Contacts of the helix formed by residues 215 - 232 (chain C) in PDB entry 1S9C
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 HIS 215 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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185C ALA* 3.7 29.5 - - + +
188C TYR* 3.4 33.6 - + + +
189C ARG* 3.6 13.5 - - + +
193C ASP* 3.2 43.5 + - + +
195C ASN 5.2 0.2 + - - -
198C HIS* 3.3 51.2 + + + +
214C LEU* 1.3 75.7 - - - +
216C GLY* 1.3 65.4 + - - +
217C LEU* 4.2 2.7 - - + +
218C CYS* 2.8 18.1 + - + +
219C THR* 3.4 6.9 + - - -
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Residues in contact with GLY 216 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
89C HIS* 6.0 1.8 - - - -
198C HIS* 4.8 2.6 - - - -
214C LEU 3.4 4.5 + - - -
215C HIS* 1.3 73.4 - - - +
217C LEU* 1.3 60.9 + - - +
218C CYS 3.2 0.2 + - - -
219C THR* 3.3 9.2 + - - -
220C PHE 3.1 17.3 + - - -
246C PHE* 3.3 31.4 - - - -
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Residues in contact with LEU 217 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30C TYR* 4.4 2.8 + - - +
62C VAL* 3.3 36.8 - - + -
66C GLN* 3.3 27.6 - - - +
69C MET* 5.5 1.6 - - + -
89C HIS* 3.6 36.3 + - + +
92C GLN* 3.8 14.4 - - + -
142C PHE* 4.7 3.4 - - + -
188C TYR* 3.3 24.6 + - + +
193C ASP* 5.8 0.7 - - - +
215C HIS* 3.1 2.5 - - + +
216C GLY* 1.3 75.1 - - - +
218C CYS* 1.3 57.6 + - - +
220C PHE* 3.3 16.9 - - + +
221C GLY* 3.0 21.3 + - - -
246C PHE* 3.9 7.8 - - + -
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Residues in contact with CYS 218 (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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33C GLY 3.3 26.7 - - - -
34C VAL* 3.7 2.0 - - - +
184C GLN* 4.0 11.7 - - - -
188C TYR* 3.7 35.9 - - + -
214C LEU* 4.0 13.5 - - + -
215C HIS* 2.8 12.9 + - + +
217C LEU* 1.3 75.5 - - - +
219C THR* 1.3 66.9 + - - +
220C PHE 3.1 0.9 - - - -
221C GLY* 3.0 2.3 + - - -
222C PHE* 3.0 44.0 + - - -
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Residues in contact with THR 219 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
214C LEU* 3.9 12.0 + - - +
215C HIS 3.4 8.9 + - - -
216C GLY* 3.3 10.2 + - - -
218C CYS* 1.3 77.8 - - - +
220C PHE* 1.3 63.2 + - - +
222C PHE* 3.1 4.1 + - - +
223C SER* 3.0 24.3 + - - -
250C VAL* 3.9 15.6 - - + +
256C LEU* 3.8 37.9 - - + -
271C THR* 4.1 4.9 - - + -
280C VAL* 3.9 16.4 - - + -
281C ILE* 3.7 18.2 - - + -
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Residues in contact with PHE 220 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30C TYR* 5.1 0.7 - - - -
59C THR* 3.5 25.4 - - + -
62C VAL* 3.7 19.7 - - + -
92C GLN* 4.0 19.7 - - + -
94C LEU* 5.2 0.9 - - + -
216C GLY 3.1 11.7 + - - +
217C LEU* 3.3 27.1 - - + +
219C THR* 1.3 80.1 - - - +
221C GLY* 1.3 63.7 + - - +
223C SER* 3.4 1.5 + - - -
224C ALA* 2.9 27.2 + - + +
242C VAL* 3.1 34.8 - - + -
244C ALA* 3.6 31.9 - - + -
246C PHE* 4.0 12.3 - + + -
269C PHE* 5.3 6.0 - + - -
281C ILE* 3.7 9.8 - - + +
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Residues in contact with GLY 221 (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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30C TYR* 4.0 9.4 - - - -
34C VAL* 3.3 28.0 - - - +
59C THR* 4.0 9.4 + - - -
217C LEU 3.0 14.1 + - - -
218C CYS 3.0 0.8 + - - -
220C PHE* 1.3 75.7 - - - +
222C PHE* 1.3 52.6 + - - +
224C ALA* 3.7 1.4 - - - +
225C ARG* 2.7 37.2 + - - +
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Residues in contact with PHE 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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34C VAL 3.2 17.9 + - - -
35C GLY* 3.6 22.2 - - - -
178C ASP* 3.6 39.0 - - + -
179C THR 4.9 6.1 - - - -
180C THR* 4.5 10.1 - - - -
184C GLN* 3.7 25.8 - - + -
214C LEU* 5.1 1.3 - - + -
218C CYS* 3.0 43.8 + - - -
219C THR* 3.1 8.7 + - - +
221C GLY* 1.3 73.9 - - - +
223C SER* 1.3 65.8 + - - +
225C ARG* 2.9 25.5 + - - +
226C ARG* 3.0 18.2 + - - +
256C LEU* 3.7 23.6 - - + -
258C THR* 5.0 0.9 - - - +
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Residues in contact with SER 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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219C THR 3.0 10.1 + - - -
220C PHE 4.0 1.6 - - - -
222C PHE* 1.3 79.6 - - - +
224C ALA* 1.3 64.0 + - - +
226C ARG* 3.1 3.5 + - - +
227C VAL* 2.9 28.4 + - - +
256C LEU* 5.5 0.2 - - - +
258C THR* 2.8 28.0 + - - +
