Contacts of the helix formed by residues 176 - 190 (chain A) in PDB entry 1ZP2
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 HIS 176 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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175A ALA* 1.3 75.5 - - - +
177A PRO* 1.3 65.1 - - + +
178A HIS* 3.3 26.5 - + + +
179A GLN* 2.7 53.5 + - - +
180A LEU* 3.2 8.9 + - - -
210A LYS* 5.8 2.0 - - + -
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Residues in contact with PRO 177 (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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136A HIS* 3.1 39.3 - - + +
137A HIS* 3.5 24.5 - - - +
138A PRO* 2.9 34.3 - - + +
141A SER* 4.3 1.1 - - - +
175A ALA 3.6 5.1 - - - +
176A HIS* 1.3 87.6 - - + +
178A HIS* 1.3 57.3 + - - +
180A LEU* 3.6 3.3 + - + -
181A ALA* 2.9 11.4 + - - +
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Residues in contact with HIS 178 (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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141A SER* 3.5 20.3 + - - +
176A HIS* 2.9 35.7 + + + +
177A PRO* 1.3 74.8 - - - +
179A GLN* 1.3 69.8 + - + +
181A ALA* 3.3 1.6 + - - +
182A TYR* 2.9 67.9 + + + +
207A ASP* 3.2 24.4 + - - -
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Residues in contact with GLN 179 (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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175A ALA* 3.8 6.5 - - + +
176A HIS* 2.7 48.5 + - - +
178A HIS* 1.3 87.8 - - + +
180A LEU* 1.3 64.1 + - - +
182A TYR* 3.2 11.4 + - - +
183A ALA* 3.1 22.0 + - - +
206A THR 4.1 4.0 + - - -
207A ASP* 3.1 32.6 + - + +
210A LYS* 3.0 42.3 - - + +
211A VAL* 3.9 16.3 - - + +
214A CYS* 4.3 2.0 - - - -
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Residues in contact with LEU 180 (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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138A PRO* 3.7 24.7 - - + -
163A VAL* 5.1 3.6 - - + -
166A SER* 3.6 26.9 - - - +
167A TYR* 5.8 2.2 - - + -
171A LEU* 3.4 39.9 - - + -
172A CYS* 5.6 6.3 - - + +
175A ALA* 4.9 4.9 - - + +
176A HIS 3.2 7.1 + - - +
177A PRO* 3.9 8.5 - - + +
179A GLN* 1.3 78.0 - - - +
181A ALA* 1.3 64.6 + - - +
183A ALA* 3.3 3.3 + - - +
184A ALA* 3.0 22.3 + - + +
214A CYS* 3.5 18.0 - - - -
218A ILE* 4.0 14.6 - - + -
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Residues in contact with ALA 181 (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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138A PRO* 3.5 20.1 - - + +
141A SER* 3.5 25.4 - - - -
142A LEU* 3.9 10.8 - - + +
163A VAL* 5.0 0.4 - - - -
177A PRO 2.9 19.3 + - - +
178A HIS 3.4 6.1 - - - +
180A LEU* 1.3 78.6 - - - +
182A TYR* 1.3 57.6 + - - +
184A ALA* 3.3 6.7 + - - +
185A LEU* 2.9 34.2 + - + +
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Residues in contact with TYR 182 (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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141A SER* 5.3 7.6 - - - -
178A HIS* 2.9 52.6 + + + +
179A GLN* 3.2 8.7 + - - +
181A ALA* 1.3 72.6 - - + +
183A ALA* 1.3 56.0 + - - +
185A LEU* 3.1 16.9 + - + +
186A LEU* 2.7 41.7 + - - +
199A LEU* 5.3 3.3 - - + +
202A LEU* 3.4 60.5 + - + +
203A ILE* 3.8 30.5 - - + -
207A ASP* 4.7 4.0 - - - -
211A VAL* 4.3 9.6 - - + -
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Residues in contact with ALA 183 (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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179A GLN 3.1 5.4 + - - +
180A LEU 3.3 8.3 + - - +
182A TYR* 1.3 77.8 - - - +
184A ALA* 1.3 54.7 + - - +
186A LEU* 3.0 4.3 + - - +
