Contacts of the helix formed by residues 285 - 312 (chain G) in PDB entry 2PWZ
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 285 (chain G).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
187G SER* 3.8 17.5 + - - -
199G VAL* 6.1 0.3 - - - +
284G LEU* 1.3 76.4 - - - +
286G ALA* 1.3 60.1 + - - +
287G PHE* 3.6 9.0 + - - +
288G GLU* 3.0 40.0 + - - +
289G GLN* 2.8 27.7 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 286 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
285G SER* 1.3 73.6 - - - +
287G PHE* 1.3 56.0 + - - +
289G GLN* 3.4 6.4 + - - +
290G ASN* 2.9 29.7 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 287 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
183G LEU* 5.4 2.7 - - + -
196G GLU* 5.6 9.2 - - + -
199G VAL* 3.7 34.1 - - + -
200G ALA* 4.6 16.6 - - + -
203G THR* 3.9 27.8 - - + -
285G SER* 3.6 7.4 + - - +
286G ALA* 1.3 76.1 - - - +
288G GLU* 1.3 73.9 + - + +
290G ASN* 3.4 10.2 + - + +
291G ALA* 3.1 31.1 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 288 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
183G LEU* 3.5 16.3 - - + +
184G PRO 4.0 8.4 - - - +
185G LEU* 3.7 31.4 - - + +
186G LEU* 3.2 10.4 + - - +
187G SER* 2.4 49.0 + - - -
199G VAL* 6.0 1.7 - - - +
283G THR 4.3 0.3 - - - +
284G LEU* 3.6 15.3 - - + +
285G SER* 3.0 31.3 + - - +
287G PHE* 1.3 81.2 - - + +
289G GLN* 1.3 66.3 + - - +
291G ALA 3.3 0.9 + - - -
292G LEU* 3.0 20.8 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 289 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
260G TYR* 5.5 3.1 + - - -
284G LEU* 3.8 25.2 - - + +
285G SER 2.8 18.4 + - - +
286G ALA* 3.6 7.0 - - - +
288G GLU* 1.3 75.7 - - - +
290G ASN* 1.3 56.6 + - - +
292G LEU* 3.5 11.2 + - - +
293G GLU* 2.8 74.3 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ASN 290 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
286G ALA 2.9 17.9 + - - +
287G PHE* 3.5 12.6 + - + +
289G GLN* 1.3 77.2 - - - +
291G ALA* 1.3 61.2 + - - +
293G GLU* 3.5 14.4 + - - +
294G GLY* 3.0 24.5 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 291 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
180G VAL* 4.5 5.3 - - - +
183G LEU* 3.6 26.0 - - + -
203G THR* 6.0 0.7 - - + -
207G GLN* 5.6 6.3 - - - +
287G PHE* 3.1 27.6 + - + +
288G GLU 3.3 0.4 + - - +
290G ASN* 1.3 77.4 - - - +
292G LEU* 1.3 65.9 + - - +
294G GLY* 3.9 1.8 - - - +
295G MET* 3.1 25.0 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 292 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
174G ILE* 4.6 0.7 - - + -
183G LEU* 3.7 16.2 - - + +
260G TYR* 3.8 31.6 - - + +
264G PHE* 3.5 24.5 - - + -
281G ILE* 4.2 5.2 - - + -
284G LEU* 3.5 24.5 - - + -
288G GLU 3.0 12.6 + - - +
289G GLN* 3.5 19.1 - - - +
291G ALA* 1.3 71.2 - - - +
293G GLU* 1.3 68.9 + - + +
295G MET* 3.0 48.2 + - + +
296G LEU* 3.0 24.1 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 293 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
289G GLN* 2.8 46.5 + - - +
290G ASN* 3.6 13.5 - - - +
292G LEU* 1.3 81.9 - - + +
294G GLY* 1.3 59.4 + - - +
295G MET 3.5 0.3 + - - -
296G LEU* 3.6 26.5 + - + +
297G ASP* 5.0 1.2 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 294 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
180G VAL* 5.3 3.2 - - - +
290G ASN 3.0 16.9 + - - -
291G ALA* 3.5 3.1 + - - -
292G LEU 3.2 0.4 - - - -
