Contacts of the strand formed by residues 185 - 197 (chain B) in PDB entry 2ZSU
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 LEU 185 (chain B).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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154B GLY 5.2 0.4 - - - -
155B PHE 3.3 9.6 - - - +
156B ASP 4.0 1.3 - - - +
158B ILE* 3.5 24.0 - - + -
181B ALA 3.1 15.1 + - - +
182B TYR* 3.2 8.4 + - - +
183B ARG 3.9 1.7 - - - +
184B ALA* 1.3 79.9 - - - +
186B ASN* 1.3 66.6 + - - +
189B GLY* 3.8 10.5 - - - +
190B ILE 3.5 31.6 - - - +
191B TYR* 4.2 5.6 - - + +
216B PHE* 4.0 26.2 - - + -
238B GLY 4.3 0.2 - - - +
240B LYS* 2.7 50.5 + - + +
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Residues in contact with ASN 186 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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78B ARG* 6.1 1.0 - - - +
79B ARG* 5.0 1.4 - - - +
154B GLY* 3.1 41.0 + - - -
155B PHE 2.7 12.6 + - - +
156B ASP* 3.1 33.5 + - - +
184B ALA 3.8 0.2 + - - -
185B LEU* 1.3 78.3 - - - +
187B ASP* 1.3 63.0 + - - +
188B PRO 3.6 5.6 - - - +
189B GLY* 3.0 18.4 + - - -
240B LYS* 3.1 7.2 - - - +
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Residues in contact with ASP 187 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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186B ASN* 1.3 76.2 - - - +
188B PRO* 1.3 67.6 - - - +
240B LYS* 4.0 14.8 - - + +
241B GLY* 3.6 19.0 - - - -
242B SER 4.4 1.2 + - - -
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Residues in contact with PRO 188 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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74B HIS* 2.9 23.6 + - + +
75B PRO* 4.1 24.2 - - + -
156B ASP* 4.4 0.3 - - - +
186B ASN* 3.1 15.7 - - - +
187B ASP* 1.3 82.5 - - - +
189B GLY* 1.3 58.5 + - - +
240B LYS 3.2 13.2 - - - +
242B SER* 3.7 36.8 - - - +
243B ILE* 3.7 7.6 - - + -
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Residues in contact with GLY 189 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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74B HIS* 4.1 1.3 - - - -
156B ASP 3.2 13.0 - - - -
185B LEU* 3.8 14.6 - - - -
186B ASN 3.0 12.2 + - - -
188B PRO* 1.3 75.9 - - - +
190B ILE* 1.3 61.7 + - - +
239B VAL* 3.5 2.8 - - - -
240B LYS 2.9 29.4 + - - +
243B ILE* 3.5 8.2 - - - +
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Residues in contact with ILE 190 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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70B ALA* 3.9 32.1 - - + +
73B ALA* 4.7 0.7 - - + -
74B HIS* 4.1 9.4 - - + -
156B ASP 3.0 4.2 + - - +
157B VAL* 3.4 28.9 - - + +
158B ILE 2.9 25.1 + - - +
185B LEU* 3.5 6.7 - - - +
189B GLY* 1.3 75.9 - - - +
191B TYR* 1.3 65.5 + - - +
237B VAL* 3.5 30.1 - - + -
238B GLY 3.6 4.7 - - - +
239B VAL* 4.1 10.5 - - + -
243B ILE* 4.4 11.0 - - + -
245B PHE* 3.6 21.5 - - + -
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Residues in contact with TYR 191 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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158B ILE* 3.4 27.1 - - + -
160B VAL* 3.4 34.2 - - + +
171B MET 4.2 3.3 + - - -
177B PHE* 3.4 21.0 - + - -
178B TYR* 3.9 15.6 - + - -
181B ALA* 3.8 23.6 - - + -
185B LEU* 4.2 5.6 - - + +
190B ILE* 1.3 73.8 - - - +
192B VAL* 1.3 61.7 + - - +
193B THR* 3.7 30.4 + - + +
212B MET* 3.9 21.8 - - + -
216B PHE* 3.7 19.1 - + + -
237B VAL* 3.3 5.2 - - - +
238B GLY 2.7 42.6 + - - +
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Residues in contact with VAL 192 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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66B LEU* 3.6 21.8 - - + +
70B ALA* 4.0 20.9 - - + -
157B VAL* 5.2 0.4 - - + -
158B ILE 2.9 8.0 + - - +
159B ILE* 3.5 27.1 - - + +
160B VAL* 2.9 26.7 + - - +
190B ILE* 5.1 0.4 - - + -
191B TYR* 1.3 78.5 - - - +
193B THR* 1.3 72.5 + - - +
222B TYR* 3.6 25.6 - - + +
235B PHE* 4.9 1.8 - - + -
236B LEU 3.5 11.2 - - - +
237B VAL* 4.0 11.9 - - + -
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Residues in contact with THR 193 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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66B LEU* 4.4 1.6 - - - -
160B VAL* 3.6 24.8 + - - +
172B LEU* 4.7 18.7 - - + +
178B TYR* 5.2 0.7 - - - +
191B TYR* 3.7 32.0 + - + +
192B VAL* 1.3 79.4 - - - +
194B GLN* 1.3 76.4 + - - +
212B MET* 4.8 4.0 - - - -
235B PHE* 3.3 9.4 - - - +
236B LEU* 2.9 46.0 + - + +
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Residues in contact with GLN 194 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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62B TYR* 3.3 36.6 + - + +
66B LEU* 4.1 2.2 - - + +
160B VAL* 3.9 11.2 + - + +
161B ASP* 5.2 2.0 - - - -
162B SER 4.4 16.0 + - - +
164B ASP* 4.7 11.7 + - - +
172B LEU* 4.2 6.9 - - - +
193B THR* 1.3 90.9 + - - +
195B ALA* 1.3 57.9 + - - +
196B GLY* 3.4 21.0 + - - -
229B TYR* 4.9 4.4 + - - -
233B TRP* 3.7 27.7 + - - +
235B PHE* 3.7 15.9 - - + -
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Residues in contact with ALA 195 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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172B LEU* 4.9 9.4 - - + +
194B GLN* 1.3 75.3 - - - +
196B GLY* 1.3 62.3 + - - +
201B PHE* 3.6 16.8 - - - +
205B PHE* 3.7 39.3 - - + +
234B ALA 2.6 21.7 + - - +
235B PHE* 4.1 0.4 - - - +
236B LEU* 3.8 23.6 - - + -
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Residues in contact with GLY 196 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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194B GLN* 3.4 10.7 + - - -
195B ALA* 1.3 79.8 - - - +
197B SER* 1.3 59.2 + - - -
198B VAL 3.4 0.2 + - - -
201B PHE* 4.0 11.4 - - - -
233B TRP* 3.4 26.7 - - - +
234B ALA* 2.8 30.8 + - - +
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Residues in contact with SER 197 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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10B TYR* 4.8 4.3 - - - -
195B ALA 5.2 0.3 - - - +
196B GLY* 1.3 68.9 - - - -
198B VAL* 1.3 65.3 + - - +
199B TYR* 3.5 3.3 + - - +
200B LEU* 3.0 36.9 + - - +
201B PHE* 2.9 36.4 + - - +
205B PHE* 5.4 1.0 - - - +
230B ALA* 3.3 17.8 + - - -
232B PRO 3.9 0.9 - - - -
233B TRP* 3.3 28.5 - - - -
234B ALA* 5.0 0.7 - - - -
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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