Contacts of the helix formed by residues 151 - 163 (chain O) 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 O).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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132O ARG* 2.7 59.4 + - - +
149O GLY 3.7 3.4 + - - +
150O VAL* 1.3 73.2 - - - +
152O GLN* 1.3 61.5 + - - +
153O LEU 3.3 1.7 + - - -
154O GLN* 3.1 25.5 + - + +
155O ARG* 3.2 18.5 + - - +
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Residues in contact with GLN 152 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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130O GLN 2.8 23.0 + - - -
131O TRP* 3.0 9.7 + - - +
134O PHE* 3.6 13.3 - - - +
150O VAL* 3.1 12.1 + - + +
151O ASP* 1.3 72.2 - - - +
153O LEU* 1.3 58.5 + - - +
155O ARG* 3.2 8.1 + - - +
156O VAL* 2.9 33.8 + - - +
170O ILE 3.9 10.8 - - - +
171O LEU* 3.8 11.3 - - + -
172O SER* 2.7 47.9 + - - +
174P TRP* 4.7 1.6 + - - -
176P PRO* 3.7 28.9 - - + +
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Residues in contact with LEU 153 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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84O VAL* 3.8 28.9 - - + -
131O TRP* 3.4 8.6 + - + +
132O ARG* 3.6 31.9 - - - +
151O ASP* 3.3 1.2 + - - -
152O GLN* 1.3 78.9 - - - +
154O GLN* 1.3 62.6 + - - +
156O VAL* 3.1 10.4 + - + +
157O ILE* 3.1 24.6 + - + +
171O LEU* 3.9 28.4 - - + +
234O LEU* 4.7 5.4 - - + -
238O ILE* 4.4 22.0 - - + -
292O ILE* 3.7 33.0 - - + -
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Residues in contact with GLN 154 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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132O ARG* 4.4 4.7 - - - +
151O ASP* 3.1 31.2 + - + +
153O LEU* 1.3 76.7 - - - +
155O ARG* 1.3 56.8 + - - +
157O ILE* 3.1 17.5 + - - +
158O ASP* 2.9 55.2 + - - +
291O ASP* 5.3 8.5 - - - +
292O ILE* 4.0 22.2 - - - +
293O ASP* 5.1 1.6 + - - -
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Residues in contact with ARG 155 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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150O VAL* 5.9 4.8 - - + +
151O ASP 3.2 12.6 + - - +
152O GLN* 3.2 12.0 + - - +
153O LEU 3.2 0.4 - - - -
154O GLN* 1.3 78.0 - - - +
156O VAL* 1.3 54.7 + - + +
158O ASP* 4.4 13.3 + - - +
159O THR* 2.7 50.5 + - - +
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Residues in contact with VAL 156 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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152O GLN 2.9 20.5 + - - +
153O LEU* 3.3 11.2 - - + +
155O ARG* 1.3 78.0 - - + +
157O ILE* 1.3 62.8 + - + +
159O THR* 3.4 2.4 + - - -
160O ILE* 3.0 44.1 + - + +
169O ILE* 3.6 29.4 - - + +
170O ILE 3.7 26.5 - - - +
171O LEU* 4.5 9.0 - - + -
193O PHE* 3.8 17.0 - - + -
238O ILE* 4.6 9.6 - - + -
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Residues in contact with ILE 157 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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153O LEU* 3.1 15.9 + - + +
154O GLN* 3.1 29.4 + - - +
156O VAL* 1.3 77.2 - - + +
158O ASP* 1.3 64.9 + - - +
160O ILE* 3.3 3.6 + - - +
161O LYS* 3.2 36.9 + - + +
238O ILE* 3.6 44.2 - - + +
241O ILE* 4.0 19.1 - - + -
242O THR* 3.8 17.0 - - + +
292O ILE* 4.6 17.5 - - + -
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Residues in contact with ASP 158 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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154O GLN* 2.9 47.2 + - - +
155O ARG* 3.8 17.2 + - - +
157O ILE* 1.3 76.8 - - - +
159O THR* 1.3 57.6 + - - +
161O LYS* 3.4 8.2 + - - +
162O ASN* 2.9 45.8 + - - +
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Residues in contact with THR 159 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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155O ARG* 2.7 37.4 + - - +
156O VAL* 3.8 5.3 - - - -
158O ASP* 1.3 75.0 - - - +
160O ILE* 1.3 60.0 + - - +
162O ASN* 5.3 0.2 - - - -
163O ASN* 2.7 59.5 + - + +
166O ASP* 3.5 25.1 - - + +
169O ILE* 3.8 18.6 - - + -
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Residues in contact with ILE 160 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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156O VAL* 3.0 32.7 + - + +
157O ILE 3.3 4.7 + - - +
159O THR* 1.3 77.9 - - - +
161O LYS* 1.3 60.1 + - - +
164O PRO* 3.5 25.3 - - - +
169O ILE* 4.2 12.6 - - + -
193O PHE* 4.4 4.7 - - + -
195O VAL* 3.8 24.6 - - + +
209O LEU* 3.9 16.8 - - + -
238O ILE* 3.6 30.3 - - + -
242O THR* 3.7 24.4 - - + +
244O THR* 3.9 13.1 - - + +
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Residues in contact with LYS 161 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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157O ILE* 3.2 34.8 + - + +
158O ASP* 3.8 9.9 + - - +
159O THR 3.2 0.6 - - - -
160O ILE* 1.3 79.6 - - - +
162O ASN* 1.3 71.6 + - - +
164O PRO* 4.5 3.2 - - - +
241O ILE* 4.1 17.9 + - - +
242O THR* 3.8 25.8 - - + +
286O LYS* 5.7 4.6 - - - +
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Residues in contact with ASN 162 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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158O ASP* 2.9 32.4 + - - +
159O THR* 5.3 0.4 - - - -
161O LYS* 1.3 89.7 - - - +
163O ASN* 1.3 64.9 + - + +
164O PRO* 3.7 5.1 - - - +
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Residues in contact with ASN 163 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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159O THR* 2.7 25.1 + - + +
162O ASN* 1.3 78.5 - - + +
164O PRO* 1.3 61.9 - - - +
165O THR* 3.3 13.1 + - - -
166O ASP* 3.0 51.4 + - - +
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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