Contacts of the strand formed by residues 245 - 259 (chain K) 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 GLU 245 (chain K).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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59K ALA* 5.9 0.9 - - + -
60K ASP* 4.5 13.3 + - - -
61K ASN* 4.8 7.8 + - - -
206K LYS* 4.2 29.3 + - + +
207K PRO 2.8 15.6 + - - +
208K LYS* 3.3 22.6 - - + +
209K LEU* 2.8 25.9 + - - -
244K THR* 1.3 73.5 - - - +
246K PRO* 1.3 91.8 - - - +
247K HIS 3.3 0.2 + - - -
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Residues in contact with PRO 246 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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58K LEU* 3.5 34.7 - - + +
59K ALA* 3.9 5.2 - - - +
61K ASN* 5.5 3.1 - - - +
208K LYS* 5.8 0.3 + - - -
209K LEU* 3.7 7.6 - - + +
235K THR* 4.5 5.8 - - + -
236K HIS* 3.5 33.4 - - + +
239K ALA* 3.6 25.0 - - + -
244K THR 3.9 1.6 - - - +
245K GLU* 1.3 106.3 - - - +
247K HIS* 1.3 58.3 + - - +
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Residues in contact with HIS 247 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57K SER* 3.7 6.1 + - - -
58K LEU* 2.8 24.7 + - - +
59K ALA* 3.7 11.5 + - + +
196K SER* 5.5 4.5 - - - -
208K LYS* 3.8 46.6 + - + +
209K LEU 2.7 17.1 + - - +
210K SER* 3.5 17.9 - - - +
246K PRO* 1.3 76.5 - - - +
248K GLU* 1.3 74.1 + - + +
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Residues in contact with GLU 248 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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55K ARG* 2.6 52.9 + - - +
56K PHE 3.5 16.4 - - - +
57K SER* 5.0 1.3 - - - -
58K LEU* 4.1 8.9 - - - +
209K LEU 3.7 0.4 + - - -
210K SER* 3.1 16.1 + - - +
211K CYS 2.9 24.6 + - - -
247K HIS* 1.3 97.3 + - + +
249K PHE* 1.3 66.4 + - - +
250K ILE* 3.8 12.2 - - + +
49L PHE* 5.5 0.5 - - - +
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Residues in contact with PHE 249 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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54K PHE 3.8 0.3 - - - +
55K ARG* 3.5 2.1 - - - -
56K PHE* 2.9 52.7 + + + +
58K LEU* 3.9 22.0 - - + +
211K CYS* 3.3 24.0 - - + -
213K MET* 3.8 16.4 - - + -
227K ASN 4.5 3.1 - - - -
228K ILE* 3.8 35.2 - - + -
231K TYR* 3.5 28.9 - + + -
232K ALA* 4.7 6.7 - - + -
248K GLU* 1.3 75.6 - - - +
250K ILE* 1.3 73.0 + - - +
251K LEU* 3.9 30.1 - - + -
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Residues in contact with ILE 250 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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53K SER* 3.8 21.8 - - - +
54K PHE 3.3 10.8 - - - +
55K ARG* 3.8 31.0 - - + +
210K SER* 4.8 0.7 - - - -
211K CYS 2.7 21.8 + - - +
212K LEU* 3.2 22.0 - - + -
213K MET 2.8 26.7 + - - -
248K GLU* 3.8 25.8 - - + +
249K PHE* 1.3 87.3 - - - +
251K LEU* 1.3 63.3 + - - +
252K GLN* 4.2 1.1 - - + -
49L PHE* 4.3 10.3 - - + -
50L ALA* 3.9 15.9 - - + -
252L GLN* 5.4 2.0 - - - +
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Residues in contact with LEU 251 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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53K SER* 3.4 5.5 - - - -
54K PHE* 2.9 45.8 + - + +
56K PHE* 5.3 0.2 - - + -
213K MET* 3.4 42.0 - - + +
215K GLN* 4.1 16.2 - - + +
224K VAL* 4.5 3.8 - - + -
227K ASN* 5.0 0.2 - - + -
228K ILE* 3.7 32.5 - - + +
249K PHE* 3.9 15.7 + - + -
250K ILE* 1.3 74.0 - - - +
252K GLN* 1.3 66.3 + - - +
253K MET* 4.0 27.4 + - + +
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Residues in contact with GLN 252 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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50K ALA* 4.0 3.3 - - - +
51K PRO 3.4 14.5 + - - +
53K SER* 3.1 32.9 - - - +
212K LEU* 4.7 7.4 - - + +
213K MET 2.9 9.6 + - - +
214K TYR* 3.4 31.1 - - + -
215K GLN 2.9 25.8 + - - -
250K ILE* 4.2 1.4 - - + +
251K LEU* 1.3 74.6 - - - +
253K MET* 1.3 77.5 + - - +
53L SER* 4.7 7.1 + - - -
212L LEU* 3.7 13.1 - - + +
250L ILE* 5.4 1.9 - - - +
252L GLN* 3.6 35.5 - - + +
