Contacts of the helix formed by residues 151 - 163 (chain L) 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 L).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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132L ARG* 2.7 60.0 + - - +
149L GLY 3.7 3.9 + - - +
150L VAL* 1.3 72.4 - - - +
152L GLN* 1.3 62.5 + - - +
153L LEU 3.4 2.1 + - - -
154L GLN* 3.1 25.0 + - + +
155L ARG* 3.2 18.7 + - - +
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Residues in contact with GLN 152 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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174K TRP* 4.6 1.2 + - - -
176K PRO* 3.6 30.0 - - + +
130L GLN 2.8 23.4 + - - -
131L TRP* 3.0 10.4 + - - +
134L PHE* 3.6 13.3 - - - +
150L VAL* 4.0 11.9 - - + +
151L ASP* 1.3 72.4 - - - +
153L LEU* 1.3 59.1 + - - +
155L ARG* 3.2 7.5 + - - +
156L VAL* 2.9 34.5 + - - +
170L ILE 3.9 10.3 - - - +
171L LEU* 3.8 11.7 - - + -
172L SER* 2.7 47.2 + - - +
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Residues in contact with LEU 153 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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84L VAL* 3.8 28.7 - - + -
131L TRP* 3.4 8.9 + - + +
132L ARG* 3.6 31.0 - - - +
151L ASP* 3.3 1.0 + - - -
152L GLN* 1.3 78.7 - - - +
154L GLN* 1.3 62.6 + - - +
156L VAL* 3.2 10.2 + - + +
157L ILE* 3.1 25.3 + - + +
171L LEU* 3.9 27.9 - - + +
234L LEU* 4.7 5.4 - - + -
238L ILE* 4.3 22.2 - - + -
292L ILE* 3.7 33.2 - - + -
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Residues in contact with GLN 154 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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132L ARG* 4.4 4.0 - - - +
151L ASP* 3.1 29.2 + - + +
153L LEU* 1.3 79.7 - - - +
155L ARG* 1.3 56.1 - - - +
157L ILE* 3.1 17.7 + - - +
158L ASP* 2.9 56.0 + - - +
291L ASP* 5.3 6.9 - - - +
292L ILE* 4.0 24.2 - - - +
293L ASP* 5.1 1.4 + - - -
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Residues in contact with ARG 155 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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150L VAL* 5.9 5.5 - - + +
151L ASP 3.2 14.4 + - - +
152L GLN* 3.5 12.1 - - - +
153L LEU 3.2 0.4 - - - -
154L GLN* 1.3 76.8 - - - +
156L VAL* 1.3 56.2 + - + +
158L ASP* 3.4 13.4 + - - +
159L THR* 2.7 50.1 + - - +
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Residues in contact with VAL 156 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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152L GLN 2.9 20.5 + - - +
153L LEU* 3.2 13.0 + - + +
155L ARG* 1.3 77.6 - - + +
157L ILE* 1.3 63.6 + - + +
159L THR* 3.8 2.4 - - - -
160L ILE* 3.0 44.2 + - + +
169L ILE* 3.6 30.1 - - + +
170L ILE 3.7 26.0 - - - +
171L LEU* 4.5 8.7 - - + -
193L PHE* 3.8 17.3 - - + -
238L ILE* 4.6 9.9 - - + -
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Residues in contact with ILE 157 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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153L LEU* 3.1 16.1 + - + +
154L GLN* 3.1 30.0 + - - +
156L VAL* 1.3 77.5 - - - +
158L ASP* 1.3 63.9 - - - +
160L ILE* 3.3 2.1 + - - +
161L LYS* 3.2 35.9 + - + +
238L ILE* 3.6 45.1 - - + +
241L ILE* 4.0 18.2 - - + -
242L THR* 3.8 16.8 - - + +
292L ILE* 4.6 17.7 - - + -
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Residues in contact with ASP 158 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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154L GLN* 2.9 47.6 + - - +
155L ARG* 3.8 16.3 + - - +
157L ILE* 1.3 76.6 - - - +
159L THR* 1.3 58.1 + - - +
161L LYS* 3.4 8.7 + - - +
162L ASN* 2.9 46.1 + - - +
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Residues in contact with THR 159 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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155L ARG* 2.7 38.0 + - - +
156L VAL* 3.8 4.7 - - - -
158L ASP* 1.3 74.5 - - - +
160L ILE* 1.3 60.4 + - - +
162L ASN* 5.3 0.4 - - - -
163L ASN* 2.7 58.3 + - + +
166L ASP* 3.5 24.7 - - + +
169L ILE* 3.8 18.6 - - + -
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Residues in contact with ILE 160 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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156L VAL* 3.0 34.2 + - + +
157L ILE 3.7 4.3 - - - +
159L THR* 1.3 77.1 - - - +
161L LYS* 1.3 60.9 + - - +
164L PRO* 3.5 24.3 - - - +
169L ILE* 4.2 13.5 - - + -
193L PHE* 4.5 5.2 - - + -
195L VAL* 3.8 23.4 - - + +
209L LEU* 3.9 16.8 - - + -
238L ILE* 3.6 30.1 - - + -
242L THR* 3.7 23.1 - - + +
244L THR* 3.9 13.9 - - + +
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Residues in contact with LYS 161 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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157L ILE* 3.2 34.6 + - + +
158L ASP* 3.8 8.7 + - - +
159L THR 3.2 0.2 - - - -
160L ILE* 1.3 78.5 - - - +
162L ASN* 1.3 71.6 + - - +
164L PRO* 4.6 4.0 - - - +
241L ILE* 4.0 18.1 + - - +
242L THR* 3.8 25.4 - - + +
286L LYS* 5.8 4.2 - - - +
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Residues in contact with ASN 162 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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158L ASP* 2.9 32.5 + - - +
159L THR* 5.3 0.4 - - - -
161L LYS* 1.3 90.1 - - - +
163L ASN* 1.3 64.3 + - + +
164L PRO* 3.7 5.3 - - - +
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Residues in contact with ASN 163 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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159L THR* 2.7 25.4 + - + +
162L ASN* 1.3 78.4 - - + +
164L PRO* 1.3 62.8 - - - +
165L THR* 3.3 12.7 + - - -
166L ASP* 3.0 56.4 + - - +
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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