293G GLU* 1.3 75.6 - - - +
295G MET* 1.3 60.0 + - - +
297G ASP* 4.5 4.9 + - - +
298G THR* 4.4 6.6 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with MET 295 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
175G GLY* 4.1 11.9 - - - -
180G VAL* 3.4 20.4 - - + +
181G THR* 3.6 41.1 - - + +
183G LEU* 5.3 5.8 - - - -
264G PHE* 3.7 12.1 - - + -
291G ALA 3.1 14.2 + - - +
292G LEU* 3.0 44.2 + - + +
294G GLY* 1.3 75.0 - - - +
296G LEU* 1.3 86.0 + - + +
297G ASP 3.2 1.6 - - - -
298G THR* 3.0 21.7 + - - -
299G LEU* 3.1 19.4 + - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 296 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
259G GLN 5.6 0.9 - - - +
260G TYR* 3.8 39.9 - - + +
261G ALA* 5.2 0.3 - - - +
292G LEU* 3.0 41.6 + - + +
293G GLU* 3.6 19.3 - - + +
294G GLY 3.4 1.6 - - - -
295G MET* 1.3 96.5 - - + +
297G ASP* 1.3 60.4 + - - +
299G LEU* 3.6 4.5 + - + +
300G LYS* 3.1 47.4 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 297 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
293G GLU 5.0 0.9 + - - +
294G GLY 4.5 4.4 + - - +
295G MET 3.0 0.8 + - - -
296G LEU* 1.3 80.2 - - - +
298G THR* 1.3 64.9 + - - +
300G LYS* 4.1 14.6 + - - +
301G LYS* 3.2 41.8 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with THR 298 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
180G VAL* 4.3 17.9 - - + +
181G THR* 3.8 18.8 - - + -
294G GLY 4.4 6.4 + - - -
295G MET 3.3 10.3 + - - -
297G ASP* 1.3 79.0 - - - +
299G LEU* 1.3 56.1 + - - +
301G LYS* 3.4 8.6 + - - +
302G ASP* 3.1 40.2 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 299 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
122G ASN* 3.6 26.5 - - + +
175G GLY 4.3 4.7 - - - +
176G GLY* 4.1 5.8 - - - -
181G THR* 4.1 8.0 - - + +
253G TYR* 3.4 30.5 - - + +
260G TYR 5.8 0.4 - - - -
261G ALA* 3.9 18.8 - - + -
263G PHE 3.9 3.1 - - - +
264G PHE* 3.9 22.9 - - + -
295G MET* 3.1 33.1 + - + +
296G LEU* 3.9 4.5 - - - +
298G THR* 1.3 74.9 - - - +
300G LYS* 1.3 59.6 + - - +
302G ASP* 3.3 8.1 + - - +
303G ILE* 2.9 39.0 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 300 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
260G TYR 3.1 25.9 + - - -
261G ALA* 4.1 15.5 - - + +
262G ARG 5.5 0.4 - - - +
296G LEU* 3.1 37.7 + - - +
297G ASP* 4.2 16.3 + - - +
299G LEU* 1.3 75.3 - - - +
301G LYS* 1.3 58.0 + - + +
303G ILE* 3.4 9.3 + - + +
304G ALA* 2.8 29.5 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 301 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
297G ASP* 3.2 33.4 + - - +
298G THR* 3.5 7.9 - - - +
299G LEU 3.2 0.2 - - - -
300G LYS* 1.3 74.3 - - + +
302G ASP* 1.3 65.7 + - - +
304G ALA* 3.8 5.6 - - - +
305G LEU* 3.0 25.3 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 302 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
120G PRO* 6.4 0.9 - - - -
122G ASN* 3.2 37.6 + - + +
123G THR* 2.7 39.6 + - - +
178G SER* 4.1 6.9 + - - -
181G THR* 4.3 0.3 - - - +
298G THR* 3.1 33.4 + - - +
299G LEU* 3.4 7.9 - - - +
301G LYS* 1.3 76.3 - - - +
303G ILE* 1.3 63.3 + - - +
305G LEU* 3.6 4.6 + - - +
306G GLY 3.4 2.8 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 303 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
122G ASN 3.8 6.7 - - - +
126G ALA* 3.6 5.1 - - + +
253G TYR* 3.2 20.9 - - - +
261G ALA* 3.6 18.8 - - + -
262G ARG* 4.2 8.7 - - + +
263G PHE* 3.5 56.1 - - + +
