Contacts of the helix formed by residues 189 - 213 (chain H) in PDB entry 6IY6
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 THR 189 (chain H).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
81H ARG* 5.9 0.9 - - - +
185H ILE* 4.3 3.6 - - + +
186H ASP* 2.5 37.6 + - - +
188H ARG* 1.3 75.2 - - - +
190H SER* 1.3 58.2 - - - +
191H THR* 4.3 7.4 - - - -
192H SER* 2.9 32.2 + - - -
193H GLN 3.0 10.9 + - - -
331H GLN* 6.0 0.9 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with SER 190 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
81H ARG* 6.6 0.2 - - - -
84H GLN* 3.3 29.6 - - - +
188H ARG 3.4 4.1 + - - -
189H THR* 1.3 69.2 - - - +
191H THR* 1.3 56.3 + - - +
193H GLN* 4.1 1.6 - - - -
194H ALA* 3.1 21.5 + - - +
327H THR* 3.1 30.8 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with THR 191 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
189H THR* 2.9 8.3 + - - -
190H SER* 1.3 76.1 + - - +
192H SER* 1.3 57.9 + - - +
194H ALA* 3.0 8.2 + - - +
195H VAL* 2.8 48.8 + - + +
327H THR* 4.1 10.5 + - - +
328H VAL* 3.9 7.6 - - + +
331H GLN* 3.2 37.1 + - - +
332H PHE* 4.1 27.8 - - + -
483H LEU* 6.2 0.4 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with SER 192 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
262G PHE* 4.9 0.2 - - - -
183H ARG* 4.6 3.1 + - - -
186H ASP* 3.2 22.2 + - - -
187H LEU* 3.7 25.6 - - - +
189H THR* 2.9 24.8 + - - -
191H THR* 1.3 75.0 - - - +
193H GLN* 1.3 62.6 + - - -
195H VAL* 3.1 6.3 + - - +
196H PHE* 3.0 40.8 + - - +
488H GLN 5.7 0.7 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 193 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
260G ALA 3.0 24.9 - - - +
261G ASP* 4.0 6.9 + - - +
262G PHE* 3.2 21.7 - - - -
83H GLN* 3.4 20.2 - - - +
84H GLN* 3.5 23.8 - - + +
187H LEU 3.0 14.9 + - - +
188H ARG 3.6 19.1 - - - +
189H THR 3.0 8.6 + - - +
190H SER 3.8 2.5 - - - +
192H SER* 1.3 74.1 - - - +
194H ALA* 1.3 56.9 + - - +
197H ARG* 3.0 68.5 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 194 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84H GLN* 3.0 15.7 + - - +
190H SER 3.1 16.6 + - - +
191H THR 3.0 5.2 + - - +
193H GLN* 1.3 72.0 - - - +
195H VAL* 1.3 66.7 + - - +
198H LEU* 3.1 25.5 + - - +
324H GLU* 3.2 38.5 - - - +
327H THR* 3.7 12.1 - - + -
328H VAL* 3.8 4.9 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 195 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
191H THR* 2.8 28.5 + - + +
192H SER* 3.6 9.6 - - - +
194H ALA* 1.3 72.6 - - - +
196H PHE* 1.3 61.8 + - + +
198H LEU* 3.3 5.6 + - - +
199H GLN* 2.9 30.0 + - - +
328H VAL* 3.6 25.1 - - + +
477H THR* 4.1 8.9 - - + +
481H LEU* 3.9 13.9 - - + -
483H LEU* 4.4 8.5 - - + -
488H GLN 3.9 21.3 - - - +
489H THR* 4.1 22.0 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 196 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
216G VAL* 4.3 5.7 - - - +
217G GLU 4.7 1.9 - - - +
262G PHE* 3.9 9.9 - + + -
183H ARG* 4.0 6.1 - - - -
187H LEU* 3.7 27.4 - - + -
192H SER* 3.0 34.6 + - - +
195H VAL* 1.3 77.6 - - + +
197H ARG* 1.3 59.9 + - - +
198H LEU 3.3 0.4 - - - -
199H GLN* 3.5 20.5 - - - +
200H SER* 3.1 26.3 + - - -
488H GLN 3.7 17.9 - - - -
489H THR* 3.3 18.6 - - - -
490H SER 3.5 8.5 - - - -
491H MET* 3.2 63.1 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 197 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
216G VAL* 3.3 31.4 - - + +
261G ASP 3.3 18.4 + - - -
262G PHE* 3.5 23.0 - - + +
263G GLU* 4.2 3.0 - - - +
83H GLN* 3.4 27.9 + - - +
