Contacts of the helix formed by residues 224 - 243 (chain C) in PDB entry 2PWZ
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 THR 224 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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14A GLN* 4.3 6.8 + - - -
45A ASP* 3.0 5.9 + - - -
11C GLY* 3.7 25.6 - - - -
12C ILE* 3.7 26.3 - - + +
15C ALA* 4.0 0.7 - - - +
217C LYS* 3.4 13.1 + - - +
222C SER* 3.5 13.0 - - - +
223C ALA* 1.3 81.6 - - - +
225C LEU* 1.3 70.8 + - - +
226C SER 3.6 0.4 - - - -
227C MET* 3.4 2.4 + - - +
228C GLY* 2.8 31.7 + - - -
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Residues in contact with LEU 225 (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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14A GLN* 3.7 49.1 - - + +
15A ALA* 5.7 0.4 - - - -
18A LEU* 3.7 18.7 - - + +
42A VAL* 3.9 14.1 - - + +
45A ASP* 3.3 9.3 + - - +
46A LEU* 3.7 41.3 - - + -
11C GLY 4.9 3.1 - - - +
15C ALA* 4.1 20.2 - - + -
224C THR* 1.3 79.3 + - - +
226C SER* 1.3 59.1 + - - +
228C GLY* 3.5 0.9 + - - -
229C GLN* 3.0 26.9 + - - +
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Residues in contact with SER 226 (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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45A ASP* 2.7 44.4 + - - -
48A HIS* 4.3 9.2 + - - +
49A ILE* 4.2 21.2 - - - +
149C LEU* 3.7 20.2 - - - +
152C ILE* 3.8 1.8 - - - +
223C ALA* 3.7 14.6 - - - +
225C LEU* 1.3 72.9 - - - +
227C MET* 1.3 53.7 + - - +
229C GLN* 3.3 3.0 + - - +
230C ALA* 2.8 33.6 + - - +
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Residues in contact with MET 227 (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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12C ILE* 3.8 27.8 - - + -
117C ILE* 3.9 22.9 - - + +
119C ASN* 5.8 4.0 - - - -
146C VAL* 4.3 16.2 - - + +
149C LEU* 3.7 32.1 - - + +
177C HIS* 5.1 9.0 - - - -
223C ALA 3.7 16.4 - - - +
224C THR 3.4 8.2 + - - +
225C LEU 3.2 0.4 - - - -
226C SER* 1.3 77.2 + - - +
228C GLY* 1.3 59.2 + - - +
230C ALA* 3.3 14.3 + - + -
231C ALA* 3.0 28.2 + - + +
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Residues in contact with GLY 228 (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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12C ILE* 4.0 21.0 - - - +
15C ALA* 4.0 7.6 - - - -
16C LEU* 3.8 11.1 - - - +
19C LEU* 3.9 6.4 - - - +
224C THR 2.8 21.1 + - - -
225C LEU 3.9 1.6 - - - -
227C MET* 1.3 72.0 - - - +
229C GLN* 1.3 62.0 + - - +
231C ALA* 3.4 2.4 + - - +
232C ALA* 3.0 24.6 + - - +
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Residues in contact with GLN 229 (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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18A LEU* 3.6 10.9 - - - +
22A THR* 3.3 33.1 + - - +
49A ILE* 4.0 25.7 - - + +
50A PRO* 5.9 0.2 - - + -
19C LEU* 3.5 25.3 - - + +
23C GLN* 4.5 13.9 + - - +
152C ILE* 4.4 7.0 - - + -
225C LEU 3.0 16.8 + - - +
226C SER* 3.4 8.5 - - - +
228C GLY* 1.3 74.5 - - - +
230C ALA* 1.3 61.8 - - - +
232C ALA* 3.3 6.0 + - - +
233C ARG* 3.1 24.3 + - + +
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Residues in contact with ALA 230 (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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148C THR* 3.3 22.8 - - - +
149C LEU* 3.4 41.5 - - + +
152C ILE* 3.9 11.2 - - + +
226C SER 2.8 19.9 + - - +
227C MET* 3.3 9.4 + - + +
229C GLN* 1.3 74.9 - - - +
231C ALA* 1.3 56.4 + - - +
