Contacts of the helix formed by residues 275 - 298 (chain C) in PDB entry 6Q3W
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 PHE 275 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
246C VAL* 5.6 6.1 - - + -
263C LEU* 3.2 46.7 - - + -
264C GLU* 4.5 5.4 - - - -
266C ALA 5.5 0.4 - - - -
267C ARG* 4.0 51.6 - - + +
270C VAL* 4.9 13.9 - - + -
271C SER* 3.1 21.4 + - - +
272C LYS* 2.8 5.7 - - - +
273C GLU* 1.3 72.8 - - - +
276C ARG* 1.3 67.7 + - - +
277C ARG 3.3 0.4 - - - -
278C ALA* 3.4 14.4 + - + +
279C ARG* 3.3 25.2 + - + +
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Residues in contact with ARG 276 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
272C LYS 3.7 6.1 + - - +
273C GLU* 4.1 11.9 - - + -
275C PHE* 1.3 79.5 - - - +
277C ARG* 1.3 55.0 + - - +
279C ARG* 2.6 30.8 + - - +
280C HIS 3.2 1.4 + - - -
317C ASP* 2.6 40.3 - - - +
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Residues in contact with ARG 277 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
239C ARG* 5.4 4.5 - - - +
242C GLN* 3.6 33.4 - - + +
243C CYS* 5.4 7.1 - - - +
246C VAL* 5.9 2.2 - - + -
255C LEU* 5.0 0.6 - - - +
273C GLU* 3.0 9.4 + - + +
276C ARG* 1.3 79.5 - - - +
278C ALA* 1.3 61.7 + - - +
280C HIS 3.3 8.5 + - - -
281C VAL* 3.4 11.4 + - - +
317C ASP* 4.3 3.6 + - - +
318C TYR* 3.6 32.9 - - + -
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Residues in contact with ALA 278 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
243C CYS* 5.9 0.2 - - - -
246C VAL* 3.7 35.3 - - + +
255C LEU* 3.9 24.6 - - + +
258C VAL* 6.3 0.7 - - + -
263C LEU* 5.7 5.2 - - + -
273C GLU 4.5 0.6 + - - -
275C PHE* 3.4 18.2 + - + +
276C ARG 3.2 0.6 - - - -
277C ARG* 1.3 77.6 - - - +
279C ARG* 1.3 62.2 + - - +
281C VAL* 4.0 1.0 - - - +
282C VAL* 3.2 27.2 + - - +
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Residues in contact with ARG 279 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
260C LEU* 5.9 1.4 - - - +
263C LEU* 6.2 2.0 - - - -
275C PHE* 3.3 23.8 + - + +
276C ARG* 2.6 21.7 + - - +
278C ALA* 1.3 71.3 - - - +
280C HIS* 1.3 62.5 + - - +
282C VAL* 4.5 2.4 - - - +
283C GLY* 3.1 20.3 + - - -
287C ARG* 4.7 1.7 + - - -
313C SER* 4.9 0.2 + - - -
317C ASP* 3.6 13.9 - - - +
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Residues in contact with HIS 280 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43C GLU 2.9 25.7 + - - -
44C HIS* 4.2 2.2 - - + +
276C ARG 3.2 5.1 + - - -
277C ARG 3.3 1.5 + - - +
279C ARG* 1.3 77.9 - - - +
281C VAL* 1.3 58.1 - - - +
284C GLU* 2.6 64.1 + - - +
287C ARG* 3.0 4.0 + - - +
310C SER 4.2 0.2 - - - -
313C SER* 2.6 37.3 + - - +
314C LEU* 3.4 32.7 - - + +
317C ASP* 4.1 7.7 + - - +
318C TYR* 3.5 44.6 - + + -
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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
----------------------------------------------------------
44C HIS 4.5 3.4 - - - +
45C THR* 4.4 5.2 - - + -
48C ASN* 3.7 27.8 - - + +
243C CYS* 5.4 2.0 - - - -
255C LEU* 3.7 24.7 - - + -
277C ARG 3.4 7.5 + - - +
279C ARG 3.4 0.2 - - - -
280C HIS* 1.3 86.2 - - + +
282C VAL* 1.3 58.5 + - - +
284C GLU* 3.7 2.6 - - - +
285C ILE* 2.8 38.8 + - + +
318C TYR* 5.4 1.6 - - + -
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Residues in contact with VAL 282 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
255C LEU* 4.9 7.3 - - + +
