Contacts of the helix formed by residues 231 - 245 (chain C) in PDB entry 4KEU
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 PRO 231 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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227C ASP* 3.4 24.2 - - + +
230C LEU* 1.3 102.5 - - + +
232C VAL* 1.3 66.6 + - - +
233C ASP* 3.3 20.1 + - - +
234C LYS* 3.4 9.2 + - + +
235C ARG* 3.1 18.5 + - - +
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Residues in contact with VAL 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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224C TYR* 4.3 11.9 - - + -
225C GLY* 4.2 9.0 - - - +
227C ASP* 3.2 18.6 + - - +
230C LEU 3.8 0.2 + - - -
231C PRO* 1.3 71.4 - - - +
233C ASP* 1.3 57.8 + - - +
235C ARG* 3.2 10.6 + - - +
236C ASN* 2.8 41.3 + - - +
277C ARG* 4.2 16.6 - - + +
282C LEU* 4.0 22.7 - - + -
286C ASP* 3.5 28.9 - - + +
287C THR* 4.6 0.9 - - - +
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Residues in contact with ASP 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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231C PRO* 3.3 19.8 - - - +
232C VAL* 1.3 79.4 - - - +
234C LYS* 1.3 84.3 + - - +
236C ASN* 3.5 9.0 + - - +
237C GLU* 2.9 40.0 + - - +
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Residues in contact with LYS 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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204C ASP* 5.2 12.5 + - + +
230C LEU* 3.9 30.7 - - + -
231C PRO* 3.4 9.6 + - + +
233C ASP* 1.3 92.7 + - - +
235C ARG* 1.3 64.5 - - - +
237C GLU* 3.4 30.4 + - + +
238C THR* 3.1 26.5 + - - -
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Residues in contact with ARG 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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201C GLY* 3.3 38.9 + - - +
202C ASP* 2.5 30.8 + - - +
221C LEU 4.8 1.4 - - - -
222C ASP 4.6 1.4 - - - +
223C ARG* 3.2 47.2 + - - +
224C TYR* 3.5 31.2 - - + +
225C GLY 4.7 1.1 - - - +
226C LEU 3.7 13.7 + - - -
229C PHE* 3.7 5.9 - - - +
230C LEU* 2.8 26.1 + - + +
231C PRO 3.1 12.4 + - - +
232C VAL* 3.4 8.1 - - - +
234C LYS* 1.3 75.0 - - - +
236C ASN* 1.3 67.1 + - - +
238C THR* 3.1 7.3 + - - -
239C THR* 2.9 25.7 + - - +
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Residues in contact with ASN 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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224C TYR* 2.8 30.6 + - - -
232C VAL* 2.8 25.5 + - - +
233C ASP* 3.8 8.5 - - - +
235C ARG* 1.3 76.8 - - - +
237C GLU* 1.3 56.2 + - - +
239C THR* 3.7 1.7 - - - -
240C LEU* 2.9 32.6 + - - +
286C ASP* 2.9 28.1 + - - -
287C THR* 3.3 11.4 + - - +
290C PHE* 3.4 37.8 - - + -
291C LEU* 4.5 0.3 - - - +
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Residues in contact with GLU 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 ASP* 2.9 31.8 + - + +
234C LYS* 3.7 33.8 - - + +
235C ARG 3.1 0.4 - - - -
236C ASN* 1.3 77.6 - - - +
238C THR* 1.3 57.0 + - - +
240C LEU* 3.8 5.2 - - - +
241C ARG* 3.0 30.9 + - - +
290C PHE* 4.8 10.5 - - + -
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Residues in contact with THR 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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201C GLY* 5.9 2.7 - - - -
203C THR 4.0 7.3 + - - +
204C ASP* 3.6 24.6 + - - +
206C ILE* 3.3 26.7 - - + -
209C ILE* 3.8 22.0 - - + -
221C LEU* 5.3 4.0 - - + -
230C LEU* 4.9 0.7 - - - +
234C LYS 3.1 14.7 + - - -
235C ARG* 3.1 9.1 + - - -
