Contacts of the strand formed by residues 143 - 150 (chain C) in PDB entry 5A0Q
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 TYR 143 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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108C GLU* 5.3 9.0 - - + -
140C ASP* 3.0 30.6 + - - +
142C HIS* 1.3 90.8 - - + +
144C GLY* 1.3 61.0 + - - +
145C PHE 3.9 5.4 + - - +
146C GLN* 3.1 15.5 - - + +
148C TYR* 5.1 6.3 - - - -
71K ASN 4.9 1.2 + - - -
72K GLY* 5.1 1.7 + - - -
73K TYR* 3.7 37.9 - + - -
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Residues in contact with GLY 144 (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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139C TRP* 2.9 29.2 - - - -
140C ASP* 3.0 31.8 + - - +
141C LYS 4.4 2.8 + - - -
142C HIS 3.9 0.8 - - - -
143C TYR* 1.3 80.0 - - - +
145C PHE* 1.4 62.4 + - - -
146C GLN* 3.7 1.6 - - - +
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Residues in contact with PHE 145 (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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38C LEU* 3.6 11.9 - - + +
39C ALA 4.4 14.4 - - - +
40C ASN 4.8 2.9 - - - -
41C ASP* 2.7 42.4 - - - -
42C GLY* 3.3 6.5 - - - +
43C VAL* 3.6 17.0 - - + -
138C GLY 3.3 15.0 - - - -
139C TRP* 2.8 40.1 - + + -
143C TYR* 3.9 5.4 + - - +
144C GLY* 1.4 72.1 - - - -
146C GLN* 1.3 61.3 + - - +
216C LEU* 3.6 25.1 - - + -
217C THR 4.0 1.8 - - - -
218C ARG* 3.6 34.5 - - + -
223C THR* 4.4 1.3 - - + -
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Residues in contact with GLN 146 (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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38C LEU* 3.7 10.9 - - - +
43C VAL* 4.2 2.8 - - - +
107C CYS* 3.6 9.4 - - + +
108C GLU* 3.5 25.1 - - - +
136C TYR 3.7 0.6 - - - +
137C ILE* 3.7 1.4 - - - -
138C GLY 2.9 41.9 + - - +
140C ASP* 2.7 42.9 + - - +
143C TYR* 3.1 19.6 - - - +
144C GLY 3.7 4.4 - - - +
145C PHE* 1.3 75.2 - - - +
147C LEU* 1.3 60.6 + - - +
148C TYR* 3.5 28.6 + - + +
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Residues in contact with LEU 147 (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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36C GLY* 3.8 26.0 - - - +
37C ILE 4.8 0.2 - - - -
38C LEU* 4.1 8.5 - - + +
43C VAL* 4.1 11.2 - - + -
135C LEU* 4.2 15.9 - - + -
136C TYR 2.8 18.2 - - - +
137C ILE* 4.0 17.3 - - + -
146C GLN* 1.3 73.4 - - - +
148C TYR* 1.3 78.8 + - - +
158C GLY* 3.4 2.8 - - - -
159C TRP* 2.7 52.6 + - + +
160C LYS 3.8 12.1 - - - +
161C ALA* 3.9 2.9 - - - +
162C THR* 4.3 14.1 - - + -
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Residues in contact with TYR 148 (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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107C CYS* 5.4 2.2 - - - -
108C GLU* 3.2 42.0 - - + +
111C VAL* 4.2 11.7 - - + -
135C LEU* 3.0 5.9 - - - +
136C TYR* 2.5 57.8 + - + -
143C TYR* 5.1 5.4 - - - -
146C GLN* 3.5 41.9 + - + +
147C LEU* 1.3 83.5 - - - +
149C GLN* 1.3 61.3 + - - +
156C TYR* 4.5 12.6 - + + -
157C GLY 3.5 12.1 - - - +
158C GLY* 3.5 28.7 - - - -
159C TRP* 5.3 0.4 - - - -
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Residues in contact with GLN 149 (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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133C SER* 4.9 3.2 + - - -
134C LEU 3.3 11.9 - - - +
135C LEU* 3.7 15.0 - - + -
136C TYR* 4.7 1.3 - - - -
148C TYR* 1.3 75.8 - - - +
150C SER* 1.3 65.2 + - - +
151C ASP* 3.9 6.3 + - - +
155C ASN* 5.8 0.2 + - - -
156C TYR* 3.2 23.8 - - - -
157C GLY 3.2 13.2 + - - +
159C TRP* 4.3 18.1 + - + +
162C THR* 2.9 28.6 + - + -
163C CYS 4.5 4.4 + - - -
164C ILE* 3.7 29.6 - - + +
168C SER* 5.6 0.2 + - - -
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Residues in contact with SER 150 (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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111C VAL* 4.9 0.2 - - - -
115C CYS* 3.1 24.9 - - - -
118C LYS* 3.1 21.1 + - - -
133C SER* 3.2 8.0 - - - -
134C LEU* 2.8 33.8 + - - -
136C TYR* 3.8 28.3 + - - -
149C GLN* 1.3 72.5 - - - +
151C ASP* 1.3 64.8 + - - +
155C ASN 4.0 5.6 - - - -
156C TYR* 4.6 0.4 - - - +
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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