Contacts of the helix formed by residues 215 - 232 (chain I) 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 I).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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185I ALA* 3.5 32.6 - - + +
188I TYR* 3.3 34.8 - + + +
189I ARG* 3.5 13.9 + - + +
193I ASP* 3.2 40.3 + - + +
198I HIS* 3.3 51.8 + + + +
214I LEU* 1.3 74.9 - - - +
216I GLY* 1.3 66.7 + - - +
217I LEU* 4.2 2.7 - - + +
218I CYS* 2.9 16.9 + - + +
219I THR* 3.4 7.6 + - - -
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Residues in contact with GLY 216 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
89I HIS* 5.7 4.6 + - - +
198I HIS* 4.7 2.8 - - - -
214I LEU 3.4 3.7 + - - -
215I HIS* 1.3 71.8 - - - +
217I LEU* 1.3 62.5 + - - +
218I CYS 3.1 0.5 + - - -
219I THR* 3.3 9.4 + - - -
220I PHE 3.1 17.5 + - - -
246I PHE* 3.2 32.0 - - - -
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Residues in contact with LEU 217 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30I TYR* 4.4 1.9 + - - -
62I VAL* 3.4 24.7 - - + -
63I ILE* 6.3 0.2 - - + -
66I GLN* 3.3 30.1 - - - +
69I MET* 4.6 1.3 - - + -
89I HIS* 3.3 36.7 + - + +
92I GLN* 3.5 23.6 - - + -
142I PHE* 4.5 2.7 - - + -
188I TYR* 3.2 25.6 + - + +
193I ASP* 5.7 1.1 - - - +
215I HIS* 3.2 1.9 - - + +
216I GLY* 1.3 75.8 - - - +
218I CYS* 1.3 57.1 + - - +
220I PHE* 3.2 18.7 - - + +
221I GLY* 2.9 21.0 + - - -
246I PHE* 3.9 6.0 - - + -
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Residues in contact with CYS 218 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33I GLY 3.2 28.0 - - - -
34I VAL* 3.6 1.8 - - - +
184I GLN* 3.9 11.7 - - - -
188I TYR* 3.7 37.5 - - + -
214I LEU* 3.9 13.2 - - + -
215I HIS* 2.9 13.5 + - + +
217I LEU* 1.3 74.4 - - - +
219I THR* 1.3 65.5 + - - +
220I PHE 3.1 1.1 - - - -
221I GLY* 3.0 2.8 + - - -
222I PHE* 3.0 42.6 + - - -
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Residues in contact with THR 219 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
214I LEU* 3.9 11.3 + - - +
215I HIS 3.4 9.8 + - - -
216I GLY* 3.3 9.9 + - - -
218I CYS* 1.3 77.4 - - - +
220I PHE* 1.3 63.3 + - - +
222I PHE* 3.1 4.5 + - - +
223I SER* 3.0 23.7 + - - -
246I PHE* 6.1 0.2 - - - -
250I VAL* 3.9 16.4 - - + +
256I LEU* 3.7 36.3 - - + -
271I THR* 4.0 5.2 - - + -
280I VAL* 3.9 16.8 - - + -
281I ILE* 3.6 19.1 - - + -
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Residues in contact with PHE 220 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30I TYR* 5.1 0.9 - - - -
59I THR* 3.9 16.8 - - + -
62I VAL* 3.6 28.5 - - + -
92I GLN* 3.8 24.2 - - + -
94I LEU* 5.1 0.9 - - + -
216I GLY 3.1 11.5 + - - +
217I LEU* 3.2 25.6 - - + +
219I THR* 1.3 79.5 - - - +
221I GLY* 1.3 58.5 + - - +
223I SER* 3.5 1.5 + - - -
224I ALA* 2.8 33.7 + - + +
242I VAL* 3.2 31.6 - - + -
244I ALA* 3.6 32.3 - - + -
246I PHE* 4.1 11.0 - + + -
269I PHE* 5.4 5.8 - + - -
281I ILE* 3.6 10.9 - - + +
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Residues in contact with GLY 221 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30I TYR* 3.9 10.3 - - - -
34I VAL* 3.2 27.7 - - - +
59I THR* 4.0 9.9 + - - -
217I LEU 2.9 13.7 + - - -
218I CYS 3.0 0.8 + - - -
220I PHE* 1.3 76.4 - - - +
222I PHE* 1.3 55.9 + - - +
224I ALA* 3.7 1.6 - - - +
225I ARG* 2.8 32.2 + - - +
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Residues in contact with PHE 222 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34I VAL* 3.2 24.9 - - - +
35I GLY* 3.4 24.7 - - - -
178I ASP* 3.6 38.6 - - + -
179I THR 4.7 7.9 - - - -
180I THR* 4.4 11.7 - - - -
184I GLN* 3.7 30.5 - - + -
214I LEU* 5.1 0.4 - - + -
218I CYS* 3.0 37.4 + - - -
219I THR* 3.2 8.1 - - - +
221I GLY* 1.3 72.0 - - - +
223I SER* 1.3 67.4 + - - +
225I ARG* 2.9 18.7 + - - +
226I ARG* 2.9 18.4 + - - +
256I LEU* 3.7 21.1 - - + -
258I THR* 5.0 0.9 - - - +
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Residues in contact with SER 223 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
219I THR 3.0 12.9 + - - -
220I PHE 4.0 1.6 - - - -
222I PHE* 1.3 77.1 - - - +
224I ALA* 1.3 65.2 + - - +
226I ARG* 3.0 5.3 + - - +
227I VAL* 2.9 27.1 + - - +
258I THR* 2.8 28.9 + - - +
269I PHE* 3.5 25.8 - - - -
