Contacts of the strand formed by residues 155 - 161 (chain E) 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 E).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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79E ARG* 3.3 44.4 - - + -
80E VAL 4.0 3.4 - - - -
81E LEU* 3.4 45.5 - - + -
104E ILE* 3.9 15.3 - - + -
148E PHE* 3.9 25.4 - + - -
152E ASN* 4.3 4.3 - - + -
153E SER* 3.8 21.5 - - - -
154E GLY* 1.3 77.1 - - - +
156E ASP* 1.3 64.0 + - - +
157E VAL 3.9 13.9 - - - +
158E ILE* 4.1 7.9 - - + -
184E ALA* 2.9 20.8 + - + +
185E LEU* 3.3 8.7 - - - +
186E ASN* 2.8 25.4 + - - -
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Residues in contact with ASP 156 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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74E HIS* 3.2 32.7 - - + +
76E ASN 3.6 11.1 - - - +
77E PRO* 3.9 11.7 - - + -
78E ARG* 3.1 16.3 + - - +
79E ARG* 2.9 36.6 + - - +
154E GLY 4.2 0.2 + - - -
155E PHE* 1.3 73.0 - - - +
157E VAL* 1.3 60.1 + - - +
185E LEU* 4.4 0.4 - - - -
186E ASN* 2.7 27.4 + - - +
188E PRO 4.4 3.3 - - - +
189E GLY* 3.2 2.1 - - - -
190E ILE 3.0 23.6 + - - -
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Residues in contact with VAL 157 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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70E ALA* 4.6 9.9 - - + +
71E MET* 4.0 16.6 - - - -
74E HIS* 4.0 7.4 - - + -
77E PRO* 3.6 29.4 - - + -
79E ARG 3.6 2.4 + - - -
80E VAL* 3.5 10.7 - - + +
81E LEU 2.9 26.3 + - - -
155E PHE* 3.9 2.1 - - - +
156E ASP* 1.3 86.6 - - + +
158E ILE* 1.3 70.2 + - - +
159E ILE* 4.0 23.1 - - + -
190E ILE* 3.3 25.8 - - + +
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Residues in contact with ILE 158 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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81E LEU* 3.4 20.4 - - + +
83E ILE* 4.7 5.2 - - + -
149E ILE* 4.2 10.5 - - + -
155E PHE* 4.1 10.3 - - + -
157E VAL* 1.3 76.7 - - - +
159E ILE* 1.3 63.5 + - - +
160E VAL* 4.3 7.9 - - + -
181E ALA* 3.6 25.8 - - + +
184E ALA* 4.2 16.6 - - + -
185E LEU* 3.4 25.4 - - + +
190E ILE 2.8 11.6 + - - +
191E TYR* 3.4 27.8 - - + -
192E VAL* 2.8 31.7 + - - +
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Residues in contact with ILE 159 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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66E LEU* 4.2 33.7 - - + -
67E VAL* 4.0 19.5 - - + +
71E MET* 4.8 2.7 - - + -
80E VAL* 4.1 10.8 - - + -
81E LEU 2.8 12.9 + - - +
82E ILE* 3.2 16.7 - - + +
83E ILE* 2.8 32.6 + - - +
90E ALA* 4.9 2.2 - - + -
94E VAL* 3.4 32.8 - - + -
157E VAL* 4.0 13.5 - - + -
158E ILE* 1.3 77.6 - - - +
160E VAL* 1.3 60.2 + - - +
161E ASP* 4.7 1.6 - - + +
192E VAL* 3.5 14.8 - - + -
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Residues in contact with VAL 160 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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66E LEU* 4.3 3.6 - - - +
83E ILE* 3.6 27.6 - - + +
158E ILE* 4.3 1.8 - - + -
159E ILE* 1.3 77.4 - - - +
161E ASP* 1.3 60.8 + - - +
162E SER* 3.9 11.1 + - - +
172E LEU* 4.1 33.4 - - + +
173E PHE* 5.6 0.2 - - + -
177E PHE* 4.4 1.8 - - + -
191E TYR* 3.1 43.1 - - + +
192E VAL 2.9 8.9 + - - +
193E THR* 3.4 32.1 + - - +
194E GLN* 3.6 5.7 + - - +
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Residues in contact with ASP 161 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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62E TYR* 2.6 30.6 + - - -
63E HIS* 4.2 0.5 + - - -
66E LEU* 3.9 17.0 - - + -
82E ILE* 5.1 1.3 - - + -
83E ILE 2.9 10.9 + - - +
84E GLY* 3.7 0.9 - - - -
85E GLY* 3.0 37.0 + - - +
90E ALA* 4.0 15.1 - - + +
159E ILE* 3.9 3.5 + - + -
160E VAL* 1.3 72.5 - - - +
162E SER* 1.3 58.7 + - - +
194E GLN* 4.8 0.4 - - - -
1003E AG3 2.6 45.3 + - - -
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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