Contacts of the strand formed by residues 193 - 204 (chain B) in PDB entry 4ZIN
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 TYR 193 (chain B).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
75B HIS* 2.7 40.6 + + - -
79B ILE* 3.9 31.4 - - + -
80B PRO 5.0 1.2 + - - -
82B TYR 6.0 0.2 + - - -
149B ARG* 3.8 0.2 - - - -
150B MET* 2.8 61.2 + - + +
157B LEU* 4.5 10.8 - - + +
190B PRO* 3.6 24.8 - - + +
191B GLY 3.4 13.0 - - - -
192B ALA* 1.3 75.1 - - - +
194B ASN* 1.4 77.3 + - - +
195B VAL* 3.6 17.5 - - + +
219B GLY* 4.1 4.7 - - - -
220B ARG 3.5 9.0 - - - +
221B HIS* 4.6 0.4 - - + -
222B SER* 2.9 18.8 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ASN 194 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
147B SER* 3.6 18.9 + - - +
148B GLU 3.4 3.8 - - - +
149B ARG* 3.4 24.1 - - - +
193B TYR* 1.4 81.3 - - - +
195B VAL* 1.3 61.4 + - - +
196B ASN* 4.1 4.0 - - - +
219B GLY* 3.3 4.5 - - - -
220B ARG* 2.7 41.5 + - + +
221B HIS 4.7 3.0 + - - -
222B SER* 3.4 21.9 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 195 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70B LYS* 5.6 4.9 - - + -
73B VAL* 3.7 34.3 - - + -
147B SER* 3.1 2.6 - - - -
148B GLU* 2.7 47.6 + - + +
150B MET* 3.8 16.6 - - + -
193B TYR* 3.6 27.1 - - + +
194B ASN* 1.3 76.2 - - - +
196B ASN* 1.3 68.3 + - - +
197B ILE* 3.8 22.8 + - + +
217B ALA* 4.1 4.9 - - + -
218B GLU 3.5 5.2 - - - +
219B GLY* 4.3 1.3 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ASN 196 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146B SER 3.4 4.8 - - - +
147B SER* 3.3 26.2 + - - -
194B ASN* 4.1 3.8 - - - +
195B VAL* 1.3 72.8 - - - +
197B ILE* 1.3 59.9 + - - +
217B ALA* 3.2 2.1 - - - -
218B GLU 2.9 20.4 + - - +
220B ARG* 3.6 35.4 - - - +
302B SO4 3.0 38.0 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 197 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66B CH6 3.5 61.3 + - + -
70B LYS* 5.0 2.9 - - - +
145B ALA* 3.5 5.4 - - - +
146B SER* 2.8 32.7 + - - +
147B SER 5.4 0.2 - - - -
148B GLU* 4.1 26.5 - - + +
161B ILE* 5.1 0.2 - - + -
195B VAL* 3.9 26.7 - - + +
196B ASN* 1.3 80.7 - - - +
198B LYS* 1.3 66.1 + - - +
215B GLU* 3.8 18.6 - - - +
216B ARG 3.4 3.6 - - - +
217B ALA* 4.2 7.0 - - + -
302B SO4 3.9 2.2 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 198 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66B CH6 5.6 0.2 - - - -
143B 4OO 4.8 6.6 + - - +
144B GLU* 5.8 0.2 - - - +
145B ALA* 4.1 29.5 - - + +
166B LYS* 5.6 5.1 - - - +
197B ILE* 1.3 74.7 - - - +
199B LEU* 1.3 62.3 + - - +
200B ASP* 3.8 18.8 + - - +
214B TYR 3.9 0.9 - - - +
215B GLU* 3.4 3.8 - - - +
216B ARG* 2.8 74.6 + - - +
302B SO4 3.6 13.4 + - - +
169C ASP* 6.1 0.4 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 199 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62B SER* 3.2 39.3 - - - +
66B CH6 3.6 41.4 + - + +
142B GLY* 5.7 0.3 - - - -
143B 4OO 3.6 41.2 + - + +
144B GLU 6.3 0.2 - - - -
145B ALA* 5.8 0.4 - - - +
197B ILE 4.3 0.4 - - - -
198B LYS* 1.3 77.2 - - - +
200B ASP* 1.3 78.6 + - - +
201B ILE* 5.3 2.2 - - + -
213B GLN* 3.8 25.1 - - - +
214B TYR 3.6 9.2 - - - +
215B GLU* 4.1 9.6 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 200 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
143B 4OO 5.3 1.2 - - - +
166B LYS* 5.8 1.9 + - - -
198B LYS* 3.8 18.7 + - - +
199B LEU* 1.3 82.5 + - - +
201B ILE* 1.3 66.2 + - - +
202B THR* 3.7 12.8 + - + +
213B GLN* 3.3 4.0 - - - +
214B TYR* 2.8 46.4 + - + +
216B ARG* 2.9 30.1 + - - -
169C ASP 4.8 2.8 - - - +
170C GLY* 6.0 0.2 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 201 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47A LYS* 5.6 4.5 + - - +
58B TRP* 3.9 18.4 - - + +
59B ASP* 4.4 12.3 - - - +
62B SER* 4.2 8.7 - - - -
142B GLY* 5.8 4.0 - - - -
199B LEU* 4.9 2.7 - - + -
200B ASP* 1.3 74.8 - - - +
202B THR* 1.3 61.5 + - - +
203B SER 3.8 9.4 - - - +
204B HIS* 4.2 16.4 - - + -
208B TYR* 4.8 7.6 - - + -
211B VAL* 3.8 15.3 - - + -
212B GLU 3.5 9.6 - - - +
213B GLN* 3.5 35.2 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with THR 202 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
210A ILE* 3.6 15.8 - - - +
200B ASP* 3.9 10.8 - - + +
201B ILE* 1.3 75.3 - - - +
203B SER* 1.3 66.1 + - - +
212B GLU* 2.9 27.4 + - - +
213B GLN* 3.9 2.1 + - - -
214B TYR* 3.6 34.8 - - + -
170C GLY* 5.4 8.1 - - - -
171C GLY 5.8 1.3 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with SER 203 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
210A ILE* 4.0 17.7 - - - -
201B ILE* 3.6 4.0 - - - +
202B THR* 1.3 84.1 + - - +
204B HIS* 1.3 71.9 + - - +
211B VAL* 3.7 0.3 - - - -
212B GLU* 2.9 51.5 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with HIS 204 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47A LYS* 3.0 38.6 + - + +
48A VAL 5.5 2.2 - - - -
49A THR* 5.2 13.7 - - + -
201B ILE* 4.2 8.3 - - + -
203B SER* 1.3 85.4 - - - +
205B ASN* 1.3 82.8 + - - +
206B GLU* 4.9 4.9 - - - -
208B TYR* 3.3 50.1 + + + -
210B ILE 3.1 14.6 - - - +
211B VAL* 4.2 5.2 - - + -
212B GLU* 6.1 0.2 - - - -
----------------------------------------------------------
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