Contacts of the helix formed by residues 323 - 345 (chain G) in PDB entry 6KW5
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 GLU 323 (chain G).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
352F ALA* 6.1 0.2 - - - +
353F TYR* 2.3 42.9 + - + +
26G GLY 4.9 6.1 - - - +
28G PRO* 3.8 11.3 - - - +
287G LEU* 4.4 18.8 - - + +
321G THR* 3.2 11.3 + - - +
322G ARG* 1.3 78.2 - - - +
324G PHE* 1.3 60.1 + - + +
326G PRO* 3.3 15.3 - - - +
327G LEU* 3.7 12.8 - - + +
144H ARG* 3.2 40.3 + - - +
145H ASN* 4.3 9.1 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 324 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
285G CYS* 5.2 3.6 - - + -
287G LEU* 3.9 35.0 - - + -
290G ARG* 3.3 46.2 - - - -
292G PHE* 4.6 15.3 - - + -
315G VAL* 3.9 16.6 - - + +
320G LEU* 4.0 29.8 - - + -
321G THR* 3.4 25.6 + - - +
322G ARG 3.2 1.2 - - - -
323G GLU* 1.3 78.7 - - + +
325G ILE* 1.3 60.5 + - - +
326G PRO 3.6 0.2 - - - -
327G LEU* 4.0 14.8 - - + -
328G ILE* 3.3 41.0 + - + +
380G VAL* 5.6 2.0 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 325 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
178D LEU* 3.8 20.9 - - + -
308G GLU 5.2 1.7 - - - +
311G ALA* 3.8 15.3 - - - +
312G THR* 3.7 35.0 - - - +
315G VAL* 3.7 27.1 - - + -
322G ARG* 2.9 40.0 + - + +
324G PHE* 1.3 80.0 - - - +
326G PRO* 1.4 62.2 - - + +
329G SER* 3.6 8.1 + - - -
145H ASN 4.2 4.3 - - - +
146H VAL* 5.3 0.2 - - - -
147H ALA* 3.7 25.1 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with PRO 326 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
322G ARG 3.7 5.2 - - - +
323G GLU 3.3 15.9 - - - +
325G ILE* 1.4 91.1 - - + +
327G LEU* 1.3 52.6 + - - +
329G SER* 2.8 12.7 + - - +
330G GLN* 2.7 58.1 + - - +
143H ARG 4.1 4.7 - - - +
144H ARG* 3.7 21.3 - - - +
145H ASN 4.2 1.3 - - - +
146H VAL 3.5 26.2 - - - +
147H ALA* 3.8 9.2 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 327 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
220G GLN* 4.6 17.2 - - + +
285G CYS* 3.7 10.7 - - + -
286G ASN 3.9 12.6 - - - +
287G LEU* 3.8 41.5 - - + -
323G GLU* 3.7 16.6 - - + +
324G PHE* 3.8 16.8 + - + -
325G ILE 3.4 0.6 - - - -
326G PRO* 1.3 80.1 - - + +
328G ILE* 1.3 60.2 + - - +
330G GLN* 4.3 10.6 - - - +
331G SER* 3.3 22.3 + - - -
144H ARG* 4.9 19.5 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 328 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
283G LEU* 4.3 17.7 - - + +
285G CYS* 3.9 16.2 - - - -
292G PHE* 4.2 28.3 - - + -
294G ASP* 5.7 0.9 - - - +
310G PHE* 5.3 6.5 - - + -
311G ALA* 3.9 19.1 - - + -
314G ILE* 4.5 8.5 - - + -
315G VAL* 3.9 19.7 - - + -
320G LEU* 5.5 1.3 - - + -
324G PHE* 3.3 34.6 + - + +
326G PRO 3.2 0.6 - - - -
327G LEU* 1.3 77.2 - - - +
329G SER* 1.3 60.0 + - - +
331G SER* 2.9 18.7 + - - -
332G LEU* 3.0 21.9 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with SER 329 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
222G LEU* 5.1 1.7 - - - +
307G PRO 4.0 16.6 - - - -
308G GLU* 3.9 33.1 + - - +
311G ALA* 4.2 1.3 - - - +
325G ILE 3.6 7.8 + - - -
326G PRO* 2.8 23.5 + - - +
328G ILE* 1.3 79.9 - - - +
330G GLN* 1.3 59.7 + - - +
332G LEU* 2.9 22.9 + - - +
333G HIS* 3.1 27.0 + - - -