269C PHE* 3.5 25.8 - - - -
271C THR* 2.7 28.8 + - - +
281C ILE* 4.9 0.7 - - - -
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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
----------------------------------------------------------
59C THR* 3.6 29.8 - - + -
220C PHE* 2.9 21.9 + - + +
221C GLY 3.7 1.6 - - - +
223C SER* 1.3 77.5 - - - +
225C ARG* 1.3 62.4 + - - +
227C VAL* 3.3 9.2 + - - +
228C LEU* 3.0 22.5 + - - +
239C PHE* 3.9 17.3 - - + -
242C VAL* 5.1 6.1 - - + -
269C PHE* 4.9 8.0 - - + -
286C VAL* 6.0 0.7 - - - -
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Residues in contact with ARG 225 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34C VAL* 2.6 34.4 + - + -
35C GLY* 3.1 24.8 + - - -
36C ALA* 3.6 20.7 - - - +
43C ASP* 4.4 12.7 + - - +
46C PHE* 5.4 4.7 - - + -
57C LEU* 4.1 34.5 - - + -
178C ASP* 3.3 23.2 + - - -
221C GLY 2.7 21.9 + - - +
222C PHE* 2.9 18.4 + - - +
224C ALA* 1.3 73.6 - - - +
226C ARG* 1.3 73.4 + - - +
228C LEU* 3.4 11.6 - - + +
229C GLN* 3.2 26.1 + - - +
234C ASN* 4.6 0.8 + - - +
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Residues in contact with ARG 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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176C LEU* 3.3 41.2 - - + +
177C THR 3.0 25.1 + - - +
178C ASP* 2.6 28.7 + - - +
222C PHE 3.0 18.6 + - - +
223C SER* 3.5 9.9 - - - +
225C ARG* 1.3 89.1 - - - +
227C VAL* 1.3 67.3 + - - +
229C GLN* 2.5 40.1 + - - +
230C GLN* 2.8 27.5 + - - +
258C THR* 4.6 7.4 - - - +
260C MET* 4.3 7.2 - - + -
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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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223C SER 2.9 19.9 + - - +
224C ALA* 3.6 8.1 - - - +
226C ARG* 1.3 75.2 - - - +
228C LEU* 1.3 60.5 + - - +
231C PHE* 2.9 30.6 + - + +
232C ALA* 3.9 1.0 + - - +
258C THR* 4.9 0.9 - - + -
260C MET* 3.8 27.3 - - + -
267C ILE* 3.9 23.8 - - + -
269C PHE* 4.2 18.8 - - + -
286C VAL* 3.2 41.1 - - + -
288C LEU* 5.2 3.1 - - + -
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Residues in contact with LEU 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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46C PHE* 3.8 29.8 - - + -
57C LEU* 4.0 16.2 - - + -
58C PRO* 4.4 10.8 - - + -
224C ALA 3.0 13.0 + - - +
225C ARG* 3.4 12.1 - - + +
226C ARG 3.1 0.2 - - - -
227C VAL* 1.3 78.9 - - - +
229C GLN* 1.3 57.3 + - - +
232C ALA* 3.1 29.2 + - + +
234C ASN* 3.1 25.3 + - - +
235C ASP 3.9 32.3 - - - +
236C VAL* 4.1 5.4 - - + +
239C PHE* 4.0 25.3 - - + -
288C LEU* 5.6 0.4 - - - -
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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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40C ASP* 3.9 19.5 + - - +
42C LYS* 5.7 2.4 - - + +
43C ASP* 4.3 9.1 + - - -
176C LEU* 4.4 1.4 - - + +
225C ARG* 3.2 11.8 + - - +
226C ARG* 2.5 49.2 + - - +
228C LEU* 1.3 80.5 - - - +
230C GLN* 1.3 70.8 + - + +
233C ASP* 4.0 11.6 + - - +
234C ASN* 2.9 34.1 + - - +
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Residues in contact with GLN 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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174C ALA* 3.7 13.4 - - + +
176C LEU* 3.6 35.2 - - + +
226C ARG 2.8 20.1 + - - +
229C GLN* 1.3 80.2 + - - +
231C PHE* 1.3 91.8 + - + +
232C ALA 3.7 0.4 - - - -
233C ASP 5.0 0.6 + - - -
260C MET* 4.2 7.9 - - + -
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Residues in contact with PHE 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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173C ASP* 4.7 10.5 - - + -
174C ALA* 4.4 12.6 - - + -
227C VAL 2.9 12.3 + - - +
230C GLN* 1.3 104.3 - - + +
232C ALA* 1.3 60.6 + - - +
233C ASP* 3.8 0.9 - - - -
238C ARG* 3.9 9.2 + - - -
260C MET* 3.6 33.2 - - + -
262C LYS* 3.7 32.5 - - + -
267C ILE* 3.6 42.4 - - + -
288C LEU* 3.1 12.5 - - + +
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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
----------------------------------------------------------
227C VAL 3.9 0.2 + - - -
228C LEU* 3.1 24.1 + - + +
231C PHE* 1.3 80.9 - - - +
233C ASP* 1.3 72.7 + - - +
234C ASN 3.2 1.1 - - - -
235C ASP* 2.8 21.5 + - - +
238C ARG* 3.5 26.3 + - + +
288C LEU* 3.8 25.8 - - + -
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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