Contacts of the helix formed by residues 222 - 243 (chain J) in PDB entry 2AAZ
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 LEU 222 (chain J).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69J LYS* 4.5 10.1 + - - +
219J ASP* 3.2 12.7 + - - +
221J GLY* 1.3 79.5 - - - +
223J GLY* 1.3 65.4 + - - +
225J PRO* 3.5 9.7 - - - +
226J PHE* 3.9 18.5 - - - +
262J HIS* 3.8 13.2 - - + -
311J ILE 5.6 1.3 - - - +
313J MET* 3.6 39.0 - - + +
314J LYS 3.8 5.2 - - - +
315J MET* 3.6 38.6 - - + +
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Residues in contact with GLY 223 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
219J ASP* 2.8 19.3 + - - +
222J LEU* 1.3 73.3 - - - +
224J VAL* 1.3 65.1 + - - -
226J PHE* 2.8 19.9 + - - +
227J ASN* 3.0 19.3 + - - +
400J UMP 3.7 19.7 - - - -
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Residues in contact with VAL 224 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23J TYR* 3.9 15.0 - - + -
215J GLN* 4.5 4.5 - - - +
218J CYS* 3.8 21.5 - - + -
219J ASP 3.0 4.4 + - - +
220J LEU* 3.5 35.7 - - + +
223J GLY* 1.3 69.0 - - - -
225J PRO* 1.3 70.9 - - + +
227J ASN* 3.6 8.6 + - - -
228J ILE* 2.9 47.7 + - + +
251J LEU* 4.5 2.7 - - + -
253J MET* 4.2 19.7 - - + -
400J UMP 4.4 0.4 + - - -
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Residues in contact with PRO 225 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23J TYR* 3.5 20.6 - - + +
64J PRO 5.4 0.5 - - - +
65J LEU* 5.4 0.5 - - - +
66J LEU* 3.8 32.9 + - + +
69J LYS* 4.0 16.8 - - - +
71J VAL* 4.6 13.5 - - + +
220J LEU 3.3 13.7 - - - +
221J GLY 3.6 9.4 - - - +
222J LEU 3.5 10.3 - - - +
223J GLY 3.3 4.9 - - - -
224J VAL* 1.3 90.4 - - + +
226J PHE* 1.3 64.7 + - + +
228J ILE* 4.1 3.4 - - + +
229J ALA* 3.5 21.1 + - - +
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Residues in contact with PHE 226 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69J LYS* 6.5 0.7 - - - -
71J VAL* 4.3 17.3 - - + -
72J PHE* 3.9 28.5 - + + -
75J GLY 4.0 5.6 - - - -
76J VAL* 3.5 40.2 - - + +
79J GLU* 4.2 16.4 - - - +
100J ILE* 4.0 30.5 - - + -
222J LEU 3.9 14.8 - - - +
223J GLY* 2.8 10.8 + - - +
225J PRO* 1.3 82.0 - - + +
227J ASN* 1.3 57.9 + - - +
229J ALA* 3.3 2.8 + - - +
230J SER* 2.7 38.1 + - - -
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Residues in contact with ASN 227 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
188J HIS* 3.4 20.2 + - - +
213J MET* 4.1 9.4 - - + -
215J GLN* 2.9 30.2 + - - +
223J GLY 3.0 18.4 + - - +
224J VAL* 3.6 6.7 + - - +
226J PHE* 1.3 77.1 - - - +
228J ILE* 1.3 62.8 + - - +
230J SER* 4.2 5.0 - - - -
231J TYR* 3.1 31.7 + - - +
249J PHE* 4.5 0.7 - - - -
251J LEU* 5.0 2.9 - - + -
400J UMP 2.7 43.4 + - - -
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Residues in contact with ILE 228 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23J TYR* 4.7 7.0 - - + -
54J PHE* 4.3 9.6 - - + -
56J PHE* 3.7 43.3 - - + -
64J PRO* 3.6 25.6 - - + +
66J LEU* 4.7 12.6 - - + -
224J VAL* 2.9 38.7 + - + +
225J PRO* 4.1 4.3 - - + +
227J ASN* 1.3 76.2 - - - +
229J ALA* 1.3 63.1 + - - +
232J ALA* 3.1 22.5 + - - +
249J PHE* 3.8 13.0 - - + -
251J LEU* 3.7 19.1 - - + -
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Residues in contact with ALA 229 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63J LEU* 4.2 7.8 - - + +
64J PRO 4.4 9.4 + - - +
65J LEU* 3.9 27.6 - - + -
73J LEU* 5.9 0.4 - - + -
