Contacts of the helix formed by residues 273 - 299 (chain C) in PDB entry 3CQ6
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 HIS 273 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42C SER* 4.7 3.6 - - - +
44C ALA* 3.7 24.1 - - + +
45C LEU* 3.9 34.2 - - + -
48C ASP* 3.0 38.8 + - + -
269C VAL* 3.2 19.3 + - - +
270C ALA 3.0 12.4 + - - +
272C ARG* 1.3 83.5 - - + +
274C SER* 1.3 61.3 + - - +
275C ALA* 3.3 3.7 + - - -
276C ASP* 3.5 12.1 + - + +
277C THR* 3.0 23.3 + - - +
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Residues in contact with SER 274 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78C TYR* 4.7 8.0 - - - -
230C PHE* 3.7 31.4 - - - -
270C ALA 3.5 4.2 + - - -
271C LEU 3.1 17.4 + - - -
272C ARG 3.5 1.5 + - - -
273C HIS* 1.3 75.4 - - - +
275C ALA* 1.3 60.8 + - - +
277C THR* 4.4 2.7 - - - -
278C LEU* 2.8 44.9 + - - +
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Residues in contact with ALA 275 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
81C LYS* 5.8 5.8 - - - +
273C HIS 3.3 1.3 - - - -
274C SER* 1.3 83.4 + - - +
276C ASP* 1.3 64.4 + - - +
278C LEU* 4.2 2.7 - - - +
279C GLY* 3.5 12.6 + - - -
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Residues in contact with ASP 276 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42C SER* 3.8 25.5 + - - +
44C ALA* 6.5 0.9 - - - -
273C HIS* 3.5 14.4 + - + +
274C SER 3.4 0.2 - - - -
275C ALA* 1.3 76.2 - - - +
277C THR* 1.3 69.5 + - - +
279C GLY* 3.0 16.1 + - - -
280C THR* 4.1 2.6 + - - +
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Residues in contact with THR 277 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42C SER* 5.2 4.0 + - - -
45C LEU* 4.0 20.7 - - + +
229C ALA 4.4 2.9 - - - +
230C PHE* 3.9 18.6 - - + +
231C ASP* 3.6 36.8 - - + +
270C ALA 4.8 0.9 + - - -
273C HIS* 3.0 19.1 + - - +
274C SER* 4.0 5.8 - - - -
276C ASP* 1.3 81.7 + - - +
278C LEU* 1.3 53.9 + - - +
280C THR* 2.6 42.9 + - + +
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Residues in contact with LEU 278 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78C TYR* 3.6 35.4 - - + +
82C GLN* 4.7 5.6 - - - +
202C GLU* 4.4 9.0 - - + -
229C ALA* 3.8 38.1 - - + +
230C PHE* 4.3 15.7 - - + +
274C SER* 2.8 34.3 + - - +
275C ALA* 4.2 3.1 - - - +
277C THR* 1.3 69.6 - - - +
279C GLY* 1.3 59.8 + - - +
280C THR* 3.0 2.2 - - - -
281C VAL* 2.9 34.7 + - + +
282C GLU* 4.1 3.5 + - - +
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Residues in contact with GLY 279 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
275C ALA 3.5 8.9 + - - -
276C ASP 3.0 13.0 + - - -
278C LEU* 1.3 76.9 - - - +
280C THR* 1.3 60.8 + - - +
282C GLU* 3.2 35.2 + - - +
283C LYS* 3.6 13.9 + - - +
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Residues in contact with THR 280 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37C ASN* 2.9 28.1 + - - +
39C TYR* 3.6 40.2 - - + -
229C ALA 3.9 3.3 + - - -
231C ASP* 5.5 1.6 - - - +
276C ASP 4.1 2.2 + - - +
277C THR* 2.6 29.3 + - + +
278C LEU 4.3 0.3 - - - -
279C GLY* 1.3 74.0 - - - +
281C VAL* 1.3 65.3 + - - +
283C LYS* 3.2 17.0 + - + +
284C LEU* 2.9 28.1 + - - +
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Residues in contact with VAL 281 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
202C GLU* 3.3 26.5 - - + +
203C PHE* 3.8 27.1 - - + -
229C ALA* 3.7 32.8 - - + +
278C LEU* 2.9 30.5 + - + +
280C THR* 1.3 77.8 + - - +
282C GLU* 1.3 59.2 + - + +
284C LEU* 3.5 2.1 + - - +
285C SER* 3.0 29.6 + - - -
