Contacts of the strand formed by residues 155 - 161 (chain B) in PDB entry 2ZSU
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 PHE 155 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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79B ARG* 3.5 44.0 - - + +
80B VAL 3.9 4.7 - - - -
81B LEU* 3.6 36.3 - - + -
104B ILE* 3.7 15.9 - - + -
148B PHE* 3.8 31.2 - + - -
149B ILE* 5.9 0.4 - - + -
152B ASN* 4.2 4.7 - - + -
153B SER* 3.7 25.6 - - - -
154B GLY* 1.3 77.0 - - - +
156B ASP* 1.3 61.2 + - - +
157B VAL 4.0 10.5 - - - +
158B ILE* 4.1 10.3 - - + -
184B ALA* 3.2 16.4 + - + +
185B LEU* 3.3 7.8 - - - +
186B ASN* 2.7 28.2 + - - -
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Residues in contact with ASP 156 (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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74B HIS* 3.3 28.1 - - + +
76B ASN 3.6 14.0 - - - +
77B PRO* 3.9 11.7 - - + -
78B ARG* 3.0 17.8 + - - +
79B ARG* 2.7 41.0 + - - +
155B PHE* 1.3 73.2 - - - +
157B VAL* 1.3 57.3 + - - +
185B LEU* 4.0 0.8 - - - +
186B ASN* 3.1 25.8 + - - +
188B PRO 4.4 0.7 - - - +
189B GLY* 3.2 7.1 - - - -
190B ILE 3.0 23.6 + - - -
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Residues in contact with VAL 157 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70B ALA* 4.4 10.1 - - + +
71B MET* 4.2 12.3 - - - -
74B HIS* 4.1 7.9 - - + -
77B PRO* 4.0 25.1 - - + -
79B ARG 3.4 2.7 + - - +
80B VAL* 3.3 14.3 - - + +
81B LEU 2.8 24.9 + - - -
155B PHE* 4.0 1.6 - - - +
156B ASP* 1.3 86.0 - - + +
158B ILE* 1.3 68.2 + - - +
159B ILE* 3.8 28.9 - - + -
190B ILE* 3.4 26.9 - - + +
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Residues in contact with ILE 158 (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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81B LEU* 3.3 29.6 - - + +
83B ILE* 4.6 9.9 - - + -
149B ILE* 5.2 2.2 - - + -
155B PHE* 4.1 11.4 - - + -
157B VAL* 1.3 76.7 - - - +
159B ILE* 1.3 66.8 + - - +
160B VAL* 4.6 0.2 - - + -
181B ALA* 3.6 33.4 - - + +
184B ALA* 4.1 16.8 - - + -
185B LEU* 3.5 20.4 - - + +
190B ILE 2.9 9.2 + - - +
191B TYR* 3.4 24.0 - - + -
192B VAL* 2.9 29.3 + - - +
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Residues in contact with ILE 159 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66B LEU* 3.9 33.9 - - + -
67B VAL* 3.9 24.2 - - + +
71B MET* 4.9 1.3 - - - -
80B VAL* 4.3 6.3 - - + -
81B LEU 2.7 12.9 + - - +
82B ILE* 3.2 13.3 - - + +
83B ILE 2.9 24.3 + - - -
90B ALA* 5.0 1.3 - - + -
94B VAL* 3.7 29.6 - - + -
157B VAL* 3.8 18.6 - - + -
158B ILE* 1.3 77.4 - - - +
160B VAL* 1.3 65.7 + - - +
161B ASP* 3.8 3.9 + - + +
192B VAL* 3.5 18.2 - - + -
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Residues in contact with VAL 160 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66B LEU* 3.8 15.9 - - - +
83B ILE* 3.7 25.4 - - + +
158B ILE* 4.6 1.1 - - + -
159B ILE* 1.3 75.4 - - - +
161B ASP* 1.3 61.9 + - - +
162B SER* 4.2 4.5 - - - +
171B MET* 3.9 33.2 - - + -
172B LEU* 6.2 1.3 - - + -
177B PHE* 4.6 4.0 - - + -
191B TYR* 3.4 38.1 - - + +
192B VAL 2.9 8.5 + - - -
193B THR* 3.6 27.2 + - - +
194B GLN* 3.9 6.8 + - + +
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Residues in contact with ASP 161 (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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53B GLN* 4.4 10.0 + - - -
62B TYR* 2.7 35.9 + - - -
63B HIS* 3.9 13.5 + - - -
66B LEU* 3.6 19.3 - - + -
82B ILE* 4.7 2.2 - - + -
83B ILE 2.9 9.4 + - - +
84B GLY* 3.2 0.3 - - - -
85B GLY* 2.6 51.6 + - - +
87B ASP* 4.2 4.0 - - - +
90B ALA* 3.9 16.4 - - + +
159B ILE* 3.8 3.3 + - + -
160B VAL* 1.3 72.5 - - - +
162B SER* 1.3 58.9 + - - +
163B THR* 5.7 0.5 - - - +
194B GLN* 5.0 0.8 + - - -
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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