Contacts of the strand formed by residues 245 - 259 (chain D) 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 D).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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59D ALA* 4.9 1.5 - - + -
60D ASP 4.4 14.2 + - - -
61D ASN* 4.8 7.6 + - - -
206D LYS* 4.1 27.8 + - + +
207D PRO 2.8 15.6 + - - +
208D LYS* 3.3 21.7 - - + +
209D LEU* 2.8 23.3 + - - -
244D THR* 1.3 74.4 - - - +
246D PRO* 1.3 94.0 - - - +
247D HIS 3.3 0.3 + - - -
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Residues in contact with PRO 246 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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58D LEU* 3.5 36.7 - - + +
59D ALA* 3.9 5.0 - - - +
61D ASN* 5.6 2.5 - - - +
208D LYS* 5.8 0.2 + - - -
209D LEU* 3.7 8.1 - - + +
235D THR* 4.5 5.8 - - + -
236D HIS* 3.6 31.6 - - + +
239D ALA* 3.6 24.8 - - + -
244D THR 3.8 1.6 - - - +
245D GLU* 1.3 107.1 - - - +
247D HIS* 1.3 58.6 + - - +
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Residues in contact with HIS 247 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57D SER* 3.7 5.4 + - - -
58D LEU* 2.8 25.2 + - - +
59D ALA* 3.7 10.4 + - - +
196D SER* 5.4 4.7 - - - -
208D LYS* 3.8 46.2 + - + +
209D LEU 2.7 16.5 + - - +
210D SER* 3.5 18.4 - - - +
246D PRO* 1.3 74.3 - - - +
248D GLU* 1.3 73.8 + - + +
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Residues in contact with GLU 248 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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49C PHE* 5.4 1.0 - - - +
55D ARG* 2.6 51.8 + - - +
56D PHE 3.5 15.9 - - - +
57D SER* 5.1 1.3 - - - -
58D LEU* 4.1 8.0 - - - +
209D LEU 3.7 0.9 + - - +
210D SER* 3.1 18.2 + - - +
211D CYS 2.9 24.1 + - - -
235D THR* 5.1 0.2 - - - +
247D HIS* 1.3 97.4 + - + +
249D PHE* 1.3 67.1 + - - +
250D ILE* 3.8 11.4 - - + +
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Residues in contact with PHE 249 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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54D PHE 3.8 0.2 - - - +
55D ARG* 3.5 2.8 - - - -
56D PHE* 2.8 54.4 + + + +
58D LEU* 4.0 21.3 - - + +
211D CYS* 3.3 20.2 - - + +
213D MET* 3.8 17.3 - - + -
227D ASN 4.5 2.7 - - - -
228D ILE* 3.9 34.3 - - + -
231D TYR* 3.5 30.1 - - + -
232D ALA* 4.7 7.0 - - + -
248D GLU* 1.3 74.1 - - - +
250D ILE* 1.3 78.2 + - - +
251D LEU* 3.8 31.2 - - + -
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Residues in contact with ILE 250 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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49C PHE* 4.2 10.8 - - + -
50C ALA* 4.0 16.4 - - + -
252C GLN* 5.5 2.0 - - - +
53D SER* 3.8 22.2 - - - +
54D PHE 3.2 10.5 - - - +
55D ARG* 3.8 30.7 - - + +
210D SER* 4.8 0.2 - - - -
211D CYS 2.7 22.6 + - - +
212D LEU* 3.3 22.6 - - + -
213D MET 2.8 26.2 + - - -
248D GLU* 3.8 25.4 - - + +
249D PHE* 1.3 86.5 - - - +
251D LEU* 1.3 65.2 + - - +
252D GLN* 4.9 0.4 - - + +
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Residues in contact with LEU 251 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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53D SER* 3.2 6.2 - - - -
54D PHE* 2.8 45.5 + - + +
56D PHE* 5.3 0.2 - - + -
213D MET* 3.4 39.0 - - + +
215D GLN* 4.0 16.2 - - + +
224D VAL* 4.6 3.6 - - + -
227D ASN* 5.0 0.2 - - + -
228D ILE* 3.7 34.3 - - + +
249D PHE* 3.8 17.0 - - + -
250D ILE* 1.3 74.7 - - - +
252D GLN* 1.3 69.9 + - - +
253D MET* 4.1 24.4 + - + +
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Residues in contact with GLN 252 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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53C SER* 4.6 7.7 + - - -
212C LEU* 3.6 14.3 - - + +
250C ILE* 5.5 1.8 - - - +
252C GLN* 3.5 35.5 - - + +
50D ALA* 4.0 3.1 - - - +
51D PRO 3.3 14.8 + - - +
53D SER* 3.2 30.5 - - - +
212D LEU* 4.7 6.7 - - + +
213D MET 2.9 10.6 + - - +
214D TYR* 3.4 31.0 - - + -
215D GLN* 2.9 25.8 + - - -
250D ILE* 4.2 1.4 - - + +
251D LEU* 1.3 74.4 - - - +
253D MET* 1.3 79.0 + - - +