84H GLN* 4.7 11.4 + - - -
193H GLN* 3.0 59.9 + - - +
194H ALA 4.1 2.2 - - - +
196H PHE* 1.3 73.9 - - - +
198H LEU* 1.3 60.8 + - - +
200H SER* 3.6 8.5 - - - -
201H GLY 3.3 9.2 + - - -
321H PHE* 3.2 21.1 - - + -
324H GLU* 4.3 14.6 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 198 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
194H ALA 3.1 19.1 + - - +
195H VAL* 3.4 4.0 - - - +
197H ARG* 1.3 75.0 - - - +
199H GLN* 1.3 59.5 + - - +
201H GLY* 3.0 15.9 + - - -
202H ILE* 3.0 17.9 + - + +
317H LEU* 3.9 29.5 - - + +
321H PHE* 3.8 25.0 - - + +
324H GLU* 4.3 8.3 - - + -
325H ILE* 3.6 31.6 - - + +
328H VAL* 6.3 0.2 - - + -
477H THR* 4.1 20.4 - - + -
480H PHE* 4.5 2.5 - - + -
481H LEU* 4.1 21.1 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 199 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
219G GLN* 4.8 8.2 - - + +
195H VAL 2.9 16.7 + - - +
196H PHE* 3.5 26.2 - - - +
197H ARG 3.4 0.2 - - - -
198H LEU* 1.3 72.1 - - - +
200H SER* 1.3 64.2 + - - +
202H ILE* 3.1 17.8 + - - +
203H CYS* 3.3 12.1 + - - -
473H LEU* 3.6 25.8 - - + +
474H GLU* 3.7 17.0 - - - +
477H THR* 3.3 33.5 + - + +
489H THR* 2.7 28.0 + - - +
491H MET* 5.2 3.6 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with SER 200 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
211G ILE* 5.7 4.3 - - - +
215G PHE 4.9 1.0 + - - -
216G VAL* 3.7 13.5 - - - +
217G GLU* 3.0 48.1 + - - +
219G GLN* 6.1 0.2 - - - +
196H PHE 3.1 16.1 + - - -
197H ARG 3.6 7.9 - - - -
199H GLN* 1.3 74.1 - - - +
201H GLY* 1.3 60.4 + - - +
203H CYS* 3.5 10.4 + - - +
204H HIS* 3.1 22.4 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 201 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
197H ARG 3.3 4.9 + - - -
198H LEU 3.0 10.7 + - - -
200H SER* 1.3 74.5 - - - +
202H ILE* 1.3 53.4 + - - +
204H HIS* 3.1 8.1 + - - +
205H LEU* 2.8 43.6 + - - +
317H LEU* 4.5 0.4 - - - -
321H PHE* 3.5 28.9 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 202 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
198H LEU* 3.0 24.5 + - + +
199H GLN* 3.1 7.6 + - - +
201H GLY* 1.3 71.5 - - - +
203H CYS* 1.3 53.7 - - - +
205H LEU* 3.2 7.3 + - - +
206H PHE* 2.7 36.6 + - - +
289H LEU* 4.1 12.8 - - + -
313H ILE* 4.1 21.5 - - + +
317H LEU* 3.7 24.9 - - + +
471H ILE* 5.6 0.7 - - + -
473H LEU* 3.6 16.8 - - + -
476H VAL* 4.1 20.2 - - + +
477H THR* 3.4 37.9 - - - +
480H PHE* 5.5 0.9 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with CYS 203 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
217G GLU* 3.2 20.4 - - - +
219G GLN* 3.4 27.8 - - - -
199H GLN 3.3 7.0 + - - -
200H SER* 3.6 8.5 - - - +
202H ILE* 1.3 78.7 - - - +
204H HIS* 1.3 57.6 + - - +
206H PHE* 3.5 5.2 - - - +
207H ARG* 3.2 36.2 + - - +
268H ILE* 3.9 20.9 - - + +
289H LEU* 4.4 5.8 - - - -
473H LEU* 3.5 27.6 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with HIS 204 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
208G GLU* 3.6 15.2 + - - -
211G ILE* 3.3 46.9 - - + +
217G GLU* 4.9 0.2 + - - -
200H SER* 3.1 13.8 + - - +
201H GLY* 3.1 11.9 + - - +
203H CYS* 1.3 73.4 - - - +
205H LEU* 1.3 59.5 + - + +
207H ARG* 3.3 8.5 + - - +
208H GLU* 2.8 67.7 + - + +
320H ARG* 3.8 26.7 + - - -
321H PHE* 6.3 2.5 - + - -
601H ZN 3.5 6.4 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 205 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
201H GLY* 2.8 23.3 + - - +
202H ILE 3.7 4.0 - - - +
204H HIS* 1.3 71.3 - - + +
206H PHE* 1.3 59.9 + - - +
208H GLU* 4.6 5.4 - - + -
209H THR* 2.6 37.6 + - - +
