Contacts of the helix formed by residues 201 - 227 (chain A) in PDB entry 6ICV
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 GLN 201 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
200A THR* 1.3 71.9 - - - +
202A ALA* 1.3 66.8 + - - +
203A ILE 3.1 1.4 + - - -
204A HIS* 3.2 21.5 + - - +
205A ASP* 4.1 6.1 + - - +
337A VAL* 3.8 17.0 - - - +
338A LYS* 2.6 67.7 + - - +
437A LEU* 5.0 14.3 - - - +
441A TYR* 4.2 9.2 + - + +
471A GLU* 2.8 20.5 + - - +
475A LEU* 5.5 3.4 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 202 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
197A LEU* 4.9 2.9 - - + -
200A THR* 3.4 4.6 - - - +
201A GLN* 1.3 77.7 - - - +
203A ILE* 1.3 63.5 + - - +
205A ASP* 2.9 23.1 + - - +
206A VAL* 3.0 13.3 + - + +
319A ALA* 4.4 14.8 - - + -
323A ILE* 3.8 6.3 - - + +
467A LEU* 3.6 31.4 - - + -
471A GLU* 2.9 18.8 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 203 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47A TRP* 4.3 1.3 - - + -
194A VAL* 3.8 21.5 - - + +
197A LEU* 3.3 46.8 - - + +
198A GLN* 3.5 16.8 - - + +
199A SER 4.5 4.3 - - - +
200A THR* 3.2 20.8 + - - +
202A ALA* 1.3 77.3 - - - +
204A HIS* 1.3 71.7 + - + +
206A VAL* 3.0 8.1 + - + +
207A PHE* 2.8 62.0 + - + -
----------------------------------------------------------
Back to top of page
Residues in contact with HIS 204 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46A GLU* 2.8 40.2 + - + +
199A SER* 6.2 0.8 - - - -
200A THR 3.6 20.9 + - - -
201A GLN* 3.2 10.2 + - - +
202A ALA 3.1 1.0 - - - -
203A ILE* 1.3 81.0 - - + +
205A ASP* 1.3 55.1 + - - +
207A PHE* 3.5 19.0 + + - +
208A SER* 2.7 36.3 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 205 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
201A GLN 4.5 5.5 - - - +
202A ALA* 2.9 13.2 + - - +
204A HIS* 1.3 76.5 - - - +
206A VAL* 1.3 65.6 + - - +
208A SER* 3.9 9.2 + - - -
209A GLN* 3.0 24.4 + - - +
319A ALA* 5.7 2.8 - - - +
323A ILE* 3.6 23.4 - - + +
324A HIS* 6.1 0.9 - - - +
338A LYS* 4.0 22.7 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 206 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
50A TYR* 4.8 7.4 - - + +
186A PRO* 3.9 28.3 - - + +
194A VAL* 3.9 29.6 - - + -
197A LEU* 4.0 22.0 - - + -
202A ALA* 3.0 17.6 + - + +
203A ILE* 3.0 9.8 + - + +
205A ASP* 1.3 74.8 - - - +
207A PHE* 1.3 67.0 + - + +
209A GLN* 3.3 8.9 + - - +
210A TYR* 3.0 22.7 + - + +
322A VAL* 5.8 0.7 - - + -
323A ILE* 4.0 20.4 - - + -
467A LEU* 5.9 0.2 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 207 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46A GLU* 3.5 42.6 - - + +
47A TRP* 3.8 26.5 - + + -
49A GLU* 6.1 1.1 - - - +
50A TYR* 3.5 49.6 - + + -
194A VAL* 4.7 0.9 - - + -
203A ILE* 2.8 54.4 + - + -
204A HIS* 3.5 19.7 - + - +
206A VAL* 1.3 73.9 - - + +
208A SER* 1.3 63.2 + - - +
210A TYR* 3.2 3.8 + - - +
211A LYS* 3.0 24.7 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with SER 208 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
204A HIS 2.7 23.0 + - - -
205A ASP* 3.9 10.6 + - - -
206A VAL 3.3 0.2 - - - -
207A PHE* 1.3 76.4 - - - +
209A GLN* 1.3 57.9 + - - +
211A LYS* 3.3 5.1 + - - -
212A ASN* 2.8 47.0 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 209 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
185A THR* 4.5 1.0 - - - -
186A PRO* 3.5 25.9 - - - +
187A LEU* 3.5 31.1 + - + +
205A ASP 3.0 18.3 + - - +
206A VAL* 3.3 5.3 + - - +
208A SER* 1.3 75.3 - - - +
210A TYR* 1.3 62.9 + - - +
212A ASN* 3.8 7.7 - - - +
213A THR* 2.8 34.7 + - - +
252A MET* 3.4 26.0 - - + -
323A ILE* 2.9 38.8 + - + +
324A HIS* 5.3 1.6 + - + -
