Contacts of the helix formed by residues 145 - 161 (chain B) in PDB entry 2EZT
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 145 (chain B).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
142B ASN* 2.9 36.6 + - - +
144B ALA* 1.3 75.7 - - + +
146B LEU* 1.3 65.7 + - - +
147B PRO* 3.4 2.7 - - - -
148B HIS* 3.1 15.1 + - + +
149B VAL* 3.0 30.8 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 146 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13B ALA* 4.4 12.3 - - + -
17B VAL* 3.6 23.1 - - + -
40B ILE* 5.3 0.4 - - + -
140B ALA* 3.6 28.7 - - + -
142B ASN 3.4 13.3 + - - +
143B ALA* 3.0 15.5 + - - +
145B THR* 1.3 77.0 - - - +
147B PRO* 1.4 64.4 - - + +
149B VAL* 3.1 7.0 + - + +
150B ILE* 3.0 37.3 + - + +
166B VAL* 4.7 2.7 - - + -
168B ILE* 4.2 22.9 - - + -
172B LEU* 4.6 5.6 - - + -
173B PRO* 4.1 28.0 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with PRO 147 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13B ALA 4.4 5.6 - - - +
16B ALA* 3.6 27.8 - - + +
17B VAL* 4.3 7.4 - - + +
20B VAL* 3.9 24.6 - - + +
143B ALA 3.5 12.1 - - - +
144B ALA 3.7 7.6 - - - +
145B THR 3.5 3.4 - - - -
146B LEU* 1.4 90.7 - - + +
148B HIS* 1.3 61.6 + - - +
150B ILE* 3.3 3.5 + - + +
151B ASP* 2.9 24.5 + - - +
177B ILE* 4.0 5.6 - - + -
182B TRP* 3.8 25.6 - - + -
183B TYR 4.9 2.2 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with HIS 148 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
291A GLU* 4.0 17.1 + - + -
314A LYS* 3.3 32.6 + - - -
144B ALA 5.3 0.2 + - - -
145B THR* 3.1 18.0 + - - +
147B PRO* 1.3 78.9 - - - +
149B VAL* 1.3 60.7 + - - +
151B ASP* 3.2 8.5 + - + +
152B GLU* 2.7 60.6 + - + +
155B ARG* 4.1 6.8 + - - -
182B TRP* 5.7 0.2 - - - +
183B TYR* 4.5 20.6 + + + -
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 149 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136B TYR* 4.0 8.6 - - - +
138B VAL* 3.7 30.3 - - + -
140B ALA* 5.0 11.7 - - + -
145B THR* 3.0 24.7 + - - +
146B LEU* 3.1 11.2 + - + +
148B HIS* 1.3 81.1 - - - +
150B ILE* 1.3 57.7 + - - +
152B GLU* 3.4 7.2 + - - +
153B ALA* 2.9 27.7 + - - +
166B VAL* 4.0 18.8 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 150 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17B VAL* 3.9 28.9 - - + -
20B VAL* 4.1 15.3 - - + -
21B LEU* 4.1 15.3 - - + -
105B LEU* 4.2 7.4 - - + -
107B LEU* 3.7 27.8 - - + -
146B LEU* 3.0 16.6 + - + +
147B PRO* 3.7 6.7 - - + +
149B VAL* 1.3 73.0 - - - +
151B ASP* 1.3 65.3 + - - +
153B ALA* 3.2 5.9 + - - +
154B ILE* 2.9 33.7 + - + +
166B VAL* 4.1 21.8 - - + -
168B ILE* 4.1 11.0 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 151 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
313A GLY 4.5 1.6 - - - +
20B VAL* 3.9 11.4 - - + +
24B TRP* 2.8 20.9 + - - +
147B PRO 2.9 18.7 + - - +
148B HIS* 3.4 10.5 - - + +
150B ILE* 1.3 77.1 - - - +
152B GLU* 1.3 56.2 + - - +
154B ILE* 3.3 3.9 + - - +
155B ARG* 2.9 44.9 + - - +
183B TYR* 4.3 8.6 - - - +
184B ALA* 3.3 7.3 - - - +
185B SER* 2.7 49.0 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 152 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
310A ALA 4.8 0.7 - - - +
314A LYS* 3.1 32.3 + - - +
136B TYR* 3.5 21.3 - - + +
148B HIS* 2.7 31.0 + - + +
149B VAL* 3.5 8.1 - - - +
151B ASP* 1.3 70.1 - - - +
153B ALA* 1.3 61.2 - - - +
155B ARG* 2.8 39.0 + - - +
156B ARG* 2.8 66.1 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 153 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
105B LEU* 3.6 24.0 - - + -
136B TYR* 3.7 15.7 - - + -
