Contacts of the helix formed by residues 283 - 303 (chain C) in PDB entry 1WOH
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 GLY 283 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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45A ARG* 4.0 6.3 - - - -
280C ASP* 3.1 14.8 + - - -
281C PRO 3.2 2.0 - - - -
282C THR* 1.3 78.5 + - - +
284C ARG* 1.3 63.2 + - - +
285C SER 3.3 3.1 + - - -
286C GLU* 3.5 23.0 - - - +
287C LEU* 3.3 29.2 + - - +
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Residues in contact with ARG 284 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
235A PRO* 3.6 33.9 + - + -
236A ALA* 4.0 0.8 - - - +
239A PRO* 3.5 16.5 - - + +
244A PRO* 4.7 7.6 - - + -
284A ARG* 3.5 21.5 - - - +
282B THR* 5.8 0.8 - - - +
284B ARG* 3.5 11.5 - - - +
236C ALA 2.8 29.3 + - - -
237C VAL* 3.3 16.4 + - - +
239C PRO* 3.5 20.4 - - - +
280C ASP* 3.3 8.0 + - - +
282C THR* 3.0 36.5 + - - +
283C GLY* 1.3 76.0 - - - +
285C SER* 1.3 70.2 + - - +
287C LEU* 4.4 9.4 - - - -
288C LEU* 2.9 39.7 + - + +
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Residues in contact with SER 285 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
238C ILE* 3.7 23.3 - - - +
239C PRO* 3.2 9.2 - - - +
240C GLY 3.0 23.7 + - - -
275C LEU* 3.9 15.7 - - - -
276C ALA 5.6 0.2 - - - -
280C ASP* 2.5 30.8 + - - -
283C GLY 3.3 0.4 - - - -
284C ARG* 1.3 77.7 - - - +
286C GLU* 1.3 60.8 + - - +
288C LEU 3.9 0.2 - - - -
289C MET* 3.0 35.1 + - - +
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Residues in contact with GLU 286 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
54C ALA* 4.1 21.9 - - + +
55C LEU* 4.1 2.1 - - + +
58C ALA* 3.1 19.6 - - + +
275C LEU* 3.9 26.1 - - + +
277C PRO* 3.9 33.1 - - - +
280C ASP 4.4 3.3 - - - +
283C GLY* 3.5 27.1 - - - +
285C SER* 1.3 79.3 - - - +
287C LEU* 1.3 69.8 + - + +
289C MET 4.5 0.2 - - - +
290C ALA* 3.0 18.5 + - - +
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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
----------------------------------------------------------
44A PHE* 3.8 27.8 - - + -
45A ARG* 3.7 22.7 - - - +
244A PRO* 3.7 32.1 - - + +
58C ALA* 3.8 20.2 - - + +
61C ARG* 3.8 20.0 - - + -
62C SER* 5.2 1.4 + - - -
283C GLY 3.3 19.3 + - - +
284C ARG 3.9 3.4 - - - +
286C GLU* 1.3 79.3 - - + +
288C LEU* 1.3 70.2 + - + +
290C ALA* 3.9 2.3 - - - +
291C ARG* 3.2 22.3 + - - +
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Residues in contact with LEU 288 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
235A PRO* 5.0 7.9 - - + -
244A PRO* 4.5 15.7 - - + +
245A GLU 4.9 0.4 - - - -
246A PRO* 3.7 46.9 - - + -
237C VAL* 3.8 31.0 - - + +
238C ILE* 3.8 15.0 - - + -
251C TYR* 3.3 17.2 - - + -
284C ARG* 2.9 30.8 + - + +
287C LEU* 1.3 84.5 - - + +
289C MET* 1.3 61.3 + - - +
291C ARG* 3.3 5.9 + - - +
292C LEU 2.9 22.3 + - - -
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Residues in contact with MET 289 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55C LEU* 4.0 17.0 - - + -
228C VAL* 4.1 0.2 - - + -
230C VAL* 3.7 27.1 - - + -
233C PHE* 3.8 26.9 - - + -
238C ILE* 4.2 17.0 - - + -
251C TYR* 6.0 2.0 - - - -
272C LEU* 3.0 40.8 - - + -
275C LEU* 4.7 3.1 - - + -
285C SER 3.0 22.5 + - - +
286C GLU* 4.7 0.2 - - - -
288C LEU* 1.3 73.7 - - - +
290C ALA* 1.3 65.7 + - - +
292C LEU* 3.2 28.9 + - + +
293C VAL* 3.1 26.7 + - - +
