Contacts of the helix formed by residues 151 - 163 (chain P) in PDB entry 2AAZ
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 151 (chain P).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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132P ARG* 2.7 58.4 + - - +
149P GLY 3.7 3.8 + - - +
150P VAL* 1.3 72.5 - - - +
152P GLN* 1.3 61.7 + - - +
153P LEU 3.3 2.3 + - - -
154P GLN* 3.1 26.2 + - + +
155P ARG* 3.2 19.2 + - - +
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Residues in contact with GLN 152 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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174O TRP* 4.7 1.2 + - - -
176O PRO* 3.6 29.4 - - + +
130P GLN 2.8 23.8 + - - -
131P TRP* 3.0 10.4 + - - +
134P PHE* 3.6 13.1 - - - +
150P VAL* 3.1 12.7 + - + +
151P ASP* 1.3 72.9 - - - +
153P LEU* 1.3 58.3 + - - +
155P ARG* 3.3 7.2 + - - +
156P VAL* 2.9 34.2 + - - +
170P ILE 3.9 10.3 - - - +
171P LEU* 3.8 12.6 - - + -
172P SER* 2.7 47.9 + - - +
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Residues in contact with LEU 153 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84P VAL* 3.8 27.4 - - + -
131P TRP* 3.4 8.5 + - + +
132P ARG* 3.6 32.5 - - - +
151P ASP* 3.3 1.2 + - - -
152P GLN* 1.3 78.9 - - - +
154P GLN* 1.3 64.5 + - - +
156P VAL* 3.1 10.5 + - + +
157P ILE* 3.1 24.6 + - + +
171P LEU* 3.9 27.7 - - + +
234P LEU* 4.7 5.6 - - + -
238P ILE* 4.3 22.0 - - + -
292P ILE* 3.7 33.4 - - + -
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Residues in contact with GLN 154 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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132P ARG* 4.4 4.8 - - - +
151P ASP* 3.1 31.5 + - + +
153P LEU* 1.3 76.1 - - - +
155P ARG* 1.3 58.4 + - - +
157P ILE* 3.1 17.7 + - - +
158P ASP* 2.9 55.6 + - - +
291P ASP* 5.3 7.9 - - - +
292P ILE* 4.0 23.0 - - - +
293P ASP* 5.1 1.8 + - - -
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Residues in contact with ARG 155 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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150P VAL* 5.9 5.2 - - + +
151P ASP 3.2 14.5 + - - +
152P GLN* 3.5 11.7 - - - +
153P LEU 3.2 0.2 - - - -
154P GLN* 1.3 76.8 - - - +
156P VAL* 1.3 55.9 + - + +
158P ASP* 4.4 13.5 + - - +
159P THR* 2.7 50.0 + - - +
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Residues in contact with VAL 156 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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152P GLN 2.9 20.5 + - - +
153P LEU* 3.3 13.0 - - + +
155P ARG* 1.3 78.1 - - + +
157P ILE* 1.3 62.7 + - + +
159P THR* 3.8 2.4 - - - -
160P ILE* 3.0 43.3 + - + +
169P ILE* 3.6 29.8 - - + +
170P ILE 3.7 26.2 - - - +
171P LEU* 4.5 7.9 - - + -
193P PHE* 3.8 17.5 - - + -
238P ILE* 4.6 9.4 - - + -
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Residues in contact with ILE 157 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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153P LEU* 3.3 16.6 - - + +
154P GLN* 3.1 29.6 + - - +
156P VAL* 1.3 78.8 - - - +
158P ASP* 1.3 63.8 + - - +
160P ILE* 3.3 2.1 + - - +
161P LYS* 3.2 37.6 + - + +
238P ILE* 3.6 44.2 - - + -
241P ILE* 4.0 18.6 - - + -
242P THR* 3.7 17.4 - - + +
292P ILE* 4.6 17.3 - - + -
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Residues in contact with ASP 158 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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154P GLN* 2.9 47.2 + - - +
155P ARG* 3.8 16.4 + - - +
157P ILE* 1.3 76.9 - - - +
159P THR* 1.3 57.4 + - - +
161P LYS* 3.4 8.2 + - - +
162P ASN* 2.9 46.3 + - - +
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Residues in contact with THR 159 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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155P ARG* 2.7 38.0 + - - +
156P VAL* 3.8 5.6 - - - -
158P ASP* 1.3 75.6 - - - +
160P ILE* 1.3 58.9 + - - +
162P ASN* 5.3 0.2 - - - -
163P ASN* 2.7 59.0 + - + +
166P ASP* 3.5 24.5 - - + -
169P ILE* 3.8 19.1 - - + -
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Residues in contact with ILE 160 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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156P VAL* 3.0 33.1 + - + +
157P ILE 3.7 4.3 - - - +
159P THR* 1.3 77.3 - - - +
161P LYS* 1.3 60.8 + - - +
164P PRO* 3.5 25.3 - - - +
169P ILE* 4.2 13.5 - - + -
193P PHE* 4.4 4.7 - - + -
195P VAL* 3.8 24.3 - - + +
209P LEU* 3.9 16.2 - - + -
238P ILE* 3.6 30.3 - - + -
242P THR* 3.7 23.5 - - + +
244P THR* 3.9 13.7 - - + +
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Residues in contact with LYS 161 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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157P ILE* 3.2 33.9 + - + +
158P ASP* 3.8 8.3 + - - +
159P THR 3.2 0.2 - - - -
160P ILE* 1.3 78.2 - - - +
162P ASN* 1.3 72.7 + - - +
164P PRO* 4.6 3.0 - - - +
241P ILE* 4.0 17.1 + - - +
242P THR* 3.8 26.2 - - - +
286P LYS* 5.7 5.4 - - - +
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Residues in contact with ASN 162 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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158P ASP* 2.9 32.9 + - - +
159P THR* 5.3 0.2 - - - -
161P LYS* 1.3 88.7 - - - +
163P ASN* 1.3 64.6 + - + +
164P PRO* 3.7 4.9 - - - +
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Residues in contact with ASN 163 (chain P).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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159P THR* 2.7 25.5 + - + +
162P ASN* 1.3 77.3 - - + +
164P PRO* 1.3 60.8 - - - +
165P THR* 3.3 12.9 + - - -
166P ASP* 3.0 51.8 + - - +
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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