Contacts of the strand formed by residues 165 - 171 (chain B) in PDB entry 1ASZ
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 ILE 165 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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518A GLY 3.8 4.3 - - - +
519A CYS* 3.3 39.7 - - - +
520A PRO* 3.4 17.9 - - + -
112B ARG* 3.7 27.8 - - + -
113B ALA 3.3 16.8 - - - +
114B ARG* 3.6 26.0 - - + +
163B GLU 4.5 0.2 - - - +
164B SER* 1.3 72.1 - - - +
166B VAL* 1.3 61.3 + - - +
196B THR 3.6 0.2 - - - -
197B ILE* 2.7 31.9 + - + -
198B SER* 2.8 29.4 + - - +
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Residues in contact with VAL 166 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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111B PHE 3.8 0.2 - - - +
112B ARG* 3.8 1.2 - - - -
113B ALA* 2.6 42.1 + - + +
115B VAL* 3.8 28.9 - - + -
130B LEU* 4.4 15.3 - - + -
160B LEU* 3.9 12.1 - - + -
164B SER* 4.4 1.3 - - - +
165B ILE* 1.3 80.8 - - - +
167B LEU* 1.3 60.8 + - - +
168B VAL* 3.7 19.3 + - + +
194B ILE* 4.2 13.0 - - + -
195B TYR 3.4 11.2 - - - +
196B THR* 3.7 19.3 - - - +
197B ILE* 4.6 2.5 - - - -
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Residues in contact with LEU 167 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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78B LEU* 3.9 24.9 - - + -
93B ARG* 4.0 32.1 - - - +
110B LEU* 3.4 32.8 - - + -
111B PHE 3.2 20.6 - - - +
112B ARG* 4.7 2.0 - - - +
166B VAL* 1.3 69.9 - - - +
168B VAL* 1.3 59.3 + - - +
194B ILE* 3.5 3.3 - - - -
195B TYR* 2.9 50.0 + - + +
197B ILE* 3.9 18.9 - - + +
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Residues in contact with VAL 168 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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109B VAL 3.7 0.7 - - - +
110B LEU* 3.0 9.3 - - - +
111B PHE* 2.8 74.8 + - + -
130B LEU* 5.2 2.2 - - + -
166B VAL* 4.0 13.2 - - + +
167B LEU* 1.3 80.8 - - - +
169B ARG* 1.3 73.4 + - - +
189B ILE* 4.2 9.9 - - + -
191B ILE* 4.2 13.0 - - + -
193B LYS 3.5 3.1 - - - +
194B ILE* 3.7 33.7 - - + -
195B TYR* 6.4 0.2 - - - -
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Residues in contact with ARG 169 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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91B GLN* 2.9 36.4 + - - +
108B GLU* 4.9 14.5 + - - +
109B VAL 3.4 11.0 + - - +
110B LEU* 4.0 32.1 - - + +
168B VAL* 1.3 76.2 - - - +
170B GLY* 1.3 58.9 + - - +
191B ILE* 3.7 3.5 - - - -
192B THR* 2.9 22.4 + - - +
193B LYS* 2.8 53.7 + - + +
195B TYR* 6.0 3.0 - - + -
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Residues in contact with GLY 170 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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108B GLU* 3.4 4.1 + - - +
109B VAL* 3.0 36.3 + - - +
168B VAL* 4.6 1.2 - - - +
169B ARG* 1.3 77.2 - - - +
171B ILE* 1.3 63.0 + - - -
189B ILE* 4.2 11.1 - - - +
191B ILE* 4.1 7.4 - - - -
192B THR* 3.4 19.9 - - - +
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Residues in contact with ILE 171 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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106B ASP* 3.7 24.2 - - - +
107B LYS 4.3 2.5 - - - +
108B GLU* 3.9 24.7 - - + +
170B GLY* 1.3 71.0 - - - -
172B VAL* 1.3 75.9 + - - +
173B LYS* 3.4 18.6 + - + +
189B ILE* 4.6 0.9 - - - -
190B HIS* 3.0 35.3 + - + +
192B THR* 3.1 26.0 - - + +
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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