Contacts of the strand formed by residues 172 - 183 (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 HIS 172 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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100A GLU* 4.1 8.5 - - - +
144A GLU* 2.7 43.4 + - + +
164A ARG* 3.5 48.6 + - + +
165A LEU 3.1 17.0 - - - +
166A LYS* 4.0 9.0 - - - +
167A LEU* 3.6 13.0 - - - +
171A GLY* 1.4 85.7 + - - -
173A TYR* 1.3 60.2 + - - +
174A ASP* 4.0 3.1 - - - +
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Residues in contact with TYR 173 (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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99A PHE* 3.3 36.2 - + + +
100A GLU* 3.7 25.1 - - + -
101A ASP* 2.7 43.3 + - + -
129A PHE* 3.6 13.7 - - - -
134A PRO* 3.7 23.1 - - + -
135A VAL* 3.5 20.0 - - + +
140A THR* 4.5 2.9 - - + -
164A ARG* 3.7 0.3 - - - -
165A LEU* 2.8 53.3 + - + +
167A LEU* 3.9 20.4 - - + -
172A HIS* 1.3 75.4 - - - +
174A ASP* 1.3 58.9 + - - +
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Residues in contact with ASP 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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99A PHE* 3.6 6.2 - - - -
100A GLU* 2.9 48.2 + - + +
162A LYS* 6.4 1.1 - - + -
163A GLN 3.3 7.4 - - - +
164A ARG* 2.8 51.8 + - - +
172A HIS* 4.0 1.8 - - - +
173A TYR* 1.3 79.9 - - - +
175A ALA* 1.3 64.2 + - - +
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Residues in contact with ALA 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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98A ASN 3.3 14.8 - - - +
99A PHE* 3.7 30.7 - - + -
143A 4OO 4.5 5.6 - - - +
161A ILE 3.8 0.3 - - - +
162A LYS* 3.5 3.8 - - - +
163A GLN* 2.9 34.8 + - + +
173A TYR 4.4 0.2 + - - -
174A ASP* 1.3 77.6 - - - +
176A GLU* 1.3 65.7 + - - +
177A VAL* 4.0 11.6 + - + -
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Residues in contact with GLU 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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96A VAL 3.9 1.0 - - - +
97A MET* 3.4 1.9 - - - -
98A ASN* 2.8 51.9 + - + +
161A ILE 3.7 4.5 - - - +
162A LYS* 4.7 13.0 - - + +
175A ALA* 1.3 74.5 - - - +
177A VAL* 1.3 59.0 + - - +
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Residues in contact with VAL 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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95A ARG* 3.7 38.1 - - + +
96A VAL 3.4 4.3 - - - +
97A MET* 3.9 22.9 - - + -
160A GLU* 3.4 5.5 - - - +
161A ILE* 2.8 49.9 + - + +
163A GLN* 3.8 27.8 - - + +
175A ALA* 4.4 4.7 - - + +
176A GLU* 1.3 80.0 - - - +
178A LYS* 1.3 65.4 + - - +
179A THR* 4.0 4.5 - - - +
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Residues in contact with LYS 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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94A GLU 4.0 0.7 - - - +
95A ARG* 3.4 1.7 - - - -
96A VAL* 3.0 38.0 + - + +
151A TYR* 3.4 25.9 + - - -
153A GLU* 4.7 5.4 + - - -
158A LYS* 4.7 18.9 - - - +
159A GLY 3.3 10.1 - - - +
160A GLU* 3.8 17.7 + - + +
177A VAL* 1.3 75.4 - - - +
179A THR* 1.3 69.6 + - - +
180A THR* 5.6 2.0 - - - +
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Residues in contact with THR 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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93A TRP* 3.8 24.9 - - + -
94A GLU 3.3 13.5 - - - +
95A ARG* 2.9 24.6 + - - +
148A GLU* 4.4 2.9 + - - -
157A LEU 4.0 0.2 - - - +
158A LYS* 3.3 6.1 - - - +
159A GLY 2.9 33.9 + - - +
161A ILE* 5.9 0.2 - - - +
177A VAL* 4.0 4.5 - - - +
178A LYS* 1.3 79.4 + - - +
180A THR* 1.3 64.7 + - - +
181A TYR* 3.4 41.3 + - + +
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Residues in contact with THR 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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92A LYS 3.9 0.3 - - - +
93A TRP* 3.1 5.9 - - - +
94A GLU* 2.9 42.6 + - - +
156A ALA* 3.8 17.3 - - + -
157A LEU 3.6 3.1 - - - -
158A LYS* 3.3 35.0 + - - +
178A LYS* 5.6 2.6 - - - +
179A THR* 1.3 71.9 - - - +
181A TYR* 1.3 64.7 + - - +
182A LYS* 4.2 4.7 + - + +
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Residues in contact with TYR 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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70A LYS* 3.3 29.6 - - + -
82A TYR* 3.7 5.4 - - - -
83A LEU* 4.0 33.4 - - + -
91A PHE* 4.6 0.9 - + + -
92A LYS 3.5 4.7 - - - +
93A TRP* 3.6 25.1 - + + -
95A ARG* 3.1 21.9 + - - -
148A GLU* 2.8 28.2 + - - -
150A MET* 3.9 21.3 - - + -
156A ALA* 3.5 2.4 - - - +
157A LEU* 2.8 50.6 + - + +
159A GLY 4.3 0.9 - - - -
179A THR* 3.4 27.5 - - + -
180A THR* 1.3 70.8 - - - +
182A LYS* 1.3 60.6 + - - +
183A ALA 4.3 0.2 - - - -
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Residues in contact with LYS 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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82A TYR* 3.7 6.5 - - - +
91A PHE* 3.3 4.6 - - - +
92A LYS* 2.8 42.4 + - + +
154A ASP 4.9 7.5 + - - -
155A GLY* 3.9 14.7 + - - -
156A ALA* 4.1 15.0 - - + -
180A THR* 4.1 6.0 - - + +
181A TYR* 1.3 75.5 - - - +
183A ALA* 1.3 75.2 + - - +
184A LYS* 3.7 0.9 + - - +
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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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82A TYR* 2.8 31.4 + - + +
86A SER* 3.6 22.0 - - - -
90A GLY 3.7 5.8 - - - -
91A PHE* 3.7 4.5 - - - -
182A LYS* 1.3 89.8 - - - +
184A LYS* 1.3 64.9 + - - +
185A LYS 3.2 22.8 + - - +
186A PRO* 5.3 0.2 - - + -
187A VAL* 3.8 6.3 - - + -
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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