Contacts of the strand formed by residues 74 - 82 (chain C) in PDB entry 4CZ2
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 LEU 74 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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22C ARG 3.0 11.3 + - - +
23C GLU* 3.2 22.4 - - + +
24C HIS* 2.8 26.0 + - - -
66C VAL* 4.2 10.1 - - + -
67C LEU 2.7 37.5 - - - +
68C ASN* 3.6 22.0 - - - +
73C THR* 1.3 73.8 - - - +
75C VAL* 1.3 70.1 - - - +
76C ARG* 3.5 39.7 - - + +
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Residues in contact with VAL 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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24C HIS* 3.6 24.7 - - + +
26C PHE* 4.6 7.0 - - + -
65C LYS 4.0 0.2 - - - +
66C VAL* 3.5 1.7 - - - -
67C LEU* 2.6 61.5 + - + +
69C TRP* 4.2 20.4 - - + -
73C THR* 4.3 3.8 - - + -
74C LEU* 1.3 79.2 - - - +
76C ARG* 1.3 62.3 + - - +
77C LEU* 4.2 20.4 - - + -
189C VAL* 4.3 24.2 - - + -
193C LEU* 4.5 5.6 - - + -
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Residues in contact with ARG 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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23C GLU* 3.4 37.6 + - - +
24C HIS 3.1 14.3 + - - +
25C LEU* 3.3 29.9 - - + +
26C PHE* 2.9 25.6 + - - +
64C LEU* 4.9 11.5 - - + +
65C LYS 3.3 4.3 - - - -
66C VAL* 3.4 28.5 - - + +
74C LEU* 3.5 17.9 - - + +
75C VAL* 1.3 76.0 - - - +
77C LEU* 1.3 63.9 + - - +
78C GLN 4.1 0.2 - - - -
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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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26C PHE* 3.5 19.5 - - + -
28C VAL* 3.2 33.7 - - + -
45C TYR* 4.5 9.2 - - + +
63C ALA 3.5 2.1 - - - +
64C LEU* 3.3 11.3 - - - +
65C LYS* 2.6 48.0 + - + +
67C LEU* 3.8 25.8 - - + -
75C VAL* 4.2 7.9 - - + -
76C ARG* 1.3 74.7 - - - +
78C GLN* 1.3 59.7 + - - +
79C LEU* 3.6 12.1 + - + +
185C ALA* 5.7 1.1 - - + -
188C LEU* 6.1 0.2 - - + -
189C VAL* 3.7 22.9 - - + -
192C MSE 3.8 9.6 - - + -
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Residues in contact with GLN 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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25C LEU* 3.8 21.4 - - + +
26C PHE 2.9 11.6 + - - +
27C LYS* 3.6 13.9 - - - +
28C VAL* 2.7 31.4 + - - +
63C ALA 3.7 3.6 - - - -
64C LEU* 4.7 7.6 - - + -
76C ARG 4.1 0.8 + - - -
77C LEU* 1.3 69.4 - - - +
79C LEU* 1.3 61.4 + - - +
80C TRP* 3.5 21.2 + - + +
550F TYR* 3.3 46.9 + - + +
552F ASP* 6.0 0.2 - - - -
553F VAL* 3.0 34.9 - - - +
587F ASN* 5.4 0.6 - - - +
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Residues in contact with LEU 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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28C VAL* 3.5 32.1 - - + +
30C VAL* 4.3 12.1 - - + -
42C ILE* 4.3 24.4 - - + +
45C TYR* 4.2 19.7 - - + -
46C VAL* 3.9 27.8 - - + -
62C PHE* 3.3 7.8 - - - +
63C ALA* 2.6 43.9 + - + +
65C LYS* 4.3 9.9 - - + -
77C LEU* 4.4 10.1 - - + +
78C GLN* 1.3 73.0 - - - +
80C TRP* 1.3 63.1 + - - +
81C ASP* 3.6 3.3 + - - +
103C PHE* 5.0 9.0 - - + -
550F TYR* 5.7 0.6 - - - -
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Residues in contact with TRP 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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27C LYS* 3.1 45.8 - - + +
28C VAL 2.8 14.1 + - - +
29C LEU* 3.9 12.6 - - + -
30C VAL* 2.9 30.9 + - - +
60C VAL* 4.2 9.0 - - + -
61C ASP 3.8 3.1 - - - -
62C PHE* 3.4 38.6 - + - -
78C GLN* 3.5 26.4 + - + +
79C LEU* 1.3 72.6 - - - +
81C ASP* 1.3 62.7 + - - +
82C ILE* 3.5 7.2 + - + +
94C VAL 4.8 1.8 - - - -
95C TYR* 3.4 45.1 - + + -
513F LEU* 4.7 7.0 - - + -
550F TYR 3.7 19.7 + - - -
551F TYR* 4.6 22.9 - + - -
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Residues in contact with ASP 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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30C VAL 4.2 2.2 - - - -
38C LYS* 3.9 15.9 - - - +
39C THR* 2.5 42.3 + - - +
42C ILE* 3.6 25.8 - - + +
57C THR* 4.1 5.2 + - - +
60C VAL* 3.2 7.1 - - - +
61C ASP* 2.8 58.9 + - + +
62C PHE* 5.2 1.1 - - - -
79C LEU 3.6 1.9 + - - +
80C TRP* 1.3 70.3 - - - +
82C ILE* 1.3 65.3 + - - +
83C ALA 3.7 1.4 + - - -
1199C MG 4.1 2.8 - - - -
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Residues in contact with ILE 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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29C LEU* 3.8 22.2 - - + -
30C VAL 3.2 12.9 + - - +
31C ILE* 3.9 17.2 - - + -
32C GLY 4.4 0.9 - - - +
38C LYS* 3.1 20.2 - - - +
59C GLY 4.1 2.9 - - - -
60C VAL* 4.4 7.9 - - + +
80C TRP* 3.5 14.6 - - + +
81C ASP* 1.3 79.0 + - - +
83C ALA* 1.3 76.2 + - - +
84C GLY* 4.1 1.0 - - - -
86C GLU* 4.2 14.6 - - + -
92C THR* 5.0 2.2 - - + -
95C TYR* 3.6 39.7 - - + -
96C TYR* 4.2 4.9 - - + -
120C TRP* 4.3 11.8 - - + -
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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