Contacts of the helix formed by residues 144 - 152 (chain A) in PDB entry 2ZSU
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 144 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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106A VAL* 4.1 0.4 - - - -
108A ILE* 4.4 20.4 - - + +
143A GLY* 1.3 70.4 - - - -
145A GLY* 1.3 65.8 + - - +
146A VAL* 2.7 46.0 + - - +
147A LYS* 3.2 23.9 + - + +
148A PHE* 3.1 21.7 + - - +
168A PRO* 5.4 6.9 - - - +
172A LEU* 5.2 0.9 - - - +
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Residues in contact with GLY 145 (chain A).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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83A ILE* 3.9 30.2 - - - +
106A VAL* 3.9 16.0 + - - +
108A ILE* 5.7 0.2 - - - +
143A GLY 3.6 4.8 + - - -
144A ASP* 1.3 74.7 + - - +
146A VAL* 1.3 61.3 + - - +
148A PHE* 3.9 3.3 - - - +
149A ILE* 3.2 27.0 + - - +
172A LEU* 4.4 2.1 - - - +
177A PHE* 4.0 7.1 - - - -
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Residues in contact with VAL 146 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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144A ASP* 2.7 28.0 + - - +
145A GLY* 1.3 72.7 - - - -
147A LYS* 1.3 76.3 + - - +
149A ILE* 3.2 17.0 - - - +
150A GLU* 3.4 10.0 - - - +
168A PRO 5.1 3.1 - - - +
171A MET* 3.7 35.7 - - + +
172A LEU* 3.5 25.6 - - + -
174A SER* 5.6 0.7 - - - +
176A GLU* 4.2 12.3 - - - +
177A PHE* 3.9 19.1 - - + -
180A ASN* 5.0 0.7 + - - +
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Residues in contact with LYS 147 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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144A ASP* 3.2 26.6 + - + +
146A VAL* 1.3 95.3 - - - +
148A PHE* 1.3 65.3 + - - +
149A ILE 3.1 1.8 - - - -
150A GLU* 3.0 51.2 + - - +
151A GLU* 4.0 4.9 + - - +
176A GLU* 4.1 8.3 + - - -
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Residues in contact with PHE 148 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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81A LEU* 3.8 26.9 - - + -
83A ILE* 6.0 0.9 - - + -
104A ILE* 3.9 26.9 - - + -
106A VAL* 4.0 21.5 - - + -
141A ILE* 3.7 29.4 - - + -
144A ASP 3.1 15.3 + - - +
145A GLY* 3.9 8.1 - - - +
147A LYS* 1.3 75.9 - - - +
149A ILE* 1.3 68.0 + - - +
150A GLU 3.2 1.0 + - - -
151A GLU* 3.3 2.1 + - - -
152A ASN* 2.9 72.7 + - + +
155A PHE* 4.0 8.3 - + - -
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Residues in contact with ILE 149 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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81A LEU* 3.9 27.6 - - + -
83A ILE* 5.3 2.2 - - + -
145A GLY 3.2 9.8 + - - +
146A VAL 3.2 20.4 - - - +
147A LYS 3.1 0.8 - - - -
148A PHE* 1.3 81.2 - - + +
150A GLU* 1.3 60.7 + - - +
151A GLU 3.3 0.2 - - - -
152A ASN 3.4 15.8 - - - +
155A PHE* 5.0 1.8 - - + -
158A ILE* 4.4 2.9 - - + -
177A PHE* 3.6 28.7 - - + -
180A ASN* 3.7 36.8 - - + +
181A ALA* 3.9 13.5 - - + -
183A ARG* 5.2 1.7 + - - -
184A ALA* 3.3 27.3 - - + +
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Residues in contact with GLU 150 (chain A).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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146A VAL 3.4 11.5 - - - +
147A LYS* 3.0 51.4 + - - +
149A ILE* 1.3 79.3 - - - +
151A GLU* 1.3 66.0 + - + +
176A GLU* 4.0 12.3 - - - +
180A ASN* 3.9 22.0 + - - +
183A ARG* 4.0 15.4 + - - +
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Residues in contact with GLU 151 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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147A LYS 4.0 3.6 + - - +
148A PHE* 3.3 3.8 + - - +
150A GLU* 1.3 85.8 - - + +
152A ASN* 1.3 70.1 + - - +
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Residues in contact with ASN 152 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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79A ARG* 5.4 4.2 + - - +
104A ILE* 5.7 0.7 - - - +
148A PHE* 2.9 72.4 + - + +
149A ILE* 3.4 10.4 - - - +
150A GLU 3.7 0.4 - - - -
151A GLU* 1.3 89.3 - - - +
153A SER* 1.3 65.1 + - - +
155A PHE* 4.2 7.4 - - + -
184A ALA* 3.4 15.8 - - - +
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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