187A ILE* 2.8 39.9 + - - +
211A VAL* 3.6 8.9 - - - +
214A CYS* 3.5 24.5 - - + -
215A VAL* 3.4 30.1 - - + +
218A ILE* 4.1 5.4 - - + -
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Residues in contact with ALA 184 (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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142A LEU* 4.9 0.2 - - + -
159A ALA* 3.7 27.4 - - + +
162A ILE* 3.7 27.1 - - + +
163A VAL* 3.9 12.8 - - + -
180A LEU* 3.0 13.6 + - + +
181A ALA 3.4 7.9 - - - +
183A ALA* 1.3 76.9 - - - +
185A LEU* 1.3 56.7 + - - +
187A ILE* 3.5 4.2 + - - +
188A SER* 3.0 28.6 + - - -
218A ILE* 4.2 3.5 - - + +
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Residues in contact with LEU 185 (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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141A SER 5.1 1.8 - - - +
142A LEU* 3.6 23.8 - - + -
145A ALA* 4.1 15.0 - - + -
151A ILE* 3.6 44.2 - - + -
155A GLN 5.5 0.4 - - - +
159A ALA* 4.0 10.8 - - + -
181A ALA* 2.9 22.6 + - + +
182A TYR* 3.4 21.3 - - + +
184A ALA* 1.3 72.3 - - - +
186A LEU* 1.3 61.8 + - - +
188A SER* 3.2 2.4 + - - -
189A CYS* 2.9 35.9 + - - -
199A LEU* 3.9 25.1 - - + -
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Residues in contact with LEU 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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182A TYR* 2.7 25.4 + - - +
183A ALA* 3.5 3.8 - - - +
185A LEU* 1.3 70.0 - - - +
187A ILE* 1.3 67.4 + - + +
188A SER 3.1 0.2 + - - -
189A CYS 5.2 0.7 - - - -
190A CYS* 2.9 28.6 + - - +
196A ILE* 5.1 12.9 - - + +
199A LEU* 4.2 22.7 - - + -
200A LEU* 4.2 16.4 - - + -
203A ILE* 3.5 32.8 - - + -
211A VAL* 3.6 23.1 - - + -
215A VAL* 5.1 5.2 - - + -
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Residues in contact with ILE 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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158A PHE* 4.4 9.4 - - + -
162A ILE* 3.8 16.6 - - + -
183A ALA 2.8 21.4 + - - +
184A ALA* 3.7 5.6 - - - +
186A LEU* 1.3 72.5 - - - +
188A SER* 1.3 67.3 + - - +
190A CYS* 3.1 22.1 - - - -
215A VAL* 4.0 31.0 - - + +
218A ILE* 3.4 46.2 - - + -
219A ILE* 4.5 8.1 - - + -
222A TYR* 6.3 1.1 - - + -
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Residues in contact with SER 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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155A GLN* 3.1 32.0 + - - +
158A PHE* 3.5 29.3 - - - +
159A ALA* 3.9 13.0 - - - -
184A ALA 3.0 15.4 + - - -
185A LEU 3.2 8.3 - - - -
186A LEU 3.0 0.4 - - - -
187A ILE* 1.3 81.3 - - - +
189A CYS* 1.3 60.5 + - - -
190A CYS* 3.1 7.1 + - - -
191A ASN* 4.4 2.9 + - - +
192A ASP* 4.7 1.4 - - - +
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Residues in contact with CYS 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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151A ILE* 4.4 7.2 - - - -
155A GLN* 3.1 48.7 - - - +
185A LEU* 2.9 20.5 + - - +
186A LEU 3.6 2.0 - - - -
188A SER* 1.3 70.8 - - - +
190A CYS* 1.3 61.4 + - - +
191A ASN 3.0 7.2 + - - -
192A ASP* 3.1 21.7 + - - +
195A THR* 3.5 24.5 - - + -
196A ILE* 3.3 14.4 - - - +
199A LEU* 4.1 7.9 - - + -
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Residues in contact with CYS 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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186A LEU 2.9 17.4 + - - +
187A ILE* 3.1 21.1 - - - +
188A SER 3.1 6.1 + - - -
189A CYS* 1.3 76.5 - - - +
191A ASN* 1.3 80.6 + - - +
196A ILE* 3.4 22.3 - - + +
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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