Contacts of the helix formed by residues 224 - 243 (chain G) in PDB entry 2PWZ
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 THR 224 (chain G).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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14E GLN* 4.4 5.9 + - - -
45E ASP* 2.9 9.7 + - - -
11G GLY* 3.7 32.7 - - - +
12G ILE* 3.6 23.3 - - + +
15G ALA* 4.0 1.2 - - - +
217G LYS* 3.6 10.7 + - - +
222G SER* 3.3 14.1 + - - +
223G ALA* 1.3 74.7 - - - +
225G LEU* 1.3 79.0 + - - +
226G SER 3.6 0.7 - - - -
227G MET* 3.7 1.7 - - - +
228G GLY* 2.8 24.1 + - - -
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Residues in contact with LEU 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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14E GLN* 3.8 47.1 - - + +
15E ALA* 5.6 0.7 - - - -
18E LEU* 3.7 18.1 - - + +
42E VAL* 3.8 22.4 - - + -
45E ASP* 3.2 10.4 + - - +
46E LEU* 3.7 31.6 - - + -
49E ILE* 4.6 0.4 - - - -
11G GLY 5.1 2.0 - - - +
15G ALA* 3.8 22.4 - - + +
224G THR* 1.3 88.8 + - - +
226G SER* 1.3 59.7 + - - +
228G GLY* 3.5 1.9 + - - -
229G GLN* 3.1 25.3 + - - +
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Residues in contact with SER 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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45E ASP* 2.6 41.7 + - - -
48E HIS* 4.4 8.8 + - - +
49E ILE* 3.9 23.3 - - - +
149G LEU* 3.5 19.1 - - - +
152G ILE* 3.7 2.2 - - - +
223G ALA* 3.6 12.5 - - - +
225G LEU* 1.3 72.4 - - - +
227G MET* 1.3 61.4 + - - +
229G GLN* 3.4 2.8 + - - +
230G ALA* 2.9 28.1 + - - +
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Residues in contact with MET 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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12G ILE* 3.8 28.9 - - + -
117G ILE* 3.8 18.8 - - + +
119G ASN* 5.9 3.4 - - - -
146G VAL* 4.0 17.7 - - + +
149G LEU* 3.7 32.1 - - + +
177G HIS* 5.1 9.2 - - - -
223G ALA* 3.8 15.7 - - + +
224G THR 3.6 9.0 + - - +
225G LEU 3.3 0.4 - - - -
226G SER* 1.3 78.9 + - - +
228G GLY* 1.3 59.9 + - - +
230G ALA* 3.7 8.7 - - + -
231G ALA* 2.8 52.3 + - + +
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Residues in contact with GLY 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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12G ILE* 3.9 9.1 - - - +
15G ALA* 4.0 2.2 - - - -
16G LEU* 3.9 27.1 - - - -
19G LEU* 3.9 6.9 - - - +
224G THR 2.8 20.3 + - - -
225G LEU 3.7 3.1 - - - -
226G SER 3.4 0.2 - - - -
227G MET* 1.3 71.2 - - - +
229G GLN* 1.3 55.6 + - - +
231G ALA* 3.5 1.8 + - - +
232G ALA* 2.9 30.3 + - - +
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Residues in contact with GLN 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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18E LEU* 4.5 1.1 - - + +
22E THR* 3.3 26.7 - - - +
49E ILE* 3.9 29.2 - - + -
50E PRO* 5.9 0.7 - - + -
19G LEU* 3.5 28.2 - - + +
23G GLN* 5.1 10.3 + - - +
152G ILE* 4.4 9.0 - - + -
225G LEU 3.1 15.1 + - - +
226G SER 3.6 7.9 - - - +
227G MET 3.2 0.4 - - - -
228G GLY* 1.3 75.4 - - - +
230G ALA* 1.3 57.2 + - - +
232G ALA* 3.3 3.0 + - - +
233G ARG* 2.9 34.2 + - - +
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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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148G THR* 3.6 17.5 - - - +
149G LEU* 3.3 38.4 - - + +
152G ILE* 4.1 9.4 - - + +
226G SER 2.9 17.7 + - - +
227G MET* 3.7 11.2 - - + +
229G GLN* 1.3 73.7 - - - +
