Contacts of the helix formed by residues 282 - 303 (chain C) in PDB entry 7CAL
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 MET 282 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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278C ILE* 3.1 24.8 + - + +
279C PHE* 3.8 34.5 - - + +
281C MET* 1.3 75.7 - - - +
283C PHE* 1.3 63.3 + - - +
284C ASN 3.3 0.7 - - - -
285C LEU* 3.6 11.1 + - + +
286C GLY 3.6 13.2 + - - -
701C 3PE 3.8 49.7 - - + +
206D LEU* 4.0 24.2 - - - -
209D ILE* 4.5 10.3 - - + -
255D ILE* 3.8 19.7 - - + -
701D 3PE 5.7 3.8 - - + -
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Residues in contact with PHE 283 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
204C VAL* 6.0 0.7 - - + -
208C ALA* 4.0 27.8 - - + -
279C PHE 3.7 13.4 + - - +
280C PHE* 3.1 22.8 + + + +
282C MET* 1.3 78.7 - - - +
284C ASN* 1.3 70.5 + - - +
286C GLY* 3.2 3.3 + - - -
287C LEU* 2.9 49.1 + - + +
701C 3PE 3.7 42.8 - - + +
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Residues in contact with ASN 284 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
257C THR* 3.7 16.2 + - - +
258C LEU* 3.7 34.1 - - - +
260C THR* 5.1 5.2 - - + -
280C PHE* 2.9 55.9 + - - +
281C MET* 3.9 9.7 - - + +
282C MET 3.3 0.4 - - - -
283C PHE* 1.3 82.9 - - - +
285C LEU* 1.3 64.4 + - - +
287C LEU* 3.7 6.1 - - - +
288C THR* 3.2 27.9 + - + +
259D THR* 6.3 1.6 - - - -
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Residues in contact with LEU 285 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
281C MET 3.7 6.9 + - - +
282C MET* 3.6 12.7 + - + +
283C PHE 3.3 0.2 - - - -
284C ASN* 1.3 79.5 - - - +
286C GLY* 1.3 60.6 + - - +
288C THR* 4.0 3.9 + - - +
289C ALA* 3.3 26.3 + - + +
205D THR* 5.1 8.7 - - + +
209D ILE* 5.7 1.6 - - + -
255D ILE* 4.9 4.7 - - + -
258D LEU* 3.8 19.5 - - + -
259D THR* 3.8 35.2 - - + +
288D THR* 4.5 17.9 - - + -
291D LEU* 4.0 29.2 - - + +
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Residues in contact with GLY 286 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
282C MET 3.6 5.3 + - - -
283C PHE 3.2 7.9 + - - -
285C LEU* 1.3 78.1 - - - +
287C LEU* 1.3 62.0 + - - +
289C ALA* 4.1 4.2 - - - +
290C TYR* 3.3 20.8 + - - +
701C 3PE 3.6 31.8 - - - +
295D MET* 4.8 11.7 - - - +
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Residues in contact with LEU 287 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
204C VAL* 4.0 25.4 - - + -
205C THR* 4.4 13.0 - - + -
208C ALA* 4.3 5.8 - - + -
258C LEU* 3.9 39.7 - - + -
283C PHE* 2.9 44.9 + - + +
284C ASN* 4.1 7.0 - - - +
285C LEU 3.3 0.2 - - - -
286C GLY* 1.3 76.3 - - - +
288C THR* 1.3 62.6 + - + +
289C ALA 3.2 0.2 - - - -
290C TYR* 3.0 9.6 + - + +
291C LEU* 3.0 38.5 + - + +
701C 3PE 4.1 12.8 - - + -
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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
----------------------------------------------------------
285B LEU* 4.5 18.6 - - + -
258C LEU* 3.6 23.3 - - + +
259C THR* 5.4 1.1 - - - -
260C THR* 5.4 6.2 - - + +
284C ASN* 3.2 19.8 + - + +
285C LEU* 4.0 4.9 + - - +
287C LEU* 1.3 82.7 - - + +
289C ALA* 1.3 57.7 + - - +
290C TYR 3.2 0.2 - - - -
291C LEU* 4.0 9.4 - - + +
292C ILE* 3.3 38.9 + - - +
292D ILE* 5.4 3.7 - - - +
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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
----------------------------------------------------------
285C LEU* 3.3 18.6 + - + +
286C GLY* 4.5 4.3 - - - +