258C VAL* 4.1 25.4 - - + +
259C GLN 4.8 0.4 - - - -
260C LEU* 4.5 23.0 + - + +
263C LEU* 5.8 3.1 - - + -
278C ALA 3.2 17.5 + - - +
279C ARG* 4.5 2.5 - - - +
281C VAL* 1.3 79.5 - - - +
283C GLY* 1.3 63.4 + - - +
285C ILE* 3.7 10.3 + - - +
286C ARG* 3.4 17.3 + - - +
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Residues in contact with GLY 283 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
260C LEU* 5.0 15.5 - - - +
279C ARG 3.1 15.2 + - - -
282C VAL* 1.3 79.4 - - - +
284C GLU* 1.3 50.2 + - - +
286C ARG* 3.0 9.4 + - - +
287C ARG* 2.8 54.1 + - - +
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Residues in contact with GLU 284 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41C ILE* 5.8 0.2 - - - -
42C GLY* 3.1 13.2 + - - -
43C GLU* 2.9 28.2 + - - +
45C THR* 3.5 24.7 - - + -
280C HIS* 2.6 32.9 + - + +
283C GLY* 1.3 72.2 - - - +
285C ILE* 1.3 56.6 + - - +
287C ARG* 2.7 36.2 + - - +
288C THR* 2.8 35.3 + - - -
310C SER* 2.6 33.6 + - - -
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Residues in contact with ILE 285 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45C THR* 3.7 13.0 - - + -
48C ASN* 4.3 8.1 - - + +
50C GLY* 3.7 26.9 - - - -
51C LEU* 3.4 27.4 - - + +
255C LEU 4.6 1.1 - - - -
256C ARG* 3.7 45.5 - - + +
281C VAL* 2.8 25.7 + - + +
282C VAL* 3.8 8.7 - - - +
284C GLU* 1.3 76.1 - - - +
286C ARG* 1.3 61.4 + - - +
288C THR* 3.4 3.6 + - - -
289C ALA* 3.2 17.5 + - - +
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Residues in contact with ARG 286 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
260C LEU* 6.0 4.9 - - + -
282C VAL 3.4 9.4 + - - +
283C GLY* 3.0 11.0 + - - +
285C ILE* 1.3 78.1 - - - +
287C ARG* 1.3 66.6 + - + +
289C ALA* 3.3 7.2 + - - +
290C GLN* 3.1 35.7 + - - +
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Residues in contact with ARG 287 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41C ILE* 6.0 1.1 - - - -
279C ARG 4.9 1.8 + - - -
280C HIS* 3.0 22.0 + - - -
283C GLY* 2.8 31.2 + - - +
284C GLU* 2.7 42.7 + - - +
286C ARG* 1.3 72.5 - - + +
288C THR* 1.3 57.3 + - - +
290C GLN* 3.4 2.5 + - - -
291C ALA* 3.0 26.9 + - - +
306C LEU* 3.6 37.0 - - + +
309C GLU* 4.0 27.8 + - - +
310C SER* 3.9 3.4 - - - +
313C SER* 3.0 35.1 + - - -
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Residues in contact with THR 288 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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41C ILE* 4.1 17.9 - - + +
42C GLY* 3.2 22.9 + - - -
51C LEU* 3.6 32.7 + - + +
52C VAL 4.1 8.5 - - - +
53C LEU* 4.3 6.1 - - + +
200C LEU* 4.2 8.7 - - + +
284C GLU* 2.8 20.9 + - - +
285C ILE 3.7 4.7 - - - -
287C ARG* 1.3 74.7 - - - +
289C ALA* 1.3 62.6 + - - +
291C ALA* 2.9 21.3 + - + +
292C ALA* 3.1 14.7 + - - +
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Residues in contact with ALA 289 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51C LEU* 3.6 24.4 - - + +
200C LEU* 5.8 3.1 - - - -
285C ILE 3.2 5.7 + - - +
286C ARG* 3.6 11.4 - - - +
288C THR* 1.3 78.5 - - - +
290C GLN* 1.3 62.4 + - + +
291C ALA 3.7 0.2 + - - -
292C ALA* 4.1 4.6 + - - +
293C ALA* 3.9 17.0 + - - +
296C ARG* 5.3 1.0 + - - -
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Residues in contact with GLN 290 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
286C ARG* 3.1 23.3 + - + +
287C ARG* 3.8 6.1 - - - +