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Residues in contact with ALA 290 (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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15C PHE* 4.8 4.0 - - + -
55C LEU* 3.8 16.0 - - + +
58C ALA* 3.5 22.0 - - + +
59C SER* 3.7 20.0 - - - +
62C SER* 4.9 1.3 - - - +
286C GLU 3.0 19.9 + - - +
287C LEU 3.9 2.2 - - - +
289C MET* 1.3 76.3 - - - +
291C ARG* 1.3 63.5 + - - +
293C VAL* 3.3 8.1 + - - +
294C MET* 3.2 27.0 + - - +
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Residues in contact with ARG 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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182A ARG* 5.4 1.2 - - - +
183A GLY* 3.4 22.8 - - - +
184A LEU* 3.7 30.7 - - + +
245A GLU* 2.7 43.5 + - - +
246A PRO* 3.6 22.1 + - - +
247A ASP* 5.6 1.0 + - - -
62C SER* 3.9 17.0 + - - +
251C TYR* 3.1 21.4 + - - -
287C LEU 3.2 12.4 + - - +
288C LEU* 3.5 8.5 - - - +
289C MET 3.2 0.2 - - - -
290C ALA* 1.3 80.8 - - - +
292C LEU* 1.3 52.4 + - - +
294C MET* 3.1 3.8 + - - +
295C GLU* 2.7 58.6 + - - +
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Residues in contact with LEU 292 (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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228C VAL* 3.9 13.2 - - + -
233C PHE* 3.6 29.2 - - + -
251C TYR* 3.2 26.9 + - + -
255C MET* 3.6 30.7 - - + +
258C LEU* 4.2 16.4 - - + -
272C LEU* 4.5 3.1 - - + -
288C LEU 2.9 14.4 + - - +
289C MET* 3.2 36.3 - - + +
290C ALA 3.2 0.2 - - - -
291C ARG* 1.3 76.9 - - - +
293C VAL* 1.3 58.1 + - + +
295C GLU* 3.9 1.3 - - - +
296C THR* 2.8 34.4 + - - +
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Residues in contact with VAL 293 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
15C PHE* 3.6 30.5 - - + -
55C LEU* 5.7 1.3 - - + -
115C VAL* 3.7 22.9 - - + -
117C LEU* 4.8 4.5 - - + -
270C LEU* 4.5 13.5 - - + -
272C LEU* 4.1 29.4 - - + -
289C MET 3.1 15.2 + - - +
290C ALA* 3.6 8.5 - - - +
291C ARG 3.2 0.2 - - - -
292C LEU* 1.3 76.6 - - + +
294C MET* 1.3 62.1 + - - +
296C THR* 3.3 7.1 + - - -
297C LEU* 3.0 31.2 + - + +
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Residues in contact with MET 294 (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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184A LEU* 4.2 5.6 - - + -
15C PHE* 3.7 31.9 - - + -
16C ALA* 4.5 4.3 - - - -
59C SER* 5.3 2.9 - - - -
62C SER* 3.4 23.3 - - - +
64C PRO* 3.6 35.0 - - + -
66C PHE* 3.8 24.5 - - + -
75C LEU* 4.1 5.0 - - + +
80C PHE* 3.8 18.2 - - + -
290C ALA 3.2 12.3 + - - +
291C ARG 3.1 6.6 + - - +
293C VAL* 1.3 77.9 - - - +
295C GLU* 1.3 62.2 + - - +
297C LEU* 3.2 11.4 + - + +
298C CYS* 3.0 26.2 + - - -
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Residues in contact with GLU 295 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
184A LEU* 3.8 22.2 - - + +
74C ARG* 4.7 9.1 + - - +
251C TYR* 2.8 21.6 + - - +
255C MET* 3.4 33.4 - - + +
291C ARG* 2.7 44.0 + - - +
294C MET* 1.3 70.0 - - - +
296C THR* 1.3 66.5 + - - +
298C CYS* 3.1 9.2 + - - +
299C GLU* 3.1 30.8 + - - +
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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
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226C PHE* 4.2 20.9 - - + -
255C MET* 3.4 13.6 - - - +
258C LEU* 3.4 30.8 - - + +
262C ALA* 5.5 1.1 - - + -
270C LEU* 3.6 29.4 - - + +
292C LEU* 2.8 24.3 + - - +
293C VAL 3.6 4.3 - - - -
295C GLU* 1.3 75.8 - - - +
