Contacts of the strand formed by residues 187 - 191 (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 LEU 187 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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99B LEU* 4.0 31.2 - - + +
100B ASP 4.1 2.7 - - - +
101B GLU* 3.8 33.9 - - + +
105B SER* 5.1 1.8 - - - -
137B ILE* 3.0 26.4 - - + +
172B VAL* 4.1 17.7 - - + -
173B LYS 3.5 14.8 - - - +
174B LYS* 3.9 20.9 - - + -
175B VAL* 4.6 2.5 - - - -
179B ILE* 4.9 3.6 - - - +
184B VAL* 3.7 11.5 + - + +
185B GLN 3.5 1.3 - - - -
186B ASN* 1.3 103.0 + - - +
188B GLU* 1.3 64.2 + - - +
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Residues in contact with GLU 188 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137B ILE* 4.7 2.7 - - - -
138B GLN* 3.1 36.4 + - + +
140B LEU* 3.1 24.8 - - + +
171B ILE 3.8 0.3 - - - +
172B VAL* 3.4 4.2 - - - +
173B LYS* 2.8 47.6 + - + +
174B LYS 5.0 0.2 - - - +
175B VAL* 3.3 26.6 - - + +
179B ILE* 5.2 0.9 - - + -
187B LEU* 1.3 75.1 - - - +
189B ILE* 1.3 66.1 + - - +
190B HIS* 3.2 17.2 + - + -
634S G 2.9 27.2 + - - -
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Residues in contact with ILE 189 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
99B LEU* 4.2 11.0 - - + -
109B VAL* 4.1 8.5 - - + -
111B PHE* 3.6 36.3 - - + -
130B LEU* 4.9 2.5 - - + -
137B ILE* 3.9 17.3 - - + -
138B GLN 3.0 11.2 + - - +
139B GLY* 2.9 23.3 - - - -
140B LEU 4.6 0.4 - - - -
168B VAL* 4.2 6.3 - - + -
170B GLY* 4.2 14.1 - - - +
171B ILE 3.9 1.1 - - - -
172B VAL* 3.3 36.1 - - + +
187B LEU 6.0 0.2 - - - -
188B GLU* 1.3 77.7 - - - +
190B HIS* 1.3 52.2 + - - +
191B ILE* 2.6 30.6 + - + +
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Residues in contact with HIS 190 (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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140B LEU* 3.5 40.8 - - + +
142B LYS* 5.6 3.8 - - + -
149B ILE* 5.6 1.2 - - - +
171B ILE* 3.0 30.4 + - + +
173B LYS* 2.8 42.9 - - + +
174B LYS 5.7 0.7 - - - -
188B GLU* 3.2 24.2 + - - +
189B ILE* 1.3 66.3 - - - +
191B ILE* 1.3 67.7 + - - +
192B THR* 3.1 12.0 + - - +
634S G 3.6 12.6 + - - -
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Residues in contact with ILE 191 (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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128B LEU* 4.1 13.7 - - + -
130B LEU* 4.2 12.3 - - + -
139B GLY* 3.5 23.3 - - - +
140B LEU 4.4 2.3 + - - +
141B VAL* 3.4 49.3 - - + +
149B ILE* 4.0 14.7 - - - +
168B VAL* 4.2 9.2 - - + -
169B ARG 3.7 6.1 - - - +
170B GLY* 4.1 1.3 - - - -
189B ILE* 2.6 29.8 + - + +
190B HIS* 1.3 72.0 - - - +
192B THR* 1.3 59.2 + - - +
193B LYS 3.6 22.0 - - - +
194B ILE* 3.8 19.3 - - + -
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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