Contacts of the helix formed by residues 149 - 160 (chain B) in PDB entry 2AXZ
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 PHE 149 (chain B).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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10A GLN* 4.8 5.6 - - - -
11A ILE* 3.2 46.2 - - + -
14A GLU* 3.8 20.0 - - + -
15A LEU* 4.4 11.7 - - + -
56A VAL* 3.9 22.2 - - + -
60A GLU* 3.0 12.3 - - - +
64A ARG* 3.4 28.5 - - - +
107B LEU* 4.9 1.3 - - + -
145B ARG* 3.1 20.6 - - - -
147B THR* 3.8 13.7 - - - -
148B PHE* 1.3 74.6 - - - +
150B GLY* 1.3 69.3 + - - +
151B ILE* 3.2 5.8 - - + -
152B ASP* 2.7 31.9 + - - +
153B TYR* 3.1 14.7 - - - -
186B TYR* 4.4 0.4 - - - -
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Residues in contact with GLY 150 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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60A GLU* 3.0 25.0 + - - -
149B PHE* 1.3 69.5 - - - +
151B ILE* 1.3 62.2 + - - +
153B TYR* 3.1 5.9 + - - -
154B GLU* 3.0 20.1 + - - +
185B ASP 5.5 0.2 - - - -
186B TYR* 3.6 19.3 - - - -
189B THR* 3.5 21.2 + - - -
7F VAL* 6.4 0.4 - - - -
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Residues in contact with ILE 151 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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55A GLY 4.1 8.5 - - - +
56A VAL* 4.8 7.2 - - + -
57A ASN* 5.6 2.3 - - + +
60A GLU* 4.2 3.2 + - - -
107B LEU* 3.4 57.7 - - + +
108B GLN* 3.4 38.6 - - - +
111B SER* 4.0 7.4 - - - -
149B PHE* 4.4 12.1 - - + -
150B GLY* 1.3 74.8 - - - +
152B ASP* 1.3 59.6 + - - +
154B GLU* 3.2 27.6 + - - +
155B ILE* 2.9 26.8 + - + +
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Residues in contact with ASP 152 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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107B LEU* 3.3 12.4 - - - +
142B TYR* 2.7 36.6 + - - +
145B ARG* 2.9 27.8 + - - -
148B PHE* 3.5 6.0 - - + -
149B PHE* 2.7 39.9 + - - +
151B ILE* 1.3 75.6 - - - +
153B TYR* 1.3 59.8 + - - +
155B ILE* 3.1 4.0 + - - +
156B VAL* 2.9 32.4 + - - +
175B MSE 3.5 15.9 - - + -
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Residues in contact with TYR 153 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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148B PHE* 3.6 31.6 + - + +
149B PHE 3.1 17.0 - - - -
150B GLY* 3.1 7.5 + - - +
152B ASP* 1.3 75.7 - - - +
154B GLU* 1.3 57.3 + - - +
156B VAL 4.5 0.2 - - - +
157B SER* 2.9 34.1 + - - -
175B MSE 2.7 51.7 + - + +
176B TYR* 3.5 27.1 - + - -
178B ILE* 3.1 23.2 - - + +
186B TYR* 4.2 7.6 + + - -
189B THR* 3.9 16.4 - - - +
190B ILE* 3.4 20.9 - - + -
193B VAL* 3.1 11.6 - - + +
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Residues in contact with GLU 154 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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79B LYS* 3.1 27.2 + - - -
111B SER* 3.1 21.9 + - - +
150B GLY 3.0 12.1 + - - +
151B ILE* 3.3 20.0 - - + +
153B TYR* 1.3 75.1 - - - +
155B ILE* 1.3 65.5 - - - +
157B SER* 3.2 6.5 + - - -
158B ASN* 2.9 27.7 + - - -
189B THR* 3.9 12.7 - - + +
5F VAL* 3.3 20.2 - - - +
6F PHE* 3.3 14.1 - - - -
7F VAL* 3.3 29.7 + - - +
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Residues in contact with ILE 155 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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107B LEU* 3.5 45.5 - - + +