297C LEU* 1.3 59.8 + - + +
299C GLU* 3.1 4.5 + - - +
300C VAL* 2.9 31.3 + - + +
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Residues in contact with LEU 297 (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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15C PHE* 4.8 1.3 - - + -
31C VAL* 4.0 25.1 - - + -
75C LEU* 3.6 14.6 - - + +
80C PHE* 3.6 31.0 - - + -
113C VAL* 4.2 13.5 - - + -
115C VAL* 4.2 15.5 - - + -
270C LEU* 6.5 2.2 - - + -
293C VAL* 3.0 33.8 + - + +
294C MET* 3.2 15.7 + - - +
296C THR* 1.3 80.1 - - + +
298C CYS* 1.3 62.0 + - - +
300C VAL* 4.3 6.3 - - + -
301C PHE* 3.0 37.4 + - + -
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Residues in contact with CYS 298 (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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184A LEU* 5.2 2.5 - - - -
66C PHE* 3.6 29.8 - - - -
74C ARG* 3.7 45.2 - - - +
75C LEU* 3.8 15.4 + - - +
294C MET 3.0 18.0 + - - -
295C GLU* 3.2 13.0 - - - +
297C LEU* 1.3 77.3 - - - +
299C GLU* 1.3 61.1 + - - +
301C PHE* 4.0 1.2 - - - +
302C ASP* 3.2 29.7 + - - +
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Residues in contact with GLU 299 (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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74C ARG* 3.1 23.5 + - - -
255C MET* 3.9 9.4 - - + +
259C ALA* 3.7 34.8 - - + +
262C ALA* 4.1 18.5 - - + +
295C GLU* 3.1 21.4 + - - +
296C THR* 3.5 7.2 - - - +
298C CYS* 1.3 75.4 - - - +
300C VAL* 1.3 65.0 + - - +
302C ASP* 3.3 14.0 + - - +
303C HIS* 3.3 30.7 + - - +
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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
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113C VAL* 4.1 22.2 - - + -
226C PHE* 4.5 0.2 - - + -
262C ALA* 3.9 15.3 - - + +
267C VAL* 3.8 45.1 - - + +
296C THR* 2.9 31.7 + - + +
297C LEU* 3.3 9.8 + - + +
299C GLU* 1.3 78.9 - - - +
301C PHE* 1.3 68.5 + - + +
303C HIS* 3.4 14.7 + - - +
304C VAL* 3.4 10.7 - - + +
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Residues in contact with PHE 301 (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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30C ASP* 4.0 24.0 - - + -
31C VAL* 3.5 33.4 - - + -
75C LEU* 3.9 23.3 - - + +
78C VAL* 4.0 16.4 - - + -
112C ARG* 3.8 29.4 - - - -
113C VAL* 4.0 22.4 - - + -
297C LEU* 3.0 29.5 + - + +
298C CYS 4.5 0.9 - - - +
300C VAL* 1.3 76.2 - - + +
302C ASP* 1.3 65.3 + - - +
303C HIS 3.2 2.0 - - - -
304C VAL* 3.3 28.9 + - + +
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Residues in contact with ASP 302 (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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73C THR 5.5 0.2 - - - +
74C ARG* 3.2 38.3 + - - +
75C LEU 5.4 1.0 + - - -
298C CYS 3.2 18.4 + - - +
299C GLU* 3.6 6.5 - - - +
300C VAL 3.2 1.0 - - - -
301C PHE* 1.3 79.3 - - - +
303C HIS* 1.3 81.3 + - + +
304C VAL 3.7 0.8 + - - -
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Residues in contact with HIS 303 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
262C ALA 3.8 16.9 - - - +
263C ALA* 3.7 41.2 - - + +
265C ASN 5.0 3.6 - - - +
299C GLU* 3.3 21.8 + - - +
300C VAL 3.4 9.6 + - - +
301C PHE 3.2 0.2 - - - -
302C ASP* 1.3 96.7 - - + +
304C VAL* 1.3 57.9 + - - +
305C LEU* 3.2 21.0 - - + +
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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