271I THR* 2.6 28.7 + - - +
281I ILE* 5.0 0.9 - - - -
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Residues in contact with ALA 224 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59I THR* 3.4 31.0 - - + +
220I PHE* 2.8 21.7 + - + +
221I GLY 3.7 2.0 - - - +
223I SER* 1.3 76.2 - - - +
225I ARG* 1.3 58.2 + - - +
227I VAL* 3.3 8.8 + - - +
228I LEU* 3.0 27.7 + - - +
239I PHE* 3.8 17.5 - - + -
242I VAL* 5.0 5.4 - - + -
269I PHE* 4.9 8.4 - - + -
286I VAL* 6.0 0.9 - - - -
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Residues in contact with ARG 225 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34I VAL* 2.5 33.3 + - - -
35I GLY* 3.1 25.1 + - - -
36I ALA* 3.6 19.4 - - - +
43I ASP* 4.4 11.8 + - - +
46I PHE* 5.3 5.4 - - + -
57I LEU* 4.0 39.5 - - + -
59I THR* 5.7 0.2 + - - -
178I ASP* 3.2 24.2 + - - -
221I GLY 2.8 17.9 + - - +
222I PHE* 2.9 19.1 + - - +
224I ALA* 1.3 77.4 - - - +
226I ARG* 1.3 72.4 + - - +
228I LEU* 3.3 12.7 - - + +
229I GLN* 3.1 26.4 + - - +
234I ASN* 5.9 0.4 - - - +
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Residues in contact with ARG 226 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
173H ASP* 4.6 4.8 + - - +
176I LEU* 3.2 40.9 - - + +
177I THR 3.0 24.4 + - - +
178I ASP* 2.6 32.3 + - - +
222I PHE 2.9 18.2 + - - +
223I SER* 3.4 9.6 - - - +
225I ARG* 1.3 88.5 - - - +
227I VAL* 1.3 65.4 + - - +
229I GLN* 2.5 41.0 + - - +
230I GLN* 2.8 26.7 + - - +
258I THR* 4.7 7.2 - - - +
260I MET* 4.3 8.3 - - + -
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Residues in contact with VAL 227 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
223I SER 2.9 18.7 + - - +
224I ALA* 3.6 7.6 - - - +
226I ARG* 1.3 75.8 - - - +
228I LEU* 1.3 65.6 + - - +
230I GLN* 4.6 0.2 - - - -
231I PHE* 2.9 24.4 + - + +
232I ALA* 4.0 1.2 + - - +
258I THR* 4.8 1.3 - - + -
260I MET* 3.8 27.1 - - + -
267I ILE* 3.9 23.6 - - + -
269I PHE* 4.3 18.6 - - + -
286I VAL* 3.2 40.8 - - + -
288I LEU* 5.2 3.1 - - + -
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Residues in contact with LEU 228 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46I PHE* 3.9 20.4 - - + -
57I LEU* 3.9 16.6 - - + -
58I PRO* 4.2 11.2 - - + -
224I ALA 3.0 13.6 + - - +
225I ARG* 3.3 11.7 - - + +
227I VAL* 1.3 78.4 - - - +
229I GLN* 1.3 58.0 + - - +
232I ALA* 3.2 28.6 + - + +
234I ASN* 3.2 34.5 + - - +
235I ASP 3.9 30.7 - - - +
236I VAL* 4.1 5.4 - - + +
239I PHE* 4.0 26.0 - - + -
288I LEU* 5.7 0.4 - - - -
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Residues in contact with GLN 229 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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40I ASP* 4.1 18.1 + - - +
42I LYS* 5.6 3.0 - - - +
43I ASP* 4.4 9.9 + - - -
176I LEU* 4.3 1.5 - - + +
225I ARG* 3.1 11.8 + - - +
226I ARG* 2.5 49.9 + - - +
228I LEU* 1.3 79.5 - - - +
230I GLN* 1.3 71.0 + - + +
233I ASP* 4.0 11.7 + - - +
234I ASN* 3.0 34.3 + - - +
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Residues in contact with GLN 230 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
176H LEU* 4.0 1.9 - - - +
230H GLN* 2.9 40.7 + - - +
174I ALA* 3.7 14.1 - - + +
176I LEU* 3.6 28.5 - - + +
226I ARG 2.8 17.5 + - - +
229I GLN* 1.3 83.4 + - - +
231I PHE* 1.3 92.4 + - + +
232I ALA 3.7 0.2 - - - -
233I ASP 4.9 1.0 + - - -
260I MET* 4.2 5.4 - - + -
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Residues in contact with PHE 231 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
173I ASP* 4.6 11.0 - - + -
174I ALA* 4.3 12.1 - - + -
227I VAL 2.9 11.7 + - - +
230I GLN* 1.3 102.3 - - + +
232I ALA* 1.3 59.7 + - - +
233I ASP 3.9 0.7 - - - -
238I ARG* 3.9 9.1 + - - -
260I MET* 3.6 33.2 - - + -
262I LYS* 3.7 33.4 - - + -
267I ILE* 3.6 43.7 - - + -
288I LEU* 3.2 13.8 - - + +
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Residues in contact with ALA 232 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
228I LEU* 3.2 26.1 + - + +
231I PHE* 1.3 80.4 - - - +
233I ASP* 1.3 71.9 + - - +
234I ASN 3.2 1.3 - - - -
235I ASP* 2.9 21.7 + - - +
238I ARG* 3.6 27.9 + - + +
288I LEU* 3.9 24.7 - - + -
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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