Contacts of the strand formed by residues 216 - 231 (chain A) in PDB entry 2P02
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 ALA 216 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
166A ASP* 4.2 6.1 - - - +
212A GLN* 3.8 2.1 - - - +
213A ASP* 2.9 32.2 + - - +
214A ARG 3.2 2.4 + - - +
215A GLY* 1.3 78.3 - - - +
217A VAL* 1.3 66.4 + - - +
334A ARG* 3.3 55.2 - - + +
335A ARG* 4.2 7.2 - - + +
359A THR* 3.4 3.9 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 217 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40A PHE* 3.8 25.6 - - + -
165A THR* 4.3 1.5 + - - +
166A ASP* 4.8 3.9 + - - +
167A GLU* 3.2 44.2 - - - +
210A TYR* 3.7 21.1 - - + -
211A MET 3.6 4.3 - - - +
212A GLN* 5.3 1.1 - - + -
216A ALA* 1.3 83.0 - - - +
218A LEU* 1.3 68.6 + - - +
296A TRP* 4.2 10.8 - - + -
334A ARG* 5.2 0.2 + - - -
335A ARG* 4.0 33.1 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 218 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
167A GLU* 6.4 0.9 - - - -
210A TYR* 3.3 4.4 - - - -
211A MET* 2.8 52.9 + - + +
213A ASP* 3.7 38.8 - - + +
217A VAL* 1.3 80.0 - - - +
219A PRO* 1.3 71.7 - - + +
220A ILE* 3.4 2.5 + - + +
334A ARG* 4.0 12.1 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with PRO 219 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
167A GLU* 4.2 19.7 - - + +
168A THR* 6.1 0.2 - - + -
174A LEU* 3.6 37.7 - - + -
208A VAL* 4.0 8.5 - - + -
209A GLN 3.9 2.2 - - - +
210A TYR* 3.8 21.1 - - + -
217A VAL 4.0 5.6 - - - +
218A LEU* 1.3 88.4 - - + +
220A ILE* 1.3 61.7 + - - +
257A TYR* 4.5 16.5 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 220 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39A THR* 3.8 22.2 - - + -
209A GLN* 2.8 34.3 + - - +
210A TYR 3.7 21.1 - - - +
211A MET* 3.8 15.5 - - + +
218A LEU* 3.9 8.1 - - + +
219A PRO* 1.3 77.6 - - - +
221A ARG* 1.3 65.7 + - + +
256A LYS 4.5 5.7 - - - +
257A TYR* 3.6 16.3 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 221 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
208A VAL* 3.4 8.3 - - - +
209A GLN* 2.9 58.1 + - + +
220A ILE* 1.3 84.0 - - + +
222A VAL* 1.3 74.4 + - - +
223A HIS* 3.6 32.7 + - - +
256A LYS 5.4 1.1 - - - +
257A TYR* 3.6 19.9 - - - +
259A ASP* 2.8 43.7 + - - +
261A ASP* 3.5 14.6 + - - +
262A THR* 3.3 18.8 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 222 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
174A LEU* 5.7 0.4 - - + -
178A LEU* 4.1 25.4 - - + -
206A VAL* 4.3 4.3 - - + -
207A THR 3.7 9.9 - - - +
208A VAL* 4.2 10.5 - - + -
221A ARG* 1.3 79.6 + - - +
223A HIS* 1.3 60.1 + - - +
224A THR 3.9 5.6 - - - +
225A ILE* 3.5 36.1 - - + -
253A VAL* 4.1 7.2 - - + -
257A TYR* 2.8 33.2 + - + +
258A LEU* 4.1 5.4 - - + -
262A THR* 2.9 31.4 + - + -
----------------------------------------------------------
Back to top of page
Residues in contact with HIS 223 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41A LEU* 3.6 41.9 - - + +
207A THR* 2.8 27.2 + - + +
209A GLN* 4.5 4.5 - - + +
221A ARG* 3.6 26.9 + - - +
222A VAL* 1.3 74.0 - - - +
224A THR* 1.3 86.9 + - - +
261A ASP 4.2 1.4 - - - +
262A THR* 3.5 3.3 - - - -
263A ILE* 2.9 40.9 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with THR 224 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
205A GLN* 3.9 1.2 - - - +
206A VAL* 3.6 0.7 - - - -
207A THR* 2.9 42.0 + - - +
222A VAL* 3.7 1.2 - - - +
223A HIS* 1.3 106.1 + - - +
225A ILE* 1.3 74.4 + - - +
226A VAL* 4.6 7.2 - - + -
262A THR* 4.7 0.4 - - - -
263A ILE* 3.2 22.9 - - + +
265A HIS* 3.9 25.8 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 225 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
