Contacts of the helix formed by residues 69 - 82 (chain C) in PDB entry 1Z6Z
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 ALA 69 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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66C ASP* 3.3 21.7 + - + +
67C LEU 3.3 1.3 - - - +
68C GLY* 1.3 81.8 - - - +
70C GLU* 1.3 65.0 + - - +
71C ALA* 4.3 7.6 - - + +
72C GLY 4.4 3.8 - - - +
73C LEU* 3.1 24.5 + - - +
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Residues in contact with GLU 70 (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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69C ALA* 1.3 72.5 - - - +
71C ALA* 1.3 58.9 + - - +
73C LEU* 3.1 8.7 + - - +
74C GLN* 2.9 51.1 + - + +
114D SER* 2.7 36.5 + - - -
115D THR* 3.9 20.4 - - + +
118D ASN* 3.4 19.1 + - - +
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Residues in contact with ALA 71 (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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69C ALA* 3.4 5.2 - - + +
70C GLU* 1.3 78.8 - - - +
72C GLY* 1.3 62.2 + - - +
74C GLN* 3.4 7.0 + - - +
75C GLN* 3.1 35.3 + - - +
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Residues in contact with GLY 72 (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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65C ALA* 3.3 20.5 - - - +
66C ASP* 3.1 33.3 + - - -
67C LEU* 4.3 0.8 - - - +
69C ALA* 3.5 5.9 + - - +
70C GLU 3.3 0.6 - - - -
71C ALA* 1.3 77.3 - - - +
73C LEU* 1.3 61.3 + - - +
75C GLN* 3.3 19.7 + - - +
76C LEU* 3.3 3.5 + - - +
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Residues in contact with LEU 73 (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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66C ASP 3.7 1.4 + - - -
67C LEU* 4.2 21.3 - - + +
69C ALA 3.1 17.2 + - - +
70C GLU* 3.1 8.5 + - - +
72C GLY* 1.3 77.0 - - - +
74C GLN* 1.3 61.1 + - - +
76C LEU* 3.2 4.1 + - + -
77C LEU* 2.9 50.3 + - + +
122C ALA 5.9 0.4 - - - +
126C THR* 4.8 3.4 - - + -
127C SER* 3.9 42.2 - - - +
130C CYS* 4.4 9.4 - - + -
131C LEU* 5.2 4.9 - - + -
114D SER* 3.7 31.4 - - - +
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Residues in contact with GLN 74 (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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70C GLU* 2.9 40.6 + - + +
71C ALA* 3.9 6.7 - - - +
73C LEU* 1.3 76.5 - - - +
75C GLN* 1.3 57.2 + - - +
77C LEU* 3.7 26.0 - - - +
78C GLY* 2.7 32.2 + - - -
81C ARG* 4.2 10.7 + - - -
112D SER 5.5 2.4 + - - -
114D SER* 3.7 10.9 + - - -
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Residues in contact with GLN 75 (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 VAL* 4.0 9.4 - - + +
64C PRO 3.6 17.7 - - - +
65C ALA* 3.9 7.7 - - + +
66C ASP 5.1 0.2 + - - -
71C ALA* 3.1 22.3 + - - +
72C GLY* 3.3 17.6 - - - +
74C GLN* 1.3 76.9 - - - +
76C LEU* 1.3 60.3 + - - +
78C GLY* 3.9 0.9 - - - -
79C ALA* 3.1 23.2 + - - +
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Residues in contact with LEU 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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8C LEU* 4.7 7.6 - - + -
10C THR* 4.2 9.4 - - + -
35C VAL* 4.4 11.9 - - + -
37C SER* 3.8 19.5 - - - +
63C VAL* 3.8 32.0 - - + +
65C ALA* 4.8 0.7 - - + -
67C LEU* 3.7 26.2 - - + -
72C GLY 3.3 7.0 + - - +
73C LEU* 3.2 9.0 + - + +
75C GLN* 1.3 78.4 - - - +
77C LEU* 1.3 63.2 + - - +
79C ALA* 3.2 11.1 + - + +
80C LEU* 3.2 14.7 + - + +
131C LEU* 3.8 36.6 - - + -
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Residues in contact with LEU 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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73C LEU* 2.9 34.6 + - + +
74C GLN* 3.7 31.9 - - - +
76C LEU* 1.3 74.8 - - - +
78C GLY* 1.3 63.1 + - - +
80C LEU* 3.3 25.1 + - + +
81C ARG* 3.3 31.2 + - - +
130C CYS* 4.0 18.2 - - + +
131C LEU* 4.1 14.8 - - + +
134C SER* 3.2 28.7 - - - +
112D SER* 4.8 10.8 - - - +
114D SER* 6.0 0.2 - - - -
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Residues in contact with GLY 78 (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 GLN 2.7 22.3 + - - -
75C GLN* 3.9 1.3 - - - -
77C LEU* 1.3 70.8 - - - +
79C ALA* 1.3 63.7 + - - +
80C LEU 3.3 0.7 + - - -
81C ARG* 3.5 22.3 + - - +
82C GLU* 3.2 19.9 + - - +
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Residues in contact with ALA 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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35C VAL* 5.8 1.3 - - + -
61C VAL* 5.3 6.0 - - + +
63C VAL* 3.9 27.8 - - + -
75C GLN 3.1 14.7 + - - +
76C LEU* 3.2 10.7 + - + +
78C GLY* 1.3 75.9 - - - +
80C LEU* 1.3 60.4 + - - +
82C GLU* 3.4 23.1 - - - +
83C LEU* 3.6 19.2 + - + +
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Residues in contact with LEU 80 (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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8C LEU* 3.6 24.2 - - + -
35C VAL* 5.9 0.7 - - + -
76C LEU* 3.2 17.0 + - + +
77C LEU* 3.3 16.4 - - + +
78C GLY 3.1 0.4 - - - -
79C ALA* 1.3 72.9 - - - +
81C ARG* 1.3 58.8 + - + +
82C GLU 2.9 10.9 + - - -
83C LEU* 3.2 32.9 + - + +
131C LEU* 3.9 17.5 - - + -
134C SER* 4.3 15.9 - - - +
135C VAL* 3.4 39.7 - - + +
138C ALA* 4.8 11.3 - - + +
139C PHE* 4.7 10.3 - - + -
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Residues in contact with ARG 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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74C GLN* 4.2 11.3 + - - -
77C LEU* 3.3 45.0 + - - +
78C GLY* 3.5 15.6 + - - +
80C LEU* 1.3 79.1 - - + +
82C GLU* 1.3 56.8 + - + +
83C LEU 3.6 2.7 + - - +
134C SER* 6.1 4.4 - - - -
138C ALA* 5.3 11.0 - - + -
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Residues in contact with GLU 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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78C GLY 3.2 20.3 - - - +
79C ALA* 3.4 15.3 - - - +
80C LEU 2.9 1.2 - - - -
81C ARG* 1.3 79.5 - - + +
83C LEU* 1.3 61.6 + - - +
84C PRO* 3.9 2.8 - - - +
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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