147H ALA* 4.2 2.8 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 330 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
205G PRO* 3.8 9.8 - - + +
220G GLN* 2.8 64.2 + - + +
221G PHE* 3.5 22.4 - - - +
222G LEU* 3.9 32.0 - - + +
326G PRO* 2.7 45.0 + - + +
327G LEU* 4.4 9.3 - - - +
329G SER* 1.3 76.1 + - - +
331G SER* 1.3 56.1 + - - +
332G LEU 3.3 1.6 + - - -
333G HIS* 4.6 0.4 - - - -
334G GLU* 4.2 6.8 + - - +
143H ARG* 5.4 4.9 + - - +
144H ARG* 5.0 3.0 + - - +
147H ALA* 6.0 0.8 - - - +
148H MET 5.3 4.6 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with SER 331 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
220G GLN* 4.6 5.8 + - - +
283G LEU* 3.9 11.6 - - - +
284G THR 3.1 20.8 + - - -
285G CYS* 3.7 12.9 - - - -
327G LEU 3.3 18.4 + - - -
328G ILE 2.9 8.0 + - - -
330G GLN* 1.3 75.8 - - - +
332G LEU* 1.3 57.6 + - - +
334G GLU* 4.7 8.8 - - - +
335G THR* 3.5 16.4 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 332 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
281G ILE* 5.4 3.6 - - + -
283G LEU* 3.9 23.1 - - + -
296G PHE* 4.1 11.0 - - + -
298G TRP* 5.0 10.8 - - + -
307G PRO* 3.7 27.1 - - + +
310G PHE* 3.8 32.5 - - + -
328G ILE* 3.0 12.5 + - + +
329G SER* 2.9 12.2 + - - +
330G GLN 3.3 0.2 - - - -
331G SER* 1.3 78.3 - - - +
333G HIS* 1.3 61.4 + - - +
334G GLU 3.2 1.3 - - - -
335G THR* 3.0 8.8 + - - -
336G ILE* 2.9 52.0 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with HIS 333 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
203G MET* 4.4 18.2 + - + +
205G PRO* 4.1 19.3 - - + -
222G LEU* 4.0 29.5 - - + +
307G PRO* 3.5 32.3 - - + +
308G GLU* 4.5 7.3 + - - +
329G SER* 3.1 29.4 + - - +
330G GLN 5.0 0.2 - - - +
332G LEU* 1.3 75.0 - - - +
334G GLU* 1.3 52.6 + - - +
336G ILE* 3.0 15.6 + - - +
337G LEU* 2.8 38.7 + - + +
112H PHE* 4.1 25.4 - + - -
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 334 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
205G PRO* 3.6 17.9 - - + +
207G THR* 5.0 9.7 - - - +
220G GLN* 4.0 15.6 + - - -
330G GLN 4.2 7.9 + - - +
331G SER* 4.9 7.0 - - - +
332G LEU 3.2 0.2 - - - -
333G HIS* 1.3 77.3 - - - +
335G THR* 1.3 60.7 + - - +
337G LEU* 3.0 24.7 + - + +
338G LYS* 2.8 42.9 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with THR 335 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
281G ILE* 4.4 27.1 - - + -
282G ASN 5.0 6.1 + - - +
283G LEU* 5.2 3.1 - - - +
331G SER 3.5 15.1 + - - -
332G LEU* 3.0 11.9 + - - -
334G GLU* 1.3 77.9 - - - +
336G ILE* 1.3 57.9 + - - +
338G LYS* 3.3 18.8 + - + +
339G ILE* 2.9 44.1 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 336 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
281G ILE* 4.4 12.6 - - + -
298G TRP* 3.7 33.7 - - + +
300G LEU* 4.5 13.3 - - + +
307G PRO* 6.1 0.7 - - + -
332G LEU* 2.9 39.3 + - + +
333G HIS* 3.0 19.0 + - - +
335G THR* 1.3 76.5 - - - +
337G LEU* 1.3 55.1 + - + +
339G ILE* 3.5 4.8 + - + +
340G LYS* 2.8 59.5 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 337 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
203G MET 4.6 10.1 - - - +
204G ILE* 4.8 1.8 - - + -
205G PRO* 3.7 27.1 - - + -
265G LEU* 3.7 31.9 - - + -
268G ILE* 4.5 14.0 - - + +