287C LEU 3.2 0.6 - - - -
288C THR* 1.3 79.9 + - - +
290C TYR* 1.3 57.2 + - - +
292C ILE* 4.8 1.1 - - - +
293C GLY* 3.6 15.4 + - - -
291D LEU* 4.4 7.9 - - + +
292D ILE* 4.1 29.3 - - + +
295D MET* 3.3 37.7 - - + +
296D THR 4.8 0.2 + - - -
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Residues in contact with TYR 290 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
197C ARG* 4.5 3.1 + - - -
200C LYS* 4.7 5.7 - - - +
201C LEU* 3.7 23.1 - - + +
204C VAL* 4.7 10.3 - - + +
286C GLY 3.3 18.7 + - - +
287C LEU* 3.0 6.5 + - + +
289C ALA* 1.3 79.2 - - - +
291C LEU* 1.3 73.6 + - + +
292C ILE 3.4 0.4 - - - -
293C GLY* 4.0 0.8 - - - -
294C ASN* 2.9 56.9 + - - +
701C 3PE 3.6 79.8 + - + -
295D MET* 4.5 10.3 - - + -
299D VAL* 4.7 10.3 - - + +
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Residues in contact with LEU 291 (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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285B LEU* 4.0 30.1 - - + +
289B ALA* 4.4 8.3 - - + +
201C LEU* 4.0 29.0 - - + +
204C VAL* 5.5 0.9 - - + -
205C THR* 3.7 33.0 - - + -
287C LEU* 3.0 26.2 + - + +
288C THR* 4.5 8.7 - - + +
290C TYR* 1.3 93.7 - - + +
292C ILE* 1.3 61.6 + - + +
294C ASN* 3.9 3.6 - - - +
295C MET* 2.9 31.2 + - - +
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Residues in contact with ILE 292 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
288B THR* 5.0 3.8 - - - +
289B ALA* 4.0 26.4 - - + +
292B ILE* 3.7 46.0 - - + -
288C THR* 3.3 26.7 + - - +
289C ALA* 4.8 0.4 - - - -
291C LEU* 1.3 77.5 - - + +
293C GLY* 1.3 54.2 + - - +
295C MET* 3.9 0.5 - - - +
296C THR* 2.5 42.3 + - - +
292D ILE* 3.7 35.9 - - + -
296D THR* 5.1 0.9 - - - +
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Residues in contact with GLY 293 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
289C ALA 3.6 16.3 + - - -
290C TYR 4.1 1.1 - - - -
291C LEU 3.3 0.2 - - - -
292C ILE* 1.3 79.7 - - - +
294C ASN* 1.3 58.6 + - - +
296C THR* 3.9 2.2 + - - -
297C ASN* 3.4 14.6 + - - +
295D MET 4.6 1.8 - - - -
296D THR* 3.6 35.3 + - - +
299D VAL* 3.5 19.3 - - - +
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Residues in contact with ASN 294 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
197C ARG* 3.0 32.5 - - - +
201C LEU* 3.8 24.9 - - + +
290C TYR* 2.9 48.5 + - - +
291C LEU 3.4 0.6 + - - +
292C ILE 3.2 0.2 - - - -
293C GLY* 1.3 77.0 - - - +
295C MET* 1.3 59.9 + - - +
296C THR 3.2 0.2 - - - -
297C ASN* 3.2 10.2 + - - +
298C LEU* 3.0 31.4 + - + +
701C 3PE 4.7 1.0 + - - -
299D VAL* 3.4 24.0 - - - +
303D THR* 4.9 2.0 - - - +
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Residues in contact with MET 295 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
286B GLY* 4.8 19.1 - - - +
289B ALA* 3.3 35.7 - - + +
290B TYR* 4.5 9.6 - - + -
293B GLY* 4.8 0.2 - - - -
701B 3PE 6.2 1.8 - - + -
198C CYS* 4.6 13.2 - - + -
201C LEU* 4.6 14.3 - - + +
291C LEU 2.9 18.6 + - - +
292C ILE 4.2 1.1 - - - +
294C ASN* 1.3 73.7 - - - +
296C THR* 1.3 60.7 + - - +
298C LEU* 4.2 22.0 - - - +
299C VAL* 2.9 40.0 + - + +
302C TRP* 6.0 2.9 - - - -
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Residues in contact with THR 296 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
292B ILE* 5.1 0.2 - - - +
293B GLY* 3.6 23.5 + - - +
296B THR* 3.8 36.2 + - + -
292C ILE* 2.5 30.8 + - - +
293C GLY* 4.0 1.0 - - - -
294C ASN 3.2 0.2 - - - -
295C MET* 1.3 77.2 - - - +
297C ASN* 1.3 60.1 + - - +
299C VAL* 3.6 1.3 + - - +
