Contacts of the helix formed by residues 164 - 188 (chain B) in PDB entry 2AX1
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 164 (chain B).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
98B LYS 4.4 1.9 - - - +
99B SER* 2.7 23.5 + - - -
100B LYS* 2.9 37.7 + - - +
101B PHE* 3.7 20.1 - - + -
103B TYR* 4.3 0.2 + - - -
134B ILE* 5.7 0.2 - - - +
135B ASP 4.5 4.0 + - - +
162B PHE* 5.6 0.9 - - - -
163B PRO* 1.3 77.1 - - - +
165B LEU* 1.3 66.6 + - - +
166B GLY* 3.1 20.0 + - - +
167B VAL* 2.8 25.0 + - + +
168B ARG* 3.0 10.8 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 165 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
92B THR* 4.1 24.5 - - + -
96B SER* 4.2 1.6 - - - +
97B ALA 3.6 20.4 - - - +
98B LYS 5.1 0.8 + - - -
99B SER* 3.8 20.3 - - - +
103B TYR* 3.9 8.7 - - + -
104B GLY 3.6 31.2 - - - -
105B ALA 3.7 2.5 - - - +
108B VAL* 3.8 15.9 - - + -
164B ASP* 1.3 74.1 + - - +
166B GLY* 1.3 63.6 + - - +
168B ARG* 3.0 39.6 + - + +
169B VAL* 3.0 27.1 + - + +
559B ASP* 4.6 2.2 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 166 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
103B TYR* 3.1 22.4 + - - -
119B ILE* 4.7 6.5 - - - +
122B VAL* 4.2 15.8 - - - +
164B ASP* 3.1 11.9 + - - -
165B LEU* 1.3 77.4 - - - +
167B VAL* 1.3 62.3 + - - +
169B VAL* 3.5 7.8 + - - +
170B CYS* 3.4 26.2 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 167 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
122B VAL* 4.1 22.7 - - + -
126B LEU* 5.9 0.7 - - + -
134B ILE* 4.0 30.7 - - + -
163B PRO* 3.6 25.6 - - + -
164B ASP* 2.8 22.5 + - + +
166B GLY* 1.3 75.2 - - - +
168B ARG* 1.3 64.2 + - - +
170B CYS* 3.1 5.5 + - + +
171B GLU* 3.0 24.0 + - + +
256B LEU* 4.6 5.1 - - + +
260B LEU* 4.0 16.2 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 168 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
96B SER* 2.7 22.8 + - - -
97B ALA* 2.8 33.7 + - - +
98B LYS 5.7 0.4 + - - -
162B PHE* 3.9 19.1 - - - -
163B PRO* 2.8 48.8 + - + +
164B ASP* 3.3 9.6 - - - +
165B LEU* 3.0 29.6 + - + +
167B VAL* 1.3 74.7 - - - +
169B VAL* 1.3 65.4 + - + +
171B GLU* 3.2 22.8 + - - +
172B LYS* 3.2 22.1 + - - +
283B GLY 4.9 6.3 - - - -
284B VAL* 6.4 0.2 - - - +
559B ASP* 2.9 40.8 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 169 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
85B VAL 4.6 1.1 - - - +
88B ALA* 3.7 19.5 - - + -
89B CYS* 4.4 8.5 - - - +
92B THR* 4.1 18.4 - - - +
108B VAL* 4.2 10.1 - - + -
119B ILE* 3.8 42.4 - - + -
165B LEU* 3.0 22.5 + - + +
166B GLY* 3.8 7.4 - - - +
167B VAL 3.3 0.2 - - - -
168B ARG* 1.3 73.9 - - - +
170B CYS* 1.3 64.8 + - - +
172B LYS* 3.1 13.8 + - - +
173B MET* 3.1 22.3 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with CYS 170 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
119B ILE* 3.6 21.3 - - - -
122B VAL* 3.6 7.4 - - + -
123B TRP* 3.5 30.4 - - + -
126B LEU* 3.7 20.2 - - + -
166B GLY 3.4 12.5 + - - +
167B VAL 3.1 9.9 + - - +
169B VAL* 1.3 78.0 - - - +
171B GLU* 1.3 64.3 + - - +
173B MET* 3.3 26.6 + - - -
174B ALA* 3.0 20.4 + - - +
256B LEU* 4.6 2.1 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 171 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
163B PRO* 3.6 23.6 - - - +
167B VAL* 3.0 16.7 + - + +
168B ARG* 3.2 18.5 + - - +
170B CYS* 1.3 75.4 - - - +
172B LYS* 1.3 55.2 + - - +
174B ALA 3.2 0.5 + - - -
175B LEU* 2.7 34.1 + - - +
256B LEU* 4.1 21.5 - - + -
260B LEU* 4.2 4.3 - - - -
261B TYR* 2.6 37.9 + - - +
284B VAL* 3.5 4.9 - - - +
285B LEU* 2.9 45.5 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 172 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