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Residues in contact with GLU 282 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
278C LEU 4.8 2.9 - - - +
279C GLY* 3.5 24.0 - - - +
280C THR 3.2 0.6 - - - -
281C VAL* 1.3 77.7 - - + +
283C LYS* 1.3 65.7 + - + +
285C SER* 3.1 21.0 + - - -
286C VAL* 3.3 15.0 + - - +
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Residues in contact with LYS 283 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39C TYR* 3.4 45.9 - - + +
279C GLY 3.6 10.5 + - - +
280C THR* 3.2 18.8 + - - +
282C GLU* 1.3 77.9 - - + +
284C LEU* 1.3 62.6 + - - +
286C VAL* 3.4 8.9 + - - +
287C GLU* 3.1 25.2 + - - +
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Residues in contact with LEU 284 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37C ASN* 4.1 19.1 - - - +
38C PRO* 3.7 41.1 - - + -
39C TYR* 3.9 10.5 - - + +
203C PHE* 3.9 29.4 - - + -
280C THR 2.9 22.6 + - - +
281C VAL* 3.8 4.3 - - - +
283C LYS* 1.3 75.9 - - - +
285C SER* 1.3 59.1 + - - +
287C GLU* 3.2 4.4 + - + +
288C ARG* 2.8 30.7 + - - +
308C ASN* 4.7 12.3 - - + -
345C ILE* 3.8 14.2 - - + +
346C GLY 3.8 15.3 - - - +
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Residues in contact with SER 285 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
203C PHE* 5.7 3.3 - - - -
281C VAL* 3.0 19.6 + - - -
282C GLU* 3.1 11.9 + - - -
283C LYS 3.3 0.2 - - - -
284C LEU* 1.3 76.0 - - - +
286C VAL* 1.3 67.6 + - - +
288C ARG* 3.4 28.7 + - - +
289C VAL* 3.1 29.7 + - - +
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Residues in contact with VAL 286 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
282C GLU 3.3 14.9 + - - +
283C LYS* 3.6 10.3 - - - +
284C LEU 3.3 0.4 - - - -
285C SER* 1.3 85.5 + - - +
287C GLU* 1.3 65.4 + - + +
289C VAL* 3.5 7.7 + - - +
290C ARG* 3.2 22.0 + - + +
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Residues in contact with GLU 287 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39C TYR* 5.8 1.8 - - - +
283C LYS* 3.1 16.7 + - + +
284C LEU* 3.2 3.3 + - + +
286C VAL* 1.3 77.7 - - + +
288C ARG* 1.3 57.1 + - - +
290C ARG* 2.8 47.0 + - - +
291C VAL* 2.7 38.3 + - - +
345C ILE* 3.4 22.7 - - + -
346C GLY 4.2 5.8 - - - +
348C PRO* 3.4 28.3 - - + +
351C ASN* 2.6 26.6 + - - +
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Residues in contact with ARG 288 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
203C PHE* 3.6 25.3 + - - +
284C LEU 2.8 17.4 + - - +
285C SER* 3.5 30.5 + - - +
287C GLU* 1.3 76.0 - - - +
289C VAL* 1.3 73.8 + - - +
291C VAL* 4.0 0.5 - - - +
292C ALA* 2.9 30.8 + - + +
305C SER* 3.6 34.5 + - - +
306C GLU* 3.8 7.0 - - - +
307C SER 2.8 29.0 + - - +
308C ASN* 5.7 0.2 - - - -
309C PHE 4.6 1.6 - - - +
310C VAL* 4.0 19.5 - - + +
345C ILE* 3.7 19.9 - - + +
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Residues in contact with VAL 289 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
285C SER* 3.1 18.3 + - - +
286C VAL* 3.8 7.6 - - - +
287C GLU 3.3 0.2 - - - -
288C ARG* 1.3 89.9 - - - +
290C ARG* 1.3 59.2 + - - +
292C ALA* 3.9 3.9 - - - +
293C ALA* 3.0 34.3 + - + +
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Residues in contact with ARG 290 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
286C VAL* 3.2 14.4 + - + +
287C GLU* 2.8 48.3 + - - +
289C VAL* 1.3 78.9 - - - +
291C VAL* 1.3 63.7 + - - +
293C ALA* 3.4 5.3 + - - +
294C ARG* 3.0 26.1 + - + +
348C PRO* 3.6 12.9 + - - +
351C ASN* 3.8 7.0 - - - +
352C ASP* 3.0 29.6 + - - -
355C LEU* 3.8 18.2 - - + +