149B VAL 2.9 19.2 + - - +
150B ILE 3.2 6.3 + - - +
152B GLU* 1.3 75.5 - - - +
154B ILE* 1.3 57.6 + - - +
156B ARG* 3.9 0.5 - - - +
157B ALA* 2.9 24.4 + - - +
164B ALA* 3.2 19.9 - - + +
166B VAL* 3.7 16.2 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 154 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
20B VAL* 4.0 10.3 - - + +
21B LEU* 4.0 25.1 - - + -
24B TRP* 3.5 57.2 - - + +
26B VAL* 5.3 2.9 - - + -
76B ILE* 3.8 20.6 - - + -
105B LEU* 4.0 16.8 - - + -
150B ILE* 2.9 20.4 + - + +
151B ASP 3.7 5.8 - - - +
153B ALA* 1.3 75.1 - - - +
155B ARG* 1.3 63.4 + - - +
157B ALA* 3.3 2.3 + - - +
158B TYR* 3.0 35.5 + - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 155 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
309A PRO 3.7 14.5 - - - +
310A ALA* 2.8 39.4 + - - +
312A LEU 3.2 23.8 + - - -
313A GLY 4.3 0.4 + - - -
314A LYS* 3.5 24.6 - - - +
24B TRP* 4.1 20.2 - - + -
148B HIS* 4.1 7.1 + - - -
151B ASP* 2.9 30.2 + - - +
152B GLU* 2.8 44.7 + - - +
154B ILE* 1.3 78.0 - - - +
156B ARG* 1.3 58.3 + - - +
158B TYR* 3.5 4.6 + - - +
159B ALA* 3.0 29.3 + - - +
185B SER* 2.8 19.6 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 156 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
310A ALA* 4.7 8.5 - - + -
314A LYS* 4.5 8.7 - - - +
135B ASP* 4.0 17.8 + - - +
136B TYR* 3.4 49.6 + - + -
152B GLU* 2.8 46.5 + - - +
153B ALA 3.9 2.5 - - - +
155B ARG* 1.3 75.7 - - - +
157B ALA* 1.3 60.3 + - - +
159B ALA* 4.4 3.6 - - - -
160B HIS* 2.8 56.1 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 157 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
76B ILE* 3.7 20.9 - - + -
103B PRO* 3.5 6.2 - - + +
104B VAL 3.9 11.4 - - - +
135B ASP* 5.4 1.8 - - - -
153B ALA 2.9 19.5 + - - +
154B ILE 3.3 4.7 + - - +
156B ARG* 1.3 74.5 - - - +
158B TYR* 1.3 57.7 + - - +
161B GLN* 2.8 29.5 + - - -
162B GLY 3.2 26.9 + - - +
163B VAL 5.3 0.4 - - - -
164B ALA* 4.1 7.0 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 158 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24B TRP* 3.6 45.2 + + + -
74B GLY 3.5 22.2 - - - -
75B LYS* 3.3 14.6 - - + +
76B ILE* 2.9 37.5 + - + +
103B PRO* 4.1 11.2 - - + -
154B ILE* 3.0 31.7 + - + +
155B ARG* 3.7 4.7 - - - +
157B ALA* 1.3 73.6 - - - +
159B ALA* 1.3 66.3 + - - +
160B HIS 3.3 0.7 + - - -
161B GLN* 2.9 31.3 + - - +
189B TYR* 3.9 36.1 - + + +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 159 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
308A ASP* 4.5 1.6 - - - +
309A PRO* 4.1 20.7 - - + +
310A ALA* 3.6 37.0 - - + +
155B ARG 3.0 19.6 + - - +
156B ARG 3.4 1.8 + - - +
158B TYR* 1.3 76.4 - - - +
160B HIS* 1.3 71.2 + - + +
161B GLN* 4.7 2.8 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with HIS 160 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
308A ASP* 4.9 5.6 + - - -
310A ALA* 4.1 16.8 - - + +
135B ASP* 2.8 42.4 + - - +
156B ARG* 2.8 41.7 + - + +
159B ALA* 1.3 86.1 - - + +
161B GLN* 1.3 72.9 + - - +
162B GLY* 3.4 1.9 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 161 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
74B GLY 5.5 1.8 + - - -
98B ARG 5.0 0.7 - - - +
101B HIS* 3.2 53.2 + - + +
102B VAL* 4.0 3.4 - - - +
103B PRO* 3.7 23.6 - - - +
157B ALA 2.8 12.6 + - - -
158B TYR* 2.9 30.7 + - - +
159B ALA 4.7 3.1 - - - +
160B HIS* 1.3 82.2 - - - +
162B GLY* 1.3 55.8 + - - +
189B TYR* 5.9 0.2 + - - -
----------------------------------------------------------
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