Contacts of the helix formed by residues 269 - 297 (chain C) in PDB entry 4Z9G
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 ASP 269 (chain C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
246C TRP* 3.6 13.1 + - - +
250C LYS* 3.5 25.5 + - - -
254C ASP* 5.2 0.7 - - - +
259C TRP 4.7 3.3 - - - +
260C ALA 5.0 7.7 - - - +
267C TYR* 3.6 1.2 - - - +
268C THR* 1.3 77.4 + - - +
270C TYR* 1.3 65.4 + - + +
271C ILE 3.2 0.4 + - - -
272C TYR* 3.7 15.3 + - - -
273C GLN* 3.2 48.2 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 270 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
267C TYR* 4.0 53.8 - + + +
268C THR 3.0 0.2 - - - -
269C ASP* 1.3 82.3 - - + +
271C ILE* 1.3 58.2 + - + +
272C TYR 3.3 0.2 - - - -
273C GLN* 4.4 6.5 - - + -
274C GLY* 2.7 37.7 + - - +
275C PRO* 3.9 0.7 - - - +
331C PHE* 5.6 17.1 - + - -
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 271 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
242C ILE* 4.0 10.7 - - + +
245C ALA* 4.0 25.8 - - + +
246C TRP* 3.9 26.2 - - + +
249C GLY* 4.2 9.4 - - - -
267C TYR 5.1 2.2 - - - +
268C THR* 3.1 35.8 + - + +
270C TYR* 1.3 77.7 - - + +
272C TYR* 1.3 58.0 + - - +
275C PRO* 3.1 21.4 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 272 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
196C ASN* 2.6 38.3 + - + -
199C HIS* 4.9 8.7 + - - -
200C VAL* 3.9 15.0 - - + +
242C ILE* 3.6 22.9 - - + +
243C ILE* 4.5 7.2 - - + -
246C TRP* 3.6 44.2 - + + -
269C ASP* 3.8 21.0 + - - -
271C ILE* 1.3 77.0 - - - +
273C GLN* 1.3 95.5 + - + +
274C GLY 3.1 2.4 + - - -
275C PRO* 3.5 4.2 - - - +
276C MET* 3.2 42.6 + - - +
1203C OLA 4.8 4.8 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 273 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
269C ASP* 3.2 37.3 + - - +
270C TYR* 4.4 6.2 + - + +
272C TYR* 1.3 104.6 + - + +
274C GLY* 1.3 60.7 + - - +
276C MET* 3.5 3.7 - - - +
277C ALA* 3.2 18.0 + - - +
331C PHE* 3.4 25.2 - - + -
1203C OLA 3.3 62.0 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 274 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
270C TYR* 2.7 26.6 + - - +
273C GLN* 1.3 72.6 - - - +
275C PRO* 1.3 62.5 - - - +
277C ALA* 2.9 12.4 + - - +
278C LEU* 2.9 24.3 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with PRO 275 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
204C PHE* 4.8 5.6 - - + -
242C ILE* 3.7 31.2 - - + -
270C TYR 3.9 0.4 - - - +
271C ILE 3.1 27.8 - - - +
272C TYR 3.5 5.8 - - - +
274C GLY* 1.3 83.6 - - - +
276C MET* 1.3 56.6 + - - +
278C LEU* 3.3 18.1 - - + +
279C VAL* 2.7 40.3 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with MET 276 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
199C HIS* 3.5 29.8 - - + +
200C VAL* 4.1 26.7 - - + -
203C PHE* 3.2 57.9 - - + -
204C PHE* 4.9 2.0 - - - -
272C TYR* 3.2 41.5 + - - +
273C GLN* 3.5 13.0 - - - +
274C GLY 3.2 0.2 - - - -
275C PRO* 1.3 76.3 - - - +
277C ALA* 1.3 58.1 + - - +
279C VAL* 3.7 4.4 + - - +
280C LEU* 3.0 21.3 + - - +
1203C OLA 3.8 15.7 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 277 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
273C GLN 3.2 9.0 + - - +
274C GLY* 2.9 11.2 + - - +
276C MET* 1.3 77.4 - - - +
278C LEU* 1.3 59.2 + - - +
280C LEU* 3.2 10.6 + - + +
281C LEU* 2.8 29.9 + - - +
1203C OLA 4.0 22.8 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 278 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