233C ARG* 3.4 2.8 + - - +
234C PHE 3.2 20.8 + - - -
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Residues in contact with ALA 231 (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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12C ILE* 5.3 1.3 - - + -
16C LEU* 3.9 15.8 - - + +
74C LEU* 4.2 4.9 - - - +
117C ILE* 3.7 30.3 - - + -
146C VAL* 4.2 12.1 - - + +
227C MET* 3.0 25.2 + - + +
228C GLY* 3.8 5.2 - - - +
230C ALA* 1.3 73.2 - - - +
232C ALA* 1.3 56.0 + - - +
234C PHE* 3.4 2.6 + - - +
235C GLY* 2.8 31.0 + - - -
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Residues in contact with ALA 232 (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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16C LEU* 3.6 12.9 - - + +
19C LEU* 3.9 28.5 - - + -
20C LEU* 4.2 10.7 - - + +
23C GLN* 5.4 1.3 - - - +
228C GLY 3.0 18.2 + - - +
229C GLN* 3.5 8.1 - - - +
230C ALA 3.3 0.2 - - - -
231C ALA* 1.3 74.1 - - - +
233C ARG* 1.3 59.2 + - - +
235C GLY 3.3 0.2 + - - -
236C LEU* 2.9 45.9 + - + +
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Residues in contact with ARG 233 (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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50A PRO* 6.2 0.2 - - - +
148C THR* 3.7 14.1 - - + +
151C ILE* 3.9 13.2 - - - +
152C ILE* 3.9 21.5 - - + +
155C ASN* 4.1 2.8 - - - +
170C GLU* 2.9 42.6 + - - -
229C GLN* 3.1 14.9 + - + +
230C ALA* 3.5 9.6 - - - +
232C ALA* 1.3 75.0 - - - +
234C PHE* 1.3 59.0 + - - +
236C LEU* 4.0 7.2 - - - +
237C SER* 3.0 34.0 + - - +
240C ARG* 5.2 0.2 + - - -
249C VAL 5.1 3.6 + - - -
250C GLU* 3.0 34.2 + - - +
251C CYS 5.8 1.0 - - - +
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Residues in contact with PHE 234 (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 LEU* 4.8 4.3 - - + -
115C GLY* 4.7 2.5 - - - -
144C PHE* 3.6 42.0 - + + -
146C VAL* 3.6 29.2 - - + -
148C THR* 3.4 24.9 - - - +
230C ALA 3.2 9.3 + - - +
231C ALA 3.7 6.1 - - - +
232C ALA 3.2 0.4 - - - -
233C ARG* 1.3 78.1 - - - +
235C GLY* 1.3 63.3 + - - +
237C SER* 3.3 5.5 + - - -
238C LEU* 3.0 48.9 + - + +
250C GLU* 4.0 32.3 - - + -
251C CYS 4.8 1.6 - - - -
252C ALA* 4.0 14.6 - - + -
270C LEU* 4.6 7.0 - - + -
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Residues in contact with GLY 235 (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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3C VAL* 5.9 1.6 - - - -
20C LEU* 5.3 4.3 - - - -
24C LEU* 5.8 0.2 - - - -
72C VAL* 5.0 2.8 - - - +
74C LEU* 4.1 24.7 - - - -
231C ALA 2.8 19.6 + - - -
232C ALA* 3.8 0.7 - - - -
234C PHE* 1.3 73.8 - - - +
236C LEU* 1.3 56.3 + - - +
238C LEU* 3.3 8.7 + - - +
239C VAL* 2.9 35.5 + - - +
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Residues in contact with LEU 236 (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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20C LEU* 4.0 11.4 - - + +
23C GLN* 3.4 55.2 - - + +
24C LEU* 3.8 29.2 - - + -
25C PRO* 4.8 4.0 - - + -
232C ALA* 2.9 32.2 + - + +
233C ARG* 4.0 6.1 - - - +
235C GLY* 1.3 70.3 - - - +
237C SER* 1.3 59.2 + - - +
239C VAL* 3.8 5.0 - - + +
240C ARG* 3.0 40.2 + - - +
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Residues in contact with SER 237 (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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233C ARG* 3.0 13.0 + - - +
234C PHE 3.4 9.6 - - - -
236C LEU* 1.3 73.1 - - - +
238C LEU* 1.4 64.7 + - - +
