Contacts of the helix formed by residues 212 - 232 (chain G) in PDB entry 6PSS
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 ASP 212 (chain G).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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91G ARG* 2.8 26.7 + - - -
211G ILE* 1.3 84.2 - - - +
213G PRO* 1.3 68.8 - - + +
214G GLU* 3.4 1.8 - - + +
215G GLU* 3.4 31.8 - - + +
216G ALA 2.9 22.9 + - - -
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Residues in contact with PRO 213 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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16G ILE* 4.1 14.8 - - + -
18G GLN* 3.4 27.4 - - - +
22G THR 5.8 0.9 - - - +
24G ALA* 3.6 22.7 - - + -
26G VAL* 4.0 13.7 - - + -
205G MET* 3.8 26.1 - - - +
207G THR* 6.1 1.8 - - + +
211G ILE* 4.2 2.9 - - + +
212G ASP* 1.3 85.8 - - + +
214G GLU* 1.3 60.4 + - + +
216G ALA* 3.2 2.3 + - - +
217G ILE* 2.9 34.2 + - - +
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Residues in contact with GLU 214 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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13G LEU* 3.9 25.2 - - + +
16G ILE* 3.8 36.5 - - + +
26G VAL* 5.4 0.4 - - - -
212G ASP* 3.4 1.5 - - + -
213G PRO* 1.3 79.8 - - + +
215G GLU* 1.3 58.5 + - - +
217G ILE* 3.4 6.1 + - - +
218G ARG* 3.0 62.0 + - - +
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Residues in contact with GLU 215 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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91G ARG* 6.1 0.5 - - - -
211G ILE* 3.4 18.8 - - + +
212G ASP* 3.4 33.8 + - + +
213G PRO 3.3 0.2 - - - -
214G GLU* 1.3 80.0 + - - +
216G ALA* 1.3 56.5 + - - +
218G ARG* 3.4 8.6 + - + +
219G ARG* 2.9 59.2 + - - +
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Residues in contact with ALA 216 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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47G LEU* 3.5 27.2 - - + +
51G MET* 3.8 15.6 - - + +
180G VAL* 5.2 1.8 - - + -
205G MET* 4.2 8.5 - - + -
211G ILE* 3.7 20.8 - - + +
212G ASP 2.9 18.3 + - - +
213G PRO 3.2 4.5 + - - +
215G GLU* 1.3 73.4 - - - +
217G ILE* 1.3 61.7 + - - +
219G ARG* 3.3 2.5 + - - +
220G ALA 2.9 23.7 + - - -
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Residues in contact with ILE 217 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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13G LEU* 4.4 16.4 - - + -
26G VAL* 4.0 29.4 - - + -
28G LEU* 4.9 7.4 - - + -
43G LEU* 4.5 17.1 - - + +
47G LEU* 3.9 25.6 - - + -
203G ILE* 4.2 14.4 - - + -
205G MET* 4.1 8.5 - - + -
213G PRO 2.9 20.0 + - - +
214G GLU* 3.8 6.1 - - - +
216G ALA* 1.3 76.4 - - - +
218G ARG* 1.3 56.9 + - - +
220G ALA* 3.4 3.4 + - - +
221G ALA* 2.9 28.1 + - - +
231H PHE* 4.6 18.8 - - + -
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Residues in contact with ARG 218 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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13G LEU* 4.4 9.8 - - + +
214G GLU* 3.0 50.5 + - + +
215G GLU* 3.8 6.7 - - - +
217G ILE* 1.3 75.1 - - - +
219G ARG* 1.3 58.3 + - - +
221G ALA 3.5 0.5 + - - -
222G THR* 2.8 33.9 + - - +
230H ALA 3.6 17.2 + - - -
231H PHE* 3.1 51.8 + - + +
232H VAL 4.3 5.5 + - - -
233H ASP* 6.5 0.7 - - - -
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Residues in contact with ARG 219 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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51G MET* 4.2 9.0 - - - -
