Contacts of the helix formed by residues 151 - 163 (chain E) 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 E).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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132E ARG* 2.8 59.2 + - - +
149E GLY 3.7 3.4 + - - +
150E VAL* 1.3 75.2 - - - +
152E GLN* 1.3 60.5 + - - +
153E LEU 3.3 2.4 + - - -
154E GLN* 3.0 26.8 + - + +
155E ARG* 3.3 18.9 + - - +
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Residues in contact with GLN 152 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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130E GLN 2.9 23.4 + - - -
131E TRP* 3.0 10.7 + - - +
134E PHE* 3.6 12.7 - - + +
150E VAL* 3.1 11.6 + - + +
151E ASP* 1.3 72.2 - - - +
153E LEU* 1.3 58.7 + - - +
155E ARG* 3.2 8.1 + - - +
156E VAL* 2.9 32.4 + - - +
170E ILE 3.8 10.8 - - - +
171E LEU* 3.7 10.8 - - + -
172E SER* 2.7 48.5 + - - +
174F TRP* 4.7 1.4 + - - -
176F PRO* 3.7 29.9 - - + +
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Residues in contact with LEU 153 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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84E VAL* 3.8 28.9 - - + -
131E TRP* 3.4 8.9 + - + +
132E ARG* 3.6 30.5 - - - +
151E ASP* 3.3 1.2 + - - -
152E GLN* 1.3 78.7 - - - +
154E GLN* 1.3 62.2 + - - +
156E VAL* 3.1 11.2 + - + +
157E ILE* 3.1 24.7 + - + +
171E LEU* 3.9 29.5 - - + +
234E LEU* 4.6 5.2 - - + -
238E ILE* 4.3 22.7 - - + -
292E ILE* 3.7 32.1 - - + -
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Residues in contact with GLN 154 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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132E ARG* 4.4 4.9 - - - +
151E ASP* 3.0 31.9 + - + +
153E LEU* 1.3 77.1 - - - +
155E ARG* 1.3 57.5 + - - +
157E ILE* 3.1 17.9 + - - +
158E ASP* 2.9 58.0 + - - +
241E ILE* 6.3 0.2 - - - +
291E ASP* 5.2 7.3 - - - +
292E ILE* 3.9 26.1 - - - +
293E ASP* 5.1 1.8 + - - -
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Residues in contact with ARG 155 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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150E VAL* 5.9 4.0 - - + -
151E ASP 3.3 13.0 + - - +
152E GLN* 3.2 11.8 + - - +
153E LEU 3.2 0.4 - - - -
154E GLN* 1.3 79.0 - - - +
156E VAL* 1.3 54.6 + - + +
158E ASP* 3.7 12.8 + - - +
159E THR* 2.7 51.2 + - - +
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Residues in contact with VAL 156 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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152E GLN 2.9 20.7 + - - +
153E LEU* 3.3 12.8 - - + +
155E ARG* 1.3 77.3 - - + +
157E ILE* 1.3 63.6 + - + +
159E THR* 3.3 2.8 + - - -
160E ILE* 3.0 39.8 + - + +
169E ILE* 3.7 28.5 - - + +
170E ILE 3.7 26.5 - - - +
171E LEU* 4.5 10.1 - - + -
193E PHE* 3.8 15.9 - - + -
238E ILE* 4.5 10.1 - - + -
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Residues in contact with ILE 157 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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153E LEU* 3.1 15.0 + - + +
154E GLN* 3.1 30.0 + - - +
156E VAL* 1.3 78.5 - - + +
158E ASP* 1.3 64.9 + - - +
160E ILE 3.3 0.3 + - - -
161E LYS* 3.1 34.1 + - + +
238E ILE* 3.6 44.6 - - + -
241E ILE* 3.9 21.8 - - + -
242E THR* 3.7 19.4 - - + +
292E ILE* 4.4 18.2 - - + -
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Residues in contact with ASP 158 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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154E GLN* 2.9 47.4 + - - +
155E ARG* 3.7 16.5 + - - +
157E ILE* 1.3 78.6 - - - +
159E THR* 1.3 57.8 + - - +
161E LYS* 3.4 8.3 + - - +
162E ASN* 2.9 45.7 + - - +
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Residues in contact with THR 159 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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155E ARG* 2.7 40.8 + - - +
156E VAL* 3.8 5.3 - - - -
158E ASP* 1.3 73.9 - - - +
160E ILE* 1.3 61.3 + - - +
162E ASN* 5.3 0.2 - - - -
163E ASN* 2.7 44.8 + - + +
166E ASP* 3.5 38.8 - - + +
169E ILE* 3.8 16.8 - - + -
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Residues in contact with ILE 160 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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156E VAL* 3.0 32.5 + - + +
157E ILE 3.7 4.3 - - - +
159E THR* 1.3 78.3 - - - +
161E LYS* 1.3 59.4 + - - +
164E PRO* 3.5 24.8 - - - +
169E ILE* 4.2 13.0 - - + -
193E PHE* 4.4 5.2 - - + -
195E VAL* 3.9 20.2 - - + +
209E LEU* 3.8 16.2 - - + -
238E ILE* 3.6 30.1 - - + -
242E THR* 3.6 25.1 - - + +
244E THR* 3.9 19.0 - - + +
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Residues in contact with LYS 161 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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157E ILE* 3.1 32.8 + - + +
158E ASP* 3.8 9.8 + - - +
160E ILE* 1.3 79.2 - - - +
162E ASN* 1.3 72.7 + - - +
164E PRO* 4.5 3.4 - - - +
241E ILE* 4.0 21.5 + - - +
242E THR* 3.7 26.7 - - - +
243E ASP* 6.1 0.4 - - - -
286E LYS* 5.8 4.4 - - - +
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Residues in contact with ASN 162 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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158E ASP* 2.9 32.9 + - - +
161E LYS* 1.3 89.7 - - - +
163E ASN* 1.3 64.6 + - + +
164E PRO* 3.6 5.1 - - - +
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Residues in contact with ASN 163 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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159E THR* 2.7 25.6 + - + +
162E ASN* 1.3 79.8 - - + +
164E PRO* 1.4 61.4 - - - +
165E THR* 3.3 12.9 + - - -
166E ASP* 2.9 51.1 + - - +
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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