 3.8 20.6 - - + -
108A ASN 3.1 31.3 + - - -
109A HIS* 3.8 25.1 - + + -
112A ILE* 4.0 10.8 - - + -
161A SER 3.1 19.6 + - - +
162A ALA 3.4 2.7 - - - +
164A GLN* 1.3 77.8 + - - +
166A CYS* 1.3 64.5 + - - +
168A GLN* 3.1 38.0 + - + +
169A LYS* 3.3 30.9 + - - +
316A TYR* 3.8 28.5 - + + -
318A GLU* 3.1 30.4 + - + -
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Residues in contact with CYS 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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107A LEU* 3.9 17.7 - - - -
112A ILE* 3.5 27.4 - - - -
162A ALA 3.4 1.3 + - - -
163A VAL 3.3 4.9 + - - +
165A TYR* 1.3 76.7 - - - +
167A HIS* 1.3 66.3 + - + +
169A LYS* 2.9 17.7 + - - +
171A ILE* 3.1 31.2 + - + +
194A PHE* 3.2 48.0 - - + -
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Residues in contact with HIS 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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163A VAL* 3.1 28.3 + - + +
164A GLN* 3.1 12.3 + - + +
166A CYS* 1.3 77.8 - - + +
168A GLN* 1.3 63.3 + - - +
170A PHE* 3.0 21.0 + - - +
171A ILE 3.4 16.8 - - - +
172A VAL* 4.2 3.8 - - + -
173A HIS 5.2 0.2 - - - -
194A PHE* 5.9 0.2 - + - -
229A PRO* 3.3 48.0 - - + +
232A ASP* 2.9 32.8 + - + +
233A VAL* 4.7 2.8 - - + +
295A LEU* 3.9 23.1 + - + +
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Residues in contact with GLN 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 GLN* 3.0 44.7 + - - +
165A TYR* 3.2 28.6 + - + +
166A CYS 3.0 0.2 - - - -
167A HIS* 1.3 77.7 - - - +
169A LYS* 1.3 61.0 + - + +
170A PHE* 3.3 14.6 + - - -
315A PRO* 4.1 7.7 - - - +
316A TYR 3.3 26.9 + - - +
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Residues in contact with LYS 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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106A VAL* 4.1 20.4 - - + +
107A LEU* 4.2 11.9 - - + -
165A TYR* 3.3 47.1 - - + +
166A CYS* 2.9 7.3 + - - +
168A GLN* 1.3 80.2 - - + +
170A PHE* 1.3 73.8 + - - +
171A ILE* 3.1 21.9 + - + -
318A GLU* 3.9 10.8 + - - -
98B PHE* 4.3 3.8 - - - +
102B ARG* 3.1 24.4 + - - +
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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