231G ALA* 1.3 64.7 + - - +
233G ARG* 3.0 6.4 + - - +
234G PHE 3.0 19.2 + - - -
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Residues in contact with ALA 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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12G ILE* 5.2 1.1 - - + -
16G LEU* 3.9 16.8 - - + +
74G LEU* 4.1 4.7 - - + +
117G ILE* 3.6 32.1 - - + -
146G VAL* 4.1 10.1 - - + -
227G MET* 2.8 31.5 + - + +
228G GLY* 3.9 3.8 - - - +
230G ALA* 1.3 73.2 - - - +
232G ALA* 1.3 58.2 + - - +
234G PHE* 3.5 1.2 + - - +
235G GLY* 2.8 26.2 + - - -
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Residues in contact with ALA 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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16G LEU* 3.8 10.1 - - + +
19G LEU* 3.8 29.2 - - + -
20G LEU* 4.1 13.4 - - + +
23G GLN* 5.5 1.1 - - - +
228G GLY 2.9 19.1 + - - +
229G GLN* 3.6 7.9 - - - +
230G ALA 3.1 0.2 - - - -
231G ALA* 1.3 73.0 - - - +
233G ARG* 1.3 62.1 + - - +
235G GLY* 3.7 0.2 - - - -
236G LEU* 2.8 43.4 + - + +
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Residues in contact with ARG 233 (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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148G THR* 3.6 12.6 - - + +
151G ILE* 4.0 15.2 - - - +
152G ILE* 4.0 17.4 - - + +
155G ASN* 4.1 2.6 - - - +
170G GLU* 2.8 41.0 + - - -
229G GLN* 2.9 22.0 + - + +
230G ALA* 3.4 7.6 - - - +
232G ALA* 1.3 77.8 - - - +
234G PHE* 1.3 60.8 + - - +
236G LEU* 3.5 7.3 + - - +
237G SER* 3.1 24.7 + - - +
240G ARG* 4.9 0.5 + - - -
249G VAL 5.0 3.2 + - - -
250G GLU* 2.5 38.3 + - - +
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Residues in contact with PHE 234 (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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74G LEU* 4.9 4.3 - - + -
115G GLY* 4.8 3.4 - - - -
144G PHE* 3.6 44.4 - + + -
146G VAL* 3.8 27.6 - - + -
148G THR* 3.3 21.9 + - - +
230G ALA 3.0 11.1 + - - +
231G ALA 3.9 3.1 - - - +
233G ARG* 1.3 79.2 - - - +
235G GLY* 1.3 64.5 + - - +
237G SER* 3.4 5.0 + - - -
238G LEU* 3.1 44.4 + - + +
250G GLU* 3.4 34.1 - - + -
251G CYS 4.7 1.8 - - - -
252G ALA* 3.9 17.3 - - + -
270G LEU* 4.6 8.5 - - + -
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Residues in contact with GLY 235 (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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3G VAL* 6.4 0.2 - - - -
20G LEU* 5.4 4.0 - - - -
24G LEU* 5.7 0.7 - - - -
72G VAL* 5.1 3.7 - - - +
74G LEU* 4.2 20.6 - - - -
231G ALA 2.8 21.0 + - - -
232G ALA* 3.7 1.3 - - - -
234G PHE* 1.3 77.0 - - - +
236G LEU* 1.3 58.3 + - - +
238G LEU* 3.4 7.8 + - - +
239G VAL* 3.1 33.2 + - - +
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Residues in contact with LEU 236 (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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20G LEU* 4.1 10.1 - - + -
23G GLN* 3.4 62.4 - - + +
24G LEU* 3.7 24.0 - - + +
25G PRO* 4.9 3.1 - - + -
232G ALA* 2.8 31.0 + - + +
233G ARG* 4.0 5.4 - - - +
235G GLY* 1.3 74.2 - - - +
237G SER* 1.3 58.3 + - - +
239G VAL* 3.4 4.9 + - + +
240G ARG* 3.0 44.5 + - + +
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Residues in contact with SER 237 (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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233G ARG* 3.1 12.6 + - - +
234G PHE 3.6 9.0 - - - -
236G LEU* 1.3 75.3 - - - +
238G LEU* 1.3 62.4 + - - +