76J VAL* 4.0 15.7 - - + -
225J PRO 3.5 14.2 + - - +
226J PHE 3.3 3.4 + - - +
228J ILE* 1.3 77.8 - - - +
230J SER* 1.3 60.6 + - - +
232J ALA* 3.3 6.9 + - - +
233J LEU* 2.9 37.8 + - + +
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Residues in contact with SER 230 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
76J VAL* 3.7 15.2 - - - +
79J GLU* 4.8 7.0 + - - -
80J LEU* 3.6 26.6 - - - +
83J PHE* 4.5 13.2 - - - -
131J TRP* 6.0 0.3 - - - -
188J HIS* 5.8 0.2 - - - -
226J PHE 2.7 24.0 + - - -
227J ASN* 3.6 7.4 - - - -
229J ALA* 1.3 73.5 - - - +
231J TYR* 1.3 65.1 + - - +
233J LEU* 3.1 6.7 + - - +
234J LEU* 2.8 25.3 + - - +
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Residues in contact with TYR 231 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
83J PHE* 6.1 0.2 - + - -
131J TRP* 3.4 19.8 + + - -
171J LEU 5.6 0.3 + - - -
188J HIS* 2.6 53.1 + + + +
190J PHE* 5.1 3.8 + - - -
191J CYS* 3.7 29.9 - - + +
211J CYS* 4.2 5.8 - - - -
213J MET* 3.7 31.9 - - + +
227J ASN* 3.1 17.4 + - - +
230J SER* 1.3 84.4 - - - +
232J ALA* 1.3 64.5 + - - +
234J LEU* 3.7 23.6 - - + +
235J THR* 2.8 29.6 + - - -
249J PHE* 3.5 26.9 - - + -
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Residues in contact with ALA 232 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58J LEU* 3.9 16.4 - - + +
63J LEU* 4.0 5.8 - - + -
64J PRO* 3.6 33.9 - - + -
228J ILE 3.1 19.8 + - - +
229J ALA 3.6 4.9 - - - +
231J TYR* 1.3 75.6 - - - +
233J LEU* 1.3 62.5 + - - +
235J THR* 3.3 4.5 + - - -
236J HIS* 3.0 30.0 + - + -
249J PHE* 4.8 6.6 - - + -
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Residues in contact with LEU 233 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63J LEU* 3.7 30.3 - - + -
73J LEU* 4.7 8.1 - - + -
76J VAL* 3.9 23.1 - - + -
77J ILE* 4.0 22.7 - - + +
80J LEU* 3.6 17.3 - - + -
229J ALA* 2.9 25.1 + - + +
230J SER 3.4 3.8 - - - +
232J ALA* 1.3 75.8 - - - +
234J LEU* 1.3 58.9 + - - +
236J HIS* 3.1 6.4 + - - +
237J MET* 2.9 32.7 + - - +
280J LEU* 4.0 14.8 - - + -
300J PHE* 4.0 23.3 - - + -
302J VAL* 5.6 0.4 - - + -
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Residues in contact with LEU 234 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
80J LEU* 3.7 21.0 - - + +
84J VAL* 4.6 14.8 - - + -
131J TRP* 4.0 17.5 - - + -
153J LEU* 4.7 8.1 - - + -
171J LEU* 4.0 24.7 - - + -
193J PHE* 4.3 8.5 - - + -
230J SER 2.8 16.7 + - - +
231J TYR* 3.7 25.1 - - + +
232J ALA 3.3 0.2 - - - -
233J LEU* 1.3 75.3 - - - +
235J THR* 1.3 58.0 + - - +
237J MET* 3.2 10.0 + - - +
238J ILE* 2.9 53.5 + - + +
292J ILE* 5.0 3.6 - - + -
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Residues in contact with THR 235 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58J LEU* 3.8 23.5 - - + +
193J PHE* 4.1 8.4 - - + -
209J LEU* 3.7 33.8 - - + +
210J SER 4.9 0.4 - - - -
211J CYS* 3.3 31.1 - - + +
231J TYR 2.8 21.6 + - - -
232J ALA 3.6 5.2 - - - -
233J LEU 3.2 0.2 - - - -
234J LEU* 1.3 74.7 - - - +
236J HIS* 1.3 58.8 + - - +
238J ILE* 3.5 1.1 + - - -
239J ALA* 2.9 28.4 + - - +
246J PRO* 4.5 5.4 - - + -
249J PHE* 5.1 0.7 - - - -
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Residues in contact with HIS 236 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58J LEU* 3.7 19.0 - - + +
61J ASN* 4.2 15.6 + - - -
62J THR 3.0 28.4 + - - -
63J LEU* 4.6 6.5 - - + -
232J ALA 3.0 30.1 + - - -
233J LEU* 3.1 8.8 + - - +