269G ALA* 4.6 15.3 - - + -
333G HIS* 2.8 20.5 + - + +
334G GLU* 3.0 29.3 + - + +
336G ILE* 1.3 70.7 - - + +
338G LYS* 1.3 61.5 + - - +
340G LYS* 3.9 16.6 - - + -
341G LYS* 3.5 22.5 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 338 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
334G GLU* 2.8 25.6 + - - +
335G THR* 3.0 23.7 + - + +
337G LEU* 1.3 78.4 - - - +
339G ILE* 1.3 65.8 + - + +
341G LYS* 2.9 32.7 - - + +
342G ASP* 3.5 6.1 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 339 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
277G LEU* 5.7 3.8 - - + -
279G VAL* 3.2 42.8 - - + -
280G ILE 4.6 2.9 - - - +
281G ILE* 4.2 18.6 - - + -
300G LEU* 3.9 25.1 - - + -
335G THR* 2.9 25.4 + - + +
336G ILE* 3.9 4.5 - - - +
338G LYS* 1.3 76.2 - - + +
340G LYS* 1.3 64.9 + - - +
341G LYS 3.1 1.1 - - - -
342G ASP* 3.1 16.3 + - + +
343G TRP* 3.3 11.0 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 340 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
268G ILE* 4.4 15.0 - - - +
269G ALA* 4.5 14.1 + - + +
271G THR* 3.6 21.9 + - + +
273G ILE* 3.2 36.6 - - + -
300G LEU* 5.2 7.9 - - + -
336G ILE* 2.8 47.2 + - + +
337G LEU* 3.9 11.4 - - + -
339G ILE* 1.3 76.7 - - - +
341G LYS* 1.3 65.4 + - - +
343G TRP* 2.9 17.3 + - - +
344G VAL* 3.2 15.7 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 341 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
268G ILE* 3.7 32.8 - - + +
337G LEU* 3.5 17.7 + - - +
338G LYS* 2.9 25.0 + - + +
340G LYS* 1.3 79.1 - - - +
342G ASP* 1.3 57.4 + - + +
344G VAL* 3.8 0.8 - - - +
345G ASP* 2.8 49.1 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 342 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
338G LYS 3.5 5.1 + - - +
339G ILE* 3.1 12.0 + - + +
341G LYS* 1.3 80.4 - - + +
343G TRP* 1.3 58.1 + - - +
344G VAL 3.3 0.2 - - - -
345G ASP* 5.2 0.2 - - - -
346G GLY* 4.4 7.1 + - - +
347G HIS 3.1 17.7 + - - -
348G LEU* 3.1 39.1 + - - +
350G GLN* 3.2 25.8 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with TRP 343 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
271G THR* 4.8 4.5 - - - -
272G GLU 4.6 3.1 - - - -
273G ILE* 3.6 44.0 - - + -
274G MET* 3.6 39.3 - - + -
275G SER* 4.3 8.3 + - - -
277G LEU* 4.0 32.5 - - + +
300G LEU* 6.4 0.9 - - + -
339G ILE* 3.3 10.1 + - + +
340G LYS* 2.9 11.5 + - - +
342G ASP* 1.3 79.2 - - - +
344G VAL* 1.3 79.9 + - + +
347G HIS* 2.9 23.1 + - - +
348G LEU 4.6 9.2 - - - -
349G ILE* 5.3 12.9 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 344 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
267G ASN 5.2 7.9 - - - +
268G ILE* 5.5 8.1 - - + +
271G THR* 3.9 25.1 - - + -
340G LYS 3.7 11.9 - - - +
341G LYS* 3.1 3.7 + - - +
343G TRP* 1.3 104.3 - - + +
345G ASP* 1.3 62.4 + - - +
346G GLY 3.7 0.2 - - - -
347G HIS* 2.4 45.1 + - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 345 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
268G ILE* 5.6 4.0 - - + +
341G LYS* 2.8 36.5 + - + +
342G ASP* 5.2 0.7 - - - -
344G VAL* 1.3 78.5 - - - +
346G GLY* 1.3 61.0 + - - +
347G HIS* 3.8 6.2 + - - -
----------------------------------------------------------
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