240G ARG* 3.2 29.1 + - - +
241G ALA* 3.1 19.8 + - - +
248G VAL* 3.4 21.3 - - - +
249G VAL 5.2 0.2 + - - -
250G GLU* 2.7 29.4 + - - -
270G LEU* 4.4 8.5 - - - -
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Residues in contact with LEU 238 (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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72G VAL* 4.1 21.8 - - + -
74G LEU* 5.3 2.5 - - + -
113G CYS* 3.7 41.5 - - + +
115G GLY 5.6 1.3 - - - +
144G PHE* 4.1 19.5 - - + -
234G PHE* 3.1 38.3 + - + +
235G GLY* 3.5 9.9 - - - +
236G LEU 3.3 0.2 - - - -
237G SER* 1.3 76.6 - - - +
239G VAL* 1.3 60.1 + - - +
241G ALA* 3.5 2.2 + - + +
242G LEU* 2.9 40.0 + - + +
270G LEU* 4.5 16.3 - - + +
271G GLY 5.5 1.3 - - - +
274G GLY* 4.8 4.9 - - - +
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Residues in contact with VAL 239 (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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1G MET* 3.6 28.7 - - + -
3G VAL* 3.8 27.8 - - + -
24G LEU* 4.0 10.3 - - + -
25G PRO* 4.0 20.9 - - + -
72G VAL* 4.2 6.1 - - + -
235G GLY 3.1 22.0 + - - +
236G LEU* 3.8 6.7 - - - +
238G LEU* 1.3 72.6 - - - +
240G ARG* 1.3 66.3 + - + +
242G LEU* 3.1 7.5 + - - +
243G GLN* 3.0 38.5 + - - +
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Residues in contact with ARG 240 (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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25G PRO* 6.1 4.0 - - + -
233G ARG 4.9 0.6 + - - -
236G LEU* 3.0 46.4 + - + +
237G SER* 3.2 29.2 + - - +
239G VAL* 1.3 75.2 - - + +
241G ALA* 1.3 61.9 + - - +
243G GLN* 3.2 18.0 + - - +
244G GLY 3.3 0.7 + - - -
245G GLU* 3.1 58.6 + - - +
248G VAL* 4.0 14.1 - - + +
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Residues in contact with ALA 241 (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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237G SER 3.1 13.5 + - - +
238G LEU* 3.9 4.5 - - + +
240G ARG* 1.3 72.9 - - - +
242G LEU* 1.3 65.2 + - - +
244G GLY* 3.0 12.6 + - - -
245G GLU 3.9 11.6 + - - +
248G VAL* 4.1 7.1 - - + +
270G LEU* 3.6 46.0 - - + +
271G GLY* 3.4 18.1 - - - +
272G LYS* 3.6 4.5 + - - +
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Residues in contact with LEU 242 (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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1G MET* 4.1 23.2 - - + +
71G ASP* 4.2 12.8 - - + +
72G VAL* 3.4 32.5 - - + -
113G CYS* 3.9 24.5 - - - -
142G LYS* 6.2 0.9 - - - -
238G LEU* 2.9 28.3 + - + +
239G VAL 3.1 4.2 + - - +
241G ALA* 1.3 75.6 - - - +
243G GLN* 1.3 59.0 + - - +
244G GLY 3.6 0.3 + - - -
271G GLY 3.9 11.0 - - - +
272G LYS* 3.5 37.8 - - - +
273G ASN* 4.7 0.4 - - - -
274G GLY* 4.1 2.7 - - - +
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Residues in contact with GLN 243 (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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26A SER 5.1 3.1 - - - +
1G MET* 4.1 26.7 - - + +
25G PRO* 3.3 32.3 - - - +
26G SER 5.8 1.2 + - - -
28G SER* 5.2 0.8 + - - -
239G VAL* 3.0 30.3 + - + +
240G ARG* 3.6 9.5 - - - +
241G ALA 3.1 0.4 - - - -
242G LEU* 1.3 77.0 - - - +
244G GLY* 1.3 55.7 + - - +
245G GLU* 3.6 1.6 - - + +
272G LYS* 4.6 6.0 + - - -
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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
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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