289C ALA* 1.3 76.7 - - + +
291C ALA* 1.3 60.2 + - - +
293C ALA* 3.9 4.3 + - - +
294C ALA* 3.2 27.4 + - - +
297C ARG* 5.0 2.4 + - - -
306C LEU* 3.7 24.0 - - + +
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Residues in contact with ALA 291 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41C ILE* 4.6 16.4 - - + -
53C LEU* 4.5 10.0 - - + +
287C ARG 3.0 13.3 + - - +
288C THR* 2.9 13.2 + - - +
290C GLN* 1.3 76.6 - - - +
292C ALA* 1.3 60.0 + - - +
294C ALA* 3.2 5.9 - - - +
295C LEU* 2.9 27.2 + - - +
303C PHE* 4.8 10.0 - - + +
306C LEU* 3.7 17.3 - - + -
307C MET* 6.4 0.2 - - + -
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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
----------------------------------------------------------
53C LEU* 4.1 15.6 - - + +
200C LEU* 3.8 31.2 - - + -
211C VAL* 4.7 3.4 - - + +
288C THR 3.1 12.3 + - - +
289C ALA* 4.4 4.3 - - - +
291C ALA* 1.3 73.2 - - - +
293C ALA* 1.3 61.0 + - - +
295C LEU* 2.9 8.9 + - - +
296C ARG* 2.8 46.7 + - - +
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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 ALA 3.9 13.0 + - - +
290C GLN* 3.9 5.5 + - - +
291C ALA 3.4 0.2 - - - -
292C ALA* 1.3 75.6 - - - +
294C ALA* 1.3 63.3 + - - +
296C ARG* 3.2 22.7 + - - +
297C ARG* 2.9 45.9 + - + +
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Residues in contact with ALA 294 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
290C GLN 3.2 14.8 + - - +
291C ALA* 3.2 13.5 - - - +
293C ALA* 1.3 78.2 - - - +
295C LEU* 1.3 55.3 + - - +
297C ARG* 3.2 20.7 + - - +
298C GLY 2.9 7.4 + - - -
299C ASP* 2.7 50.6 + - + +
302C ALA* 4.6 4.7 - - + -
303C PHE* 4.3 12.6 - - + +
306C LEU* 5.0 0.7 - - + -
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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
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40C LEU* 4.9 5.6 - - + -
53C LEU* 4.5 14.1 - - + -
198C ALA* 4.3 17.3 - - + -
211C VAL* 3.7 24.9 - - + -
212C PRO 4.7 5.7 - - - +
213C LEU* 3.7 33.2 - - + -
291C ALA 2.9 14.0 + - - +
292C ALA* 2.9 13.0 + - - +
294C ALA* 1.3 76.3 - - - +
296C ARG* 1.3 55.4 + - - +
298C GLY* 3.0 18.8 + - - +
299C ASP 4.9 0.2 - - - +
300C TYR* 4.3 22.3 + - + -
303C PHE* 5.3 7.1 - - + +
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Residues in contact with ARG 296 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
207B GLU* 2.8 43.4 + - - +
200C LEU* 3.6 26.5 - - - +
209C SER* 4.4 4.6 + - - -
211C VAL* 4.1 15.0 - - + +
289C ALA 5.3 1.2 + - - -
292C ALA* 2.8 22.9 + - - +
293C ALA* 3.2 37.9 + - - +
295C LEU* 1.3 76.5 - - - +
297C ARG* 1.3 62.6 + - + +
298C GLY 3.1 0.7 + - - -
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Residues in contact with ARG 297 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
290C GLN 5.0 2.0 + - - -
293C ALA* 2.9 40.2 + - + +
294C ALA* 3.7 20.9 - - - +
296C ARG* 1.3 77.0 - - + +
298C GLY* 1.3 58.8 + - - +
299C ASP* 3.1 33.5 + - + +
302C ALA* 5.0 2.4 - - - +
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Residues in contact with GLY 298 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
294C ALA 2.9 2.6 + - - -
295C LEU 3.0 15.1 + - - -
296C ARG 3.1 1.6 + - - -
297C ARG* 1.3 79.3 - - - +
299C ASP* 1.3 50.6 + - - +
300C TYR* 2.8 50.9 + - - -
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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