110B PHE* 3.5 38.4 - - + -
111B SER* 3.9 15.5 - - - -
114B LEU* 3.5 10.7 - - + +
141B LEU* 5.1 0.2 - - + -
142B TYR* 3.4 28.3 - - + +
151B ILE 2.9 18.7 + - - +
152B ASP* 3.1 6.7 + - - +
154B GLU* 1.3 75.2 - - - +
156B VAL* 1.3 54.5 + - + +
158B ASN* 3.1 2.5 + - - +
159B LEU* 2.7 40.5 + - + +
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Residues in contact with VAL 156 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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142B TYR* 4.6 7.6 - - + +
152B ASP 2.9 17.0 + - - +
153B TYR* 4.0 4.0 - - - +
155B ILE* 1.3 76.4 - - + +
157B SER* 1.3 62.5 + - - +
159B LEU* 3.5 10.1 - - + +
160B LEU* 3.1 24.1 + - - +
168B VAL* 3.8 12.6 - - + -
171B ILE* 4.0 15.0 - - + -
172B ILE* 3.5 34.3 - - + -
175B MSE 3.4 29.4 - - + -
193B VAL* 4.3 10.5 - - + -
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Residues in contact with SER 157 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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153B TYR 2.9 22.1 + - - -
154B GLU 3.3 5.6 - - - -
155B ILE 3.1 0.2 - - - -
156B VAL* 1.3 78.9 - - - +
158B ASN* 1.3 61.4 + - - +
160B LEU* 3.6 15.0 + - - +
161B ASN* 4.1 4.0 + - - +
189B THR 3.7 0.7 + - - -
192B THR* 3.5 10.9 - - - +
193B VAL* 2.9 31.5 + - - +
196B ASN* 3.3 17.1 - - - +
2F VAL* 4.8 0.2 - - - +
3F THR 4.1 2.0 - - - +
5F VAL* 3.5 22.2 - - - +
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Residues in contact with ASN 158 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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111B SER* 3.0 25.6 + - - +
114B LEU* 4.3 19.7 - - + +
115B GLY 5.2 0.2 - - - +
118B SER* 4.5 0.7 + - - -
154B GLU* 2.9 19.4 + - - +
155B ILE 3.8 2.5 - - - +
157B SER* 1.3 74.7 - - - +
159B LEU* 1.3 63.6 + - - +
161B ASN* 3.3 14.5 + - - +
162B VAL* 3.6 12.5 - - - +
4F LEU* 3.1 27.4 - - + +
5F VAL 2.8 44.3 + - - +
6F PHE* 3.9 11.1 - - - -
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Residues in contact with LEU 159 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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110B PHE* 5.3 0.2 - - + -
114B LEU* 3.8 31.4 - - + +
134B ILE* 4.5 9.4 - - + -
138B LEU* 3.6 36.1 - - + -
155B ILE* 2.7 19.3 + - + +
156B VAL* 3.2 11.9 + - + +
158B ASN* 1.3 73.6 - - - +
160B LEU* 1.3 61.3 + - - +
161B ASN 3.0 5.1 + - - -
162B VAL* 3.1 6.2 + - + +
163B LEU* 3.0 40.0 + - + +
168B VAL* 3.6 26.5 - - + -
171B ILE* 4.2 9.4 - - + -
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Residues in contact with LEU 160 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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156B VAL 3.1 19.3 + - - +
157B SER* 3.8 7.9 - - - +
158B ASN 3.3 0.4 - - - -
159B LEU* 1.3 76.2 - - - +
161B ASN* 1.3 58.7 + - - +
162B VAL 3.4 0.4 + - - -
163B LEU 3.7 12.1 - - - +
165B TYR* 3.7 31.2 - - + -
168B VAL* 3.6 27.4 - - + -
172B ILE* 4.1 15.0 - - + -
193B VAL* 4.0 15.7 - - + +
196B ASN* 4.0 11.2 - - + -
197B ALA* 4.0 23.6 - - - +
200B ILE* 3.6 29.7 - - + +
289B PHE* 3.6 8.1 - - - -
2F VAL* 4.4 1.3 - - + -
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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