79C TRP* 6.3 1.3 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 210 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
50A TYR* 3.6 31.6 - + + -
53A ILE* 3.7 29.2 - - + -
54A ARG* 3.6 43.2 + - + +
57A VAL* 3.3 34.6 - - + +
58A GLU* 4.4 7.3 + - - -
186A PRO 5.0 2.2 - - - -
187A LEU* 3.9 35.2 - - + -
206A VAL* 3.0 13.4 + - + +
207A PHE 3.2 6.9 + - - +
209A GLN* 1.3 77.0 - - - +
211A LYS* 1.3 57.8 + - - +
213A THR* 3.8 1.6 - - - -
214A ALA* 3.0 26.2 + - + +
241A TYR* 4.2 12.1 + - - -
245A ARG* 6.1 0.2 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 211 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35A LYS 4.2 1.5 + - - -
36A CYS* 3.4 34.5 - - + +
38A SER 2.7 26.1 + - - -
39A PRO 3.6 9.7 + - - -
40A ALA* 4.1 4.4 - - - +
49A GLU* 2.8 34.7 + - - +
53A ILE* 3.9 23.6 - - + -
207A PHE 3.0 16.0 + - - +
208A SER* 3.8 5.8 - - - +
210A TYR* 1.3 75.1 - - - +
212A ASN* 1.3 61.0 + - - +
214A ALA* 3.3 2.8 + - - -
215A ARG* 2.8 39.8 + - - +
82C MET* 5.6 1.5 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ASN 212 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
208A SER* 2.8 40.7 + - - +
209A GLN* 3.8 6.5 - - - +
211A LYS* 1.3 72.8 - - - +
213A THR* 1.3 59.6 + - - +
215A ARG* 3.1 28.7 + - - +
216A GLN* 2.8 49.6 + - - +
79C TRP* 3.8 24.6 + - + +
80C ASP* 3.8 21.3 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with THR 213 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
187A LEU* 3.8 31.6 - - + +
209A GLN* 2.8 25.0 + - - +
210A TYR 3.8 3.1 - - - -
212A ASN* 1.3 74.4 - - - +
214A ALA* 1.3 62.8 + - - +
216A GLN* 4.2 9.3 + - - -
217A TYR* 2.9 28.1 + - - +
241A TYR* 4.1 19.5 - - + +
244A TYR* 3.6 20.8 - - + -
245A ARG* 4.7 3.4 - - - -
248A VAL* 4.2 10.1 - - + +
252A MET* 5.2 2.1 - - - +
79C TRP* 6.1 0.9 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 214 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32A LEU* 3.6 16.6 - - + +
36A CYS* 3.6 22.2 - - - -
53A ILE* 3.9 3.6 - - + -
57A VAL* 3.8 27.8 - - + -
210A TYR* 3.0 17.8 + - + +
213A THR* 1.3 74.7 - - - +
215A ARG* 1.3 64.6 + - - +
217A TYR* 3.4 1.1 + - - +
218A ALA* 3.1 19.9 + - - +
241A TYR* 4.5 9.6 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 215 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32A LEU 5.2 0.2 - - - -
33A LEU* 3.8 13.3 - - + +
36A CYS* 2.9 39.1 + - + +
37A SER* 3.5 20.4 - - - +
211A LYS* 2.8 35.2 + - - +
212A ASN* 3.1 29.5 + - - +
214A ALA* 1.3 73.9 - - - +
216A GLN* 1.3 56.5 + - - +
218A ALA* 3.3 2.4 + - - -
219A TYR* 2.9 33.7 + - + +
80C ASP* 3.6 4.4 + - - -
81C ASP* 2.7 42.9 + - - +
82C MET* 3.4 35.6 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 216 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
148A ILE* 5.7 2.2 - - + -
155A ILE* 3.6 21.5 - - + +
212A ASN* 2.8 30.3 + - - +
213A THR* 4.2 3.5 + - - -
215A ARG* 1.3 73.2 - - - +
217A TYR* 1.3 63.9 + - - +
219A TYR* 4.4 3.6 - - - -
220A PHE* 2.9 40.9 + - + +
244A TYR* 2.8 40.9 + - + +
248A VAL* 4.6 0.9 - - - +
79C TRP* 2.7 41.5 + - - +
81C ASP* 2.7 26.6 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 217 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29A THR* 3.9 20.1 - - + +
32A LEU* 4.5 10.8 - - + -
60A ILE* 4.4 7.9 - - + -
64A GLN* 2.9 20.1 + - - -
213A THR 2.9 18.6 + - - +
214A ALA 3.8 3.4 - - - +
215A ARG 3.3 0.2 - - - -
216A GLN* 1.3 76.7 - - - +
218A ALA* 1.3 60.4 + - - +
220A PHE* 3.8 0.3 - - - -
221A TYR* 2.9 40.6 + + - +
239A PHE* 2.7 52.1 + + - -
240A THR 3.3 17.3 - - - -
241A TYR* 3.3 37.2 + + + -
244A TYR* 3.8 22.3 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 218 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29A THR* 3.2 35.6 - - - +
