Contacts of the helix formed by residues 216 - 237 (chain B) in PDB entry 4WGK
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 SER 216 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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114B GLN* 3.4 14.2 + - - -
118B ILE* 3.8 21.5 - - - +
200B ALA 4.2 1.6 - - - -
201B GLY* 3.1 16.1 + - - +
214B GLY 4.3 0.2 - - - -
215B PHE* 1.3 73.9 - - - +
217B ASN* 1.3 58.2 + - - +
218B GLN* 4.0 1.9 + - - +
219B THR* 3.2 24.5 + - - -
220B PHE* 2.9 28.8 + - - +
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Residues in contact with ASN 217 (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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215B PHE* 3.7 28.6 + - + -
216B SER* 1.3 71.1 - - - +
218B GLN* 1.3 54.3 + - + +
220B PHE* 3.3 1.7 + - - -
221B GLN* 2.8 71.4 + - - +
686B GLN* 5.0 4.8 - - - +
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Residues in contact with GLN 218 (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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114B GLN* 3.5 22.2 - - - +
216B SER* 3.3 1.5 - - - +
217B ASN* 1.3 79.3 - - + +
219B THR* 1.3 62.6 + - - +
221B GLN* 3.9 1.9 - - - +
222B HIS* 3.0 24.9 + - - +
682B LYS* 3.6 23.8 + - - +
685B VAL* 3.7 29.9 + - + +
686B GLN* 3.4 32.4 + - - +
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Residues in contact with THR 219 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
113B GLY* 4.0 18.3 - - - -
114B GLN* 3.4 17.9 + - - +
118B ILE* 3.4 13.7 - - - +
199B PRO* 4.1 6.5 - - + +
200B ALA 3.9 15.5 - - - +
201B GLY 4.9 0.7 - - - +
202B TYR* 4.9 2.0 - - + -
216B SER* 3.2 23.7 + - - -
218B GLN* 1.3 77.9 - - - +
220B PHE* 1.3 64.0 + - - +
222B HIS* 3.4 2.8 + - - +
223B MET* 3.1 49.2 + - + +
685B VAL* 5.5 0.2 - - - -
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Residues in contact with PHE 220 (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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166B ARG* 3.8 35.4 - - + -
167B LEU* 3.7 30.7 - - + -
170B GLU* 3.9 22.4 - - + -
201B GLY 4.3 2.2 + - - +
202B TYR* 3.8 25.8 - - + -
215B PHE* 3.5 27.1 - + + -
216B SER 2.9 19.0 + - - +
217B ASN* 3.6 3.1 - - - +
219B THR* 1.3 77.4 - - - +
221B GLN* 1.3 83.6 + - - +
223B MET* 3.3 7.4 + - - +
224B VAL* 3.1 38.9 + - + +
633B PHE* 5.3 1.3 - + - -
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Residues in contact with GLN 221 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
170B GLU* 5.5 6.6 - - - +
174B ARG* 4.2 17.2 + - - -
217B ASN* 2.8 47.1 + - - +
218B GLN 3.9 0.9 - - - +
220B PHE* 1.3 88.5 - - - +
222B HIS* 1.3 60.8 + - - +
224B VAL* 3.2 6.4 + - - +
225B THR* 2.9 39.3 + - + +
686B GLN* 3.8 25.4 - - + +
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Residues in contact with HIS 222 (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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110B ASP* 3.6 33.1 + - + -
111B CYS* 4.0 3.1 - - - -
112B THR 3.0 32.9 + - - +
113B GLY* 4.5 4.0 - - - -
136B ARG* 5.3 2.2 + - - -
218B GLN 3.0 18.0 + - - +
219B THR 3.7 5.2 - - - +
220B PHE 3.3 0.2 - - - -
221B GLN* 1.3 77.2 - - - +
223B MET* 1.3 57.8 + - - +
225B THR* 3.1 9.9 + - - -
226B GLY* 3.0 23.4 + - - -
685B VAL* 4.0 22.9 - - + -
686B GLN* 4.7 5.1 - - + +
687B ASN* 3.9 21.9 + - - +
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Residues in contact with MET 223 (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 CYS* 3.7 28.3 - - + +
