Contacts of the strand formed by residues 156 - 167 (chain A) 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 ALA 156 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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82A TYR* 4.2 5.2 - - - -
152A PRO* 3.4 4.2 - - - +
153A GLU 2.8 34.3 + - - +
154A ASP 4.3 2.7 - - - +
155A GLY* 1.3 81.8 - - - +
157A LEU* 1.3 61.8 + - - +
158A LYS* 4.5 1.6 - - - -
180A THR* 3.8 22.2 - - + -
181A TYR 3.5 12.1 - - - +
182A LYS* 4.1 15.3 - - + -
189A LEU* 3.7 7.7 - - - +
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Residues in contact with LEU 157 (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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82A TYR* 3.9 30.1 - - + -
83A LEU* 4.7 13.2 - - + -
150A MET* 3.8 27.6 - - + -
151A TYR* 3.7 24.7 - - - +
152A PRO* 4.3 1.6 - - + -
156A ALA* 1.3 72.5 - - - +
158A LYS* 1.3 64.3 + - - +
180A THR* 3.6 1.7 - - - -
181A TYR* 2.8 46.0 + - + +
189A LEU* 3.9 2.6 - - + +
190A PRO* 3.9 28.0 - - + -
193A TYR* 4.3 12.8 - - - +
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Residues in contact with LYS 158 (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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149A ARG 3.8 0.4 - - - +
150A MET* 3.1 10.2 - - - +
151A TYR* 2.8 75.1 + - + +
153A GLU* 3.1 45.1 + - + +
154A ASP* 5.6 2.3 - - - +
156A ALA* 4.5 1.8 - - - -
157A LEU* 1.3 79.0 - - - +
159A GLY* 1.3 60.1 + - - +
178A LYS* 4.7 14.6 - - - +
179A THR 3.3 4.0 - - - +
180A THR* 3.3 38.2 + - - +
181A TYR* 4.7 0.2 - - - -
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Residues in contact with GLY 159 (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 GLU* 3.5 22.5 - - - +
149A ARG 3.3 7.2 - - - -
150A MET* 3.9 8.9 - - - +
158A LYS* 1.3 76.1 - - - +
160A GLU* 1.3 64.0 + - - +
161A ILE* 5.2 0.2 - - - -
177A VAL* 3.9 0.5 - - - +
178A LYS* 3.3 5.2 - - - +
179A THR* 2.9 34.0 + - - -
181A TYR* 4.3 1.2 - - - -
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Residues in contact with GLU 160 (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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147A SER 3.9 0.9 - - - +
148A GLU* 3.5 2.2 - - - +
149A ARG* 2.9 46.5 + - + +
151A TYR* 2.7 37.4 + - + +
159A GLY* 1.3 77.0 - - - +
161A ILE* 1.3 63.0 + - - +
177A VAL 3.4 6.7 - - - +
178A LYS* 3.8 25.1 + - + +
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Residues in contact with ILE 161 (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 CH6 3.7 29.8 - - + -
95A ARG* 5.6 4.0 - - - +
146A SER* 3.7 20.0 - - - +
147A SER 3.5 15.9 - - - +
148A GLU* 3.5 33.4 - - + +
159A GLY 5.2 0.2 - - - -
160A GLU* 1.3 79.8 - - - +
162A LYS* 1.3 79.9 + - - +
163A GLN* 3.7 11.6 + - - +
176A GLU* 3.7 2.1 - - - +
177A VAL* 2.8 52.5 + - + +
179A THR* 5.9 0.2 - - - +
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Residues in contact with LYS 162 (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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146A SER* 4.3 5.0 + - - -
147A SER 4.8 1.9 + - - -
161A ILE* 1.3 81.1 - - - +
163A GLN* 1.3 63.5 + - - +
164A ARG* 4.1 6.8 + - + +
174A ASP* 6.4 1.1 - - + -
175A ALA 3.5 7.0 - - - +
176A GLU* 4.7 12.3 - - + +
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Residues in contact with GLN 163 (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 PRO* 4.7 7.7 - - - +
66A CH6 2.7 43.0 + - - -
97A MET* 5.1 1.2 - - + +
143A 4OO 3.9 33.1 - - + +
146A SER* 2.3 31.0 + - - -
161A ILE* 3.7 13.1 - - + +
162A LYS* 1.3 73.0 - - - +
164A ARG* 1.3 62.6 + - - +
173A TYR 4.1 0.4 - - - +
174A ASP* 3.3 7.1 - - - +
175A ALA* 2.9 39.7 + - + +
177A VAL* 3.8 24.0 - - + +
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Residues in contact with ARG 164 (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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143A 4OO 3.5 9.5 - - - -
144A GLU* 3.0 40.4 + - + +
146A SER* 5.0 1.0 + - - -
162A LYS* 4.1 7.2 + - + +
163A GLN* 1.3 78.7 + - - +
165A LEU* 1.3 60.6 + - - +
172A HIS* 3.5 48.7 + - + +
173A TYR 3.7 0.4 - - - -
174A ASP* 2.8 37.0 + - - +
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Residues in contact with LEU 165 (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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59A ASP* 3.7 16.8 - - + +
60A ILE* 4.7 6.5 - - + -
99A PHE* 4.6 4.0 - - + -
140A THR* 4.0 25.8 - - + -
142A GLY 3.5 17.3 - - - +
143A 4OO 3.4 62.1 - - + +
163A GLN 4.2 0.4 - - - -
164A ARG* 1.3 72.1 - - - +
166A LYS* 1.3 64.8 + - - +
172A HIS* 3.1 7.9 - - - -
173A TYR* 2.8 58.9 + - + +
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Residues in contact with LYS 166 (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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140A THR* 3.3 6.2 - - - -
141A MET* 2.6 65.2 + - + +
142A GLY* 2.8 19.4 + - - +
143A 4OO 3.8 17.6 + - - -
144A GLU* 3.6 37.2 + - + +
165A LEU* 1.3 73.0 - - - +
167A LEU* 1.3 58.1 + - - +
171A GLY 3.8 6.5 - - - +
172A HIS* 4.0 5.2 - - + +
198A LYS* 5.1 8.7 - - - +
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Residues in contact with LEU 167 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
134A PRO* 3.6 30.1 - - + -
139A LYS* 3.4 16.2 - - + +
140A THR* 4.3 2.9 - - + -
141A MET* 3.0 15.3 - - - +
166A LYS* 1.3 77.2 - - - +
168A LYS* 1.3 65.4 + - - +
169A ASP* 4.2 4.5 - - + +
170A GLY* 3.0 31.7 + - - +
171A GLY 3.0 10.4 + - - +
172A HIS 3.6 32.3 - - - +
173A TYR* 3.9 14.4 - - + +
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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
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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