Contacts of the helix formed by residues 1157 - 1163 (chain r) in PDB entry 6FF7
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 ASN1157 (chain r).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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1155r ASP 3.9 1.8 + - - -
1156r LEU* 1.3 77.7 - - - +
1158r HIS* 1.3 68.0 + - - +
1159r ASN* 3.2 7.0 + - + +
1160r GLU* 3.3 9.1 + - + +
1161r ILE* 3.2 19.1 + - - +
1175r HIS* 5.4 2.4 - - - +
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Residues in contact with HIS1158 (chain r).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1157r ASN* 1.3 76.3 - - - +
1159r ASN* 1.3 60.6 + - - +
1161r ILE* 3.9 0.4 - - - +
1162r GLY 3.9 3.3 + - - -
1171r GLY* 3.2 40.6 - - - +
1172r LYS* 4.4 13.7 - - + -
1175r HIS* 4.5 11.6 - - + +
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Residues in contact with ASN1159 (chain r).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1157r ASN* 3.2 3.8 - - + +
1158r HIS* 1.3 76.9 - - - +
1160r GLU* 1.3 65.1 + - - +
1161r ILE 3.1 2.5 + - - -
1162r GLY* 3.2 11.4 + - - -
1163r GLU* 3.3 13.1 + - - +
1168r PRO* 5.9 1.0 - - - +
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Residues in contact with GLU1160 (chain r).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1156r LEU* 3.7 23.9 - - + +
1157r ASN* 3.3 12.3 + - + +
1159r ASN* 1.3 79.6 - - - +
1161r ILE* 1.3 62.1 + - - +
1163r GLU* 3.6 16.5 + - - +
1164r LEU* 3.9 6.2 + - - +
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Residues in contact with ILE1161 (chain r).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1153r LEU 6.1 0.2 - - - +
1156r LEU* 4.2 8.7 - - + +
1157r ASN 3.2 15.4 + - - +
1158r HIS* 3.9 6.7 - - - +
1159r ASN 3.1 0.4 - - - -
1160r GLU* 1.3 77.9 - - - +
1162r GLY* 1.3 63.5 + - - +
1163r GLU 3.1 1.2 + - - -
1164r LEU* 3.2 19.7 + - - +
1165r ILE* 4.2 2.4 + - - +
1171r GLY* 4.3 11.2 - - - +
1174r ILE* 5.0 11.4 - - + -
1175r HIS* 5.4 4.5 - - + +
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Residues in contact with GLY1162 (chain r).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1158r HIS 3.9 4.2 + - - -
1159r ASN 3.2 7.1 + - - -
1161r ILE* 1.3 79.4 - - - +
1163r GLU* 1.3 55.2 + - - +
1164r LEU 3.2 0.4 - - - -
1165r ILE* 3.7 3.1 + - - -
1166r ARG* 3.1 23.7 + - - -
1167r MET 3.1 27.5 + - - -
1168r PRO* 3.9 15.3 - - - +
1171r GLY* 4.2 9.4 - - - -
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Residues in contact with GLU1163 (chain r).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1634A SER 4.7 4.0 - - - +
1159r ASN 3.3 11.0 + - - +
1160r GLU* 3.7 14.6 - - - +
1161r ILE 3.1 1.0 - - - -
1162r GLY* 1.3 75.8 - - - +
1164r LEU* 1.3 63.1 + - - +
1166r ARG* 3.8 9.8 + - - +
1168r PRO* 6.1 0.2 - - - -
97t GLY* 4.9 19.3 - - - +
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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