Contacts of the strand formed by residues 137 - 144 (chain C) in PDB entry 1EN6
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 LYS 137 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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105C ASP* 3.3 27.7 + - + +
133C LEU* 3.7 5.0 - - - -
134C LYS* 2.9 35.0 + - + +
135C GLY 3.6 0.2 - - - -
136C ASP* 1.3 87.1 + - - +
138C LEU* 1.3 74.0 + - - +
139C ALA* 4.9 2.0 - - + +
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Residues in contact with LEU 138 (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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98C LEU* 4.6 7.0 - - + -
101C ALA* 3.8 27.4 - - + -
102C ILE* 3.3 36.3 - - + +
104C ARG* 5.3 0.9 - - - +
105C ASP* 3.1 21.4 + - - +
106C PHE* 3.9 20.3 - - + -
131C LEU* 4.2 7.6 - - + -
132C VAL 3.4 12.8 - - - +
133C LEU* 3.9 18.4 - - + -
137C LYS* 1.3 85.1 - - - +
139C ALA* 1.3 62.8 + - - +
163C ILE* 4.2 19.7 - - + -
201C PHE* 4.4 8.1 - - + -
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Residues in contact with ALA 139 (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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106C PHE* 4.0 8.0 - - - -
131C LEU* 3.5 3.9 - - - +
132C VAL* 2.8 45.4 + - + +
134C LYS* 4.3 23.3 - - + +
137C LYS* 4.9 2.2 - - + +
138C LEU* 1.3 78.5 - - - +
140C VAL* 1.3 67.0 + - - +
141C VAL* 4.9 0.4 - - + -
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Residues in contact with VAL 140 (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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106C PHE* 3.9 24.2 - - + -
112C PHE* 3.9 23.1 - - + -
115C GLU* 3.9 15.5 - - + +
116C PHE* 3.9 19.5 - - + +
119C ALA* 3.5 29.3 - - + +
130C TRP 3.2 13.0 - - - +
131C LEU* 4.6 0.7 - - + -
139C ALA* 1.3 76.8 - - - +
141C VAL* 1.3 70.9 + - - +
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Residues in contact with VAL 141 (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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119C ALA* 5.0 2.5 - - - -
129C ALA* 3.7 1.0 - - - +
130C TRP* 2.7 43.4 + - + +
132C VAL* 3.9 31.0 - - + -
134C LYS* 4.1 28.9 - - - +
139C ALA* 4.9 2.0 - - + -
140C VAL* 1.3 86.1 - - - +
142C SER* 1.3 58.6 + - - +
149C PRO* 4.3 1.8 - - + -
158C ALA* 4.0 27.4 - - + -
159C SER 4.9 0.9 - - - +
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Residues in contact with SER 142 (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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119C ALA* 4.3 21.3 + - - +
123C ARG* 3.0 35.9 + - - +
128C TRP 3.1 15.0 - - - -
129C ALA* 4.2 5.2 - - - -
130C TRP* 4.2 1.3 - - - -
141C VAL* 1.3 76.2 - - - +
143C THR* 1.3 69.2 + - - +
156C SER 4.9 1.9 - - - +
157C GLY 5.7 0.5 - - - -
158C ALA* 4.4 6.9 - - - +
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Residues in contact with THR 143 (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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123C ARG* 3.5 11.7 + - - +
127C GLY* 3.1 4.3 - - - -
128C TRP* 2.9 32.2 + - - +
130C TRP* 2.9 28.5 + - + +
142C SER* 1.3 78.3 - - - +
144C ALA* 1.3 60.6 + - - +
147C ASP* 3.1 25.7 + - - +
149C PRO 4.3 9.9 - - - -
156C SER* 4.1 22.0 - - - +
158C ALA* 4.0 20.9 - - + -
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Residues in contact with ALA 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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123C ARG* 3.6 20.8 - - - +
126C SER 3.7 6.7 - - - +
143C THR* 1.3 74.8 - - - +
145C ASN* 1.3 82.3 + - - +
146C LEU 3.1 0.2 + - - -
147C ASP* 3.0 30.2 + - - +
156C SER 5.1 2.4 + - - -
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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