Contacts of the helix formed by residues 168 - 186 (chain A) in PDB entry 2ZR7
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 168 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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153A PRO* 3.9 10.8 - - + -
164A SER 4.8 23.8 - - - +
165A HIS 5.2 2.2 - - - +
166A VAL 3.7 11.4 - - - +
167A GLY* 1.3 79.6 - - - -
169A GLN* 1.3 70.0 + - + +
170A ALA* 3.1 33.0 + - + +
171A ARG* 3.4 9.3 + - + +
172A LEU* 3.2 16.5 + - - +
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Residues in contact with GLN 169 (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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148A VAL* 3.9 20.4 + - - +
149A ALA* 4.1 12.7 + - - +
151A LEU* 4.0 15.7 + - - +
152A VAL* 4.4 4.0 - - - +
153A PRO* 3.6 19.8 - - + +
156A GLU* 4.1 12.6 - - - +
168A LEU* 1.3 75.1 - - + +
170A ALA* 1.3 68.8 + - - +
172A LEU* 2.7 24.1 + - + -
173A MET* 2.7 21.3 + - + +
212A THR* 4.1 28.1 + - + +
213A GLY* 4.2 10.9 - - - +
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Residues in contact with ALA 170 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
168A LEU* 3.4 27.9 - - + +
169A GLN* 1.3 76.8 - - - +
171A ARG* 1.3 57.7 + - - +
173A MET* 4.5 2.3 - - - +
174A SER* 3.0 21.7 + - - -
212A THR* 4.1 11.3 - - - +
213A GLY* 4.0 15.9 - - - +
216A ALA* 4.8 2.1 - - - +
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Residues in contact with ARG 171 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
167A GLY* 5.6 4.5 - - - -
168A LEU* 3.4 12.7 + - + +
169A GLN 2.7 2.6 + - - -
170A ALA* 1.3 75.8 - - + +
172A LEU* 1.3 67.4 + - - +
173A MET 3.0 2.0 - - - -
174A SER* 2.8 8.4 + - - -
175A GLN* 2.7 44.7 + - + +
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Residues in contact with LEU 172 (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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124A GLY* 3.9 20.9 - - - +
125A GLU* 3.1 37.5 - - + +
128A LEU* 4.6 11.9 - - + +
151A LEU* 3.8 22.4 - - + +
153A PRO* 4.1 18.6 - - + -
168A LEU 3.2 7.2 + - - +
169A GLN* 2.7 22.1 + - + +
171A ARG* 1.3 75.7 - - - +
173A MET* 1.3 61.2 + - + +
175A GLN* 4.0 5.9 - - + +
176A ALA* 3.5 22.2 + - - +
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Residues in contact with MET 173 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
128A LEU* 4.5 10.5 - - + -
148A VAL* 4.2 22.9 - - + +
151A LEU* 4.2 22.0 - - + +
169A GLN* 2.7 24.6 + - + +
170A ALA 4.5 0.4 - - - +
172A LEU* 1.3 76.2 - - + +
174A SER* 1.3 60.4 + - - +
176A ALA* 3.7 2.8 + - - -
177A LEU* 2.8 64.5 + - + +
193A PHE* 4.3 13.0 - - + -
213A GLY* 3.7 40.6 - - - +
216A ALA* 4.8 0.4 - - + -
217A LEU* 4.2 14.1 - - + -
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Residues in contact with SER 174 (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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170A ALA 3.0 17.0 + - - -
171A ARG* 2.8 16.0 + - - -
173A MET* 1.3 71.3 - - - +
175A GLN* 1.3 74.3 + - - +
177A LEU* 3.0 4.1 + - - +
178A ARG* 2.8 24.9 + - - +
216A ALA* 3.3 24.0 - - - +
220A TYR* 4.3 6.0 - - - -
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Residues in contact with GLN 175 (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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171A ARG* 2.7 37.9 + - + +
172A LEU* 4.0 6.1 - - + +
174A SER* 1.3 79.6 - - - +
176A ALA* 1.3 61.9 + - - +
178A ARG* 2.7 48.3 + - - +
179A LYS* 3.0 30.9 + - - +
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Residues in contact with ALA 176 (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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128A LEU* 3.8 43.3 - - + +
132A ASP* 5.5 1.0 - - + +
172A LEU 3.5 15.0 + - - +
173A MET 4.1 1.3 - - - +
174A SER 3.3 0.2 - - - -
175A GLN* 1.3 79.7 - - - +
177A LEU* 1.3 52.8 + - - +
179A LYS* 3.6 6.6 - - - +
180A MET* 2.7 42.8 + - + +
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Residues in contact with LEU 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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63A VAL* 4.2 19.1 - - + -
128A LEU* 5.2 1.1 - - + -
173A MET* 2.8 63.8 + - + +
174A SER 3.5 0.2 - - - +
176A ALA* 1.3 72.2 - - + +
