Contacts of the helix formed by residues 215 - 231 (chain C) in PDB entry 2R6C
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 215 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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213C SER* 3.7 2.2 - - - +
214C VAL* 1.3 80.4 - - - +
216C LYS* 1.3 63.3 + - - +
217C THR 3.3 2.7 - - - -
218C ALA* 3.4 9.6 + - - -
219C PHE* 2.8 32.9 + - - +
396C LEU* 3.8 5.6 - - - -
431C PHE* 5.1 5.4 - - - -
438C PHE* 3.4 10.6 - - - -
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Residues in contact with LYS 216 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
208C VAL* 4.9 1.6 - - + +
210C ALA* 3.9 32.9 + - + +
211C ARG 5.1 2.0 - - - +
212C PRO* 4.5 10.3 - - - +
213C SER 5.1 2.9 - - - +
214C VAL 5.8 0.4 - - - +
215C GLY* 1.3 78.8 - - - +
217C THR* 1.3 71.7 + - - +
219C PHE* 3.6 1.9 + - - +
220C ALA 3.2 16.8 + - - -
241C GLU* 6.0 1.3 - - - -
320C ASP* 5.1 1.3 - - - -
321C TYR* 4.4 23.3 - - - -
360C LEU* 3.3 41.5 - - + +
361C SER 3.7 20.2 - - - +
362C GLN* 2.8 31.0 + - - -
396C LEU* 3.7 12.0 - - + +
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Residues in contact with THR 217 (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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215C GLY 3.3 0.4 - - - -
216C LYS* 1.3 85.7 - - - +
218C ALA* 1.3 67.4 + - - +
219C PHE 3.0 1.1 - - - -
220C ALA* 2.9 5.5 + - + +
221C LEU* 2.8 44.6 + - + +
239C SER* 6.6 0.4 - - - -
241C GLU* 5.0 6.1 + - - -
242C MET* 4.5 25.4 - - + +
247C LEU* 5.7 1.8 - - + -
250C ARG* 5.9 0.9 - - - -
320C ASP* 4.1 29.0 + - - +
360C LEU* 4.1 7.9 - - + -
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Residues in contact with ALA 218 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
215C GLY* 3.4 11.5 + - - +
217C THR* 1.3 79.3 - - - +
219C PHE* 1.3 59.2 + - - +
221C LEU* 3.5 7.7 + - - -
222C ASN* 2.6 36.9 + - - +
250C ARG* 6.5 1.1 - - - +
431C PHE* 4.3 14.8 - - + -
436C ASN* 3.6 35.0 - - - +
438C PHE* 4.2 2.0 - - + -
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Residues in contact with PHE 219 (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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190C PHE* 4.3 17.0 - + - -
193C LEU* 4.3 15.3 - - + -
200C PHE* 5.4 2.0 - + - -
208C VAL* 3.8 43.3 - - + -
215C GLY 2.8 20.9 + - - +
216C LYS 3.7 3.1 - - - +
218C ALA* 1.3 70.5 - - - +
220C ALA* 1.3 67.7 + - + +
222C ASN* 3.4 4.2 + - - +
223C ILE* 3.2 50.8 + - + +
394C ALA* 5.4 1.1 - - + -
396C LEU* 3.5 18.4 - - + -
414C ILE* 3.8 34.3 - - + -
438C PHE* 3.5 22.8 - + + -
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Residues in contact with ALA 220 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
216C LYS 3.2 3.3 + - - +
217C THR* 2.9 10.5 + - + +
219C PHE* 1.3 77.3 - - + +
221C LEU* 1.3 62.0 + - + +
223C ILE* 3.0 15.7 + - - +
224C ALA* 2.8 28.6 + - - +
318C VAL* 3.7 24.2 - - + +
358C ILE* 4.9 5.6 - - + -
360C LEU* 3.6 32.3 - - + -
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Residues in contact with LEU 221 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
217C THR* 2.8 37.2 + - + +
218C ALA* 3.6 8.7 - - - +
220C ALA* 1.3 77.1 - - + +
222C ASN* 1.3 58.3 + - - +
224C ALA* 3.2 6.1 + - + +
225C GLN* 2.7 37.0 + - - +
237C ILE* 4.1 20.4 - - + -
242C MET* 5.4 0.2 - - - -
247C LEU* 3.9 54.3 - - + +
250C ARG* 4.1 23.8 - - + +
251C MET* 4.7 10.6 - - + +
318C VAL* 6.0 1.6 - - + -
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Residues in contact with ASN 222 (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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190C PHE* 4.2 17.3 - - + -
218C ALA* 2.6 30.1 + - - +
219C PHE* 3.8 5.4 - - - +
220C ALA 3.3 0.2 - - - -
221C LEU* 1.3 79.6 - - - +
223C ILE* 1.3 58.6 + - - +
225C GLN* 3.5 9.3 - - - +
226C ASN* 2.6 41.7 + - - +
250C ARG 5.0 2.0 + - - -
254C ALA* 4.2 15.9 - - - +
436C ASN 3.7 8.6 + - - +
437C LYS* 3.5 10.7 - - - +
438C PHE* 3.0 32.1 + - + +
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Residues in contact with ILE 223 (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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188C THR* 4.4 17.9 - - - +