113B GLY 5.2 0.9 - - - +
137B LEU* 5.9 3.1 - - + -
158B ILE* 6.1 0.9 - - + -
159B ASP 5.9 0.4 - - - +
160B ILE* 3.6 30.3 - - + -
167B LEU* 4.1 11.9 - - + -
198B GLY* 6.2 0.2 - - - -
199B PRO* 3.6 32.5 - - + +
202B TYR* 3.6 33.0 - - + -
219B THR* 3.1 28.3 + - + +
220B PHE 3.4 7.4 - - - +
222B HIS* 1.3 77.6 - - - +
224B VAL* 1.3 57.4 + - - +
226B GLY* 3.3 1.0 + - - -
227B ILE* 3.0 39.6 + - + +
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Residues in contact with VAL 224 (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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167B LEU* 3.9 17.5 - - + -
170B GLU* 4.0 13.7 - - + -
171B VAL* 4.3 16.3 - - + +
174B ARG* 3.6 31.2 - - - +
220B PHE* 3.1 36.8 + - + +
221B GLN* 3.5 10.3 - - - +
223B MET* 1.3 75.5 - - - +
225B THR* 1.3 58.5 + - - +
227B ILE* 3.3 3.5 + - - +
228B LEU* 2.9 45.2 + - + +
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Residues in contact with THR 225 (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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174B ARG* 3.9 23.6 - - - +
221B GLN* 2.9 22.6 + - + +
222B HIS* 3.1 19.1 + - - -
224B VAL* 1.3 76.6 - - - +
226B GLY* 1.3 59.8 + - - +
228B LEU* 3.8 7.0 - - - +
229B LYS* 2.8 33.7 + - - +
687B ASN* 5.3 14.8 + - - +
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Residues in contact with GLY 226 (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 ALA* 3.3 12.8 - - - +
110B ASP 3.5 25.4 - - - -
111B CYS* 4.1 3.8 - - - -
139B SER* 3.7 7.8 - - - -
222B HIS 3.0 9.4 + - - -
223B MET 3.7 1.1 - - - -
224B VAL 3.2 0.4 - - - -
225B THR* 1.3 82.9 + - - +
227B ILE* 1.3 61.9 + - - +
229B LYS* 3.4 1.5 + - - -
230B SER* 3.1 20.4 + - - -
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Residues in contact with ILE 227 (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 CYS* 5.1 0.7 - - + -
139B SER* 3.3 24.5 - - - +
156B VAL* 4.4 3.8 - - + -
158B ILE* 3.7 29.4 - - + -
167B LEU* 4.0 23.6 - - + -
171B VAL* 4.1 34.1 - - + -
190B LEU* 4.2 18.4 - - + -
223B MET* 3.0 25.1 + - + +
224B VAL 3.7 3.8 - - - +
226B GLY* 1.3 75.0 - - - +
228B LEU* 1.3 60.7 + - - +
230B SER* 2.6 18.4 + - - -
231B ILE* 3.2 16.1 + - + +
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Residues in contact with LEU 228 (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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171B VAL* 3.7 27.6 - - + +
174B ARG* 3.3 54.3 - - + +
175B LEU* 3.7 29.6 - - + +
224B VAL* 2.9 25.3 + - + +
225B THR* 3.8 5.2 - - - +
227B ILE* 1.3 73.5 - - - +
229B LYS* 1.3 59.1 + - - +
231B ILE* 3.2 6.0 + - + +
232B ASP* 2.8 40.9 + - - +
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Residues in contact with LYS 229 (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 ALA* 3.9 15.3 - - + +
110B ASP 5.7 1.7 - - - +
225B THR 2.8 22.8 + - - +
226B GLY* 3.9 5.2 - - - +
228B LEU* 1.3 73.9 - - - +
230B SER* 1.3 58.2 + - - +
232B ASP* 3.1 11.0 + - + +
233B ILE* 2.9 52.5 + - + +
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Residues in contact with SER 230 (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 GLY* 3.6 23.3 - - - -
109B ALA* 3.5 9.6 - - - +
139B SER* 3.0 40.2 + - - -
141B ALA* 3.8 11.7 - - - +
226B GLY 3.1 10.8 + - - -
227B ILE 2.6 22.5 + - - -
229B LYS* 1.3 76.0 - - - +
231B ILE* 1.3 60.1 + - - +
233B ILE* 3.4 2.9 + - - -
234B ALA* 3.1 20.1 + - - +