240C ARG* 3.2 23.1 + - - +
241C ALA* 3.0 24.6 + - - +
248C VAL* 3.5 14.8 - - - +
250C GLU* 2.6 40.8 + - - +
270C LEU* 4.1 2.7 - - - -
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Residues in contact with LEU 238 (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 VAL* 4.2 28.9 - - + -
74C LEU* 4.8 2.7 - - + -
113C CYS* 4.1 20.4 - - + -
115C GLY 5.3 1.1 - - - +
144C PHE* 3.6 37.0 - - + -
234C PHE* 3.0 46.8 + - + +
235C GLY* 3.3 8.0 + - - +
237C SER* 1.4 73.1 - - - +
239C VAL* 1.3 59.0 + - - +
241C ALA* 3.3 3.3 + - + +
242C LEU* 2.9 37.3 + - + +
270C LEU* 4.1 17.9 - - + +
271C GLY 6.1 0.2 - - - +
274C GLY* 4.9 3.6 - - - -
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Residues in contact with VAL 239 (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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1C MET* 4.3 17.2 - - + +
3C VAL* 3.7 29.6 - - + -
24C LEU* 4.0 9.0 - - + -
25C PRO* 4.3 19.3 - - + -
28C SER* 5.3 0.2 - - - +
72C VAL* 4.2 10.8 - - + -
235C GLY 2.9 21.6 + - - +
236C LEU* 3.8 7.6 - - + +
237C SER 3.3 0.2 - - - -
238C LEU* 1.3 73.6 - - - +
240C ARG* 1.3 65.3 + - + +
242C LEU* 3.1 9.3 + - - +
243C GLN* 2.9 45.7 + - - +
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Residues in contact with ARG 240 (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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25C PRO* 6.3 2.2 - - + -
233C ARG 5.2 0.2 + - - -
236C LEU* 3.0 21.3 + - - +
237C SER* 3.2 40.0 + - - +
239C VAL* 1.3 75.8 - - + +
241C ALA* 1.3 61.4 + - - +
243C GLN* 3.3 19.9 + - - +
244C GLY 3.5 0.3 + - - -
245C GLU* 2.7 65.1 + - - +
247C GLY 5.5 1.0 + - - -
248C VAL* 3.5 23.0 - - + +
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Residues in contact with ALA 241 (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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237C SER 3.0 17.4 + - - +
238C LEU* 3.7 4.9 - - + +
240C ARG* 1.3 76.1 - - - +
242C LEU* 1.3 58.2 + - - +
244C GLY* 3.1 18.5 + - - -
245C GLU 4.0 10.2 + - - +
248C VAL* 4.1 7.8 - - + +
270C LEU* 3.6 41.5 - - + +
271C GLY* 3.4 19.1 - - - +
272C LYS* 3.5 2.4 + - - +
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Residues in contact with LEU 242 (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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1C MET* 3.8 29.3 - - + +
71C ASP* 4.1 11.7 - - + +
72C VAL* 3.6 32.3 - - + -
113C CYS* 4.0 23.3 - - - -
142C LYS* 6.3 0.9 - - - -
238C LEU* 2.9 24.1 + - + +
239C VAL 3.6 3.8 - - - +
241C ALA* 1.3 75.4 - - - +
243C GLN* 1.3 60.1 + - - +
244C GLY 3.2 1.3 + - - -
271C GLY 3.7 10.5 - - - +
272C LYS* 3.3 40.9 - - - +
273C ASN* 4.8 0.4 - - - -
274C GLY* 4.2 2.2 - - - +
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Residues in contact with GLN 243 (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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1C MET* 3.0 38.0 - - + +
25C PRO* 4.0 26.8 - - - +
28C SER* 5.0 1.8 + - - -
239C VAL* 2.9 31.3 + - - +
240C ARG* 3.8 13.1 - - - +
241C ALA 3.3 0.4 - - - -
242C LEU* 1.3 75.4 - - - +
244C GLY* 1.3 55.4 + - - +
245C GLU* 3.6 2.0 + - + -
272C LYS* 5.6 0.4 - - - -
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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
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Atomic class I II III IV V VI VII VIII
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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