Contacts of the strand formed by residues 243 - 252 (chain A) in PDB entry 2A3K
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 GLU 243 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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184A TRP* 3.6 30.9 - - + -
238A ILE 3.8 0.3 - - - +
239A GLN* 3.0 21.2 - - - +
240A TYR* 3.0 17.6 + - - +
241A GLN* 3.6 0.8 + - - -
242A GLU* 1.3 83.9 + - - +
244A ARG* 1.3 59.8 + - - +
245A ARG* 4.1 9.6 + - + +
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Residues in contact with ARG 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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237A THR* 3.9 35.4 + - - +
238A ILE 3.3 10.5 - - - +
239A GLN* 4.5 11.6 + - + +
243A GLU* 1.3 76.5 - - - +
245A ARG* 1.3 69.4 + - - +
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Residues in contact with ARG 245 (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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183A VAL 4.8 0.6 + - - -
184A TRP* 2.7 81.0 + - + +
187A GLU* 4.3 29.2 + - - +
188A VAL 5.6 5.2 - - - +
237A THR* 3.1 6.8 - - - -
238A ILE* 2.7 51.0 + - + +
243A GLU* 4.1 10.3 + - + +
244A ARG* 1.3 81.1 - - - +
246A SER* 1.3 65.8 + - - +
247A VAL* 5.3 1.1 - - + -
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Residues in contact with SER 246 (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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188A VAL 4.6 0.3 - - - +
189A SER* 3.8 17.7 - - - -
235A GLN* 5.2 8.1 - - - -
236A LEU 3.4 9.4 - - - -
237A THR* 4.3 9.2 - - - +
245A ARG* 1.3 77.1 - - - +
247A VAL* 1.3 65.7 + - - +
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Residues in contact with VAL 247 (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 TRP* 5.3 1.6 - - + -
183A VAL* 4.4 7.9 - - + -
188A VAL* 3.7 17.5 - - + +
189A SER* 3.3 17.9 - - - +
190A LEU 3.9 2.0 - - - +
191A ILE* 4.1 23.6 - - + -
235A GLN* 3.5 5.4 + - - -
236A LEU* 2.8 57.4 + - + +
238A ILE* 3.9 25.6 - - + -
245A ARG* 3.8 0.9 + - + -
246A SER* 1.3 79.0 - - - +
248A LYS* 1.3 73.2 + - - +
249A HIS* 4.7 0.4 - - - +
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Residues in contact with LYS 248 (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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189A SER 2.8 10.8 + - - +
190A LEU* 3.4 26.9 - - + +
191A ILE 2.9 24.4 + - - -
233A VAL* 4.0 24.5 - - + -
234A ARG 3.8 1.3 - - - -
235A GLN* 3.7 24.4 - - - +
247A VAL* 1.3 76.1 - - - +
249A HIS* 1.3 60.3 + - - +
250A ILE* 4.2 9.6 - - + -
273A GLU* 3.1 37.1 + - - +
276A GLU* 3.2 38.6 + - - +
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Residues in contact with HIS 249 (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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191A ILE* 3.5 23.6 - - + -
193A MET* 4.0 10.7 - - + +
207A TYR* 2.9 39.1 + + - -
208A TRP* 4.3 12.5 - + + -
232A THR 3.6 0.2 - - - +
233A VAL* 3.6 3.1 - - - +
234A ARG* 2.7 65.3 + - + +
236A LEU* 4.0 20.9 - - + -
247A VAL* 3.9 0.4 + - + -
248A LYS* 1.3 73.0 - - - +
250A ILE* 1.3 66.7 + - - +
251A LEU* 3.8 35.6 + - + -
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Residues in contact with ILE 250 (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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190A LEU* 3.9 21.8 - - + -
191A ILE 2.8 13.8 + - - +
192A VAL* 3.5 6.3 - - + +
193A MET* 2.8 33.6 + - - +
231A TYR* 3.7 27.1 - - + -
232A THR 3.5 4.0 - - - +
233A VAL* 4.5 4.0 - - + -
248A LYS* 4.2 17.3 - - + -
249A HIS* 1.3 80.9 - - - +
251A LEU* 1.3 56.3 + - - +
270A LEU* 3.4 26.7 - - + -
273A GLU* 3.9 23.8 - - + +
274A VAL* 4.2 20.0 - - + -
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Residues in contact with LEU 251 (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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193A MET* 3.7 24.2 - - + -
195A THR* 3.5 26.9 - - + -
208A TRP* 3.6 38.1 - - + -
231A TYR* 3.0 6.9 - - - -
232A THR* 2.9 41.4 + - - +
234A ARG* 4.2 13.5 - - - +
249A HIS* 3.8 8.9 - - + -
250A ILE* 1.3 71.8 - - - +
252A PHE* 1.3 60.4 + - - +
253A SER* 3.7 15.7 + - - -
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Residues in contact with PHE 252 (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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192A VAL* 5.8 0.2 - - - +
193A MET 2.7 16.0 + - - +
194A LEU* 3.9 12.8 - - + -
195A THR* 2.8 31.9 + - - +
230A GLU* 3.6 24.5 - - + -
231A TYR* 3.8 9.8 - + + +
250A ILE 3.9 1.8 - - - -
251A LEU* 1.3 72.0 - - - +
253A SER* 1.3 58.5 + - - +
254A ALA* 3.6 33.7 - - + -
255A TRP* 3.9 29.6 - + + -
261A PRO* 4.4 12.6 - - + -
266A PRO* 4.0 26.9 - - + -
267A LEU* 4.2 11.2 - - + -
270A LEU* 3.4 30.5 - - + -
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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