Contacts of the helix formed by residues 200 - 214 (chain C) in PDB entry 6XHU
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 ILE 200 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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109C GLY* 3.5 30.7 - - - +
129C ALA* 4.4 5.2 - - + -
130C MET 4.1 4.9 - - - +
131C ARG* 4.0 9.6 - - - +
132C PRO* 3.8 32.1 - - + -
199C THR* 1.3 68.7 - - - +
201C THR* 1.3 64.4 + - - +
202C VAL* 4.1 13.0 - - + -
203C ASN* 3.1 37.5 + - + +
204C VAL* 3.1 14.2 + - - +
240C GLU* 4.4 7.4 - - + -
289C ASP* 2.9 30.8 + - - +
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Residues in contact with THR 201 (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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199C THR 3.2 1.4 + - - -
200C ILE* 1.3 72.0 - - - +
202C VAL* 1.3 67.3 + - - +
204C VAL* 3.1 5.5 + - - +
205C LEU* 3.0 23.2 + - + +
230C PHE* 3.7 36.3 - - + -
239C TYR* 3.4 23.0 - - + +
240C GLU* 2.5 42.6 + - - +
241C PRO 5.4 0.2 - - - -
242C LEU* 3.9 13.7 - - + -
268C LEU* 4.1 7.0 - - + -
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Residues in contact with VAL 202 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
200C ILE* 4.1 11.9 - - + -
201C THR* 1.3 78.5 - - - +
203C ASN* 1.3 71.8 + - - +
205C LEU* 3.4 5.6 + - - +
206C ALA* 3.0 25.6 + - - +
242C LEU* 3.9 8.5 - - + +
246C HIS* 3.9 51.7 + - + +
249C ILE* 5.3 3.6 - - + -
250C LEU* 4.2 15.2 - - + +
293C PRO* 4.0 21.9 - - + +
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Residues in contact with ASN 203 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
109C GLY 3.1 25.9 + - - +
111C THR* 4.7 1.4 - - - +
129C ALA* 5.1 0.2 - - - +
200C ILE* 3.1 21.4 + - - +
202C VAL* 1.3 86.8 - - - +
204C VAL* 1.3 66.9 + - - +
206C ALA* 3.2 2.6 + - - -
207C TRP* 3.0 21.3 + - - +
288C GLU 4.3 2.2 - - - -
289C ASP 2.9 29.4 + - - +
290C GLU* 4.5 2.0 - - - +
291C PHE 3.1 32.4 + - - +
292C THR* 3.5 15.5 - - - +
293C PRO* 3.8 2.9 - - - +
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Residues in contact with VAL 204 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
199C THR* 3.8 16.4 - - + -
200C ILE 3.1 7.9 + - - +
201C THR* 3.1 8.3 + - - +
203C ASN* 1.3 74.1 - - - +
205C LEU* 1.3 63.6 + - - +
207C TRP* 3.1 6.9 + - + +
208C LEU* 2.9 28.1 + - + +
239C TYR* 4.1 10.5 - - + +
268C LEU* 4.1 29.2 - - + -
287C LEU* 4.3 18.6 - - + -
288C GLU 3.5 23.1 - - - +
289C ASP* 3.6 17.0 - - + -
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Residues in contact with LEU 205 (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 THR* 3.0 16.7 + - + +
202C VAL* 3.7 5.8 - - - +
204C VAL* 1.3 77.5 - - - +
206C ALA* 1.3 63.1 + - - +
208C LEU* 3.1 8.2 + - + +
209C TYR* 3.0 29.6 + - + -
242C LEU* 3.7 39.3 - - + -
250C LEU* 3.7 25.8 - - + -
261C VAL* 4.8 1.8 - - + -
264C MET* 3.9 27.1 - - + +
265C CYS* 4.1 21.3 - - - +
268C LEU* 3.9 23.3 - - + -
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Residues in contact with ALA 206 (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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202C VAL 3.0 14.8 + - - +
203C ASN 3.2 8.5 + - - +
205C LEU* 1.3 75.4 - - - +
207C TRP* 1.3 57.1 + - - +
209C TYR* 3.2 5.7 + - - +
210C ALA 2.9 22.0 + - - -
250C LEU* 4.1 9.7 - - + +
253C LEU* 4.2 6.3 - - + -
291C PHE 3.9 0.9 - - - +
292C THR 3.9 3.4 - - - -
293C PRO* 3.7 35.7 - - + -
296C VAL* 3.6 20.6 - - + +
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Residues in contact with TRP 207 (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 PHE* 4.3 5.0 - + - -
203C ASN 3.0 12.4 + - - +
204C VAL* 3.4 9.0 - - + +
206C ALA* 1.3 73.1 - - - +
208C LEU* 1.3 85.8 + - + +