274C GLY 2.9 8.0 + - - +
275C PRO* 3.1 23.1 + - + +
277C ALA* 1.3 75.4 - - - +
279C VAL* 1.3 65.6 + - + +
281C LEU* 3.1 24.8 + - + +
282C ILE* 3.1 37.2 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 279 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
203C PHE* 3.8 17.3 - - + +
204C PHE* 3.5 32.5 - - + -
207C PHE* 3.4 43.9 - - + -
275C PRO* 2.7 22.0 + - + +
276C MET 3.7 5.6 - - - +
278C LEU* 1.3 77.0 - - + +
280C LEU* 1.3 64.4 + - - +
282C ILE* 3.3 13.2 + - + +
283C ASN* 3.2 19.9 + - - +
1205C 1Q5 4.2 5.6 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 280 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
203C PHE* 4.3 9.6 - - + -
276C MET 3.0 16.7 + - - +
277C ALA* 3.3 9.6 - - + +
279C VAL* 1.3 75.3 - - - +
281C LEU* 1.3 61.7 + - - +
283C ASN* 3.3 4.7 + - - +
284C PHE* 3.2 39.2 + - + -
320C LEU* 5.1 1.6 - - + -
1203C OLA 3.5 52.0 - - + -
1205C 1Q5 3.9 48.2 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 281 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
277C ALA 2.8 13.4 + - - +
278C LEU* 3.1 18.8 + - + +
280C LEU* 1.3 76.3 - - - +
282C ILE* 1.3 61.6 + - + +
284C PHE* 2.9 32.6 + - + +
285C ILE* 3.0 28.2 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 282 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
207C PHE* 4.1 16.2 - - + -
278C LEU* 3.1 38.6 + - + +
279C VAL* 3.3 11.0 + - + +
281C LEU* 1.3 77.8 - - + +
283C ASN* 1.3 57.5 + - - +
285C ILE* 3.2 18.5 + - + +
286C PHE* 2.9 53.7 + - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ASN 283 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
206C MET 3.2 10.9 + - - -
207C PHE* 4.1 8.0 - - - +
210C GLY* 3.3 22.7 - - - -
279C VAL 3.2 8.2 + - - +
280C LEU 3.4 10.1 - - - +
282C ILE* 1.3 80.9 - - - +
284C PHE* 1.3 51.3 + - - +
286C PHE* 3.3 15.7 - - - +
287C LEU* 2.7 33.8 + - - +
1205C 1Q5 2.9 72.9 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 284 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
280C LEU* 3.2 41.1 + - + -
281C LEU* 2.9 22.5 + - + +
283C ASN* 1.3 73.0 - - - +
285C ILE* 1.3 63.1 + - + +
287C LEU* 3.7 14.5 - - + +
288C PHE* 3.1 24.4 + - - +
320C LEU* 3.5 39.9 - - + -
1203C OLA 4.3 20.0 - - + -
1205C 1Q5 4.6 2.7 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 285 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
281C LEU* 3.0 34.1 + - + +
282C ILE* 3.3 20.2 - - + +
284C PHE* 1.3 75.2 - - + +
286C PHE* 1.3 69.7 + - + +
288C PHE* 3.5 9.4 + - + +
289C ASN* 3.2 23.7 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 286 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
207C PHE* 3.5 28.3 - + - -
210C GLY 4.2 7.9 - - - -
211C CYS* 3.8 20.0 - - + -
214C HIS* 3.7 39.8 - + + -
282C ILE* 2.9 32.8 + - + -
283C ASN* 3.3 25.1 - - - +
285C ILE* 1.3 79.9 - - + +
287C LEU* 1.3 63.9 + - - +
289C ASN* 3.2 6.3 + - - +
290C ILE* 3.0 27.5 + - - +
1205C 1Q5 4.1 9.9 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 287 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
213C LEU* 5.6 1.3 - - + -
283C ASN 2.7 20.0 + - - +
284C PHE* 3.7 13.9 - - + +
285C ILE 3.3 0.2 - - - -
286C PHE* 1.3 74.1 - - - +
288C PHE* 1.3 62.1 + - - +
290C ILE* 3.3 18.6 + - + +
291C VAL* 3.1 28.3 + - + +
313C VAL* 4.2 25.6 - - + -
316C THR* 4.5 10.3 - - + -
317C LEU* 4.0 24.2 - - + -
320C LEU* 4.1 10.1 - - + -
