Contacts of the helix formed by residues 151 - 163 (chain H) 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 H).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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132H ARG* 2.8 58.7 + - - +
149H GLY 3.7 4.4 + - - +
150H VAL* 1.3 73.6 - - - +
152H GLN* 1.3 58.4 + - - +
153H LEU 3.3 2.3 + - - -
154H GLN* 3.1 26.2 + - + +
155H ARG* 3.2 19.6 + - - +
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Residues in contact with GLN 152 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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174G TRP* 4.6 1.9 + - - -
176G PRO* 3.6 28.6 - - + +
130H GLN 2.9 23.0 + - - -
131H TRP* 3.0 12.0 + - - +
134H PHE* 3.6 13.7 - - + +
150H VAL* 3.1 12.5 + - + +
151H ASP* 1.3 72.5 - - - +
153H LEU* 1.3 57.0 + - - +
155H ARG* 3.3 7.8 + - - +
156H VAL* 2.9 33.3 + - - +
170H ILE 3.8 10.3 - - - +
171H LEU* 3.8 13.6 - - + -
172H SER* 2.7 48.4 + - - +
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Residues in contact with LEU 153 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84H VAL* 3.8 27.6 - - + -
131H TRP* 3.4 8.7 + - + +
132H ARG* 3.6 31.6 - - - +
151H ASP* 3.3 1.2 + - - -
152H GLN* 1.3 79.1 - - - +
154H GLN* 1.3 63.7 + - - +
156H VAL* 3.1 10.0 + - + +
157H ILE* 3.1 25.4 + - + +
171H LEU* 3.9 28.0 - - + +
234H LEU* 4.7 4.9 - - + -
238H ILE* 4.3 22.7 - - + -
292H ILE* 3.7 33.2 - - + -
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Residues in contact with GLN 154 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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132H ARG* 4.4 5.1 - - - +
151H ASP* 3.1 31.3 + - + +
153H LEU* 1.3 76.1 - - - +
155H ARG* 1.3 57.9 + - - +
157H ILE* 3.2 17.4 + - - +
158H ASP* 2.9 58.1 + - - +
291H ASP* 5.3 8.9 - - - +
292H ILE* 4.1 22.2 - - - +
293H ASP* 5.2 1.4 + - - -
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Residues in contact with ARG 155 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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150H VAL* 5.8 6.2 - - + +
151H ASP 3.2 15.0 + - - +
152H GLN* 3.5 11.7 - - - +
153H LEU 3.2 0.4 - - - -
154H GLN* 1.3 77.3 - - - +
156H VAL* 1.3 58.8 + - + +
158H ASP* 4.4 13.5 + - - +
159H THR* 2.8 48.5 + - - +
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Residues in contact with VAL 156 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
152H GLN 2.9 20.7 + - - +
153H LEU* 3.3 12.1 - - + +
155H ARG* 1.3 78.1 - - + +
157H ILE* 1.3 63.2 + - + +
159H THR* 3.4 2.7 + - - -
160H ILE* 3.0 38.0 + - + +
169H ILE* 3.6 30.5 - - + +
170H ILE 3.7 26.5 - - - +
171H LEU* 4.5 9.0 - - + -
193H PHE* 3.8 18.2 - - + -
238H ILE* 4.6 9.6 - - + -
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Residues in contact with ILE 157 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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153H LEU* 3.1 17.6 + - + +
154H GLN* 3.2 29.6 + - - +
156H VAL* 1.3 76.6 - - - +
158H ASP* 1.3 64.0 + - - +
160H ILE* 3.3 2.9 + - - +
161H LYS* 3.2 37.8 + - + +
238H ILE* 3.6 43.7 - - + -
241H ILE* 4.0 18.6 - - + -
242H THR* 3.8 17.9 - - + +
292H ILE* 4.6 17.5 - - + -
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Residues in contact with ASP 158 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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154H GLN* 2.9 48.3 + - - +
155H ARG* 3.8 16.1 + - - +
157H ILE* 1.3 77.8 - - - +
159H THR* 1.3 56.8 + - - +
161H LYS* 3.4 8.3 + - - +
162H ASN* 2.9 46.8 + - - +
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Residues in contact with THR 159 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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155H ARG* 2.8 36.8 + - - +
156H VAL* 3.8 5.2 - - - -
158H ASP* 1.3 75.2 - - - +
160H ILE* 1.3 59.3 + - - +
162H ASN* 5.3 0.2 - - - -
163H ASN* 2.8 47.1 + - + +
166H ASP* 3.5 37.7 - - + +
169H ILE* 3.8 19.1 - - + -
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Residues in contact with ILE 160 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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156H VAL* 3.0 33.6 + - + +
157H ILE 3.7 3.8 - - - +
159H THR* 1.3 78.1 - - - +
161H LYS* 1.3 61.4 + - - +
164H PRO* 3.5 25.2 - - - +
169H ILE* 4.2 13.2 - - + -
193H PHE* 4.4 4.9 - - + -
195H VAL* 3.9 24.5 - - + +
209H LEU* 3.9 15.5 - - + -
238H ILE* 3.6 30.1 - - + -
242H THR* 3.7 24.2 - - + +
244H THR* 4.0 14.3 - - + +
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Residues in contact with LYS 161 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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157H ILE* 3.2 34.3 + - + +
158H ASP* 3.8 9.3 + - - +
160H ILE* 1.3 78.3 - - - +
162H ASN* 1.3 73.0 + - - +
164H PRO* 4.5 3.2 - - - +
241H ILE* 4.1 16.5 + - - +
242H THR* 3.8 25.4 - - + +
286H LYS* 5.9 3.3 - - - +
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Residues in contact with ASN 162 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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158H ASP* 2.9 32.7 + - - +
159H THR* 5.3 0.2 - - - -
161H LYS* 1.3 88.2 - - - +
163H ASN* 1.3 65.1 + - + +
164H PRO* 3.6 4.9 - - - +
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Residues in contact with ASN 163 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
159H THR* 2.8 25.0 + - + +
162H ASN* 1.3 78.1 - - + +
164H PRO* 1.3 60.2 - - - +
165H THR* 3.2 12.5 + - - -
166H ASP* 2.9 51.9 + - - +
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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