178A ARG* 1.3 60.6 + - - +
180A MET* 4.7 4.3 - - + -
181A THR* 2.5 49.6 + - - +
193A PHE* 4.2 17.9 - - + -
217A LEU* 4.2 8.3 - - + +
220A TYR* 3.3 44.6 - - + -
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Residues in contact with ARG 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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174A SER 2.8 14.0 + - - +
175A GLN* 2.7 55.8 + - - +
177A LEU* 1.3 74.6 - - - +
179A LYS* 1.3 75.6 + - + +
181A THR* 4.2 4.1 + - - -
182A GLY* 4.3 7.4 + - - -
220A TYR* 3.4 26.3 + - - +
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Residues in contact with LYS 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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129A GLU* 6.0 1.6 - - - +
132A ASP* 4.2 4.9 - - - +
136A ARG* 2.8 31.6 + - - +
175A GLN* 3.0 29.5 + - - +
176A ALA* 3.9 5.8 - - - +
178A ARG* 1.3 101.2 - - + +
180A MET* 1.3 61.7 + - - +
181A THR 3.5 0.2 - - - -
182A GLY* 4.3 0.9 + - - -
183A ALA 3.9 8.0 + - - -
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Residues in contact with MET 180 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
128A LEU* 3.8 23.3 - - + +
131A ALA* 4.1 8.3 - - + -
132A ASP* 3.2 51.6 - - + +
135A VAL* 4.6 16.4 - - + -
143A ILE* 6.0 2.0 - - - -
145A ILE* 5.4 2.9 - - + -
176A ALA* 2.7 26.4 + - + +
177A LEU* 4.3 5.2 - - + +
179A LYS* 1.3 73.0 - - - +
181A THR* 1.3 61.9 - - - +
182A GLY 3.5 0.4 - - - -
183A ALA* 3.5 6.5 + - - -
184A LEU* 3.0 34.5 + - + +
191A ALA* 5.3 2.5 - - - -
193A PHE* 4.8 18.6 - - - -
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Residues in contact with THR 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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63A VAL* 4.6 16.6 - - + +
177A LEU* 2.5 36.3 + - - +
178A ARG* 4.5 3.1 - - - -
180A MET* 1.3 69.8 - - - +
182A GLY* 1.3 69.5 + - - +
184A LEU* 2.9 23.9 - - + +
185A ASN* 3.3 10.9 + - + +
220A TYR* 3.3 35.1 - - + +
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Residues in contact with GLY 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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178A ARG 4.3 8.3 + - - -
179A LYS 4.3 1.9 + - - -
180A MET 3.5 0.2 - - - -
181A THR* 1.3 81.0 - - - +
183A ALA* 1.3 59.1 + - - +
185A ASN* 2.9 24.3 - - - +
186A ASN* 3.6 12.6 + - - -
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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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132A ASP* 4.9 0.2 - - - +
135A VAL* 3.8 17.0 - - + -
136A ARG* 3.8 33.7 - - + +
179A LYS 3.9 9.0 + - - +
180A MET* 3.5 12.9 + - + +
181A THR 3.1 2.0 - - - -
182A GLY* 1.3 71.8 - - - +
184A LEU* 1.3 61.3 + - - +
185A ASN 3.0 5.3 + - - -
186A ASN* 2.9 26.5 + - - +
187A SER* 3.3 8.2 - - - -
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Residues in contact with LEU 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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61A GLY* 3.5 12.8 - - - +
62A ARG* 5.0 1.6 - - - +
63A VAL* 4.8 13.7 - - + +
135A VAL* 3.8 24.4 - - + +
180A MET* 3.0 21.5 - - + +
181A THR* 2.9 35.2 - - + +
183A ALA* 1.3 73.2 - - - +
185A ASN* 1.3 71.0 + - - +
186A ASN 3.1 0.2 - - - -
187A SER* 2.8 21.7 + - - -
188A GLY 3.0 11.3 + - - -
189A THR* 3.1 25.6 - - - +
191A ALA* 3.1 36.6 - - + +
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Residues in contact with ASN 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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61A GLY* 3.6 18.4 - - - +
181A THR* 3.3 16.9 + - + +
182A GLY* 2.9 21.8 - - - +
184A LEU* 1.3 79.6 - - - +
186A ASN* 1.3 56.3 + - + +
187A SER 3.6 0.9 + - - -
188A GLY* 4.2 3.1 + - - -
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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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182A GLY 3.9 9.8 + - - +
183A ALA* 2.9 14.8 - - - +
184A LEU 3.1 0.2 - - - -
185A ASN* 1.3 77.7 - - + +
187A SER* 1.3 58.2 + - - +
188A GLY 3.7 0.4 - - - -
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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
------------------------------------------------------------
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