Contacts of the strand formed by residues 233 - 244 (chain A) in PDB entry 2BZG
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 233 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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191A LYS* 4.4 16.0 + - - +
223A PHE* 3.6 21.2 - - + -
231A GLY 5.8 0.2 - - - -
232A ILE* 1.3 75.2 - - - +
234A CYS* 1.3 76.2 + - - +
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Residues in contact with CYS 234 (chain A).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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186A SER 4.2 0.8 - - - +
187A TYR* 3.8 12.6 - - - +
188A ASP 5.2 0.5 + - - -
223A PHE* 3.9 6.1 - - - -
232A ILE* 3.5 14.4 - - - +
233A ASP* 1.3 95.8 + - - +
235A LEU* 1.3 64.0 + - - +
236A PHE* 4.6 20.0 - - + -
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Residues in contact with LEU 235 (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 LEU* 4.0 24.0 - - + -
186A SER 3.5 16.6 - - - +
187A TYR* 3.8 26.0 - - + -
221A ASP* 3.2 9.4 + - - +
222A ALA* 2.8 42.1 + - + +
223A PHE* 3.8 15.7 - - + +
227A HIS* 3.4 43.3 - - + +
230A TRP* 4.3 7.4 - - + -
232A ILE* 3.9 9.6 - - + -
234A CYS* 1.3 76.6 - - - +
236A PHE* 1.3 64.5 + - - +
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Residues in contact with PHE 236 (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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184A VAL 4.0 0.2 - - - +
185A LEU* 3.4 6.2 - - - +
186A SER* 2.8 46.8 + - - -
219A LYS* 3.9 38.8 - - + -
220A VAL* 3.2 20.4 - - - -
221A ASP* 4.0 22.7 - - + -
222A ALA* 4.2 2.7 - - - -
234A CYS* 4.6 22.0 - - + -
235A LEU* 1.3 82.4 - - - +
237A GLU* 1.3 59.8 + - - +
238A LYS* 5.7 0.4 - - + -
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Residues in contact with GLU 237 (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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42A GLN* 5.6 3.1 + - - -
46A HIS* 2.6 40.4 + - - -
48A LEU* 4.5 7.2 - - + +
152A ARG* 4.2 7.0 + - - +
183A CYS* 3.4 15.5 - - + +
184A VAL 3.4 12.1 - - - +
185A LEU* 3.9 14.0 - - + +
218A GLU 3.9 0.5 - - - +
219A LYS* 3.2 3.5 - - - -
220A VAL* 2.8 43.1 + - + +
222A ALA* 3.9 18.5 - - + +
236A PHE* 1.3 75.6 - - - +
238A LYS* 1.3 72.2 + - - +
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Residues in contact with LYS 238 (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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48A LEU* 4.9 0.4 - - - -
182A LEU 3.5 1.7 - - - +
183A CYS* 3.3 6.3 - - - +
184A VAL* 2.9 41.5 + - + +
186A SER* 4.8 19.0 + - - -
201A HIS* 4.9 11.7 - - - +
216A CYS* 4.1 7.6 - - - -
218A GLU 3.1 12.8 - - - +
219A LYS* 3.8 38.1 - - + +
236A PHE 4.3 0.4 - - - -
237A GLU* 1.3 81.6 - - - +
239A LEU* 1.3 58.8 + - - +
240A TYR* 3.8 37.0 + - + +
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Residues in contact with LEU 239 (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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48A LEU* 4.0 33.6 - - + +
49A LEU 4.9 0.2 - - - +
52A HIS* 3.9 26.7 - - + +
56A PHE* 4.1 19.3 - - + -
150A TRP* 3.9 17.7 - - + -
181A LEU* 4.6 4.3 - - + -
182A LEU 3.5 6.7 - - - +
183A CYS* 3.9 22.9 - - - +
216A CYS* 3.6 2.5 - - - -
217A LEU* 2.8 40.0 + - + +
218A GLU* 3.0 15.2 + - + +
238A LYS* 1.3 72.5 - - - +
240A TYR* 1.3 69.2 + - - +
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Residues in contact with TYR 240 (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 TYR 3.7 0.2 - - - +
181A LEU* 3.5 5.5 - - - +
182A LEU* 2.8 48.0 + - + +
184A VAL* 3.9 7.8 - - + +
201A HIS* 2.7 42.7 + + - +
204A ILE* 3.3 31.2 - - + +
214A ILE* 3.6 22.4 - - + -
215A ARG 3.1 18.8 - - - -
216A CYS* 3.6 20.8 - - + +
217A LEU* 4.9 0.2 - - - -
238A LYS* 3.8 37.2 + - + +
239A LEU* 1.3 84.5 - - - +
241A LEU* 1.3 59.4 + - - +
242A LEU* 3.9 13.7 - - + -
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Residues in contact with LEU 241 (chain A).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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56A PHE* 4.3 14.8 - - + -
179A GLN* 3.9 31.9 - - + +
180A TYR 3.6 1.3 - - - +
181A LEU* 3.6 25.6 - - + -
213A ASN* 3.7 2.8 - - - +
215A ARG* 2.8 68.2 + - + +
217A LEU* 3.8 19.2 - - + +
240A TYR* 1.3 74.0 - - - +
242A LEU* 1.3 64.1 + - - +
243A THR* 3.9 18.1 - - + +
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Residues in contact with LEU 242 (chain A).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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178A PHE* 3.6 3.8 - - - -
180A TYR* 2.8 65.0 + - + +
182A LEU* 4.3 13.2 - - + -
204A ILE* 4.6 3.1 - - + -
208A PHE* 3.6 45.1 - - + -
212A CYS* 4.1 11.9 - - + -
213A ASN 3.4 3.6 - - - +
214A ILE* 4.0 27.1 - - + -
240A TYR* 3.9 22.2 - - + -
241A LEU* 1.3 80.0 - - - +
243A THR* 1.3 63.6 + - - +
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Residues in contact with THR 243 (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 PHE* 3.5 24.9 - - - +
179A GLN* 4.2 7.6 - - + +
212A CYS* 3.2 6.1 - - - -
213A ASN* 2.8 49.0 + - - +
215A ARG* 5.7 2.2 - - - -
241A LEU* 3.9 27.5 + - + -
242A LEU* 1.3 79.7 - - - +
244A GLU* 1.3 69.6 + - - +
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Residues in contact with GLU 244 (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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176A LYS 3.6 21.5 - - - +
177A LYS* 3.6 34.4 + - + +
178A PHE* 3.1 45.6 + - + +
211A ILE* 4.1 3.6 - - + -
213A ASN* 4.3 3.1 - - - +
243A THR* 1.3 83.4 + - - +
245A LYS* 1.3 74.0 + - - +
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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