312H GLN 4.6 4.9 - - - +
313H ILE* 3.3 39.4 - - + +
316H GLY* 3.7 13.9 - - - -
317H LEU* 3.7 28.7 - - + +
320H ARG* 3.9 34.8 - - - +
321H PHE* 4.7 5.2 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 206 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
202H ILE 2.7 21.1 + - - +
203H CYS 3.5 4.7 - - - +
205H LEU* 1.3 74.4 - - - +
207H ARG* 1.3 62.1 + - - +
209H THR* 3.7 2.8 - - - -
210H LEU* 3.2 51.4 + - + +
266H PHE* 3.7 19.3 - + + -
268H ILE* 3.8 20.4 - - + -
289H LEU* 3.6 49.4 - - + -
290H ASP 4.1 2.7 - - - -
291H ILE* 3.7 28.9 - - + -
309H THR* 4.1 7.8 - - + +
310H MET* 5.6 1.1 - - - -
313H ILE* 4.0 21.7 - - + +
471H ILE* 4.4 9.0 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 207 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
207G ARG* 3.1 64.0 - - - +
211G ILE* 5.1 3.2 - - - +
217G GLU* 2.6 46.5 + - - +
266G PHE* 4.7 2.0 - - - -
268G ILE* 5.2 4.0 + - - +
203H CYS* 3.2 17.1 + - - +
204H HIS* 3.7 5.5 - - - +
206H PHE* 1.3 74.9 - - - +
208H GLU* 1.3 58.6 + - - +
209H THR 3.1 1.6 - - - -
210H LEU* 3.0 3.7 + - - -
211H ILE* 2.7 44.6 + - + +
266H PHE* 3.8 27.4 - - + -
268H ILE* 3.3 32.7 + - + +
601H ZN 4.0 13.2 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 208 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
204G HIS* 3.7 13.2 - - - -
208G GLU* 3.0 37.4 - - - +
204H HIS* 2.8 39.3 + - + +
205H LEU* 4.3 6.5 - - + +
207H ARG* 1.3 71.1 - - - +
209H THR* 1.3 57.3 + - - +
211H ILE* 4.2 4.6 - - - +
212H ASN* 3.1 56.4 + - - +
320H ARG* 5.7 5.8 - - - +
601H ZN 3.7 1.7 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with THR 209 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
205H LEU* 2.6 26.4 + - - +
206H PHE 3.7 3.8 - - - -
207H ARG 3.1 0.4 - - - -
208H GLU* 1.3 77.3 - - - +
210H LEU* 1.3 63.4 + - - +
212H ASN* 3.3 5.7 + - - +
213H LYS* 3.2 38.6 + - - +
309H THR* 3.4 40.6 + - - +
312H GLN* 3.7 25.8 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 210 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
206H PHE* 3.3 51.8 - - + +
207H ARG 3.0 5.5 + - - +
209H THR* 1.3 73.0 - - - +
211H ILE* 1.3 61.1 + - - +
213H LYS* 2.9 22.3 + - + +
214H GLY 3.1 8.5 + - - -
215H PHE* 3.2 47.3 + - + -
266H PHE* 3.7 23.3 - - + -
291H ILE* 3.7 16.2 - - + -
305H GLU* 6.1 2.0 - - + -
309H THR* 3.4 28.9 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 211 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
200G SER* 5.7 3.8 - - - +
204G HIS* 3.3 54.5 - - + +
207G ARG* 5.1 4.0 - - - +
207H ARG* 2.7 34.9 + - + +
208H GLU* 4.2 2.5 - - - +
210H LEU* 1.3 70.9 - - - +
212H ASN* 1.3 62.3 + - - +
214H GLY* 3.1 19.2 + - - -
215H PHE* 3.8 16.0 + - - +
217H GLU* 5.7 2.9 - - + +
266H PHE* 3.8 28.3 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ASN 212 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
208H GLU* 3.1 48.7 + - - +
209H THR* 3.6 7.0 - - - +
210H LEU 3.2 0.2 - - - -
211H ILE* 1.3 80.3 - - - +
213H LYS* 1.3 57.9 + - + +
214H GLY* 3.2 1.3 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 213 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47G ARG* 5.0 0.7 + - - -
209H THR* 3.2 26.9 + - + +
210H LEU* 2.9 18.7 + - + +
212H ASN* 1.3 75.4 - - - +
214H GLY* 1.3 57.2 + - - +
215H PHE* 4.2 7.4 - - + -
264H LYS* 3.2 25.0 + - - +
305H GLU* 3.1 39.5 + - + +
308H ASP* 2.8 26.2 + - - -
309H THR* 3.5 24.2 - - - +
312H GLN* 5.4 0.4 - - - +
----------------------------------------------------------
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