Contacts of the helix formed by residues 273 - 291 (chain C) in PDB entry 2WOE
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 273 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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401A AR6 2.5 48.0 + - - -
56C GLY 4.4 5.9 + - - +
57C GLN* 6.2 2.5 - - - -
271C LYS 3.5 2.4 + - - -
272C LEU* 1.3 73.9 - - - +
274C MET* 1.3 62.4 + - - +
275C LYS* 3.1 23.6 + - - +
276C VAL* 3.1 23.6 + - + +
277C GLU* 2.9 26.2 + - - +
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Residues in contact with MET 274 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
208A GLN* 4.1 21.8 - - - +
210A SER* 5.4 9.9 - - - -
215A ASP* 5.2 6.7 - - - +
272C LEU 3.4 5.7 + - - +
273C ASP* 1.3 74.6 + - - +
275C LYS* 1.3 57.8 + - - +
277C GLU* 3.4 7.3 + - - +
278C ARG* 2.9 64.3 + - + +
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Residues in contact with LYS 275 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121A GLU* 3.3 26.5 + - - -
122A GLY* 4.2 13.2 - - - -
401A AR6 3.5 58.3 + - + +
273C ASP* 3.1 14.3 + - - +
274C MET* 1.3 77.6 - - - +
276C VAL* 1.3 64.3 - - + +
278C ARG* 3.6 15.8 + - - +
279C GLU* 3.1 23.9 + - - +
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Residues in contact with VAL 276 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58C ILE* 3.7 44.6 - - + -
66C LEU* 4.7 8.0 - - + +
272C LEU* 5.2 7.0 - - + -
273C ASP* 3.1 28.9 + - + +
275C LYS* 1.3 77.1 - - + +
277C GLU* 1.3 66.8 + - - +
279C GLU* 3.3 6.2 + - - +
280C ILE* 3.0 40.8 + - + +
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Residues in contact with GLU 277 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
15C LEU* 3.9 16.2 - - + -
269C LEU* 3.5 27.6 - - - +
270C SER* 5.1 2.3 - - - -
272C LEU* 4.5 12.4 - - + +
273C ASP 2.9 15.6 + - - +
274C MET* 3.9 7.2 - - - +
276C VAL* 1.3 77.9 - - - +
278C ARG* 1.3 62.9 + - + +
280C ILE* 3.4 7.6 + - - +
281C ARG* 3.0 61.5 + - - +
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Residues in contact with ARG 278 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
212A TYR* 5.9 1.6 - - - -
401A AR6 4.0 22.4 + - - -
274C MET* 2.9 52.3 + - + +
275C LYS* 3.8 26.6 - - - +
277C GLU* 1.3 78.6 - - + +
279C GLU* 1.3 57.9 + - - +
281C ARG* 3.4 9.3 + - - +
282C ARG* 2.9 29.2 + - - +
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Residues in contact with GLU 279 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66C LEU* 3.9 13.5 - - + -
70C ARG* 3.5 24.8 + - - +
275C LYS 3.1 17.8 + - - +
276C VAL* 3.3 5.6 + - - +
278C ARG* 1.3 73.5 - - - +
280C ILE* 1.3 60.3 + - - +
282C ARG* 2.8 46.1 + - - -
283C GLN* 3.0 47.6 + - - +
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Residues in contact with ILE 280 (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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14C PHE* 3.6 36.1 - - + +
15C LEU* 3.7 28.7 - - + +
18C ALA* 3.5 31.6 - - + -
62C THR* 4.3 5.6 - - + -
66C LEU* 3.9 22.7 - - + -
272C LEU* 4.8 0.9 - - + -
276C VAL* 3.0 34.2 + - + +
277C GLU* 3.7 4.9 - - - +
278C ARG 3.4 0.2 - - - -
279C GLU* 1.3 75.4 - - - +
281C ARG* 1.3 58.6 + - - +
283C GLN* 3.2 3.2 + - - +
284C VAL* 2.9 31.5 + - + +
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Residues in contact with ARG 281 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11C LEU* 3.5 41.9 - - + +
15C LEU* 3.7 21.5 - - + +
261C VAL* 4.9 3.4 - - - +
269C LEU* 4.5 11.7 - - - +
277C GLU* 3.0 52.6 + - + +
278C ARG* 3.7 8.1 - - - +
280C ILE* 1.3 77.3 - - - +
282C ARG* 1.3 61.8 + - - +
284C VAL* 3.5 2.4 + - - +
285C ASP* 3.2 27.8 + - - -
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Residues in contact with ARG 282 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70C ARG* 4.9 13.1 + - - +
73C ALA* 4.7 7.7 - - - +
278C ARG 2.9 17.6 + - - +
279C GLU* 2.8 43.2 + - - +
281C ARG* 1.3 74.9 - - - +
283C GLN* 1.3 72.5 + - - +
285C ASP* 3.4 8.8 + - - +
286C ALA* 3.0 38.9 + - - +