182A LEU* 4.0 18.4 - - + -
205A GLN 3.3 4.3 - - - +
206A VAL* 4.6 8.3 - - + -
222A VAL* 3.5 24.2 - - + -
224A THR* 1.3 77.7 - - - +
226A VAL* 1.3 72.2 + - - +
227A ILE* 4.1 2.5 - - + -
249A ILE* 3.8 49.8 - - + -
253A VAL* 4.2 12.3 - - + -
258A LEU* 4.2 10.8 - - + -
262A THR* 5.0 0.2 - - + -
263A ILE 2.9 9.3 + - - +
264A TYR* 3.6 9.1 - - + -
265A HIS* 2.8 32.6 + - - +
266A LEU* 4.4 1.3 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 226 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
203A LYS 5.5 1.1 - - - +
204A THR* 3.2 5.6 - - - -
205A GLN* 2.8 65.4 + - + +
224A THR* 4.6 11.0 - - + -
225A ILE* 1.3 76.3 - - - +
227A ILE* 1.3 73.4 + - - +
228A SER* 4.5 4.5 - - - +
265A HIS* 3.2 24.0 - - + +
268A PRO* 4.2 18.4 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 227 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
182A LEU* 4.5 7.6 - - + -
186A LEU* 4.0 25.8 - - + -
203A LYS 3.5 7.0 - - - +
204A THR* 4.2 8.3 - - + -
225A ILE* 4.1 9.2 - - + -
226A VAL* 1.3 80.2 - - - +
228A SER* 1.3 65.4 + - - +
229A VAL* 4.5 1.1 - - + -
244A LEU* 4.1 24.9 - - + +
248A VAL* 4.1 20.2 - - + -
249A ILE* 3.7 31.4 - - + -
265A HIS 3.0 7.6 + - - +
266A LEU* 4.1 11.1 - - + +
267A GLN* 2.9 31.2 + - - +
268A PRO* 3.6 2.9 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with SER 228 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
2A SAM 4.0 31.2 - - - -
202A SER* 3.3 2.9 - - - -
203A LYS* 2.9 44.6 + - - +
226A VAL* 4.5 5.6 - - - +
227A ILE* 1.3 70.9 - - - +
229A VAL* 1.3 61.8 + - - +
267A GLN* 3.2 6.7 - - - -
268A PRO* 3.5 24.8 - - - +
269A SER* 5.5 0.2 + - - -
272A PHE* 3.8 3.8 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 229 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
186A LEU* 4.2 12.1 - - + -
197A TRP* 4.4 3.6 - - + -
198A LEU* 3.7 31.2 - - + -
199A ARG 3.7 11.0 - - - +
201A ASP 3.6 11.9 - - - +
202A SER* 3.8 13.9 - - - -
227A ILE* 4.5 1.6 - - + -
228A SER* 1.3 76.5 - - - +
230A GLN* 1.3 76.4 + - - +
231A HIS* 3.6 3.1 + - - +
244A LEU* 4.2 18.6 - - + -
267A GLN* 2.9 43.2 + - - +
272A PHE* 3.3 9.9 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 230 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
114A TYR* 2.7 27.2 + - - -
119A LYS* 3.1 24.7 + - - +
120A GLY* 5.1 0.6 - - - -
198A LEU* 3.8 1.7 - - - -
199A ARG* 2.9 47.0 + - + +
201A ASP* 2.9 21.0 + - + +
229A VAL* 1.3 79.4 - - - +
231A HIS* 1.3 61.9 - - - +
272A PHE* 3.1 27.8 - - + +
273A VAL 3.0 21.1 + - - +
275A GLY* 3.2 25.7 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with HIS 231 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
197A TRP* 3.2 19.7 - - + +
199A ARG* 3.9 8.2 - - - +
229A VAL 3.6 3.6 - - - +
230A GLN* 1.3 75.5 - - - +
232A ASP* 1.3 83.5 + - - +
233A GLU* 5.6 0.4 - - - -
235A VAL* 4.0 5.9 - - + +
240A MET* 3.3 37.3 - - + +
267A GLN* 3.6 23.0 + - - +
270A GLY 5.3 0.4 - - - -
271A ARG* 3.9 9.5 - - + -
272A PHE* 2.9 45.1 + - + -
273A VAL* 3.5 43.9 - - + +
----------------------------------------------------------
Back to top of page
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
------------------------------------------------------------
Atomic class I II III IV V VI VII VIII
------------------------------------------------------------
I (Hydrophilic) + + + - + + + +
II (Acceptor) + - + - + + + -
III (Donor) + + - - + + - +
IV (Hydrophobic) - - - + + + + +
V (Aromatic) + + + + + + + +
VI (Neutral) + + + + + + + +
VII (Neutral-donor) + + - + + + - +
VIII (Neutral-acceptor) + - + + + + + -
------------------------------------------------------------
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