1205C 1Q5 3.9 35.0 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 288 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
284C PHE 3.1 17.3 + - - +
285C ILE* 4.0 7.9 - - + +
286C PHE 3.4 0.2 - - - -
287C LEU* 1.3 71.7 - - - +
289C ASN* 1.3 70.2 + - - +
291C VAL* 3.0 14.4 + - + +
292C ARG* 3.0 31.4 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ASN 289 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
214C HIS* 3.8 24.7 + - + +
218C VAL* 3.9 5.7 - - - +
285C ILE* 3.2 13.2 + - + +
286C PHE* 3.2 8.9 + - - +
288C PHE* 1.3 81.0 - - + +
290C ILE* 1.3 57.6 + - - +
292C ARG* 2.9 31.7 + - - +
293C ILE* 2.9 40.0 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 290 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
213C LEU* 4.1 25.8 - - + -
214C HIS* 4.1 26.5 - - + -
217C ILE* 3.6 22.0 - - + -
218C VAL* 4.7 4.7 - - + -
286C PHE 3.0 27.1 + - - +
287C LEU* 3.4 15.3 - - + +
289C ASN* 1.3 77.4 - - - +
291C VAL* 1.3 57.2 + - - +
293C ILE* 3.3 7.1 + - - +
294C LEU* 2.8 33.0 + - + +
313C VAL* 3.5 30.1 - - + -
1205C 1Q5 4.2 9.6 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 291 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
287C LEU* 3.1 26.7 - - + +
288C PHE* 3.0 15.0 + - + +
290C ILE* 1.3 73.6 - - + +
292C ARG* 1.3 65.1 + - - +
294C LEU* 4.5 6.7 - - + -
295C MET* 3.1 46.4 + - + +
313C VAL* 5.1 9.4 - - + -
317C LEU* 6.5 0.7 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 292 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
218C VAL* 5.2 2.6 - - - +
288C PHE* 3.0 26.5 + - + +
289C ASN* 2.9 36.7 + - - +
291C VAL* 1.3 77.3 - - - +
293C ILE* 1.3 73.8 + - - +
295C MET* 5.1 0.7 - - - -
296C THR* 2.2 55.2 + - + +
297C LYS* 4.1 22.2 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 293 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
217C ILE* 3.9 13.7 - - + +
218C VAL* 3.7 32.3 - - + +
289C ASN* 2.9 22.1 + - - +
290C ILE 3.3 5.6 + - - +
292C ARG* 1.3 105.4 - - - +
294C LEU* 1.3 66.2 + - - +
296C THR* 3.9 2.7 - - - -
297C LYS* 3.1 25.5 + - + +
298C LEU* 3.1 45.5 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 294 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
217C ILE* 4.3 23.8 - - + -
290C ILE* 2.8 30.9 + - + +
291C VAL* 4.2 6.7 - - + +
293C ILE* 1.3 73.5 - - - +
295C MET* 1.3 64.7 + - + +
298C LEU* 3.2 34.0 - - + +
299C ARG* 3.3 4.3 + - - -
306C THR* 4.4 10.3 - - - +
309C ALA* 4.5 1.6 - - + -
310C ARG* 4.0 40.5 + - + +
313C VAL* 3.6 36.1 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with MET 295 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
291C VAL* 3.1 36.2 + - + +
292C ARG* 4.3 1.1 - - - +
294C LEU* 1.3 82.6 - - + +
296C THR* 1.3 66.3 + - + +
299C ARG* 3.0 45.3 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with THR 296 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
292C ARG* 2.2 48.5 + - + +
293C ILE* 3.9 0.2 - - - -
295C MET* 1.3 84.4 - - + +
297C LYS* 1.3 77.3 + - - +
299C ARG* 4.5 2.6 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 297 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
292C ARG* 4.1 22.8 - - - +
293C ILE* 3.1 26.3 + - + +
296C THR* 1.3 91.7 + - - +
298C LEU* 1.3 75.6 + - + +
299C ARG 3.7 0.7 - - - -
300C ALA* 5.4 1.2 + - - +
301C SER* 5.3 1.0 - - - -
----------------------------------------------------------
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