237C GLU* 1.3 74.3 - - - +
239C THR* 1.3 60.1 + - - +
241C ARG* 3.2 6.4 + - - +
242C LEU* 2.8 40.9 + - + +
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Residues in contact with THR 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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221C LEU* 3.7 28.5 - - + +
224C TYR* 2.6 28.7 + - - +
235C ARG* 2.9 9.7 + - - +
236C ASN* 3.7 3.4 - - - -
238C THR* 1.3 75.9 - - - +
240C LEU* 1.3 63.0 + - - +
242C LEU* 3.2 4.0 + - - +
243C ILE* 2.9 42.8 + - + +
251C ILE* 4.3 2.0 - - + +
253C ILE* 3.9 27.4 - - + -
291C LEU* 4.2 10.3 - - + -
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Residues in contact with LEU 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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236C ASN 2.9 18.1 + - - +
237C GLU* 3.8 4.7 - - - +
239C THR* 1.3 75.5 - - - +
241C ARG* 1.3 62.7 + - - +
243C ILE* 3.3 5.0 + - - +
244C LYS* 3.0 48.4 + - + +
290C PHE* 3.9 20.2 - - + -
291C LEU* 4.0 11.4 - - + +
294C ASN* 3.8 31.9 - - + +
296C VAL* 3.7 28.9 - - + -
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Residues in contact with ARG 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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206C ILE* 4.2 27.0 - - + +
210C LYS* 3.9 9.5 - - - +
237C GLU 3.0 19.3 + - - +
238C THR* 3.5 7.0 - - - +
240C LEU* 1.3 75.5 - - - +
242C LEU* 1.3 59.1 + - - +
244C LYS* 3.3 8.1 + - - +
245C ASP* 2.8 61.6 + - - +
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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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206C ILE* 3.0 34.3 - - + -
209C ILE* 3.9 27.1 - - + -
210C LYS* 3.9 23.1 - - + +
219C ILE* 4.3 6.3 - - + -
221C LEU* 3.9 22.0 - - + -
238C THR* 2.8 34.3 + - + +
239C THR 3.6 3.8 - - - +
241C ARG* 1.3 73.5 - - - +
243C ILE* 1.3 61.7 + - - +
245C ASP* 3.4 4.2 + - - +
246C GLY 3.2 5.5 + - - -
247C TYR* 2.9 37.4 + - + +
251C ILE* 3.8 10.8 - - + -
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Residues in contact with ILE 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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239C THR* 2.9 30.2 + - + +
240C LEU* 3.6 7.9 - - - +
241C ARG 3.2 0.2 - - - -
242C LEU* 1.3 78.1 - - - +
244C LYS* 1.3 62.3 + - + +
246C GLY* 2.9 20.4 + - - -
247C TYR 4.0 1.7 + - - +
248C SER* 3.6 25.1 + - - +
251C ILE* 3.9 13.0 - - + -
291C LEU* 4.1 20.0 - - + -
296C VAL* 4.2 20.0 - - + -
300C VAL* 4.1 17.3 - - + -
304C ILE* 3.9 22.7 - - + -
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Residues in contact with LYS 244 (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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240C LEU* 3.0 38.2 + - + +
241C ARG* 3.3 8.5 + - - +
243C ILE* 1.3 78.9 - - + +
245C ASP* 1.3 63.4 + - - +
246C GLY* 3.1 4.1 + - - -
294C ASN 3.2 21.9 + - - -
295C GLY* 3.1 30.3 + - - -
296C VAL* 4.1 4.7 - - - +
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Residues in contact with ASP 245 (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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210C LYS* 2.6 40.5 + - - +
241C ARG* 2.8 48.4 + - - +
242C LEU 3.7 5.2 - - - +
243C ILE 3.2 0.6 - - - -
244C LYS* 1.3 80.6 - - - +
246C GLY* 1.4 59.4 + - - +
247C TYR* 3.6 13.1 - - + -
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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
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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