Contacts of the strand formed by residues 150 - 156 (chain C) in PDB entry 1DT0
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 THR 150 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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126C VAL* 3.2 5.7 - - - -
127C LYS* 2.9 62.1 + - - +
128C LYS 5.2 0.5 + - - -
148C GLY 4.9 1.9 + - - -
149C ASP* 1.3 77.2 + - - +
151C PRO* 1.3 74.0 - - + +
152C LEU* 3.5 5.7 + - + +
189C GLN 4.1 10.3 - - - +
194C THR* 3.8 28.5 - - + -
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Residues in contact with PRO 151 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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71C TRP* 3.6 24.7 - - + -
75C PHE* 3.3 30.3 - - + -
124C TRP* 3.9 16.4 - - + -
125C LEU 4.0 4.9 - - - +
126C VAL* 4.2 5.4 - - + -
144C PRO* 4.3 15.7 - - + -
145C LEU* 3.8 18.2 - - + -
149C ASP 3.8 7.4 - - - +
150C THR* 1.3 89.2 - - + +
152C LEU* 1.3 60.4 + - - +
189C GLN* 3.5 13.7 - - - +
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Residues in contact with LEU 152 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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75C PHE* 3.7 10.6 - - - -
79C CYS* 4.2 3.5 - - - -
92C LEU* 4.5 8.5 - - + -
125C LEU* 2.8 36.4 + - + +
126C VAL 4.0 5.6 - - - +
127C LYS* 3.9 11.4 - - + -
133C LEU* 3.9 25.6 - - + -
150C THR* 3.7 16.6 - - + +
151C PRO* 1.3 74.6 - - - +
153C LEU* 1.3 63.2 + - - +
185C PHE* 4.6 0.3 - - - -
186C VAL* 3.5 35.3 - - + +
189C GLN* 3.7 15.1 - - + +
190C PHE* 3.5 37.2 - - + +
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Residues in contact with LEU 153 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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75C PHE* 4.1 3.1 - - - -
79C CYS* 3.7 28.9 - - + +
106C PHE* 4.4 4.3 - - + -
110C PHE* 4.1 14.7 - - + -
124C TRP* 3.3 6.2 - - - +
125C LEU* 2.8 38.3 + - + +
151C PRO 3.7 0.2 - - - -
152C LEU* 1.3 81.6 - - - +
154C THR* 1.3 61.4 + - - +
177C PHE* 4.0 18.4 - - + -
178C TRP* 3.9 28.5 - - + -
181C VAL* 3.4 25.8 - - + -
183C TRP* 4.1 15.3 - - + -
186C VAL* 3.9 14.1 - - + -
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Residues in contact with THR 154 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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72C ASN 4.2 2.0 - - - +
75C PHE* 3.9 11.9 - - + -
76C TYR* 3.6 42.1 - - + -
79C CYS* 3.8 10.6 - - - +
110C PHE* 4.4 0.9 - - - -
122C TRP* 3.6 19.2 - - + +
123C GLY 3.0 12.2 + - - -
124C TRP* 3.3 32.8 - - + -
153C LEU* 1.3 73.7 - - - +
155C CYS* 1.3 67.0 + - - +
177C PHE* 3.6 18.3 - - - -
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Residues in contact with CYS 155 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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76C TYR* 4.1 3.4 - - - -
110C PHE* 3.8 23.6 - - + -
114C SER* 4.0 8.3 - - - +
122C TRP* 3.4 1.6 - - - -
123C GLY 2.9 33.5 + - - +
154C THR* 1.3 79.9 + - - +
156C ASP* 1.3 66.0 + - - +
157C VAL* 3.4 6.2 + - - +
173C TYR* 3.7 31.0 - - - -
174C VAL* 4.4 14.1 - - - -
177C PHE* 3.8 23.6 - - + -
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Residues in contact with ASP 156 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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26C HIS* 2.8 14.6 + - - -
73C HIS* 3.4 1.0 + - - -
76C TYR* 3.3 25.8 - - + -
121C GLY 3.5 1.0 - - - +
122C TRP* 3.4 27.9 - - + -
155C CYS* 1.3 70.4 - - - +
157C VAL* 1.3 60.4 + - - +
158C TRP* 3.0 37.5 + - - -
160C HIS* 3.7 0.7 + - - -
161C ALA* 3.5 7.3 - - + +
173C TYR* 2.7 30.8 + - - -
1603C FE 2.1 31.4 - - - -
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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