83B LEU* 3.8 7.7 - - + +
88B ALA* 3.4 28.7 - - + +
91B LEU* 3.7 19.3 - - + -
92B THR* 3.7 23.1 - - - -
168B ARG* 3.3 17.5 + - - +
169B VAL* 3.1 10.0 + - - +
171B GLU* 1.3 77.5 - - - +
173B MET* 1.3 64.3 + - - +
176B TYR* 2.9 33.0 + - + +
285B LEU* 3.7 13.2 - - + -
558B GLY 3.6 8.5 + - - -
559B ASP* 2.7 44.9 + - - +
560B ILE* 3.8 11.2 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with MET 173 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
81B LYS 4.5 1.2 - - - +
82B LEU* 3.3 11.2 - - + +
83B LEU* 2.9 45.0 + - - +
85B VAL* 3.7 36.8 - - + -
88B ALA* 3.5 14.6 - - + +
119B ILE* 3.7 18.6 - - + -
120B HIS* 6.1 0.2 - - - -
123B TRP* 3.7 28.7 - - + -
169B VAL 3.3 10.1 - - - +
170B CYS* 3.5 37.7 - - - +
171B GLU 3.3 0.2 - - - -
172B LYS* 1.3 77.1 - - - +
174B ALA* 1.3 61.7 + - - +
177B ASP 5.8 0.3 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 174 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
81B LYS 5.0 5.5 - - - +
82B LEU* 3.8 13.1 - - + +
123B TRP* 3.7 18.2 - - + -
170B CYS 3.0 16.1 + - - +
171B GLU 3.9 1.6 - - - +
173B MET* 1.3 79.8 - - - +
175B LEU* 1.3 61.6 + - - +
177B ASP 5.5 0.4 + - - -
178B VAL* 4.3 6.2 - - - +
245B LEU* 5.7 0.2 - - - +
249B ALA* 4.5 4.5 - - - +
252B ALA* 3.8 15.0 - - + -
253B ILE* 4.0 19.9 - - + +
256B LEU* 4.3 12.6 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 175 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
171B GLU 2.7 15.2 + - - +
174B ALA* 1.3 72.3 - - - +
176B TYR* 1.3 64.5 + - - +
177B ASP 3.3 3.1 - - - -
178B VAL* 3.0 22.4 + - + +
179B VAL* 2.9 28.4 + - + +
240B TYR* 3.9 24.2 - - + -
253B ILE* 3.7 38.8 - - + -
256B LEU* 4.1 14.6 - - + -
261B TYR* 3.5 38.1 - - + +
285B LEU* 4.0 9.4 - - + -
286B THR* 3.7 7.9 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 176 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
83B LEU* 3.8 21.8 - - + -
91B LEU* 3.7 30.2 - - + +
172B LYS* 2.9 26.3 + - + +
174B ALA 3.9 0.2 - - - -
175B LEU* 1.3 73.9 - - - +
177B ASP* 1.3 66.7 + - + +
179B VAL* 3.3 3.0 - - - +
180B SER* 2.8 44.1 + - - -
285B LEU* 3.7 13.2 - - + +
555B TYR* 3.7 27.1 + + - -
560B ILE* 3.8 25.4 - - + -
562B HIS* 2.9 27.0 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 177 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
79B LYS 4.1 2.9 - - - +
80B ALA* 3.1 11.4 - - + -
81B LYS* 2.7 52.0 + - - +
83B LEU* 4.4 10.5 - - + +
172B LYS 4.6 0.2 + - - -
173B MET 5.8 0.4 + - - -
174B ALA 5.5 0.8 + - - +
175B LEU 3.3 0.6 - - - -
176B TYR* 1.3 85.5 - - - +
178B VAL* 1.3 63.8 + - + +
180B SER* 3.4 2.8 + - - -
181B THR* 3.0 45.6 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 178 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
80B ALA* 3.6 23.6 - - + -
174B ALA 4.3 10.3 - - - +
175B LEU* 3.0 26.3 + - + +
177B ASP* 1.3 76.6 - - + +
179B VAL* 1.3 60.0 + - + +
180B SER 3.1 0.2 + - - -
181B THR* 4.4 1.8 - - - -
182B LEU* 2.8 62.6 + - + +
240B TYR* 3.9 20.4 - - + -
243B CYS* 4.5 8.3 - - - -
245B LEU* 4.0 16.4 - - + -
253B ILE* 4.6 3.1 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 179 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
175B LEU* 2.9 27.5 + - + +
176B TYR* 3.3 17.5 - - - +
178B VAL* 1.3 72.2 - - + +
180B SER* 1.3 60.3 + - - +
181B THR 3.5 0.2 - - - -
183B PRO* 3.3 20.0 - - - +
191B TYR* 4.5 0.7 + - - -
240B TYR* 5.0 1.1 - - + +
285B LEU* 4.2 24.9 - - + +
286B THR* 4.0 24.7 - - + -
289B CYS* 3.9 33.5 - - + +
553B ALA* 3.8 9.9 - - - +
554B GLY 5.2 1.7 - - - +
555B TYR* 4.2 14.8 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with SER 180 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
