Contacts of the helix formed by residues 175 - 186 (chain A) in PDB entry 2AA0
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 PRO 175 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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171A LEU* 3.5 39.7 - - + +
174A THR* 1.3 88.1 - - - +
176A LYS* 1.3 59.8 + - + +
177A ASN 3.2 1.0 + - - -
178A ALA* 3.5 3.4 + - - +
179A LEU* 3.0 39.0 + - + +
206A TYR* 5.0 7.2 - - + -
209A ALA* 3.8 28.5 - - + -
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Residues in contact with LYS 176 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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174A THR* 3.0 20.1 - - + +
175A PRO* 1.3 80.0 - - + +
177A ASN* 1.3 61.8 + - - +
179A LEU* 3.9 10.6 - - + +
180A GLU* 3.0 35.6 + - - +
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Residues in contact with ASN 177 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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18A ILE* 3.9 16.6 - - + -
148A PHE* 3.0 36.9 - - + +
149A ARG* 3.6 6.3 - - - +
150A LEU* 3.0 39.4 - - + +
170A THR* 4.9 4.6 - - - +
173A ALA* 4.5 4.3 - - - +
174A THR* 3.3 22.7 + - - +
175A PRO 3.2 0.8 - - - -
176A LYS* 1.3 78.9 - - - +
178A ALA* 1.3 64.6 + - - +
180A GLU* 3.2 13.0 + - - +
181A VAL* 3.2 17.5 + - - +
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Residues in contact with ALA 178 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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18A ILE* 3.7 8.8 - - - +
166A ALA* 4.1 15.5 - - + -
170A THR* 4.0 18.8 + - - +
171A LEU* 4.3 7.4 - - + -
174A THR 4.5 0.8 + - - -
175A PRO 3.5 6.0 + - - +
177A ASN* 1.3 79.3 - - - +
179A LEU* 1.3 57.8 + - - +
181A VAL* 3.4 4.0 + - - +
182A ALA* 2.9 31.4 + - - +
193A PHE* 4.0 1.9 - - + -
195A LEU* 5.3 1.1 - - + -
213A LEU* 3.6 26.1 - - + +
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Residues in contact with LEU 179 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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171A LEU* 6.1 0.2 - - + -
175A PRO* 3.0 36.3 + - + +
176A LYS* 4.0 10.5 - - + +
177A ASN 3.2 0.2 - - - -
178A ALA* 1.3 77.3 - - - +
180A GLU* 1.3 58.1 + - - +
182A ALA* 4.1 0.5 - - - +
183A GLY* 2.8 25.8 + - - -
209A ALA* 4.3 11.0 - - + +
212A SER* 4.0 13.9 - - - +
213A LEU* 3.7 44.6 - - + +
216A HIS* 4.9 9.8 - - + +
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Residues in contact with GLU 180 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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150A LEU* 4.0 19.9 - - + +
151A PRO 4.7 2.1 - - - +
152A GLU* 5.2 4.3 - - - -
154A TRP* 3.3 30.5 + - + +
176A LYS* 3.0 23.6 + - - +
177A ASN* 3.2 5.8 + - - +
179A LEU* 1.3 76.6 - - - +
181A VAL* 1.3 64.4 + - - +
183A GLY* 3.3 1.5 + - - -
184A TYR* 3.2 21.7 + - - +
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Residues in contact with VAL 181 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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16A PHE* 4.6 3.6 - - + -
18A ILE* 4.3 23.3 - - + -
150A LEU* 3.7 20.0 - - + -
154A TRP* 3.6 24.6 - - + -
164A PHE* 3.7 31.5 - - + -
165A TYR 5.3 3.6 - - - +
166A ALA* 5.9 0.2 - - + -
177A ASN 3.2 13.3 + - - +
178A ALA* 3.8 6.1 - - - +
180A GLU* 1.3 77.2 - - - +
182A ALA* 1.3 61.8 + - - +
184A TYR* 3.1 14.2 + - - +
185A ALA* 3.3 11.8 + - - +
193A PHE* 3.8 12.6 - - + -
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Residues in contact with ALA 182 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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178A ALA 2.9 16.9 + - - +
179A LEU 4.1 2.0 - - - +
181A VAL* 1.3 78.3 - - - +
183A GLY* 1.3 59.0 + - - +
185A ALA* 3.3 2.8 + - - +
186A HIS* 2.9 29.5 + - - +
193A PHE* 3.7 31.2 - - + -
213A LEU* 3.6 20.4 - - + -
216A HIS* 3.7 21.2 - - + +
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Residues in contact with GLY 183 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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179A LEU 2.8 19.4 + - - -
180A GLU* 3.3 3.1 + - - -
181A VAL 3.2 0.2 - - - -
182A ALA* 1.3 77.5 - - - +
184A TYR* 1.3 61.5 + - - +
186A HIS* 3.7 12.8 + - - +
216A HIS* 4.2 15.9 - - - -
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Residues in contact with TYR 184 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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154A TRP* 3.5 31.6 - + + -
155A THR* 3.7 37.3 + - + -
158A ALA* 6.3 0.4 - - + -
164A PHE* 4.0 27.6 - + - -
180A GLU 3.2 5.6 + - - +
181A VAL 3.1 10.8 + - - +
183A GLY* 1.3 79.4 - - - +
185A ALA* 1.3 59.9 + - - +
186A HIS 3.6 2.3 + - - +
188A ILE* 3.5 28.4 - - + +
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Residues in contact with ALA 185 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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164A PHE* 4.1 19.5 - - + -
181A VAL 3.3 7.7 + - - +
182A ALA 3.3 7.5 + - - +
184A TYR* 1.3 81.2 - - - +
186A HIS* 1.3 63.8 + - - +
187A GLY 3.4 0.2 + - - -
188A ILE 3.3 21.1 + - - +
191A ALA* 3.6 31.6 - - + +
193A PHE* 4.1 17.3 - - + +
216A HIS 5.6 0.4 - - - +
218A ASN* 4.9 3.1 - - - +
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Residues in contact with HIS 186 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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182A ALA 2.9 16.9 + - - +
183A GLY 4.0 11.8 - - - +
184A TYR 3.4 4.5 - - - +
185A ALA* 1.3 77.3 - - - +
187A GLY* 1.3 68.0 + - - +
188A ILE* 3.2 6.3 + - - +
215A LEU 4.0 14.3 + - - -
216A HIS* 3.9 41.0 + + + -
218A ASN* 6.0 0.2 - - - -
273A LYS* 5.3 4.8 + - - -
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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