Contacts of the strand formed by residues 150 - 154 (chain N) in PDB entry 1CZA
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 VAL 150 (chain N).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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81N ILE* 3.3 28.3 - - + +
83N LEU* 4.1 22.9 - - + -
134N LEU* 5.0 3.6 - - + -
138N MET* 4.7 3.1 - - + -
148N LEU 3.6 14.4 - - - +
149N PRO* 1.3 72.3 - - - +
151N GLY* 1.3 74.2 + - - +
152N PHE* 5.5 0.2 - - - -
201N ALA* 4.2 22.2 - - + -
202N ASN 2.9 20.1 + - - +
203N ILE* 3.6 16.6 - - + +
204N VAL* 2.9 30.1 + - - +
205N ALA 3.7 1.6 + - - +
457N THR* 4.0 3.4 - - - -
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Residues in contact with GLY 151 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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81N ILE 2.8 11.2 + - - +
82N ALA* 3.3 7.6 - - - -
83N LEU 2.8 24.9 + - - -
150N VAL* 1.3 78.9 - - - +
152N PHE* 1.3 61.7 + - - +
153N THR 4.2 0.7 - - - -
205N ALA* 3.5 6.5 - - - -
453N ALA* 4.9 4.9 - - - -
457N THR* 3.1 24.5 + - - +
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Residues in contact with PHE 152 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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83N LEU* 3.7 26.5 - - + -
85N LEU* 3.9 26.5 - - + -
127N PHE* 4.3 12.6 - + - -
130N VAL* 5.4 3.4 - - + -
151N GLY* 1.3 74.6 - - - +
153N THR* 1.3 74.7 - - - +
154N PHE* 3.8 20.2 - + + -
185N VAL* 4.1 22.7 - - + -
186N VAL* 5.6 1.1 - - + -
189N LEU* 4.0 24.7 - - + -
203N ILE* 4.8 10.5 - - + -
205N ALA 2.8 15.7 + - - +
206N VAL* 3.2 23.4 - - + +
207N VAL* 2.8 33.4 + - - +
453N ALA* 5.3 1.2 - - - +
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Residues in contact with THR 153 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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83N LEU 2.8 16.8 + - - -
84N ASP* 3.7 9.4 - - - +
85N LEU 2.9 27.7 + - - -
151N GLY 4.2 0.4 - - - -
152N PHE* 1.3 75.0 - - - +
154N PHE* 1.3 62.2 + - - +
155N SER* 4.0 1.6 - - - +
207N VAL* 3.2 10.8 - - - +
208N ASN 4.1 1.1 - - - +
209N ASP* 3.6 35.7 - - + +
449N SER* 3.8 12.7 - - - -
450N GLY* 4.7 0.7 + - - -
453N ALA* 3.5 24.0 - - - +
919N G6P 3.7 15.9 - - - +
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Residues in contact with PHE 154 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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85N LEU* 3.5 17.5 - - + -
127N PHE* 4.6 5.8 - + - -
152N PHE* 3.6 28.7 + + + -
153N THR* 1.3 73.0 - - - +
155N SER* 1.3 58.3 + - - +
156N PHE* 3.0 45.0 + + + +
158N CYS* 3.6 31.4 - - - -
168N LEU* 4.0 9.6 - - + -
171N TRP* 3.8 24.5 - + - -
185N VAL* 3.8 31.2 - - + -
206N VAL* 4.0 16.0 - - + +
207N VAL 2.9 16.6 + - - +
208N ASN* 3.9 5.1 - - - -
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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