32A LEU* 4.1 8.5 - - + -
33A LEU* 3.6 21.1 - - + +
214A ALA 3.1 15.9 + - - +
215A ARG 3.9 0.7 - - - +
217A TYR* 1.3 79.3 - - - +
219A TYR* 1.3 66.0 + - - +
221A TYR* 3.4 2.0 + - - +
222A LYS* 3.2 29.4 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 219 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33A LEU* 3.8 25.7 - - + +
146A ASP* 2.7 31.2 + - - -
147A ARG* 4.9 3.1 + - - +
148A ILE* 3.6 32.2 + - + +
215A ARG* 2.9 20.6 + - + +
216A GLN* 3.8 3.1 - - - +
218A ALA* 1.3 78.0 - - - +
220A PHE* 1.3 82.4 + + - +
222A LYS* 3.3 4.9 + - - +
223A VAL* 2.9 48.8 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 220 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
142A LEU* 5.3 6.1 - - + -
146A ASP* 3.5 23.6 - - - -
148A ILE* 3.6 27.4 - - + -
149A LEU* 3.7 28.3 - - + -
155A ILE* 3.7 17.9 - - + -
159A PHE* 3.3 36.8 - + + -
216A GLN* 2.9 35.9 + - + +
219A TYR* 1.3 94.8 - + - +
221A TYR* 1.3 60.3 + - - +
223A VAL* 4.1 10.5 - - + -
224A ILE* 2.8 36.3 + - + +
239A PHE* 4.1 6.3 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 221 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22A PRO* 4.9 7.4 + - - +
25A ILE* 3.4 30.7 - - + +
26A LEU* 4.6 12.1 - - + -
29A THR* 3.7 22.9 - - + -
64A GLN* 4.7 1.1 - - - -
217A TYR* 2.9 42.0 + + + +
218A ALA* 3.6 8.1 - - - +
220A PHE* 1.3 76.4 - - - +
222A LYS* 1.3 63.7 + - + +
224A ILE* 4.0 1.3 - - - +
225A GLN* 3.1 53.5 + - + +
239A PHE* 3.4 39.8 - + + -
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 222 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26A LEU* 5.7 0.4 - - - +
29A THR* 4.3 16.6 - - - +
30A SER* 4.8 12.8 - - - +
33A LEU* 4.8 14.1 - - + -
218A ALA 3.2 18.4 + - - +
219A TYR* 3.8 3.8 - - - +
221A TYR* 1.3 76.7 - - + +
223A VAL* 1.3 66.5 + - + +
225A GLN* 3.2 6.1 + - - +
226A THR* 3.1 32.7 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 223 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
142A LEU* 4.0 13.7 - - + -
146A ASP* 4.0 11.2 - - - +
219A TYR* 2.9 53.2 + - + +
220A PHE* 3.3 13.7 + - + +
222A LYS* 1.3 77.3 - - + +
224A ILE* 1.3 59.4 + - - +
226A THR* 3.1 6.9 + - - +
227A HIS* 2.8 67.4 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 224 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
142A LEU* 4.3 20.0 - - + -
159A PHE* 4.1 10.3 - - + -
220A PHE* 2.8 22.8 + - + +
221A TYR* 4.0 3.8 - - - +
223A VAL* 1.3 76.0 - - + +
225A GLN* 1.3 64.6 + - - +
227A HIS 4.1 0.2 + - - -
230A ALA* 3.5 19.1 - - + +
233A LEU* 4.7 4.5 - - + -
235A LEU* 3.9 27.6 - - + +
236A LYS* 3.1 56.6 + - - +
239A PHE* 3.8 25.6 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 225 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
221A TYR* 3.1 43.8 + - + +
222A LYS* 3.2 11.3 + - - +
224A ILE* 1.3 87.6 - - - +
226A THR* 1.3 62.0 + - + +
235A LEU 4.5 2.3 - - - +
236A LYS* 3.5 45.3 + - - +
239A PHE* 5.8 0.9 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with THR 226 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
222A LYS* 3.1 21.2 + - + +
223A VAL* 3.4 2.3 + - - -
225A GLN* 1.3 82.4 - - + +
227A HIS* 1.3 81.1 + - - +
228A PRO* 3.5 8.5 - - - +
236A LYS* 4.8 0.4 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with HIS 227 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
142A LEU* 3.7 29.2 - - + -
145A GLN* 3.2 29.5 + - + -
146A ASP* 4.9 5.6 + - - -
223A VAL* 2.8 43.9 + - + +
225A GLN 3.7 0.4 - - - -
226A THR* 1.3 90.2 + - - +
228A PRO* 1.3 68.3 - - + +
229A HIS* 3.8 13.2 - + - +
230A ALA* 3.1 11.0 + - + +
236A LYS* 3.4 15.9 + - - -
----------------------------------------------------------
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