Contacts of the strand formed by residues 133 - 141 (chain A) in PDB entry 1EG2
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 LEU 133 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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131A LYS 3.6 17.5 - - - +
132A MET* 1.3 74.8 - - - +
134A LEU* 1.3 62.8 + - - +
135A ALA* 3.0 6.2 + - + +
162A PHE* 3.1 4.9 - - - -
163A ALA* 2.7 53.5 + - + +
164A LYS 3.9 0.4 - - - +
165A THR* 3.8 16.4 - - - +
166A LYS* 3.7 31.2 - - + +
168A TYR* 6.0 2.9 - - + -
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Residues in contact with LEU 134 (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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123A ILE* 4.6 25.8 - - + -
127A ARG* 4.6 13.2 - - - +
132A MET 4.0 1.0 + - - -
133A LEU* 1.3 70.7 - - - +
135A ALA* 1.3 63.0 + - - +
136A ASN 3.4 26.5 - - - +
137A LEU* 4.7 12.8 - - + +
160A ALA* 4.0 7.4 - - + -
161A TRP 3.5 14.6 - - - +
162A PHE* 3.9 32.0 - - + -
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Residues in contact with ALA 135 (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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133A LEU* 3.0 10.4 + - + +
134A LEU* 1.3 72.7 - - - +
136A ASN* 1.3 73.5 + - - +
161A TRP* 2.8 51.6 + - + +
163A ALA* 4.6 7.6 - - + -
168A TYR* 4.6 11.7 - - + +
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Residues in contact with ASN 136 (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* 3.2 12.3 - - - +
135A ALA* 1.3 85.5 + - - +
137A LEU* 1.3 59.9 + - - +
138A ILE* 3.8 15.4 - - + +
159A ILE 3.7 0.5 - - - +
161A TRP* 2.8 61.2 + - + +
170A PHE* 5.6 1.6 - - - -
206A ASN* 4.0 28.4 - - - +
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Residues in contact with LEU 137 (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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108A LEU* 5.8 3.8 - - + -
119A LEU* 4.1 10.3 - - + -
123A ILE* 4.0 24.5 - - + -
134A LEU* 4.7 11.9 - - + +
136A ASN* 1.3 73.8 - - - +
138A ILE* 1.3 62.0 + - - +
139A ILE* 3.7 17.3 + - + +
158A GLU* 3.6 26.5 - - + -
159A ILE 3.7 1.8 - - - +
160A ALA* 4.0 23.1 - - + -
206A ASN* 3.7 19.4 + - - +
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Residues in contact with ILE 138 (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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136A ASN* 4.1 20.6 - - + +
137A LEU* 1.3 75.3 - - - +
139A ILE* 1.3 71.1 + - - +
158A GLU* 3.3 8.0 - - - +
159A ILE* 2.8 59.7 + - + +
161A TRP* 4.6 11.9 - - + -
206A ASN* 3.3 17.7 - - + +
208A TRP* 3.6 57.2 - - + +
235A LEU* 4.5 6.3 - - + -
239A LEU* 6.3 0.2 - - + -
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Residues in contact with ILE 139 (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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108A LEU* 5.8 1.8 - - + -
137A LEU* 3.7 16.4 - - + +
138A ILE* 1.3 74.3 - - - +
140A TRP* 1.3 64.1 + - - +
141A ASN* 3.5 10.6 + - + +
156A HIS* 3.9 26.7 - - + +
157A GLU 3.9 0.7 - - - -
158A GLU* 3.4 29.8 - - + +
206A ASN* 2.8 16.1 + - - +
207A VAL* 3.4 18.4 - - + -
208A TRP 2.8 28.4 + - - -
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Residues in contact with TRP 140 (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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105A PHE* 4.2 25.6 - + - -
138A ILE* 3.9 1.8 + - - +
139A ILE* 1.3 70.9 - - - +
141A ASN* 1.3 63.4 + - - +
142A TYR* 3.6 8.0 + + - +
156A HIS* 3.2 4.3 - - - -
157A GLU* 2.7 71.4 + - + +
159A ILE* 4.7 13.2 - - + -
208A TRP* 3.6 14.6 - - + -
210A MET* 2.8 38.2 + - + +
211A SER 4.2 0.4 - - - -
212A ARG* 3.7 29.8 - - + -
226A GLN 5.9 0.2 - - - -
227A LYS* 4.9 7.4 - - + -
228A PRO* 3.5 40.8 - - + -
231A VAL* 4.7 13.5 - - + -
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Residues in contact with ASN 141 (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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139A ILE* 3.5 7.1 + - + -
140A TRP* 1.3 72.3 - - - +
142A TYR* 1.3 66.7 + - - +
155A ARG* 2.9 26.7 + - - +
156A HIS* 4.5 2.8 - - + +
207A VAL* 4.5 17.8 - - + +
208A TRP 2.9 11.4 + - - +
209A ARG* 3.0 60.1 + - + +
210A MET 3.4 1.9 + - - -
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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