300C VAL* 3.3 30.8 + - + +
296D THR* 3.8 24.6 + - + +
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Residues in contact with ASN 297 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
193C TYR* 5.1 4.4 + - - -
197C ARG* 6.0 1.6 - - - +
293C GLY 3.4 12.5 + - - +
294C ASN* 3.2 14.2 + - - +
296C THR* 1.3 79.4 - - - +
298C LEU* 1.3 63.1 + - - +
300C VAL* 3.8 6.2 + - - +
301C HIS* 3.2 23.2 + - - +
296D THR* 5.4 0.6 - - - +
299D VAL* 4.2 10.5 - - + +
300D VAL* 4.1 20.8 - - + +
303D THR* 2.9 28.4 + - - -
307D ARG* 2.9 37.6 + - - +
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Residues in contact with LEU 298 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
193C TYR* 4.6 12.1 - - + +
194C PHE* 4.0 24.5 - - + +
197C ARG* 4.1 32.5 - - + +
198C CYS* 3.7 31.0 - - - -
201C LEU* 4.8 5.6 - - + -
294C ASN* 3.0 20.3 + - + +
295C MET* 3.8 18.6 - - - +
296C THR 3.2 0.4 - - - -
297C ASN* 1.3 84.6 - - + +
299C VAL* 1.3 54.8 + - - +
301C HIS* 3.2 5.5 + - + +
302C TRP* 2.6 48.3 + - + +
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Residues in contact with VAL 299 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
290B TYR* 4.7 11.2 - - + +
293B GLY* 3.5 26.5 - - - +
294B ASN* 3.4 39.7 - - - +
297B ASN* 4.2 8.5 - - + -
295C MET* 2.9 30.3 + - + +
296C THR 4.2 0.7 - - - +
297C ASN 3.5 0.2 - - - -
298C LEU* 1.3 72.8 - - + +
300C VAL* 1.3 60.5 + - - +
302C TRP* 3.3 14.7 - - + +
303C THR* 2.9 41.1 + - + +
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Residues in contact with VAL 300 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
293B GLY 5.4 0.2 - - - +
296B THR 6.1 0.2 - - - -
297B ASN* 4.1 29.2 - - + +
296C THR* 3.3 25.2 + - + +
297C ASN* 4.0 7.6 - - - +
299C VAL* 1.3 77.3 - - - +
301C HIS* 1.3 59.9 + - - +
303C THR* 4.8 0.7 - - - -
304C SER* 3.2 28.4 + - - -
307C ARG* 4.3 14.5 + - - +
307D ARG* 5.0 12.1 - - - +
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Residues in contact with HIS 301 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
193C TYR* 3.8 27.8 - + + -
194C PHE* 3.2 38.1 - + + -
297C ASN 3.2 17.9 + - - +
298C LEU* 3.2 9.0 + - + +
300C VAL* 1.3 74.9 - - - +
302C TRP* 1.3 66.3 + - - +
304C SER* 4.2 5.2 + - - -
307D ARG* 3.6 37.1 + - + +
310D ARG* 4.6 9.6 - - + -
311D ASP* 2.6 39.9 + - - -
314D ARG* 3.8 15.6 + - - -
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Residues in contact with TRP 302 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
701B 3PE 3.9 43.8 - - - +
194C PHE* 3.9 45.1 - + + +
195C TRP* 4.4 26.7 - + - -
295C MET* 6.0 3.3 - - - -
298C LEU* 2.6 35.8 + - + +
299C VAL* 3.1 19.0 + - + +
301C HIS* 1.3 76.5 - - - +
303C THR* 1.3 69.0 + - + +
304C SER 3.6 2.9 + - - -
305C ARG* 4.7 5.4 + - - +
314D ARG* 5.0 4.2 + - - -
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Residues in contact with THR 303 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
186B GLU* 6.2 0.2 - - - +
193B TYR* 4.4 11.2 - - - +
197B ARG* 4.4 19.1 - - - +
297B ASN* 2.9 26.4 + - - +
701B 3PE 4.2 24.2 - - - +
299C VAL* 2.9 21.1 + - + +
300C VAL 4.0 1.8 - - - -
302C TRP* 1.3 84.4 - - + +
304C SER* 1.3 58.9 + - - +
305C ARG 3.4 2.0 - - - +
306C THR* 4.4 10.3 - - - +
307C ARG* 3.3 26.0 + - - +
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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) + - + + + + + -
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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