Contacts of the helix formed by residues 215 - 234 (chain A) in PDB entry 3HOS
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 ASN 215 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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213A THR* 4.4 15.7 - - + +
214A VAL* 1.3 80.2 - - - +
216A ALA* 1.3 72.5 + - - +
217A ALA* 2.5 18.7 - - + +
218A ARG* 2.5 59.1 + - - +
219A TYR 3.0 6.5 + - - -
253A SER* 4.7 2.5 - - - -
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Residues in contact with ALA 216 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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215A ASN* 1.3 74.5 - - - +
217A ALA* 1.3 70.0 + - - +
219A TYR* 3.1 3.1 + - - +
220A GLN* 3.1 23.3 + - - +
253A SER* 4.3 16.6 - - - +
256A ALA* 4.3 22.9 - - + -
258A ALA* 4.5 15.3 - - + -
259A VAL* 3.9 6.9 - - + +
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Residues in contact with ALA 217 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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215A ASN* 2.5 22.9 + - + +
216A ALA* 1.3 83.5 - - - +
218A ARG* 1.3 61.5 + - - +
220A GLN* 2.7 29.0 + - - +
221A GLN* 3.3 3.9 + - - -
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Residues in contact with ARG 218 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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206A GLU* 5.1 4.7 + - - -
208A LEU* 4.3 8.9 - - - +
212A GLU* 3.5 38.8 + - - +
213A THR* 3.7 23.8 + - - +
214A VAL* 3.7 21.3 - - + -
215A ASN* 2.5 36.3 + - - +
217A ALA* 1.3 71.5 - - - +
219A TYR* 1.3 64.3 + - - +
221A GLN* 3.0 14.4 + - - +
222A GLN* 2.8 35.0 + - - +
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Residues in contact with TYR 219 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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155A GLY 5.2 0.2 + - - -
157A GLU* 4.4 7.0 - - - -
196A TRP* 3.8 26.0 + + - -
214A VAL* 4.9 11.2 - - + -
215A ASN 3.0 6.7 + - - +
216A ALA* 3.6 7.6 - - - +
217A ALA 2.9 2.0 + - - -
218A ARG* 1.3 72.9 - - - +
220A GLN* 1.3 58.8 + - - +
222A GLN* 2.6 23.7 + - + +
223A LEU* 2.5 70.8 + - + +
246A PHE* 3.3 16.2 - + - -
248A HIS* 3.0 30.5 + + - +
253A SER* 3.6 21.8 - - - +
254A HIS* 3.1 33.8 + + - -
259A VAL* 4.0 6.7 - - + -
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Residues in contact with GLN 220 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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216A ALA* 3.1 17.9 + - - +
217A ALA* 2.7 21.6 + - - +
219A TYR* 1.3 77.4 - - - +
221A GLN* 1.3 62.5 + - - +
223A LEU* 2.8 13.5 + - - +
224A ILE* 2.9 21.6 + - + +
258A ALA* 3.8 22.6 - - - +
259A VAL* 3.1 21.5 - - + +
262A THR* 2.4 38.8 + - + +
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Residues in contact with GLN 221 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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206A GLU* 6.0 0.4 - - - +
217A ALA 3.3 3.0 + - - +
218A ARG* 3.0 20.3 + - + +
220A GLN* 1.3 79.4 - - - +
222A GLN* 1.3 50.0 + - + +
224A ILE* 3.3 19.6 - - - +
225A ASN* 2.4 64.1 + - - +
228A ARG* 6.1 0.8 - - - +
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Residues in contact with GLN 222 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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157A GLU* 4.9 1.2 - - - +
194A CYS* 4.0 15.8 - - - +
196A TRP* 3.7 19.4 - - + -
204A TYR* 4.6 0.6 - - - -
206A GLU* 3.0 36.8 + - - +
208A LEU* 3.6 24.4 - - - +
214A VAL* 4.3 8.5 - - - +
218A ARG* 2.8 28.4 + - + +
219A TYR* 2.6 33.8 + - + +
221A GLN* 1.3 67.2 - - + +
223A LEU* 1.3 69.0 + - - +
224A ILE 2.6 3.4 + - - -
225A ASN* 2.9 11.5 + - - +
226A LEU* 2.8 24.1 + - - +
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Residues in contact with LEU 223 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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196A TRP* 5.5 1.1 - - - +
219A TYR* 2.5 50.7 + - + +
220A GLN* 3.2 9.2 - - - +
222A GLN* 1.3 71.5 - - - +
224A ILE* 1.3 57.5 + - + +
226A LEU* 2.8 29.0 - - + +
227A ASN* 3.1 8.0 + - - +
246A PHE* 3.5 33.9 - - + -
259A VAL* 3.4 24.2 - - + -
262A THR* 5.1 8.3 - - + +
263A LEU* 3.6 16.6 - - + -
266A LEU* 6.1 1.6 - - + -
268A TRP* 3.6 28.2 - - + -
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Residues in contact with ILE 224 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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220A GLN* 2.9 26.0 + - + +
221A GLN* 3.3 22.2 - - - +
222A GLN 2.6 4.4 + - - -
223A LEU* 1.3 69.8 - - - +
