Contacts of the helix formed by residues 152 - 167 (chain A) in PDB entry 1ZP2
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 ASN 152 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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146A PHE* 4.0 3.1 - - - -
150A ILE 4.3 0.2 + - - -
151A ILE* 1.3 79.6 - - - +
153A GLN* 1.3 65.8 + - - +
154A LYS* 2.9 28.0 - - - +
155A GLN* 2.6 53.8 + - - +
156A LEU* 3.2 16.1 + - - +
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Residues in contact with GLN 153 (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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146A PHE* 3.6 27.6 - - + -
152A ASN* 1.3 78.2 - - - +
154A LYS* 1.3 68.5 + - - +
156A LEU* 3.3 9.3 - - + +
157A GLU* 3.2 35.8 + - - +
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Residues in contact with LYS 154 (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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152A ASN* 2.9 22.1 - - - +
153A GLN* 1.3 80.0 + - - +
155A GLN* 1.3 69.1 + - + +
157A GLU* 3.3 8.0 + - - +
158A PHE* 3.2 23.3 + - + +
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Residues in contact with GLN 155 (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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151A ILE* 3.3 12.9 - - + -
152A ASN* 2.6 57.4 + - - +
154A LYS* 1.3 75.9 - - + +
156A LEU* 1.3 64.8 + - - +
158A PHE* 3.1 3.7 + - - -
159A ALA* 2.9 23.1 + - - +
188A SER* 3.1 13.7 + - - +
189A CYS* 3.1 32.8 - - - +
192A ASP* 2.6 33.3 + - - +
195A THR* 3.0 23.8 + - - -
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Residues in contact with LEU 156 (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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142A LEU* 3.8 33.0 - - + +
143A GLU* 4.3 4.9 - - + +
146A PHE* 3.8 32.1 - - + -
151A ILE* 3.4 28.9 - - + +
152A ASN 3.2 7.5 + - - +
153A GLN* 3.3 16.2 - - + +
155A GLN* 1.3 77.9 - - - +
157A GLU* 1.3 54.7 + - - +
159A ALA* 3.6 2.7 - - - +
160A TRP* 2.7 54.6 + - + +
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Residues in contact with GLU 157 (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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153A GLN* 3.2 25.1 + - - +
154A LYS* 3.7 9.4 - - - +
155A GLN 3.3 0.4 - - - -
156A LEU* 1.3 80.7 - - - +
158A PHE* 1.3 64.1 + - - +
160A TRP* 3.4 7.7 + - + +
161A SER* 3.0 37.9 + - - +
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Residues in contact with PHE 158 (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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154A LYS* 3.2 13.1 + - + +
155A GLN* 3.1 8.8 + - - +
157A GLU* 1.3 80.1 + - - +
159A ALA* 1.3 63.0 + - - +
161A SER* 3.0 19.5 + - - -
162A ILE* 3.1 37.9 + - + +
187A ILE* 4.4 9.9 - - + -
188A SER* 3.5 37.7 - - - +
222A TYR* 6.6 0.4 - + - -
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Residues in contact with ALA 159 (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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142A LEU* 4.1 14.8 - - + -
155A GLN 2.9 16.4 + - - +
156A LEU* 3.6 3.6 - - - +
158A PHE* 1.3 76.3 - - - +
160A TRP* 1.3 62.4 + - - +
162A ILE* 3.3 8.1 + - - +
163A VAL* 3.1 26.5 + - - +
184A ALA* 3.7 30.0 - - - +
185A LEU* 4.0 13.0 - - + +
188A SER* 3.9 6.3 - - - -
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Residues in contact with TRP 160 (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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50A GLN* 5.2 4.8 - - + +
139A TYR* 3.5 53.2 - + + -
142A LEU* 3.5 26.0 - - + +
143A GLU* 4.5 15.3 - - + -
156A LEU* 2.7 41.5 + - + +
157A GLU* 3.5 10.5 - - + +
