Contacts of the strand formed by residues 185 - 197 (chain A) 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 A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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154A GLY 5.2 0.4 - - - -
155A PHE 3.2 16.4 - - - +
156A ASP 4.0 2.2 - - - +
158A ILE* 3.6 25.8 - - + -
181A ALA 3.3 10.3 + - - +
182A TYR 3.1 11.2 + - - +
183A ARG 3.8 2.6 - - - +
184A ALA* 1.3 79.4 - - - +
186A ASN* 1.3 62.9 + - - +
189A GLY 3.8 19.5 - - - +
190A ILE* 3.7 29.4 - - - +
191A TYR* 4.1 4.9 - - + +
216A PHE* 4.2 22.2 - - + -
238A GLY 4.5 1.1 - - - +
240A LYS* 3.0 37.2 + - + -
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Residues in contact with ASN 186 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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79A ARG* 5.4 0.4 - - - +
154A GLY* 3.4 38.2 + - - -
155A PHE 2.9 12.1 + - - +
156A ASP* 3.2 33.0 + - - +
185A LEU* 1.3 78.3 - - - +
187A ASP* 1.3 61.3 + - - +
188A PRO 3.1 19.5 - - - +
189A GLY* 3.1 5.7 + - - -
240A LYS* 3.6 7.8 - - - +
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Residues in contact with ASP 187 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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186A ASN* 1.3 78.7 - - - +
188A PRO* 1.3 64.6 - - - +
240A LYS* 4.2 16.8 - - + +
241A GLY* 3.2 25.9 - - - -
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Residues in contact with PRO 188 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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74A HIS* 3.0 21.8 + - + +
75A PRO* 3.8 28.3 - - + -
156A ASP* 4.2 1.0 - - - +
186A ASN* 3.1 20.3 - - - +
187A ASP* 1.3 82.4 - - - +
189A GLY* 1.3 58.8 + - - +
240A LYS 3.2 9.6 - - - +
241A GLY* 4.5 4.7 - - - -
242A SER* 4.6 8.7 - - - +
243A ILE* 3.6 21.1 - - + +
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Residues in contact with GLY 189 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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74A HIS* 4.0 1.6 - - - -
156A ASP 3.1 13.9 - - - -
185A LEU* 3.8 12.3 - - - -
186A ASN 3.1 11.9 + - - -
188A PRO* 1.3 76.6 - - - +
190A ILE* 1.3 62.8 + - - +
239A VAL* 3.6 1.6 - - - -
240A LYS 2.9 32.8 + - - +
243A ILE* 3.8 6.4 - - - +
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Residues in contact with ILE 190 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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70A ALA* 3.8 40.2 - - + +
73A ALA* 4.6 4.9 - - + -
74A HIS* 4.1 8.5 - - + -
156A ASP 2.9 8.6 + - - +
157A VAL* 3.3 28.6 - - + +
158A ILE 2.8 25.5 + - - +
185A LEU* 3.7 6.3 - - - +
189A GLY* 1.3 74.6 - - - +
191A TYR* 1.3 64.8 + - - +
237A VAL* 3.5 30.1 - - + -
238A GLY 3.5 5.2 - - - +
239A VAL* 3.9 11.4 - - + -
243A ILE* 4.4 6.7 - - + -
245A PHE* 3.8 14.1 - - + -
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Residues in contact with TYR 191 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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158A ILE* 3.3 26.2 - - + -
160A VAL* 3.2 38.4 - - + +
172A LEU 3.7 4.3 + - - -
177A PHE* 3.6 10.6 - + - -
178A TYR* 3.5 29.1 - + - -
181A ALA* 3.9 26.0 - - + -
185A LEU* 4.1 5.6 - - + +
190A ILE* 1.3 74.3 - - - +
192A VAL* 1.3 61.4 + - - +
193A THR* 3.7 28.8 - - + +
212A MET* 3.8 16.4 - - + -
216A PHE* 3.7 19.1 - + + -
237A VAL* 3.2 8.3 - - - +
238A GLY 2.7 40.4 + - - +
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Residues in contact with VAL 192 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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66A LEU* 3.5 23.3 - - + +
70A ALA* 4.1 17.5 - - + -
157A VAL* 5.4 0.4 - - + -
158A ILE 2.9 8.3 + - - +
159A ILE* 3.7 25.7 - - + +
160A VAL* 2.8 26.0 + - - +
191A TYR* 1.3 79.1 - - - +
193A THR* 1.3 70.5 + - - +
222A TYR* 3.4 27.6 - - + +
235A PHE* 4.8 0.7 - - + -
236A LEU 3.3 12.8 - - - +
237A VAL* 3.8 11.4 - - + -
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Residues in contact with THR 193 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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66A LEU* 4.5 2.0 - - - -
160A VAL* 3.3 22.1 + - - +
173A PHE* 3.8 21.0 - - + -
178A TYR* 4.6 2.7 - - - +
191A TYR* 3.7 28.4 + - + +
192A VAL* 1.3 75.3 - - - +
194A GLN* 1.3 76.7 + - - +
195A ALA* 4.9 0.9 - - + -
212A MET* 4.5 4.9 - - - -
235A PHE* 3.5 9.1 - - - +
236A LEU* 3.1 40.1 + - + +
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Residues in contact with GLN 194 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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62A TYR* 3.4 33.2 - - + +
66A LEU* 4.3 2.8 - - + +
160A VAL 3.5 10.1 + - - +
161A ASP* 4.7 0.4 - - - +
162A SER* 3.6 17.9 + - - +
163A THR 3.5 24.2 + - - -
164A ASP* 4.5 3.1 - - - +
173A PHE* 3.5 21.6 - - - -
193A THR* 1.3 88.7 + - - +
195A ALA* 1.3 58.1 + - - +
196A GLY* 3.3 9.1 + - - -
204A GLU* 4.3 4.1 + - - +
233A TRP* 3.0 36.1 + - - +
235A PHE* 3.8 14.1 - - + -
1001A AG3 3.9 7.5 - - + +
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Residues in contact with ALA 195 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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173A PHE* 4.5 4.9 - - + -
193A THR* 3.6 1.3 + - + -
194A GLN* 1.3 74.9 - - - +
196A GLY* 1.3 61.5 + - - +
201A PHE 4.3 0.3 - - - +
204A GLU* 3.2 24.5 - - + +
205A PHE* 3.8 25.7 + - + +
208A ALA* 5.4 0.7 - - + -
234A ALA 2.8 19.4 + - - +
236A LEU* 3.7 38.6 - - + +
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Residues in contact with GLY 196 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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164A ASP* 5.2 0.2 - - - -
194A GLN* 3.3 2.2 + - - -
195A ALA* 1.3 77.2 - - - +
197A SER* 1.3 69.7 + - - -
201A PHE* 3.8 9.4 - - - -
204A GLU* 3.3 11.8 + - - -
233A TRP* 3.2 27.8 - - - +
234A ALA* 2.9 29.1 + - - +
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Residues in contact with SER 197 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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10A TYR* 4.4 1.6 - - - -
196A GLY* 1.3 70.1 - - - +
198A VAL* 1.3 60.9 + - - +
199A TYR* 3.6 2.8 + - - +
200A LEU* 2.9 29.9 + - - +
201A PHE* 2.9 50.9 + - - -
205A PHE* 5.4 0.7 - - - +
230A ALA* 3.8 16.3 - - - +
231A SER 5.8 0.5 - - - -
232A PRO 3.9 3.0 + - - -
233A TRP* 3.4 30.1 - - - -
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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