52G PRO* 3.4 43.9 - - - +
148G ARG* 5.9 2.6 - - - +
211G ILE* 4.8 7.5 - - - +
215G GLU* 2.9 55.3 + - - +
216G ALA 3.8 4.3 - - - +
218G ARG* 1.3 75.9 - - - +
220G ALA* 1.3 60.2 + - - +
222G THR* 3.3 8.2 + - + -
223G ILE* 3.0 40.1 + - + +
5H VAL* 6.1 0.8 - - - +
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Residues in contact with ALA 220 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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43G LEU* 3.8 20.1 - - + +
46G ILE* 3.8 20.5 - - + +
47G LEU* 4.0 12.8 - - + -
51G MET* 3.6 17.8 - - + +
216G ALA 2.9 17.0 + - - +
217G ILE* 3.8 2.9 - - - +
219G ARG* 1.3 77.9 - - - +
221G ALA* 1.3 57.2 + - - +
223G ILE* 3.3 2.9 + - - +
224G LEU* 2.9 29.3 + - - +
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Residues in contact with ALA 221 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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43G LEU* 3.9 10.7 - - + +
217G ILE* 2.9 17.9 + - + +
218G ARG 3.9 1.3 - - - +
220G ALA* 1.3 77.3 - - - +
222G THR* 1.3 57.4 + - - +
224G LEU* 4.4 3.4 - - - -
225G ALA* 2.9 32.4 + - - +
228H LEU* 3.8 13.7 - - + +
231H PHE* 3.7 34.5 - - + -
232H VAL* 3.3 9.0 - - + +
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Residues in contact with THR 222 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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218G ARG 2.8 22.0 + - - -
219G ARG* 3.5 10.3 - - + +
220G ALA 3.2 0.2 - - - -
221G ALA* 1.3 74.8 - - - +
223G ILE* 1.3 61.0 + - + +
225G ALA* 3.4 1.2 + - - +
226G GLU* 3.0 39.5 + - + +
231H PHE 4.3 0.3 + - - -
232H VAL* 3.7 15.6 - - + -
233H ASP* 2.8 32.9 + - - +
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Residues in contact with ILE 223 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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46G ILE* 3.7 14.4 - - + -
50G SER 3.6 17.3 - - - +
51G MET* 4.2 3.1 - - + -
52G PRO* 6.4 0.2 - - + -
219G ARG* 3.0 30.0 + - + +
220G ALA 3.6 5.6 - - - +
222G THR* 1.3 78.3 - - + +
224G LEU* 1.3 62.8 + - - +
226G GLU* 3.3 4.6 + - - +
227G GLN* 3.0 30.5 + - + +
8H PHE* 3.6 43.3 - - + -
35H PHE* 3.7 33.2 - - + -
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Residues in contact with LEU 224 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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39G LEU* 4.6 8.3 - - + -
42G ALA* 4.1 21.8 - - + -
43G LEU* 4.4 12.6 - - + -
46G ILE* 4.3 19.5 - - + -
220G ALA 2.9 16.4 + - - +
221G ALA* 3.9 3.8 - - - +
223G ILE* 1.3 76.9 - - - +
225G ALA* 1.3 58.7 + - - +
227G GLN* 3.4 5.0 + - + +
228G LEU* 2.9 44.7 + - + +
35H PHE* 5.7 0.2 - - - -
38H THR* 4.8 10.3 - - + +
39H LEU* 4.6 13.9 - - + -
42H ALA* 5.6 0.7 - - + -
224H LEU* 4.7 8.7 - - + -
228H LEU* 3.8 25.1 - - + -
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Residues in contact with ALA 225 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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221G ALA 2.9 19.7 + - - +
222G THR 4.0 1.8 - - - +
224G LEU* 1.3 76.9 - - - +
226G GLU* 1.3 62.0 + - - +
228G LEU* 3.6 6.8 - - - +
229G GLU* 2.8 27.0 + - - +
225H ALA* 5.3 10.5 - - + +
228H LEU* 3.7 17.0 - - + +
232H VAL* 3.7 20.9 - - + -
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Residues in contact with GLU 226 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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222G THR* 3.0 30.3 + - + +