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Residues in contact with MET 253 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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212C LEU* 3.9 2.6 - - - +
26D LEU* 3.8 12.8 - - + -
50D ALA* 3.4 12.8 - - - -
51D PRO* 4.0 10.7 + - + +
52D PRO 6.1 1.3 - - - +
53D SER* 5.4 0.6 - - - +
54D PHE* 3.4 45.1 - - + -
214D TYR* 4.3 3.1 - - - -
215D GLN 3.5 4.3 - - - -
218D CYS* 3.5 26.0 - - - -
220D LEU* 4.4 4.0 - - + -
224D VAL* 4.2 20.6 - - + -
251D LEU* 4.1 17.0 + - + +
252D GLN* 1.3 95.9 + - - +
254D GLY* 1.3 61.8 + - - +
256D ALA* 3.8 28.3 - - + -
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Residues in contact with GLY 254 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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192C GLN* 3.5 8.3 - - - -
212C LEU* 4.8 0.2 - - - -
49D PHE* 3.4 16.3 - - - -
50D ALA* 2.9 22.4 + - - -
51D PRO* 4.0 1.0 - - - +
214D TYR* 3.4 21.1 + - - -
215D GLN 2.9 12.9 + - - -
216D ARG 3.7 0.7 - - - -
218D CYS* 4.2 0.2 - - - -
253D MET* 1.3 73.5 - - - +
255D ASP* 1.3 59.6 + - - +
256D ALA 3.0 8.0 + - - -
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Residues in contact with ASP 255 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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165C THR 4.8 0.5 - - - +
166C ASP 5.1 1.0 - - - +
167C ARG* 3.5 29.0 + - + +
192C GLN* 4.1 7.0 - - - +
194C PHE* 3.5 27.8 - - + -
37D ARG* 4.3 8.7 + - - -
45D THR* 5.4 0.2 + - - -
47D ALA* 3.7 12.5 - - - +
48D LEU 4.2 2.5 - - - -
49D PHE* 4.0 6.1 - - - -
216D ARG 2.7 19.1 + - - +
217D SER* 4.3 4.3 - - - -
218D CYS* 2.8 25.8 + - - -
254D GLY* 1.3 69.2 - - - -
256D ALA* 1.3 57.2 + - - +
257D HIS* 2.9 26.3 + - - +
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Residues in contact with ALA 256 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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26D LEU* 4.6 0.7 - - + -
30D ILE* 3.8 11.2 - - + +
47D ALA* 3.3 1.9 - - - -
48D LEU* 2.9 39.2 + - + +
51D PRO* 4.0 18.6 - - + -
218D CYS* 4.0 7.0 - - - -
220D LEU* 4.0 8.1 - - + -
253D MET* 3.8 28.3 - - + -
254D GLY 3.0 1.8 + - - -
255D ASP* 1.3 71.8 + - - +
257D HIS* 1.3 59.4 + - - +
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Residues in contact with HIS 257 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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167C ARG* 3.8 21.0 + - - -
30D ILE* 4.5 1.1 - - - -
45D THR* 3.8 11.7 - - + +
46D VAL 3.3 12.1 - - - +
47D ALA* 3.6 12.1 - - + -
217D SER* 3.1 26.7 - - - -
218D CYS 3.0 26.9 + - - +
219D ASP* 3.9 1.0 - - - -
220D LEU* 3.1 30.3 + - - +
255D ASP* 2.9 20.4 + - - +
256D ALA* 1.3 73.7 - - - +
258D VAL* 1.3 64.6 + - - +
259D TYR* 3.6 21.4 - + - -
500D UMP 2.6 23.5 + - - -
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Residues in contact with VAL 258 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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27D ILE* 4.5 11.2 - - + +
30D ILE* 3.8 26.9 - - + -
31D ILE* 4.6 5.4 - - + -
45D THR* 4.2 2.0 - - - -
46D VAL* 3.0 40.0 + - + +
219D ASP* 5.6 0.2 - - - -
220D LEU* 4.3 9.6 - - + +
221D GLY 5.5 2.0 - - - +
257D HIS* 1.3 77.2 - - - +
259D TYR* 1.3 74.8 + - - +
260D ARG* 3.6 0.3 + - - -
262D HIS* 4.1 3.1 - - + -
263D VAL* 4.1 16.6 - - + +
266D LEU* 3.5 32.8 - - + -
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Residues in contact with TYR 259 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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167C ARG* 3.1 22.3 + - - -
39D ASP* 3.4 19.3 - - - -
41D THR* 3.5 13.8 - - - +
43D THR* 3.0 20.0 - - - -
44D GLY 3.6 2.7 - - - -
45D THR* 3.6 11.0 - - + -
219D ASP* 3.5 29.8 - - - -
257D HIS* 3.6 11.0 - + - -
258D VAL* 1.3 77.8 - - - +
260D ARG* 1.3 66.2 + - - +
261D ASP* 3.4 15.7 - - - +
262D HIS* 2.9 32.4 + + + +
263D VAL* 3.5 5.7 + - - +
316D SER* 3.8 11.0 - - - -
500D UMP 2.7 30.3 + - - -
2501D CB3 3.4 15.2 + - - -
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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