Contacts of the strand formed by residues 147 - 153 (chain A) in PDB entry 4ERO
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 147 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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142A PRO 4.6 0.2 - - - -
143A SER* 3.0 6.6 - - - -
144A LYS 2.9 33.3 + - - +
145A ASP 3.6 6.7 - - - +
146A GLY* 1.3 82.8 - - - +
148A THR* 1.3 65.6 + - - +
157A LEU* 4.5 9.0 - - + +
174A PHE* 4.0 22.4 - - + -
175A LYS 3.5 3.4 - - - -
176A LEU* 4.0 20.9 - - + -
180A ALA* 4.0 8.1 - - + -
181A LYS 3.9 10.5 - - - +
182A HIS* 4.1 14.1 - - + +
1004A EDO 3.5 24.7 - - - +
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Residues in contact with THR 148 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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141A LYS* 4.3 13.7 - - + +
142A PRO 3.5 11.4 - - - +
143A SER* 4.2 12.2 - - - -
146A GLY 5.3 1.2 - - - -
147A VAL* 1.3 77.6 + - - +
149A VAL* 1.3 68.1 + - - +
174A PHE* 3.5 4.0 - - - -
175A LYS* 3.0 34.6 + - - +
235A ARG* 4.0 17.1 + - - +
1003A EDO 3.8 19.0 - - - -
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Residues in contact with VAL 149 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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141A LYS* 3.2 22.4 - - - -
142A PRO* 3.1 19.6 + - + +
147A VAL* 5.2 0.7 - - + -
148A THR* 1.3 79.5 - - - +
150A ALA* 1.3 73.3 + - - +
151A VAL* 4.7 0.4 - - + -
156A ALA* 4.3 13.2 - - + -
157A LEU* 3.7 31.4 - - + -
172A LEU* 3.8 21.8 - - + -
173A ASP 3.1 11.7 - - - +
174A PHE* 3.7 27.1 - - + -
1003A EDO 4.0 2.2 - - - -
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Residues in contact with ALA 150 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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66A TYR* 3.8 22.4 - - - +
139A ILE* 3.8 18.6 - - + -
140A PRO 3.4 6.1 - - - -
141A LYS* 3.9 14.6 - - + -
149A VAL* 1.3 75.1 - - - +
151A VAL* 1.3 59.7 + - - +
152A ILE* 3.4 6.1 + - + +
172A LEU* 3.3 7.3 - - - -
173A ASP* 2.8 35.9 + - + -
1003A EDO 3.7 6.6 - - - -
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Residues in contact with VAL 151 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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134A LEU* 6.0 0.7 - - - +
139A ILE* 4.0 10.4 - - - +
140A PRO* 3.1 22.2 + - + +
142A PRO* 4.2 19.1 - - + -
149A VAL* 4.4 1.3 - - + +
150A ALA* 1.3 70.8 - - - +
152A ILE* 1.3 64.8 + - - +
153A SER 4.0 0.9 - - - +
154A GLY 3.0 37.0 - - - +
155A GLU* 3.6 3.6 - - - +
156A ALA* 3.7 30.5 - - + +
159A ILE 3.5 18.2 - - - +
161A SER* 3.5 13.3 + - - +
172A LEU* 3.9 10.1 - - + -
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Residues in contact with ILE 152 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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66A TYR* 3.6 44.9 - - + +
90A LEU* 3.8 33.3 - - + +
92A TRP* 4.1 5.4 - - + -
134A LEU* 5.0 1.6 - - - +
139A ILE* 4.6 11.2 - - + -
150A ALA* 3.4 5.8 + - + +
151A VAL* 1.3 71.4 - - - +
153A SER* 1.3 55.7 + - - +
161A SER* 2.5 21.7 + - - -
163A VAL* 3.4 15.8 - - - +
171A TYR* 3.0 52.6 + - + +
173A ASP* 4.1 15.5 - - + +
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Residues in contact with SER 153 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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92A TRP* 3.5 20.6 - - - -
151A VAL* 4.0 0.8 - - - +
152A ILE* 1.3 78.9 - - - +
154A GLY* 1.3 63.5 + - - +
161A SER* 3.6 7.6 - - - -
163A VAL* 4.5 6.1 - - - -
165A THR* 3.6 19.1 - - - -
169A THR 2.7 28.4 + - - -
170A LEU* 3.7 4.0 - - - +
171A TYR* 2.9 34.7 + - - +
172A LEU* 4.0 2.9 - - - +
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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