225A ASN* 1.3 74.9 + - - +
226A LEU 2.9 1.1 - - - -
227A ASN* 2.8 18.0 + - + +
228A ARG* 3.1 20.5 + - + +
262A THR* 4.4 19.5 - - + +
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Residues in contact with ASN 225 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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204A TYR* 3.7 22.2 + - + +
206A GLU* 3.6 14.1 + - - -
221A GLN* 2.4 57.4 + - - +
222A GLN* 2.9 12.1 + - - +
224A ILE* 1.3 77.0 - - - +
226A LEU* 1.3 67.3 + - - +
228A ARG* 3.1 20.8 + - - +
229A ALA* 3.0 18.8 + - - +
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Residues in contact with LEU 226 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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153A VAL* 5.3 4.3 - - + -
196A TRP* 3.6 40.8 - - + -
203A ILE* 3.9 25.4 - - + -
204A TYR* 3.8 23.7 - - + -
222A GLN 2.8 11.9 + - - +
223A LEU* 2.8 18.8 - - - +
225A ASN* 1.3 77.8 - - - +
227A ASN* 1.3 69.2 + - - +
229A ALA* 2.8 3.1 + - - +
230A LEU* 2.6 30.4 + - + -
246A PHE* 3.7 23.3 - - + -
268A TRP* 3.7 10.5 - - + -
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Residues in contact with ASN 227 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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223A LEU 3.1 7.3 + - - +
224A ILE* 2.8 17.0 + - + +
226A LEU* 1.3 72.8 - - - +
228A ARG* 1.3 69.7 + - - +
230A LEU* 2.5 21.6 + - - +
231A GLN* 2.6 53.3 + - - +
266A LEU* 3.0 31.7 - - + +
268A TRP* 3.7 21.2 + - + +
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Residues in contact with ARG 228 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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221A GLN* 6.1 0.6 - - - +
224A ILE* 3.1 17.5 + - + +
225A ASN* 3.1 22.8 + - - +
227A ASN* 1.3 81.8 - - - +
229A ALA* 1.3 69.0 + - - +
231A GLN* 2.9 14.8 + - - +
232A ARG* 3.2 19.0 + - + +
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Residues in contact with ALA 229 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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203A ILE* 4.2 7.2 - - - +
204A TYR* 3.8 32.8 - - + -
225A ASN 3.0 6.4 + - - +
226A LEU 2.8 11.2 + - - +
228A ARG* 1.3 79.2 - - - +
230A LEU* 1.3 69.5 + - - +
231A GLN 2.9 0.3 + - - -
232A ARG* 3.0 34.0 + - - +
233A LYS* 3.2 8.1 + - - +
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Residues in contact with LEU 230 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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153A VAL* 5.1 13.0 - - + -
203A ILE* 3.7 25.4 - - + -
226A LEU* 2.6 19.2 + - + +
227A ASN* 2.5 20.5 + - - +
229A ALA* 1.3 73.2 - - - +
231A GLN* 1.3 66.7 + - - +
233A LYS* 3.1 1.1 + - - +
234A ARG* 2.5 58.7 + - + +
237A TYR* 3.6 22.0 - - + -
244A VAL* 4.6 11.4 - - + -
268A TRP* 3.9 26.2 - - + +
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Residues in contact with GLN 231 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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227A ASN* 2.6 45.8 + - - +
228A ARG* 3.5 7.6 - - - +
230A LEU* 1.3 93.4 - - - +
232A ARG* 1.3 58.9 + - - +
233A LYS 3.0 5.9 + - - -
234A ARG 3.2 19.2 + - - +
235A PRO* 4.2 2.4 - - - +
237A TYR* 3.9 20.2 + - - +
268A TRP* 5.6 1.6 - - - +
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Residues in contact with ARG 232 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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228A ARG* 3.2 13.1 + - + +
229A ALA* 3.0 33.6 + - - +
231A GLN* 1.3 75.9 - - - +
233A LYS* 1.3 70.9 + - - +
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Residues in contact with LYS 233 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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202A VAL 5.5 6.3 + - - +
203A ILE* 5.4 13.0 - - + +
229A ALA 3.2 12.3 + - - +
230A LEU* 3.1 3.2 + - - +
231A GLN 4.0 0.2 - - - -
232A ARG* 1.3 97.7 - - + +
234A ARG* 1.3 86.8 + - + +
235A PRO* 3.3 12.1 - - - +
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Residues in contact with ARG 234 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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198A ASP* 2.8 36.4 + - - -
200A SER* 3.3 22.4 + - - -
201A GLY* 3.4 11.7 - - - +
202A VAL 4.3 2.0 + - - -
203A ILE* 3.0 38.2 - - + +
230A LEU* 2.5 35.2 + - + +
231A GLN* 3.2 14.1 - - - +
233A LYS* 1.3 103.9 + - - +
235A PRO* 1.3 76.0 - - - +
236A GLU* 3.6 6.3 - - + -
237A TYR* 3.6 29.9 + - + +
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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