235J THR* 1.3 75.3 - - - +
237J MET* 1.3 62.8 + - - +
239J ALA* 3.3 7.1 + - - +
240J LEU* 3.1 18.4 + - - +
246J PRO* 3.6 29.2 - - + +
280J LEU* 3.6 34.3 - - + +
282J TRP* 3.8 12.8 + - + -
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Residues in contact with MET 237 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
80J LEU* 3.5 33.0 - - - -
81J LEU* 3.7 17.5 - - + -
84J VAL* 4.3 13.0 - - + -
233J LEU 2.9 13.8 + - - +
234J LEU* 3.4 10.8 - - + +
236J HIS* 1.3 76.7 - - - +
238J ILE* 1.3 63.0 + - - +
240J LEU* 3.1 13.5 + - - +
241J ILE* 3.2 16.8 + - - +
282J TRP* 3.8 18.8 - - + -
292J ILE* 4.1 20.2 - - + +
295J PHE* 3.6 43.1 - - + -
300J PHE* 3.8 11.0 - - + -
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Residues in contact with ILE 238 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
153J LEU* 4.4 11.4 - - + -
156J VAL* 4.6 4.3 - - + -
157J ILE* 3.6 25.4 - - + -
160J ILE* 3.6 29.2 - - + -
193J PHE* 3.4 38.8 - - + -
209J LEU* 3.8 9.6 - - + -
234J LEU* 2.9 36.6 + - + +
235J THR 3.9 3.1 - - - +
237J MET* 1.3 75.5 - - - +
239J ALA* 1.3 56.5 + - - +
241J ILE* 3.3 1.9 + - - +
242J THR* 2.7 35.5 + - + +
292J ILE* 4.2 8.3 - - + -
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Residues in contact with ALA 239 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
209J LEU* 4.0 5.4 - - + -
235J THR 2.9 18.2 + - - +
236J HIS 3.4 6.5 - - - +
237J MET 3.2 0.2 - - - -
238J ILE* 1.3 78.8 - - - +
240J LEU* 1.3 56.7 + - - +
243J ASP* 3.0 10.4 + - - -
244J THR* 2.9 54.9 + - - +
246J PRO* 3.6 24.9 - - + -
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Residues in contact with LEU 240 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
236J HIS 3.1 12.0 + - - +
237J MET 3.1 8.5 + - - +
239J ALA* 1.3 78.8 - - - +
241J ILE* 1.3 62.1 + - + +
242J THR 3.5 0.2 + - - -
243J ASP* 3.6 6.5 + - - +
282J TRP* 3.6 39.9 - - + +
284J ARG 5.8 0.2 - - - +
285J SER* 5.1 0.7 - - - -
286J LYS* 3.5 45.7 - - + +
289J ILE* 3.6 32.1 - - + -
295J PHE* 3.9 9.4 - - + -
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Residues in contact with ILE 241 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
157J ILE* 4.0 27.4 - - + -
161J LYS* 4.1 13.6 + - + +
237J MET 3.2 14.8 + - - +
238J ILE 3.9 6.1 - - - +
240J LEU* 1.3 81.1 - - + +
242J THR* 1.3 58.7 + - - +
243J ASP 3.4 0.2 - - - -
286J LYS* 3.6 23.6 + - + +
289J ILE* 4.3 6.3 - - + -
290J GLY 4.0 10.5 - - - +
291J ASP* 3.6 38.4 - - + +
292J ILE* 3.9 12.6 - - + +
295J PHE* 3.7 22.4 - - + -
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Residues in contact with THR 242 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
157J ILE* 3.8 24.7 - - + +
160J ILE* 3.7 21.9 - - + +
161J LYS* 3.8 31.5 - - + +
238J ILE* 2.7 34.1 + - + +
241J ILE* 1.3 78.7 - - - +
243J ASP* 1.3 71.4 + - - +
244J THR* 2.7 31.2 + - - +
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Residues in contact with ASP 243 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
206J LYS* 3.9 30.3 + - + +
207J PRO* 4.0 6.8 - - - +
239J ALA 3.0 6.3 + - - -
240J LEU 3.6 2.9 + - - +
241J ILE 3.4 0.8 - - - -
242J THR* 1.3 79.5 - - - +
244J THR* 1.3 60.6 + - - +
286J LYS* 2.7 43.9 + - - +
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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
------------------------------------------------------------
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