Contacts of the strand formed by residues 71 - 78 (chain G) in PDB entry 2ZNZ
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 ILE 71 (chain G).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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33G ILE* 4.9 3.8 - - + -
36G LEU* 3.9 28.5 - - + -
62G ILE* 4.2 10.3 - - + +
65G LEU* 3.0 32.1 + - + -
66G ARG* 3.7 29.5 - - + +
69G GLY* 4.0 4.6 - - - -
70G VAL* 1.3 72.2 - - - +
72G LYS* 1.3 64.0 + - - +
73G LYS* 3.6 20.9 - - - +
74G PHE* 3.9 27.6 - - + -
76H ALA* 3.9 12.3 - - + -
77H ILE 3.6 3.8 - - - +
78H ILE* 3.8 15.9 - - + -
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Residues in contact with LYS 72 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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69G GLY* 3.6 20.0 - - - +
71G ILE* 1.3 73.1 - - - +
73G LYS* 1.3 66.0 + - + +
77H ILE* 2.8 32.9 + - + +
78H ILE 4.3 8.5 - - - -
79H ASP* 3.8 25.4 + - - +
80H PRO* 4.6 10.3 - - - +
164H GLU* 4.4 18.4 + - - +
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Residues in contact with LYS 73 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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66G ARG* 6.1 2.5 - - - +
71G ILE* 3.4 6.8 - - - +
72G LYS* 1.3 85.5 - - + +
74G PHE* 1.3 67.3 + - - +
75G THR* 3.9 23.2 + - + -
37H GLN 3.2 14.6 + - - -
38H ASN* 3.7 15.8 + - - +
76H ALA* 3.6 3.1 - - - -
77H ILE* 2.8 45.2 + - + -
165H THR* 5.0 3.0 + - - -
166H THR* 5.2 2.7 + - - +
167H GLU* 2.7 34.4 + - - +
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Residues in contact with PHE 74 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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36G LEU* 4.3 14.8 - - + -
40G GLY* 4.6 7.2 - - - -
62G ILE* 4.1 12.1 - - + -
66G ARG* 3.5 43.9 - - + +
71G ILE* 3.9 28.5 - - + -
73G LYS* 1.3 82.5 - - - +
75G THR* 1.3 59.0 + - - +
39H ASP* 3.5 12.6 + - - +
40H GLY* 2.8 26.3 + - - +
41H LYS* 3.7 48.0 - - + +
75H THR 3.5 8.3 - - - +
76H ALA* 3.7 23.8 - - + -
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Residues in contact with THR 75 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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73G LYS* 3.9 8.3 - - + -
74G PHE* 1.3 76.0 - - - +
76G ALA* 1.3 68.0 + - - +
77G ILE* 3.8 12.6 + - + -
36H LEU 3.6 6.5 - - - -
37H GLN* 2.6 24.6 + - - +
40H GLY* 3.7 6.2 - - - +
74H PHE* 3.6 3.8 - - - -
75H THR* 3.2 30.4 + - + -
77H ILE* 3.8 29.2 - - + -
166H THR* 3.7 22.6 + - - +
167H GLU* 4.7 0.3 - - - +
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Residues in contact with ALA 76 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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75G THR* 1.3 81.3 + - - +
77G ILE* 1.3 62.7 + - - +
78G ILE* 3.6 12.5 + - + -
36H LEU* 3.0 36.6 + - + +
37H GLN* 3.8 15.2 - - - +
40H GLY* 4.1 1.0 - - - -
71H ILE* 3.9 21.5 - - + -
73H LYS 3.7 4.5 - - - -
74H PHE* 3.9 11.7 - - + -
166H THR* 5.1 2.3 + - - +
167H GLU* 6.1 0.2 - - - -
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Residues in contact with ILE 77 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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75G THR* 4.0 7.9 - - + -
76G ALA* 1.3 71.1 - - - +
78G ILE* 1.3 59.3 + - - +
166G THR* 4.1 15.9 - - + +
71H ILE* 3.6 3.3 - - - -
72H LYS* 2.8 52.5 + - + +
73H LYS* 2.8 35.1 + - + +
75H THR* 3.8 31.2 - - + -
166H THR* 3.9 30.5 - - - +
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Residues in contact with ILE 78 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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76G ALA* 3.6 13.0 + - + +
77G ILE* 1.3 80.5 - - - +
79G ASP* 1.3 76.5 + - - +
80G PRO* 3.3 8.1 - - - +
83G LEU* 3.9 22.7 - - + -
33H ILE* 3.7 25.1 - - + -
37H GLN* 3.5 36.5 + - + +
70H VAL* 3.4 16.8 - - + +
71H ILE* 3.8 28.7 - - + -
72H LYS* 3.8 6.2 - - - +
166H THR 5.6 3.0 + - - -
168H LEU* 3.7 11.4 - - + +
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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