190C PHE* 4.6 3.6 - - + -
193C LEU* 5.2 0.9 - - + -
200C PHE* 4.0 28.5 - - + -
208C VAL* 5.8 0.2 - - + -
219C PHE* 3.2 54.4 + - + +
220C ALA* 3.0 12.6 + - - +
222C ASN* 1.3 74.8 - - - +
224C ALA* 1.3 63.6 + - - +
225C GLN 3.0 0.7 + - - -
226C ASN* 3.0 6.8 + - - +
227C VAL* 3.0 32.6 + - + +
316C MET* 3.8 26.0 - - + -
358C ILE* 4.1 12.8 - - + -
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Residues in contact with ALA 224 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
220C ALA 2.8 12.3 + - - +
221C LEU* 3.3 10.3 - - - +
223C ILE* 1.3 75.5 - - - +
225C GLN* 1.3 57.5 + - - +
227C VAL 3.7 0.2 + - - -
228C ALA* 3.1 28.6 + - - +
235C VAL* 3.6 16.1 - - + +
237C ILE* 3.6 33.0 - - + -
251C MET* 5.8 0.7 - - - -
288C ILE* 5.0 1.6 - - + -
316C MET* 3.8 14.3 - - - +
318C VAL* 4.4 9.2 - - + -
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Residues in contact with GLN 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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221C LEU 2.7 17.3 + - - +
222C ASN* 3.5 14.1 - - - +
224C ALA* 1.3 74.5 - - - +
226C ASN* 1.3 60.4 + - - +
228C ALA* 3.1 1.2 + - - -
229C THR* 2.7 42.9 + - + +
251C MET* 3.1 46.1 + - + +
254C ALA* 3.6 25.4 + - - +
255C GLU* 3.0 23.8 - - - +
283C LEU* 3.9 17.9 - - + -
288C ILE* 4.6 7.0 - - + -
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Residues in contact with ASN 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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187C PRO 4.5 2.4 - - - +
188C THR 3.8 11.8 - - - +
189C GLY* 4.0 26.2 - - - +
190C PHE* 3.8 15.3 - - - -
222C ASN* 2.6 29.4 + - - +
223C ILE 3.8 2.2 - - - +
225C GLN* 1.3 79.4 + - - +
227C VAL* 1.3 57.9 + - - +
229C THR* 3.8 5.0 + - - -
230C LYS* 2.9 63.2 + - + +
231C THR 3.8 0.5 + - - -
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Residues in contact with VAL 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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186C ILE* 3.6 33.2 - - + +
187C PRO* 4.6 3.6 - - - +
188C THR* 4.3 13.0 - - - +
223C ILE* 3.0 23.9 + - + +
226C ASN* 1.3 76.7 - - - +
228C ALA* 1.3 60.4 + - - +
231C THR* 2.4 45.6 + - + +
233C GLU* 4.3 8.3 - - + +
235C VAL* 3.7 25.1 - - + -
316C MET* 3.6 20.0 - - + +
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Residues in contact with ALA 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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224C ALA 3.1 19.4 + - - +
225C GLN 3.1 2.7 + - - +
227C VAL* 1.3 78.8 - - - +
229C THR* 1.3 60.5 + - - +
231C THR 4.4 1.9 + - - -
232C ASN* 4.6 7.6 + - - -
233C GLU 4.0 10.3 + - - +
235C VAL* 4.3 4.0 - - + -
286C ALA* 3.8 9.1 - - + -
287C GLY 3.6 32.4 + - - +
288C ILE* 3.6 21.3 - - + -
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Residues in contact with THR 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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225C GLN* 2.7 33.8 + - + +
226C ASN* 3.8 6.1 + - - -
228C ALA* 1.3 73.5 - - - +
230C LYS* 1.3 68.8 + - - +
231C THR 5.3 0.2 - - - +
255C GLU* 4.2 16.4 + - - +
282C SER* 4.1 13.7 - - - +
283C LEU* 3.8 22.9 - - + -
286C ALA* 3.8 21.3 - - + +
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Residues in contact with LYS 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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187C PRO 6.1 0.2 - - - +
189C GLY* 5.0 13.3 + - - -
226C ASN* 2.9 49.0 + - + +
229C THR* 1.3 85.6 - - - +
231C THR* 1.3 65.0 + - - +
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Residues in contact with THR 231 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
186C ILE* 5.1 3.3 - - + +
187C PRO* 5.2 14.7 - - - +
226C ASN 3.8 0.2 + - - -
227C VAL* 2.4 45.3 + - + +
228C ALA 4.9 1.6 - - - -
229C THR 5.3 0.8 - - - +
230C LYS* 1.3 81.5 - - - +
232C ASN* 1.3 76.9 + - - +
233C GLU* 3.5 30.0 + - + +
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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
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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