223G ILE* 3.3 3.8 + - - +
225G ALA* 1.3 80.2 - - + +
227G GLN* 1.3 59.4 + - - +
229G GLU* 3.7 18.6 - - - +
230G ALA* 3.0 26.2 + - - +
10H LYS* 4.1 26.4 + - - +
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Residues in contact with GLN 227 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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223G ILE* 3.0 19.1 + - - +
224G LEU* 3.8 6.1 - - + +
226G GLU* 1.3 77.0 - - - +
228G LEU* 1.3 56.2 + - - +
230G ALA* 3.2 9.2 + - - +
231G PHE* 3.0 26.6 + - - +
8H PHE* 4.1 16.6 - - - +
9H LEU 3.1 25.7 + - - +
10H LYS* 3.9 13.3 - - - +
11H PRO* 4.7 7.1 - - - +
31H LEU* 3.3 25.6 - - - +
32H GLU* 5.5 2.0 - - - +
35H PHE* 3.7 30.0 - - + -
39H LEU* 3.9 20.1 - - + +
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Residues in contact with LEU 228 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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224G LEU* 2.9 29.6 + - + +
225G ALA* 3.7 6.1 - - - +
226G GLU 3.3 0.2 - - - -
227G GLN* 1.3 77.5 - - - +
229G GLU* 1.3 56.3 + - - +
231G PHE* 2.9 7.8 + - + +
232G VAL* 2.8 31.6 + - - +
39H LEU* 3.8 24.5 - - + -
43H LEU* 4.0 13.0 - - + -
221H ALA* 3.8 33.2 - - + +
224H LEU* 3.7 39.5 - - + -
225H ALA* 4.3 12.1 - - + +
228H LEU* 4.4 5.6 - - + -
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Residues in contact with GLU 229 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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225G ALA 2.8 21.4 + - - +
226G GLU* 3.3 24.4 + - - +
228G LEU* 1.3 69.6 - - - +
230G ALA* 1.3 64.7 + - - +
232G VAL* 3.3 25.8 + - + +
233G ASP* 4.5 2.3 + - - +
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Residues in contact with ALA 230 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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226G GLU 3.0 12.6 + - - +
227G GLN* 3.2 10.5 + - - +
229G GLU* 1.3 77.8 - - - +
231G PHE* 1.3 60.3 + - - +
232G VAL 3.6 0.5 + - - -
233G ASP 4.7 7.6 + - - +
234G LEU* 5.0 4.9 - - - +
10H LYS* 4.1 16.4 - - + +
11H PRO* 3.8 31.1 - - + +
14H VAL* 5.8 3.5 - - - +
28H LEU* 5.8 0.7 - - - +
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Residues in contact with PHE 231 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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227G GLN 3.0 8.2 + - - +
228G LEU* 2.9 19.4 + - + +
230G ALA* 1.3 79.5 - - - +
232G VAL* 1.3 59.6 + - - +
233G ASP 3.5 1.3 + - - -
234G LEU* 3.9 25.4 - - + +
11H PRO* 5.9 0.9 - - + -
26H VAL* 5.0 1.1 - - + -
28H LEU* 3.6 44.0 - - + -
31H LEU* 5.8 0.2 - - + -
39H LEU* 3.7 35.4 - - + -
43H LEU* 3.6 23.3 - - + -
201H LEU* 4.2 9.0 - - + -
203H ILE* 3.6 11.9 - - + -
217H ILE* 3.6 33.8 - - + +
218H ARG* 4.7 1.2 - - - -
221H ALA* 4.0 6.6 - - + +
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Residues in contact with VAL 232 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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228G LEU 2.8 10.9 + - - +
229G GLU* 3.3 26.9 - - + +
230G ALA 3.4 1.0 - - - -
231G PHE* 1.3 79.7 - - - +
233G ASP* 1.3 74.3 + - + +
234G LEU 3.9 0.4 - - - -
218H ARG* 3.3 20.4 - - - +
221H ALA* 4.0 6.7 - - - +
222H THR* 3.3 43.5 - - - +
225H ALA* 5.5 3.6 - - + -
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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