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Residues in contact with MET 253 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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26K LEU* 3.9 11.7 - - + -
50K ALA* 3.4 13.0 - - - -
51K PRO* 4.3 9.7 + - + -
52K PRO 6.2 0.2 - - - +
53K SER* 5.3 0.6 - - - +
54K PHE* 3.4 44.2 - - + -
214K TYR* 4.3 3.1 - - - -
215K GLN 3.5 3.6 - - - -
218K CYS* 3.4 30.1 - - - -
220K LEU* 4.4 4.5 - - + -
224K VAL* 4.2 20.2 - - + -
251K LEU* 4.0 17.7 + - + +
252K GLN* 1.3 97.0 + - - +
254K GLY* 1.3 61.2 + - - +
256K ALA* 3.9 25.4 - - + -
212L LEU* 3.9 2.8 - - - +
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Residues in contact with GLY 254 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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48K LEU 3.6 0.2 - - - +
49K PHE* 3.3 15.6 - - - -
50K ALA* 2.9 24.1 + - - -
51K PRO* 4.0 0.9 - - - +
214K TYR* 3.4 20.8 + - - -
215K GLN 2.8 13.3 + - - -
216K ARG 3.7 1.3 - - - -
218K CYS* 4.3 0.2 - - - -
253K MET* 1.3 74.2 - - - +
255K ASP* 1.3 58.8 + - - +
256K ALA 3.1 7.1 + - - -
192L GLN* 3.5 9.0 - - - -
212L LEU* 4.7 0.2 - - - -
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Residues in contact with ASP 255 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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37K ARG* 4.7 7.1 + - - -
47K ALA* 3.7 14.6 - - - +
48K LEU 4.2 2.5 - - - -
49K PHE* 4.1 4.6 - - - -
216K ARG 2.7 18.9 + - - +
217K SER* 4.4 1.8 - - - -
218K CYS* 2.8 26.5 + - - -
254K GLY* 1.3 69.2 - - - +
256K ALA* 1.3 59.1 + - - +
257K HIS* 3.0 18.0 + - - +
165L THR 4.9 0.3 - - - +
166L ASP 5.2 0.5 - - - +
167L ARG* 3.2 37.2 - - + +
192L GLN* 4.3 6.8 - - - +
194L PHE* 3.6 26.8 - - + -
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Residues in contact with ALA 256 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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26K LEU* 4.7 0.4 - - + -
30K ILE* 3.8 11.1 - - + +
47K ALA* 3.2 2.8 - - - +
48K LEU* 3.0 39.7 + - + +
51K PRO* 4.0 19.3 - - + -
218K CYS* 4.0 7.4 - - - -
220K LEU* 4.0 9.4 - - + -
253K MET* 3.9 26.0 - - + -
254K GLY 3.1 2.2 + - - -
255K ASP* 1.3 69.6 - - - +
257K HIS* 1.3 59.0 + - - +
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Residues in contact with HIS 257 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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30K ILE* 4.5 1.1 - - - -
45K THR* 3.8 14.4 - - + +
46K VAL 3.3 12.6 - - - +
47K ALA* 3.6 10.5 - - + -
217K SER* 3.1 27.4 - - - -
218K CYS 3.0 36.1 + - - +
219K ASP* 3.9 1.0 - - - -
220K LEU* 3.2 20.4 + - - +
255K ASP* 3.0 26.0 + - - +
256K ALA* 1.3 74.4 - - - +
258K VAL* 1.3 63.3 + - - +
259K TYR* 3.6 21.1 - + - -
450K UMP 2.8 23.5 + - - -
167L ARG* 3.6 19.1 + - - -
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Residues in contact with VAL 258 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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27K ILE* 4.4 11.0 - - + +
30K ILE* 3.8 26.7 - - + -
31K ILE* 4.7 5.6 - - + -
45K THR* 4.2 2.2 - - - -
46K VAL* 3.0 40.0 + - + +
219K ASP* 5.6 0.2 - - - -
220K LEU* 4.4 9.6 - - + +
221K GLY 5.5 1.8 - - - +
257K HIS* 1.3 77.9 - - - +
259K TYR* 1.3 74.1 + - - +
262K HIS* 4.1 3.6 - - + -
263K VAL* 4.2 16.4 - - + +
266K LEU* 3.5 33.7 - - + -
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Residues in contact with TYR 259 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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39K ASP* 3.5 19.1 - - - -
41K THR* 3.5 15.6 - - + +
43K THR* 3.1 20.0 - - - -
44K GLY 3.7 3.1 - - - -
45K THR* 3.6 11.4 - - + -
219K ASP* 3.5 28.5 - - - -
257K HIS* 3.6 17.3 - + - -
258K VAL* 1.3 77.0 - - - +
260K ARG* 1.3 66.5 + - - +
261K ASP* 3.2 15.7 - - - +
262K HIS* 2.9 33.4 + + + +
263K VAL* 3.5 5.5 + - - +
316K SER* 3.7 18.6 + - - -
450K UMP 3.1 33.3 + - - -
167L ARG* 3.3 19.1 + - - -
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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