Contacts of the strand formed by residues 144 - 152 (chain A) in PDB entry 1SZ7
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 MET 144 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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68A CYS 5.0 1.3 - - - +
69A HIS* 3.8 33.7 - - + +
71A PHE* 3.8 28.9 - - + +
74A THR* 3.6 25.8 - - - -
136A ARG 4.8 0.3 - - - +
139A LEU* 3.0 41.6 + - + +
140A GLU* 3.4 4.7 + - - +
142A VAL* 3.6 17.5 - - + +
143A GLN* 1.3 80.3 - - - +
145A ALA* 1.3 60.7 + - - +
146A VAL* 3.5 7.9 + - + -
167A PHE* 3.7 32.8 - - + -
169A ARG 4.0 2.9 - - - -
170A ARG* 5.4 0.9 - - - -
171A ILE* 3.9 3.1 - - - +
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Residues in contact with ALA 145 (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 GLU* 5.5 1.6 - - - +
144A MET* 1.3 68.4 - - - +
146A VAL* 1.3 63.7 + - - +
167A PHE* 4.0 1.7 - - - -
168A ILE* 2.8 35.3 + - + +
169A ARG* 2.9 42.5 + - + +
171A ILE* 3.7 19.8 - - + +
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Residues in contact with VAL 146 (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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71A PHE* 4.2 18.8 - - + -
136A ARG* 3.4 46.3 - - + +
139A LEU* 3.8 35.2 - - + -
144A MET* 3.5 14.4 + - + +
145A ALA* 1.3 78.4 - - - +
147A GLU* 1.3 64.4 + - - +
148A ALA 4.9 0.4 - - - +
165A MET* 3.9 15.3 - - + -
166A ARG 3.2 15.0 - - - +
167A PHE* 4.3 3.1 - - + -
168A ILE* 3.7 9.8 - - - +
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Residues in contact with GLU 147 (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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136A ARG* 5.1 2.9 - - - +
146A VAL* 1.3 75.7 - - - +
148A ALA* 1.3 69.8 + - - +
149A LYS* 3.7 34.3 + - + +
164A ARG* 3.7 2.4 - - - +
165A MET* 3.3 5.0 - - - +
166A ARG* 2.8 77.3 + - - +
168A ILE* 3.8 6.0 - - + +
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Residues in contact with ALA 148 (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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132A CYS* 3.4 42.6 - - + +
135A LEU* 4.2 13.0 - - + -
136A ARG* 5.0 10.8 + - + +
146A VAL* 4.2 2.1 + - + +
147A GLU* 1.3 78.1 - - - +
149A LYS* 1.3 62.9 + - - +
163A ILE* 4.3 2.2 - - + -
164A ARG 3.4 4.7 - - - -
165A MET* 3.8 20.9 - - + -
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Residues in contact with LYS 149 (chain A).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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129A ASN* 5.7 0.2 - - - -
132A CYS* 3.7 9.1 - - - -
147A GLU* 3.7 30.3 + - + +
148A ALA* 1.3 76.4 - - - +
150A PHE* 1.3 65.1 + - - +
151A VAL* 3.5 25.2 + - + -
163A ILE* 3.4 3.9 - - - +
164A ARG* 2.8 48.6 + - + +
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Residues in contact with PHE 150 (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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107A LEU* 5.6 0.7 - - + -
110A ASN* 4.7 3.8 - - - -
111A PRO* 6.4 0.4 - - + -
126A ILE* 3.5 32.0 - - + +
128A SER* 3.3 48.5 - - - -
129A ASN* 3.9 1.7 + - - -
131A LEU* 4.5 5.8 - - + -
132A CYS* 3.5 25.3 - - - -
149A LYS* 1.3 75.9 - - - +
151A VAL* 1.3 63.3 + - - +
152A GLN 3.8 19.7 - - - +
153A ASP* 4.9 9.4 - - + -
161A THR* 3.5 24.0 - - + -
162A GLU 3.4 2.2 - - - -
163A ILE* 3.7 26.5 - - + +
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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
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149A LYS* 3.5 28.9 + - + -
150A PHE* 1.3 77.9 - - - +
152A GLN* 1.3 66.6 + - + +
158A ASP* 4.6 1.6 - - - +
162A GLU* 2.8 50.4 + - + +
164A ARG* 4.0 20.2 - - + -
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Residues in contact with GLN 152 (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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106A ILE* 4.9 1.4 - - - +
150A PHE* 3.8 6.2 - - - -
151A VAL* 1.3 82.5 - - + +
153A ASP* 1.3 64.3 + - - +
158A ASP* 3.3 27.5 - - - +
159A GLY 4.2 4.7 + - - -
160A VAL* 3.4 32.8 - - - +
161A THR* 3.4 5.7 - - - +
162A GLU* 2.9 55.3 + - + +
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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