Contacts of the helix formed by residues 181 - 192 (chain A) in PDB entry 2WSK
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 HIS 181 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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167A GLU 4.3 1.8 - - - -
168A ILE* 3.6 12.3 - - + +
169A PRO* 3.4 35.8 - - + +
172A ILE* 3.8 19.5 - - + -
177A LYS 3.4 3.5 + - - +
178A ALA 3.0 14.4 + - - +
180A GLY* 1.3 77.4 - - - +
182A PRO* 1.3 88.4 - - + +
183A VAL* 2.9 44.4 + - + +
184A MET* 2.9 13.7 + - - -
185A ILE* 3.2 9.3 + - - -
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Residues in contact with PRO 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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180A GLY 3.6 4.4 - - - +
181A HIS* 1.3 103.5 - - + +
183A VAL* 1.3 61.3 + - + +
185A ILE* 4.0 9.4 - - + +
186A ASN* 3.0 28.2 + - - +
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Residues in contact with VAL 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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165A HIS* 3.5 35.4 - - + +
167A GLU* 3.5 38.8 - - + +
168A ILE* 3.5 14.4 - - + -
181A HIS* 2.9 26.3 + - + -
182A PRO* 1.3 74.6 - - + +
184A MET* 1.3 56.6 + - - +
186A ASN* 3.8 3.4 - - - +
187A TYR* 3.1 27.3 + - + +
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Residues in contact with MET 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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161A LEU* 3.9 26.9 - - + -
162A THR* 3.7 26.2 - - + -
165A HIS* 4.4 19.7 - - - -
168A ILE* 4.4 6.9 - - + +
178A ALA 3.6 25.1 - - - +
179A LEU* 3.8 11.7 - - - +
181A HIS 2.9 7.3 + - - +
183A VAL* 1.3 73.2 - - - +
185A ILE* 1.3 62.0 + - - +
187A TYR* 3.6 12.1 - - + +
188A LEU* 2.8 71.4 + - + +
540A TRP* 4.6 7.0 - - - -
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Residues in contact with ILE 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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179A LEU 4.1 7.2 - - - +
180A GLY 3.4 16.8 - - - +
181A HIS 3.2 11.3 + - - +
182A PRO* 4.0 7.4 - - + +
184A MET* 1.3 75.9 - - - +
186A ASN* 1.3 58.4 + - - +
188A LEU* 3.5 7.2 + - - +
189A LYS* 3.0 36.9 + - + +
250A ALA* 3.3 43.5 - - + +
251A LEU* 4.0 9.6 - - + +
254A ALA* 3.5 28.5 - - + -
256A ILE* 4.2 2.6 - - + +
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Residues in contact with ASN 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 PRO 3.0 19.1 + - - +
183A VAL* 3.8 4.3 - - - +
185A ILE* 1.3 77.5 - - - +
187A TYR* 1.3 60.7 + - - +
189A LYS* 3.2 6.1 + - - +
190A GLN* 2.8 68.0 + - - +
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Residues in contact with TYR 187 (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 TYR* 3.8 14.1 - - - -
165A HIS* 5.8 4.0 - + + -
183A VAL* 3.1 20.3 + - + +
184A MET* 3.2 13.7 + - + +
186A ASN* 1.3 79.4 + - - +
188A LEU* 1.3 71.5 + - + +
190A GLN* 3.3 8.1 + - + +
191A LEU* 2.8 49.0 + - + +
517A GLU* 2.6 25.3 + - - +
518A HIS* 4.4 3.3 + - - -
540A TRP* 3.6 38.9 - + - -
548A THR* 3.9 28.2 + - + +
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Residues in contact with LEU 188 (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 TYR* 4.0 22.0 - - + -
161A LEU* 5.7 0.2 - - + -
179A LEU 5.0 0.9 - - - +
184A MET* 2.8 52.0 + - + +
185A ILE* 3.8 0.4 - - - +
187A TYR* 1.3 83.3 - - + +
189A LYS* 1.3 62.8 + - - +
191A LEU* 3.7 3.1 - - + +
192A GLY 3.0 17.0 + - - -
193A ILE* 3.2 39.4 + - + +
196A LEU* 4.4 19.7 - - + -
251A LEU* 4.1 25.4 - - + -
256A ILE* 3.7 11.9 - - + -
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Residues in contact with LYS 189 (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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185A ILE* 3.0 23.2 + - + +
186A ASN* 3.2 7.2 + - - +
188A LEU* 1.3 76.4 - - - +
190A GLN* 1.3 63.5 + - + +
192A GLY* 3.0 15.4 + - - -
193A ILE 5.2 5.5 + - - +
194A THR* 6.3 1.0 - - - +
254A ALA* 3.0 38.0 + - + +
255A GLY* 4.6 6.3 + - - -
256A ILE* 3.5 22.2 - - + +
556A HIS* 4.2 5.7 + - - -
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Residues in contact with GLN 190 (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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186A ASN* 2.8 48.5 + - - +
187A TYR* 3.9 7.7 - - + +
189A LYS* 1.3 73.6 - - + +
191A LEU* 1.3 57.1 + - - +
552A ALA* 3.8 8.6 - - - +
556A HIS* 3.0 22.2 - - - -
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Residues in contact with LEU 191 (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 TYR* 3.9 10.3 - - + -
187A TYR* 2.8 34.2 + - + +
188A LEU* 3.7 5.8 - - + +
190A GLN* 1.3 76.9 - - - +
192A GLY* 1.3 57.8 + - - +
193A ILE* 3.8 21.1 - - + -
512A LEU* 4.3 2.7 - - + -
517A GLU* 3.7 32.3 - - + +
548A THR* 4.2 13.5 - - + +
551A THR* 4.2 13.9 - - + -
552A ALA* 3.8 28.5 - - + +
555A ILE* 3.5 22.5 - - + +
556A HIS* 3.5 8.7 - - - -
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Residues in contact with GLY 192 (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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152A ILE* 3.9 2.1 - - - +
188A LEU 3.0 2.0 + - - -
189A LYS* 3.0 16.9 + - - -
191A LEU* 1.3 80.0 - - - +
193A ILE* 1.3 64.7 + - - +
194A THR* 3.8 1.1 + - - +
555A ILE* 3.5 13.0 - - - +
556A HIS* 3.8 13.0 - - - -
559A LYS* 3.0 28.6 + - - -
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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