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Residues in contact with VAL 291 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
287C GLU* 2.7 24.7 + - - +
288C ARG 4.0 0.4 - - - +
290C ARG* 1.3 73.8 - - + +
292C ALA* 1.3 58.5 - - - +
294C ARG* 3.8 1.4 - - - +
295C LEU* 3.0 37.3 + - + +
310C VAL* 4.6 4.9 - - + -
343C THR* 4.6 2.7 - - + -
345C ILE* 3.7 22.7 - - + -
351C ASN* 3.7 38.6 - - + +
354C PHE* 3.7 29.6 - - + -
355C LEU* 4.1 15.0 - - + +
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Residues in contact with ALA 292 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
288C ARG* 2.9 20.9 + - + +
289C VAL* 3.9 4.0 - - - +
291C VAL* 1.3 77.2 - - - +
293C ALA* 1.3 63.1 + - - +
295C LEU* 3.4 5.5 + - - +
296C GLU* 3.1 31.2 + - - +
302C VAL* 4.0 22.5 - - + +
310C VAL* 4.5 9.8 - - + +
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Residues in contact with ALA 293 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
289C VAL* 3.0 21.5 + - + +
290C ARG* 3.7 6.1 - - - +
292C ALA* 1.3 76.7 - - - +
294C ARG* 1.3 57.8 + - - +
296C GLU* 3.2 14.2 + - - +
297C GLU* 3.0 28.4 + - - +
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Residues in contact with ARG 294 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
290C ARG* 3.0 20.3 + - + +
291C VAL 3.8 3.4 - - - +
293C ALA* 1.3 75.3 - - - +
295C LEU* 1.3 62.8 + - - +
297C GLU* 3.2 35.5 + - - +
298C LEU* 3.0 51.0 + - + +
355C LEU* 3.4 35.4 + - + +
359C ALA* 5.5 5.9 - - - +
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Residues in contact with LEU 295 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
291C VAL* 3.0 28.6 + - + +
292C ALA 3.8 0.7 - - - +
294C ARG* 1.3 75.5 - - - +
296C GLU* 1.3 59.3 + - - +
298C LEU* 3.2 11.6 + - + +
299C GLY 3.2 0.2 + - - -
300C TYR* 3.0 49.7 + - + +
302C VAL* 3.7 13.5 - - + -
310C VAL* 4.2 17.0 - - + -
312C PHE* 4.1 21.3 - - + -
343C THR* 4.7 1.1 - - + -
354C PHE* 3.7 42.4 - - + -
355C LEU* 3.9 8.5 - - + -
358C ALA* 3.9 11.0 - - + -
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Residues in contact with GLU 296 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
292C ALA* 3.1 16.2 + - - +
293C ALA* 3.5 13.9 - - - +
295C LEU* 1.3 72.7 - - - +
297C GLU* 1.3 66.0 + - - +
299C GLY* 3.0 15.6 + - - -
300C TYR 3.8 10.4 - - - +
302C VAL* 3.5 34.1 + - + +
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Residues in contact with GLU 297 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
293C ALA 3.0 13.1 + - - +
294C ARG* 3.2 43.6 + - - +
296C GLU* 1.3 77.7 - - - +
298C LEU* 1.3 61.3 + - - +
299C GLY* 3.5 0.3 + - - -
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Residues in contact with LEU 298 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
294C ARG* 3.0 61.8 + - + +
295C LEU* 3.4 11.9 - - + +
296C GLU 3.1 0.2 - - - -
297C GLU* 1.3 78.4 - - - +
299C GLY* 1.3 57.2 - - - +
300C TYR* 3.8 16.6 - - + -
355C LEU* 4.1 9.6 - - + +
358C ALA* 4.2 7.6 - - + +
359C ALA* 3.9 37.7 - - + +
362C ILE* 3.1 21.8 - - + +
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Residues in contact with GLY 299 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
296C GLU 3.0 12.3 + - - -
297C GLU 3.3 0.6 - - - -
298C LEU* 1.3 80.3 - - - +
300C TYR* 1.3 64.5 + - - +
301C ALA 3.8 0.9 + - - -
362C ILE* 3.7 9.1 - - - +
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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
------------------------------------------------------------
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