Contacts of the strand formed by residues 150 - 156 (chain A) in PDB entry 3HS0
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 150 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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142A GLU* 3.4 52.7 - - + +
143A PHE 3.7 7.2 - - - +
144A GLN* 4.3 13.9 - - + +
148A GLY 3.7 3.0 + - - -
149A ILE* 1.3 72.9 - - - +
151A VAL* 1.3 58.8 + - - +
152A SER 3.4 12.8 - - - +
153A SER* 4.5 5.4 - - - -
1276C LEU* 3.3 43.9 + - + +
1277C LEU* 3.2 16.8 - - + +
1278C ALA* 2.9 30.1 + - - +
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Residues in contact with VAL 151 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
143A PHE* 3.0 16.3 + - + +
145A THR* 3.7 22.2 - - + -
149A ILE* 3.9 13.9 - - + -
150A LEU* 1.3 76.6 - - - +
152A SER* 1.3 62.8 + - - +
164A TYR* 3.8 21.4 + - + +
175A TRP* 3.8 28.3 - - + -
1277C LEU* 3.5 10.0 - - - +
1278C ALA* 4.5 13.6 - - + +
1280C THR* 5.7 3.8 - - - +
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Residues in contact with SER 152 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
141A VAL 4.3 1.1 + - - -
142A GLU* 3.0 5.2 - - - -
143A PHE* 2.9 50.5 + - - -
150A LEU* 3.4 4.9 - - - +
151A VAL* 1.3 82.9 - - - +
153A SER* 1.3 64.7 + - - +
154A ASN* 4.0 15.9 + - - -
164A TYR* 4.2 16.6 - - - -
1277C LEU* 3.6 5.9 - - - +
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Residues in contact with SER 153 (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 ILE* 3.9 10.2 - - - +
141A VAL 3.4 5.8 - - - -
142A GLU* 3.4 28.5 + - - +
150A LEU* 4.5 9.6 - - - -
152A SER* 1.3 80.3 + - - +
154A ASN* 1.3 67.9 + - - +
1277C LEU* 4.5 18.1 - - - +
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Residues in contact with ASN 154 (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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123A TYR* 5.3 3.0 + - - +
140A ILE* 3.5 7.1 - - - +
141A VAL* 2.9 36.9 + - + +
152A SER* 4.0 12.3 + - - -
153A SER* 1.3 84.4 + - - +
155A SER* 1.3 68.2 + - - +
156A VAL* 3.7 11.4 + - + +
162A TRP* 3.7 36.3 + - + +
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Residues in contact with SER 155 (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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138A THR* 3.8 18.9 - - - +
139A VAL 3.4 4.9 - - - -
140A ILE* 3.1 19.8 - - - +
154A ASN* 1.3 76.1 - - - +
156A VAL* 1.3 62.1 + - - +
162A TRP* 5.4 4.2 + - - -
182A GLU* 4.9 2.8 + - - -
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Residues in contact with VAL 156 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
123A TYR* 4.0 13.2 - - - +
125A VAL* 5.7 0.2 - - + -
137A LYS 4.3 1.4 - - - +
138A THR* 4.1 9.7 + - - -
139A VAL* 2.7 41.5 + - + +
141A VAL* 3.8 23.3 - - + -
154A ASN* 3.8 19.5 - - + +
155A SER* 1.3 79.6 - - - +
157A ASP* 1.3 67.8 + - - +
158A LEU* 4.3 2.0 + - + +
160A PHE 4.0 5.8 - - - +
161A PHE* 3.3 38.4 - - + -
162A TRP* 5.3 7.4 - - + -
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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