Contacts of the helix formed by residues 193 - 204 (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 ASN 193 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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86C LYS 3.4 16.4 + - - +
87C GLY* 2.8 31.3 + - - +
88C LEU 4.2 1.0 + - - -
89C LYS* 3.4 39.8 - - + +
92C THR* 3.7 6.4 - - - +
191C VAL 3.2 1.6 + - - -
192C VAL* 1.3 71.5 - - - +
194C TRP* 1.3 61.1 + - - +
195C ASP* 3.0 13.9 + - - +
196C GLU* 3.0 25.6 + - + +
197C ALA* 3.1 19.2 + - - +
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Residues in contact with TRP 194 (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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92C THR* 3.0 28.9 + - - +
93C THR* 3.8 20.9 - - - +
94C LEU* 3.6 57.8 - - + +
98C LEU* 3.9 17.4 - - + +
102C ILE* 5.7 2.0 - - + -
109C VAL* 6.1 0.4 - - + -
112C PHE* 3.9 18.6 - + - -
113C LYS* 5.4 7.2 - - - -
131C LEU* 5.1 7.0 - - + -
164C MET* 3.9 25.4 - - + -
189C TRP* 4.1 27.3 + + - -
192C VAL* 3.1 20.7 + - + +
193C ASN* 1.3 69.8 - - - +
195C ASP* 1.3 61.1 + - - +
197C ALA* 3.7 10.5 - - + +
198C ALA* 2.9 29.8 + - - +
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Residues in contact with ASP 195 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
89C LYS* 3.9 14.1 + - - +
92C THR* 3.6 24.7 - - - +
93C THR 4.7 8.0 + - - +
95C GLN* 4.9 7.1 + - - +
193C ASN* 3.0 9.5 + - - +
194C TRP* 1.3 78.6 - - - +
196C GLU* 1.3 57.7 + - - +
198C ALA* 3.3 6.8 + - - +
199C ALA* 3.0 26.7 + - - +
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Residues in contact with GLU 196 (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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86C LYS* 3.5 48.7 - - + +
87C GLY* 4.6 4.3 - - - -
193C ASN* 3.0 21.5 + - + +
195C ASP* 1.3 73.6 - - - +
197C ALA* 1.3 66.3 + - - +
199C ALA* 3.2 11.7 + - - +
200C ARG* 3.0 50.9 + - - +
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Residues in contact with ALA 197 (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* 3.8 16.2 - - + -
163C ILE* 3.5 32.3 - - + +
164C MET* 4.6 9.6 - - + -
192C VAL* 5.6 0.9 - - + -
193C ASN 3.1 13.6 + - - +
194C TRP* 3.7 20.0 - - + +
195C ASP 3.3 0.2 - - - -
196C GLU* 1.3 77.0 - - - +
198C ALA* 1.3 56.9 + - - +
200C ARG* 3.3 1.0 + - - +
201C PHE* 3.0 28.4 + - - +
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Residues in contact with ALA 198 (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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95C GLN 5.4 3.6 - - - +
98C LEU* 3.7 21.7 - - + +
194C TRP 2.9 17.9 + - - +
195C ASP* 3.5 7.9 - - - +
197C ALA* 1.3 77.6 - - - +
199C ALA* 1.3 62.8 + - - +
201C PHE* 3.1 7.6 + - - +
202C ALA* 2.9 24.1 + - - +
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Residues in contact with ALA 199 (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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195C ASP 3.0 13.8 + - - +
196C GLU* 3.2 19.9 + - - +
198C ALA* 1.3 78.0 - - - +
200C ARG* 1.3 61.6 + - + +
202C ALA* 3.3 8.2 + - - +
203C ALA* 3.1 24.0 + - - +
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Residues in contact with ARG 200 (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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54C GLU* 6.2 2.0 - - - +
83C LEU* 3.9 29.9 - - - +
150C LEU* 5.9 2.6 - - - +
161C PHE* 3.4 43.9 - - + -
162C PRO* 2.8 32.9 + - - +
163C ILE* 3.3 23.4 + - - +
196C GLU* 3.0 41.1 + - - +
197C ALA 3.7 4.5 - - - +
199C ALA* 1.3 76.1 - - - +
201C PHE* 1.3 56.9 + - - +
203C ALA* 3.5 4.8 + - - +
204C LYS 2.9 24.9 + - - -
205C LYS 5.8 0.2 - - - -
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Residues in contact with PHE 201 (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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97C ASP* 3.8 30.5 - - + -
98C LEU* 3.9 33.0 - - + -
101C ALA* 3.7 23.3 - - + -
104C ARG* 5.4 3.8 - - - -
133C LEU* 4.2 31.2 - - + -
138C LEU* 4.4 12.1 - - + -
161C PHE* 5.4 0.2 - - - -
163C ILE* 4.7 10.9 - - + +
197C ALA 3.0 14.7 + - - +
198C ALA* 3.1 9.8 + - - +
200C ARG* 1.3 76.7 - - - +
202C ALA* 1.3 60.7 + - + +
204C LYS* 2.9 46.2 + - - +
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Residues in contact with ALA 202 (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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198C ALA 2.9 12.4 + - - +
199C ALA* 3.5 11.0 - - - +
200C ARG 3.2 0.2 - - - -
201C PHE* 1.3 80.8 - - + +
203C ALA* 1.3 64.8 + - - +
204C LYS* 3.8 14.4 + - - +
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Residues in contact with ALA 203 (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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199C ALA 3.1 16.8 + - - +
200C ARG* 4.0 4.5 - - - +
202C ALA* 1.3 77.7 - - - +
204C LYS* 1.3 63.1 + - - +
205C LYS* 2.9 29.6 + - + +
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Residues in contact with LYS 204 (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 LEU* 3.7 25.7 - - + +
136C ASP* 6.5 0.9 - - - +
161C PHE* 3.9 23.5 - - - +
200C ARG 2.9 15.6 + - - -
201C PHE* 2.9 45.2 + - - +
202C ALA* 3.8 11.0 + - - +
203C ALA* 1.3 77.2 - - - +
205C LYS* 1.3 66.1 + - - +
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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