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Residues in contact with ILE 231 (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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141B ALA* 3.8 20.2 - - + -
143B ILE* 3.8 14.2 - - + +
154B VAL* 4.4 10.8 - - + -
156B VAL* 4.2 13.7 - - + -
171B VAL* 4.8 1.6 - - + -
175B LEU* 4.0 41.7 - - + -
179B TYR* 4.7 1.3 - - + -
183B TYR* 4.6 14.6 - - + -
188B VAL* 5.2 0.7 - - + -
190B LEU* 5.1 2.5 - - + -
227B ILE* 3.3 28.7 - - + +
228B LEU* 3.2 8.5 + - - +
229B LYS 3.2 0.2 - - - -
230B SER* 1.3 81.0 + - - +
232B ASP* 1.3 58.4 + - - +
234B ALA* 3.3 3.3 + - - +
235B HIS* 2.8 32.9 + - - +
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Residues in contact with ASP 232 (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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332A LYS* 4.9 7.4 - - - +
175B LEU* 5.2 0.7 - - - +
178B LYS* 3.5 24.8 + - - +
179B TYR* 2.3 44.0 + - - +
228B LEU* 2.8 29.8 + - - +
229B LYS* 3.1 11.7 + - + +
231B ILE* 1.3 76.0 - - - +
233B ILE* 1.3 61.5 + - + +
235B HIS* 3.4 0.7 + - - +
236B THR* 3.0 34.8 + - + +
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Residues in contact with ILE 233 (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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332A LYS* 4.8 11.0 - - - +
106B VAL 3.7 13.5 - - - +
107B GLY* 3.7 6.1 - - - -
108B ARG 3.4 29.8 - - - +
229B LYS* 2.9 44.8 + - + +
230B SER 3.6 4.7 - - - +
232B ASP* 1.3 76.6 - - + +
234B ALA* 1.3 61.7 + - - +
236B THR* 3.4 6.0 + - - -
237B ASN* 3.1 43.6 + - - +
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Residues in contact with ALA 234 (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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105B GLY* 3.4 15.0 - - - +
106B VAL* 3.4 35.4 + - - +
107B GLY 3.7 1.6 - - - +
141B ALA 4.0 5.6 - - - +
143B ILE* 3.8 17.3 - - + -
230B SER 3.1 10.0 + - - +
231B ILE* 3.6 7.6 - - - +
233B ILE* 1.3 78.6 - - - +
235B HIS* 1.3 62.0 + - - +
237B ASN* 3.4 6.1 + - - -
238B MET* 3.2 18.0 - - - +
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Residues in contact with HIS 235 (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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143B ILE* 3.7 8.0 - - + +
152B ARG* 3.8 10.6 + - - -
179B TYR* 3.5 35.1 - + + +
182B LEU* 3.5 18.2 - - + -
183B TYR* 2.6 31.7 + - + +
231B ILE 2.8 21.5 + - - +
232B ASP 3.6 4.0 - - - +
234B ALA* 1.3 73.5 - - - +
236B THR* 1.3 75.4 + - + +
237B ASN 3.2 0.2 - - - -
238B MET* 3.3 21.9 + - - +
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Residues in contact with THR 236 (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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329A GLU 5.8 1.6 - - - +
332A LYS* 3.6 33.8 + - + +
179B TYR* 5.4 0.9 - - - +
232B ASP* 3.0 21.5 + - + +
233B ILE* 3.4 6.4 + - - -
235B HIS* 1.3 91.6 - - + +
237B ASN* 1.3 72.1 + - - +
238B MET 3.7 1.3 - - - -
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Residues in contact with ASN 237 (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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104B ILE 3.8 5.4 - - - +
105B GLY* 3.9 5.0 - - - -
106B VAL* 4.6 8.3 + - + +
233B ILE* 3.1 32.0 + - - +
234B ALA 3.6 4.7 - - - +
235B HIS 3.2 0.4 - - - -
236B THR* 1.3 104.6 + - - +
238B MET* 1.3 64.1 + - - +
239B LYS* 3.8 18.0 + - - +
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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