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Residues in contact with GLN 283 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14C PHE* 3.7 16.7 - - + -
66C LEU* 2.9 48.4 + - - +
69C GLY* 3.2 24.7 - - - +
70C ARG* 3.5 15.1 - - - +
73C ALA* 5.4 1.3 - - + -
279C GLU* 3.0 36.9 + - - +
280C ILE* 3.7 3.1 - - - +
282C ARG* 1.3 89.6 - - - +
284C VAL* 1.3 59.1 + - - +
286C ALA* 3.7 6.1 - - - +
287C LEU* 2.8 40.0 + - + +
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Residues in contact with VAL 284 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7C HIS* 4.3 8.7 - - + +
10C ALA* 3.8 32.5 - - + +
11C LEU* 3.8 28.0 - - + +
14C PHE* 3.7 32.1 - - + -
137C LEU* 4.7 4.3 - - + -
280C ILE 2.9 22.2 + - - +
281C ARG 3.9 4.9 - - - +
282C ARG 3.4 0.2 - - - -
283C GLN* 1.3 74.3 - - - +
285C ASP* 1.3 58.1 + - - +
287C LEU* 4.0 5.9 - - - +
288C LEU* 3.0 37.7 + - + +
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Residues in contact with ASP 285 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7C HIS* 2.8 31.7 + - - -
281C ARG 3.2 12.6 + - - +
282C ARG* 3.5 11.0 - - - +
283C GLN 3.2 0.2 - - - -
284C VAL* 1.3 78.3 - - - +
286C ALA* 1.3 61.8 + - - +
288C LEU* 3.9 4.0 - - - +
289C ALA* 3.0 24.6 + - - +
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Residues in contact with ALA 286 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
73C ALA* 3.7 29.3 - - + +
282C ARG* 3.0 24.8 + - - +
283C GLN* 3.8 4.7 - - - +
285C ASP* 1.3 75.4 - - - +
287C LEU* 1.3 60.1 + - - +
289C ALA* 3.5 7.5 + - - +
290C LEU* 3.0 27.0 + - - +
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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
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14C PHE* 4.4 9.2 - - + -
69C GLY* 3.8 22.9 - - - +
72C LEU* 4.1 19.1 - - + -
73C ALA* 4.2 11.2 - - + +
134C PRO* 3.9 40.6 - - + +
137C LEU* 4.2 24.5 - - + -
138C ALA* 3.8 10.9 - - + +
283C GLN* 2.8 32.9 + - + +
284C VAL* 4.0 3.6 - - - +
286C ALA* 1.3 71.6 - - - +
288C LEU* 1.3 58.8 + - - +
290C LEU* 3.3 8.0 + - + +
291C ALA* 2.8 27.9 + - - +
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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
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6C VAL* 4.2 14.1 - - + -
7C HIS* 3.5 39.5 - - + +
10C ALA* 3.9 19.3 - - + -
137C LEU* 5.0 4.0 - - + +
140C LEU* 3.7 29.8 - - + -
284C VAL* 3.0 29.5 + - + +
285C ASP* 3.9 4.0 - - - +
287C LEU* 1.3 74.9 - - + +
289C ALA* 1.3 63.2 + - - +
291C ALA* 3.1 8.3 + - + +
292C GLY 3.1 0.2 + - - -
293C LEU* 2.9 45.2 + - + -
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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
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285C ASP 3.0 18.3 + - - +
286C ALA* 3.6 7.9 - - - +
288C LEU* 1.3 75.6 - - - +
290C LEU* 1.3 61.1 + - - +
292C GLY* 3.5 11.1 + - - +
293C LEU 4.9 3.8 - - - +
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Residues in contact with LEU 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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72C LEU* 3.7 32.3 - - + +
73C ALA* 4.8 2.7 - - - +
76C GLY* 3.1 33.7 - - - +
77C THR 4.3 1.6 - - - +
138C ALA* 4.0 26.5 - - + +
142C HIS* 3.4 13.3 + - + +
149C TRP* 4.4 10.8 - - + -
286C ALA 3.0 17.2 + - - +
287C LEU* 3.5 7.9 - - + +
288C LEU 3.2 0.2 - - - -
289C ALA* 1.3 74.9 - - - +
291C ALA* 1.3 61.9 + - - +
292C GLY 3.5 0.5 + - - -
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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
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137C LEU 3.3 27.1 - - - +
138C ALA 3.4 11.4 + - - +
140C LEU* 3.9 18.2 - - + +
141C GLY* 3.2 25.9 - - - +
142C HIS* 3.7 7.4 - - - -
287C LEU 2.8 8.1 + - - +
288C LEU* 3.1 13.9 + - - +
290C LEU* 1.3 78.7 - - - +
292C GLY* 1.3 56.4 + - - +
293C LEU* 3.5 6.1 - - + +
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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) + - + + + + + -
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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