159A ALA* 1.3 72.7 - - - +
161A SER* 1.3 57.9 + - - +
163A VAL* 3.3 2.8 + - - +
164A ASN* 3.0 49.3 + - - +
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Residues in contact with SER 161 (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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157A GLU* 3.0 25.2 + - - +
158A PHE* 3.0 14.9 + - - -
160A TRP* 1.3 75.3 - - - +
162A ILE* 1.3 61.2 + - - +
164A ASN* 3.1 11.7 + - - +
165A ASP* 2.9 37.7 + - - +
222A TYR* 5.5 0.2 - - - -
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Residues in contact with ILE 162 (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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158A PHE* 3.1 45.3 + - + +
159A ALA* 3.3 7.8 + - - +
161A SER* 1.3 76.7 - - - +
163A VAL* 1.3 53.2 + - - +
165A ASP* 3.1 3.8 + - - +
166A SER* 2.6 33.5 + - - -
184A ALA* 3.7 35.9 - - + +
187A ILE* 3.8 15.5 - - + -
218A ILE* 3.7 33.8 - - + +
222A TYR* 3.3 22.2 - - + +
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Residues in contact with VAL 163 (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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138A PRO* 3.4 35.7 - - + -
139A TYR* 3.4 29.2 - - + -
142A LEU* 3.7 20.2 - - + -
159A ALA 3.1 15.2 + - - +
160A TRP 3.4 7.4 - - - +
161A SER 3.2 0.2 - - - -
162A ILE* 1.3 74.0 - - - +
164A ASN* 1.3 65.6 + - - +
166A SER* 2.5 28.8 + - - +
167A TYR* 3.0 13.5 - - + -
180A LEU* 5.3 3.1 - - + +
181A ALA* 5.0 0.9 - - - -
184A ALA* 3.9 16.4 - - + -
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Residues in contact with ASN 164 (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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36A TRP* 3.6 13.9 + - + -
40A GLN* 6.1 0.2 - - - -
50A GLN* 3.4 27.3 - - - +
139A TYR* 2.4 46.6 + - - -
160A TRP* 3.0 26.5 + - - -
161A SER* 3.1 11.3 + - - +
163A VAL* 1.3 77.0 - - - +
165A ASP* 1.3 65.5 + - - +
167A TYR* 3.3 17.8 + - - +
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Residues in contact with ASP 165 (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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36A TRP* 4.6 5.4 + - - +
40A GLN* 5.9 1.4 + - - -
161A SER* 2.9 20.4 + - - +
162A ILE 3.4 1.6 - - - +
164A ASN* 1.3 73.6 - - - +
166A SER* 1.3 67.2 + - - +
167A TYR 2.9 4.0 + - - -
168A ALA* 3.3 18.2 + - - +
221A ILE* 3.9 13.0 - - + +
222A TYR* 2.5 46.0 + - + +
225A GLU* 5.9 3.1 - - - +
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Residues in contact with SER 166 (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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162A ILE 2.6 17.4 + - - -
163A VAL* 2.5 25.1 + - - -
165A ASP* 1.3 73.6 - - - +
167A TYR* 1.3 63.1 + - - +
168A ALA 2.9 4.5 + - - -
169A SER* 2.7 27.7 + - - -
170A SER 4.3 1.4 + - - -
171A LEU* 4.8 3.7 + - - +
180A LEU* 3.6 35.3 - - - +
218A ILE* 4.9 7.6 - - - -
221A ILE* 3.9 13.5 - - - -
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Residues in contact with TYR 167 (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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36A TRP* 3.2 36.3 - + + +
50A GLN* 3.9 7.4 - - - -
54A ALA* 3.5 18.2 - - + +
57A ILE* 3.5 19.3 - - + +
58A VAL* 3.7 23.1 - - + -
61A ARG* 3.2 18.3 + - - +
137A HIS* 2.7 35.8 + - - +
138A PRO* 3.6 10.6 - - + +
139A TYR* 3.3 21.2 - - - -
163A VAL* 3.0 31.0 - - + -
164A ASN 3.3 12.5 + - - +
165A ASP 2.9 2.8 + - - -
166A SER* 1.3 80.6 + - - +
168A ALA* 1.3 56.9 + - - +
169A SER 3.4 1.1 - - - -
170A SER 5.3 0.4 - - - +
172A CYS* 5.1 9.0 - - + -
180A LEU* 5.8 1.6 - - + -
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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