176B TYR* 2.8 36.2 + - - -
177B ASP* 3.8 6.5 - - - -
178B VAL 3.1 0.6 - - - -
179B VAL* 1.3 78.9 - - - +
181B THR* 1.3 65.6 + - - +
183B PRO* 4.4 1.6 - - - +
184B GLN* 5.8 2.4 + - - +
191B TYR* 5.8 0.9 - - - -
552B THR* 4.0 16.9 - - - +
553B ALA* 3.9 18.4 - - - +
555B TYR* 2.7 25.9 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with THR 181 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78B VAL* 3.9 16.6 - - - +
79B LYS 5.0 2.6 + - - -
80B ALA* 5.0 0.7 - - - +
177B ASP* 3.0 36.3 + - - +
178B VAL* 4.0 1.2 + - - -
180B SER* 1.3 86.0 - - - +
182B LEU* 1.3 66.1 + - - +
183B PRO* 3.5 3.5 - - - -
184B GLN* 3.8 6.9 + - - +
185B VAL* 3.5 25.2 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 182 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
75B ALA* 3.5 27.8 - - + -
78B VAL* 3.6 28.9 - - + -
178B VAL* 2.8 33.3 + - + +
179B VAL* 5.4 0.2 - - - -
181B THR* 1.3 73.3 + - - +
183B PRO* 1.3 60.8 - - + +
185B VAL* 3.2 2.3 + - - +
186B VAL* 2.9 37.5 + - + +
239B ILE* 4.0 17.5 - - + +
240B TYR* 3.7 32.5 - - + -
243B CYS* 3.6 13.9 - - - -
289B CYS* 5.3 0.4 - - - -
293B LEU* 4.7 5.8 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with PRO 183 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
178B VAL 3.6 1.8 - - - +
179B VAL 3.3 26.2 - - - +
180B SER 4.4 1.3 - - - +
181B THR 3.5 4.0 - - - +
182B LEU* 1.3 93.8 - - + +
184B GLN* 1.3 56.3 + - - +
186B VAL* 4.7 2.2 - - + -
187B MET* 2.8 50.1 + - + +
191B TYR* 3.4 37.2 - - + +
289B CYS* 3.5 24.5 - - + -
293B LEU* 4.7 3.1 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 184 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
180B SER 5.8 1.6 - - - +
181B THR* 3.8 7.8 + - - +
182B LEU 3.4 0.8 - - - -
183B PRO* 1.3 80.2 - - - +
185B VAL* 1.3 64.8 + - + +
188B GLY* 2.7 32.1 + - - -
191B TYR* 3.9 15.6 - - + -
194B GLN* 3.5 44.8 - - + +
552B THR 5.5 2.5 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 185 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
74B LYS* 3.5 35.4 - - + +
77B THR* 3.7 9.4 - - - +
78B VAL* 3.7 21.1 - - + -
181B THR* 3.5 15.7 - - - +
182B LEU 3.2 6.8 + - - +
184B GLN* 1.3 87.0 - - + +
186B VAL* 1.3 63.5 + - - +
188B GLY* 4.1 3.1 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 186 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
71B MET* 3.8 51.3 - - + +
74B LYS* 3.5 25.9 + - - +
75B ALA* 3.8 19.5 - - + -
182B LEU* 2.9 44.6 + - + +
183B PRO 4.0 1.8 - - - +
185B VAL* 1.3 77.7 - - - +
187B MET* 1.3 62.1 + - + +
188B GLY 3.9 0.2 + - - -
239B ILE* 4.6 4.9 - - + -
293B LEU* 4.0 12.3 - - + -
296B TYR* 4.3 7.3 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with MET 187 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
183B PRO* 2.8 40.3 + - + +
186B VAL* 1.3 82.4 - - + +
188B GLY* 1.3 64.5 + - - +
189B SER 3.4 0.5 + - - -
190B SER* 3.2 18.4 + - - -
191B TYR* 3.6 34.3 - - + +
292B THR* 3.6 22.7 - - + +
293B LEU* 3.6 22.2 - - + -
296B TYR* 3.6 60.4 + - + -
315B VAL* 5.3 1.3 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 188 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
184B GLN* 2.7 32.1 + - - +
185B VAL 4.1 2.8 + - - -
186B VAL 3.6 1.8 + - - -
187B MET* 1.3 72.8 - - - +
189B SER* 1.3 53.9 + - - -
190B SER 3.1 1.6 + - - -
191B TYR* 3.3 8.1 + - - +
194B GLN* 2.7 26.6 + - - -
----------------------------------------------------------
Back to top of page
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) + - + + + + + -
------------------------------------------------------------
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