210C ALA* 3.1 8.9 + - - +
211C ALA* 2.9 26.7 + - - +
276C MET* 4.5 2.0 - - + -
281C ILE* 3.1 42.6 - - + -
282C LEU* 3.6 26.9 + - + +
284C SER* 4.0 9.6 - - - -
286C LEU 3.5 16.6 - - - -
287C LEU* 3.8 20.6 - - + -
288C GLU* 3.5 44.7 - - + +
291C PHE* 3.9 32.6 - + + -
296C VAL* 4.4 3.1 - - - +
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Residues in contact with LEU 208 (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 VAL* 2.9 21.8 + - + +
205C LEU* 3.6 13.5 - - + +
207C TRP* 1.3 95.3 - - + +
209C TYR* 1.3 61.1 + - - +
211C ALA* 3.2 7.1 + - - +
212C VAL* 3.0 25.5 + - - +
219C PHE* 3.8 15.1 - - + -
264C MET* 3.9 27.4 - - - +
267C SER 5.5 0.2 - - - -
268C LEU* 4.2 37.0 - - + +
271C LEU* 4.2 9.6 - - + -
281C ILE* 4.0 25.1 - - + -
287C LEU* 4.5 1.8 - - + -
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Residues in contact with TYR 209 (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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205C LEU* 3.0 27.2 + - + -
206C ALA 3.2 7.8 + - - +
208C LEU* 1.3 72.9 - - - +
210C ALA* 1.3 65.6 + - - +
212C VAL* 3.3 4.6 + - + +
213C ILE* 3.0 29.0 + - - +
250C LEU* 4.5 22.2 - - + -
253C LEU* 3.7 43.1 - - + -
254C SER* 4.0 5.9 - - - -
257C THR* 3.3 31.0 - - + +
259C ILE* 2.8 25.1 + - + -
260C ALA 3.6 1.9 + - - -
261C VAL* 3.3 25.7 + - + +
264C MET* 3.8 33.5 - - + +
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Residues in contact with ALA 210 (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 PHE* 3.9 26.5 - - + -
206C ALA 2.9 10.4 + - - +
207C TRP* 3.3 11.7 - - - +
209C TYR* 1.3 75.2 - - - +
211C ALA* 1.3 63.7 + - - +
213C ILE* 3.2 6.7 + - - +
214C ASN* 3.0 29.5 + - - +
282C LEU* 4.0 10.5 - - + -
296C VAL* 3.8 24.6 - - + +
300C CYS* 4.9 0.9 - - - -
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Residues in contact with ALA 211 (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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207C TRP 2.9 11.7 + - - +
208C LEU* 3.2 10.3 + - - +
210C ALA* 1.3 76.2 - - - +
212C VAL* 1.3 63.1 + - - +
214C ASN* 3.1 9.2 + - - +
215C GLY 3.1 0.2 + - - -
216C ASP* 2.9 32.5 + - + +
219C PHE* 4.0 7.6 - - + -
281C ILE* 3.4 32.5 - - + -
282C LEU* 3.6 17.9 - - + +
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Residues in contact with VAL 212 (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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208C LEU 3.0 18.1 + - - +
209C TYR* 3.3 8.5 + - - +
211C ALA* 1.3 75.9 - - - +
213C ILE* 1.3 64.7 + - - +
215C GLY* 3.1 13.2 + - - -
216C ASP 3.4 8.7 - - - +
217C ARG* 4.6 14.4 - - + +
219C PHE* 3.9 16.4 - - + -
220C LEU* 4.1 9.6 - - + -
257C THR* 4.2 18.2 - - + +
259C ILE* 4.0 23.1 - - + -
264C MET* 3.9 18.2 - - + -
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Residues in contact with ILE 213 (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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209C TYR 3.0 19.9 + - - +
210C ALA* 3.2 8.5 + - - +
212C VAL* 1.3 76.9 - - - +
214C ASN* 1.3 67.3 + - - +
215C GLY 3.7 0.9 + - - -
253C LEU* 4.3 16.8 - - + -
256C GLN* 3.4 35.2 - - + +
257C THR* 3.6 20.9 - - + -
296C VAL* 5.0 0.2 - - + -
300C CYS* 4.2 25.1 - - + -
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Residues in contact with ASN 214 (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 SER* 3.8 11.1 - - - -
2C GLY* 2.9 44.0 + - - +
3C PHE* 4.5 7.7 - - - +
210C ALA 3.0 25.2 + - - +
211C ALA 3.1 7.3 + - - +
213C ILE* 1.3 89.7 - - - +
215C GLY* 1.3 57.0 + - - +
216C ASP* 3.5 4.7 + - - +
282C LEU* 4.0 17.5 - - + -
300C CYS* 4.5 10.9 - - - -
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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