299G LEU* 2.9 23.7 + - + +
300G LYS* 3.6 7.2 - - + +
302G ASP* 1.3 76.3 - - - +
304G ALA* 1.3 63.6 + - - +
306G GLY 3.2 2.9 + - - -
307G GLU* 3.1 38.6 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 304 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
300G LYS 2.8 21.1 + - - +
301G LYS* 3.4 7.4 + - - +
303G ILE* 1.3 73.8 - - - +
305G LEU* 1.3 56.4 + - - +
307G GLU* 3.3 16.9 + - - +
308G GLU* 2.9 48.6 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 305 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
91G PHE* 3.6 40.9 - - + -
120G PRO* 6.2 0.2 - - + -
123G THR* 4.0 7.4 - - + +
301G LYS 3.0 17.6 + - - +
302G ASP* 3.7 7.2 - - - +
303G ILE 3.3 0.2 - - - -
304G ALA* 1.3 74.9 - - - +
306G GLY* 1.3 61.3 + - - +
308G GLU* 3.9 15.8 - - + +
309G PHE* 3.3 22.3 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 306 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
123G THR* 3.4 35.7 - - - +
126G ALA* 4.1 0.7 - - - -
127G ILE* 3.4 26.8 - - - +
302G ASP 3.4 0.2 + - - -
303G ILE 3.2 7.7 + - - -
305G LEU* 1.3 75.7 - - - +
307G GLU* 1.3 65.6 + - - +
309G PHE* 3.3 10.4 + - - +
310G VAL* 3.7 6.6 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 307 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
126G ALA* 4.1 5.3 - - + +
130G GLU* 3.9 15.9 - - + +
262G ARG* 3.0 45.3 + - - +
303G ILE* 3.1 21.9 + - - +
304G ALA* 3.3 22.8 + - - +
306G GLY* 1.3 75.8 - - - +
308G GLU* 1.3 61.6 + - + +
310G VAL* 3.4 2.9 + - - +
311G ASN* 3.0 32.1 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 308 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
304G ALA* 2.9 34.2 + - + +
305G LEU* 3.9 17.5 + - + +
307G GLU* 1.3 77.4 - - + +
309G PHE* 1.3 57.8 + - - +
311G ASN* 4.5 3.1 - - - +
312G LYS* 3.0 44.3 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 309 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
91G PHE* 4.4 11.9 - + + -
92G ASN* 4.0 23.3 - - + -
95G ALA* 3.6 37.9 - - + -
96G GLY* 3.8 12.3 - - - -
99G LYS* 4.2 19.4 - - + -
127G ILE* 4.1 25.6 - - + -
305G LEU 3.3 11.8 + - - +
306G GLY 3.3 12.6 + - - +
308G GLU* 1.3 78.8 - - - +
310G VAL* 1.3 62.0 - - + +
312G LYS* 4.3 4.7 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 310 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
99G LYS* 4.6 17.0 + - + +
127G ILE* 3.5 46.0 - - + +
130G GLU* 3.7 36.1 - - + +
131G VAL* 4.1 13.0 - - + +
134G LYS* 4.3 22.8 + - + +
306G GLY 3.9 3.4 - - - +
307G GLU 3.4 2.1 + - - +
308G GLU 3.2 0.4 - - - -
309G PHE* 1.3 78.7 - - + +
311G ASN* 1.3 65.0 + - - +
312G LYS* 3.2 14.1 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ASN 311 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
130G GLU* 3.3 29.2 + - - +
134G LYS* 5.2 10.1 - - - +
307G GLU* 3.0 23.9 + - - +
308G GLU* 3.4 2.9 + - - +
310G VAL* 1.3 86.1 + - - +
312G LYS* 1.3 78.3 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 312 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
134G LYS* 5.0 13.2 - - - +
308G GLU* 3.0 25.9 + - - +
309G PHE 4.3 4.0 + - - +
310G VAL 3.2 11.0 - - - +
311G ASN* 1.3 92.1 - - - +
----------------------------------------------------------
Back to top of page
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) + - + + + + + -
------------------------------------------------------------
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