Contacts of the helix formed by residues 75 - 83 (chain C) in PDB entry 4KZX
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 GLU 75 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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111A GLN* 4.9 0.4 - - + -
45C TRP* 3.3 10.6 + - - +
46C LEU 3.7 1.7 - - - +
47C PRO* 3.0 17.9 - - - +
48C VAL* 2.6 45.8 + - + +
49C THR* 2.7 45.5 + - + +
52C GLY* 3.9 6.2 - - - -
73C ILE* 3.7 5.7 - - - +
74C LYS* 1.3 79.3 - - - +
76C SER* 1.3 64.6 + - - +
77C GLU* 3.1 13.0 - - - +
78C ILE* 3.0 31.8 + - + +
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Residues in contact with SER 76 (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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74C LYS 3.8 3.6 + - - -
75C GLU* 1.3 71.9 - - - +
77C GLU* 1.3 65.3 + - - +
79C ILE* 2.4 36.4 - - - +
80C ASP* 3.1 7.5 + - - +
141C ILE* 3.6 39.7 - - - +
144C LYS* 4.0 17.5 - - - +
145C LEU* 5.7 6.1 - - - +
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Residues in contact with GLU 77 (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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45C TRP* 3.4 54.8 + - + +
75C GLU* 3.4 21.5 - - - +
76C SER* 1.3 74.5 + - - +
78C ILE* 1.3 54.8 + - - +
80C ASP* 2.8 14.8 + - + +
81C PHE* 2.7 36.7 + - - +
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Residues in contact with ILE 78 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45C TRP* 4.1 11.0 - - + -
49C THR* 4.0 12.1 - - + +
51C LEU* 2.9 40.8 - - + -
52C GLY* 4.0 15.7 - - - -
55C VAL* 3.9 15.7 - - + -
63C LEU* 5.0 0.4 - - + -
66C ILE* 3.9 7.9 - - + -
73C ILE* 3.2 27.4 - - + -
74C LYS 4.7 1.3 - - - +
75C GLU* 3.0 32.7 + - + +
77C GLU* 1.3 77.1 - - - +
79C ILE* 1.3 62.5 + - - +
81C PHE 3.4 0.2 + - - -
82C PHE* 3.0 30.7 + - + +
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Residues in contact with ILE 79 (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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63C LEU* 4.5 20.4 - - + -
73C ILE* 3.6 16.4 - - + +
76C SER* 2.4 43.7 - - - +
78C ILE* 1.3 76.3 - - - +
80C ASP* 1.3 51.7 + - - +
83C LEU* 2.5 48.6 + - + +
84C GLY* 4.8 1.3 - - - -
87C LEU* 4.6 3.8 - - + -
144C LYS* 3.5 36.1 - - + +
145C LEU* 4.6 1.8 - - - +
147C ILE* 2.2 44.4 - - + -
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Residues in contact with ASP 80 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
76C SER* 3.1 8.0 + - - +
77C GLU* 2.8 26.2 + - + +
79C ILE* 1.3 82.0 - - + +
81C PHE* 1.3 58.5 + - - +
83C LEU 2.8 15.4 - - - +
84C GLY* 4.9 7.9 - - - +
85C ALA* 3.5 13.0 + - - +
144C LYS* 4.1 19.8 + - + +
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Residues in contact with PHE 81 (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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45C TRP* 4.4 14.8 - + + -
55C VAL* 3.3 42.6 - - + -
56C LYS* 5.5 3.1 - - - -
58C MET* 2.8 38.4 - - + -
60C ILE 4.8 0.2 - - - -
61C LYS* 5.9 0.7 - - - -
77C GLU 2.7 17.0 + - - +
78C ILE 3.9 0.2 - - - +
80C ASP* 1.3 75.3 - - - +
82C PHE* 1.3 79.0 + + - +
83C LEU 3.5 0.3 + - - -
85C ALA* 4.8 6.2 - - - +
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Residues in contact with PHE 82 (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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55C VAL* 1.9 64.6 - - + -
60C ILE* 2.0 49.8 - - + -
61C LYS* 3.0 28.2 - - - +
62C SER 3.7 2.2 - - - -
63C LEU* 3.7 17.7 - - + +
66C ILE* 5.1 1.1 - - + -
78C ILE* 3.0 28.5 + - + -
81C PHE* 1.3 91.4 - + - +
83C LEU* 1.4 83.9 + - + +
85C ALA* 5.7 0.4 - - - -
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Residues in contact with LEU 83 (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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61C LYS 5.2 0.2 - - - +
62C SER* 4.8 4.7 - - - -
63C LEU* 3.3 39.5 - - + +
64C GLU* 4.8 2.0 - - - +
79C ILE* 2.5 31.2 + - + +
80C ASP* 2.8 7.3 - - - +
81C PHE 3.4 0.6 - - - -
82C PHE* 1.4 102.2 - - + +
84C GLY* 1.3 61.3 + - - +
85C ALA* 2.6 17.7 + - - +
87C LEU* 5.1 3.4 - - + -
117C ASP* 4.7 5.2 - - + +
121C HIS* 3.1 54.1 - - + +
147C ILE* 5.8 0.2 - - + -
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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