Contacts of the helix formed by residues 73 - 90 (chain C) in PDB entry 1Q0K
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 73 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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71C TYR* 3.0 33.3 - - - -
72C PRO* 1.3 77.5 - - - +
74C LEU* 1.3 60.7 + - - +
75C HIS 3.5 0.9 - - - -
76C THR* 3.3 10.7 + - - -
77C LEU* 2.8 35.6 + - + +
110C ILE* 4.1 16.9 - - + +
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Residues in contact with LEU 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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63C PHE* 3.8 36.6 - - + -
67C HIS* 4.2 16.6 - - + +
68C PHE* 3.6 30.3 - - + -
71C TYR* 2.9 19.3 + - + +
72C PRO 3.4 0.2 - - - -
73C GLU* 1.3 80.1 - - - +
75C HIS* 1.3 63.5 + - - +
77C LEU* 3.1 10.7 + - + +
78C VAL* 3.0 42.3 + - + +
107C ILE* 5.2 2.5 - - + -
110C ILE* 3.9 33.9 - - + -
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Residues in contact with HIS 75 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59B TRP* 3.8 5.2 - - - -
75B HIS* 3.5 53.6 + + + +
76B THR* 4.0 17.4 + - - -
79B ASN* 4.0 7.4 - - + -
59C TRP* 2.9 33.4 + - - +
68C PHE* 3.4 48.5 - + + +
71C TYR 4.8 0.2 + - - -
72C PRO 4.7 6.7 + - - +
73C GLU 3.5 0.8 - - - -
74C LEU* 1.3 78.1 - - - +
76C THR* 1.3 63.4 + - - +
78C VAL* 3.4 0.3 + - - -
79C ASN* 3.0 25.1 + - - +
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Residues in contact with THR 76 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
75B HIS* 4.3 14.1 + - - -
72C PRO 5.2 3.3 + - - -
73C GLU* 3.3 12.7 + - - -
74C LEU 3.3 0.6 - - - -
75C HIS* 1.3 77.7 - - - +
77C LEU* 1.3 57.5 + - - +
79C ASN* 3.5 6.1 + - - +
80C GLU* 2.9 58.1 + - + +
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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
----------------------------------------------------------
73C GLU* 2.8 24.7 + - + +
74C LEU* 3.1 8.7 + - + +
76C THR* 1.3 74.2 - - - +
78C VAL* 1.3 65.9 + - - +
80C GLU* 3.3 10.1 + - - +
81C ALA* 3.0 22.0 + - - +
103C TYR* 3.6 23.8 - - + +
106C GLN* 3.3 35.0 - - + +
107C ILE* 3.5 34.3 - - + +
110C ILE* 3.9 25.4 - - + -
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Residues in contact with VAL 78 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59B TRP* 3.7 21.3 - - + -
55C LEU* 4.2 22.0 - - + +
59C TRP* 3.8 30.1 - - + -
63C PHE* 4.9 9.2 - - + -
74C LEU* 3.0 32.9 + - + +
75C HIS 4.0 1.3 - - - +
77C LEU* 1.3 74.8 - - - +
79C ASN* 1.3 62.7 + - - +
81C ALA* 3.0 4.3 + - - +
82C VAL* 3.0 23.3 + - + +
107C ILE* 3.9 20.2 - - + -
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Residues in contact with ASN 79 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59B TRP* 2.9 60.7 + - + +
60B SER* 4.1 1.6 - - - +
65B PRO* 5.8 1.4 - - - +
68B PHE* 3.6 17.2 - - - -
75B HIS* 4.2 5.4 - - + -
75C HIS 3.0 18.6 + - - +
76C THR* 3.7 4.9 - - - +
78C VAL* 1.3 77.6 - - - +
80C GLU* 1.3 59.9 + - + +
82C VAL* 3.0 20.9 - - - +
83C LYS* 2.8 37.6 + - - +
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Residues in contact with GLU 80 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
76C THR* 2.9 46.7 + - + +
77C LEU* 3.6 10.9 - - - +
79C ASN* 1.3 77.0 - - + +
81C ALA* 1.3 57.5 + - - +
83C LYS* 3.4 8.2 + - + +
84C ALA* 2.9 29.8 + - - +
103C TYR* 3.7 37.9 + - + +
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Residues in contact with ALA 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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55C LEU* 3.8 21.1 - - + -
77C LEU 3.0 12.6 + - - +
78C VAL 3.0 9.4 + - - +
80C GLU* 1.3 74.5 - - - +
82C VAL* 1.3 65.5 + - - +
84C ALA* 3.2 4.7 + - - +
85C LEU* 3.1 24.9 + - - +
100C ALA* 4.6 1.8 - - - +
103C TYR* 3.7 28.2 - - + -
104C ILE* 5.0 2.5 - - + +
107C ILE* 3.8 11.9 - - + -
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Residues in contact with VAL 82 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59B TRP* 4.4 4.5 - - + -
60B SER* 3.4 33.4 - - - +
52C LYS* 3.8 17.6 - - + +
55C LEU* 4.2 22.7 - - + -
56C ASP* 3.8 20.4 - - - +
78C VAL* 3.0 13.8 + - + +
79C ASN* 3.0 24.2 - - - +
81C ALA* 1.3 75.5 - - - +
83C LYS* 1.3 62.9 + - - +
85C LEU* 3.1 12.6 + - - +
86C SER* 3.0 22.9 + - - -
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Residues in contact with LYS 83 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59B TRP 3.6 2.0 + - - -
60B SER 2.8 35.0 + - - +
61B ASP 4.8 1.8 - - - -
63B PHE 2.8 29.0 + - - -
64B LYS* 4.0 23.3 - - - +
65B PRO* 4.5 9.9 - - + -
68B PHE* 4.4 0.2 - - - -
79C ASN* 2.8 38.0 + - - +
80C GLU* 3.8 7.4 - - + +
82C VAL* 1.3 82.8 - - - +
84C ALA* 1.3 57.5 + - - +
86C SER* 3.2 11.0 + - - +
87C ALA* 3.0 25.8 + - - +
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Residues in contact with ALA 84 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
80C GLU 2.9 18.4 + - - +
81C ALA 3.4 6.3 - - - +
83C LYS* 1.3 76.0 - - - +
85C LEU* 1.3 58.8 + - - +
87C ALA* 3.3 9.2 + - - +
88C ALA* 3.0 24.9 + - - +
96C THR 4.3 4.0 - - - +
99C LYS* 4.6 9.6 - - + -
100C ALA* 3.9 26.8 - - - +
103C TYR* 3.9 15.5 - - + -
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Residues in contact with LEU 85 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18C ALA* 4.4 13.7 - - + -
21C VAL* 5.0 5.2 - - + -
48C ALA* 4.1 13.3 - - + +
51C ALA* 3.6 22.2 - - + -
52C LYS* 3.5 44.2 - - + +
55C LEU* 3.9 15.9 - - + -
81C ALA 3.1 17.7 + - - +
82C VAL* 3.1 7.8 + - - +
84C ALA* 1.3 76.0 - - - +
86C SER* 1.3 63.7 + - - +
88C ALA* 3.1 8.5 + - + +
89C LYS* 3.0 26.2 + - - +
100C ALA* 3.7 20.6 - - + -
104C ILE* 5.0 3.4 - - + -
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Residues in contact with SER 86 (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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3B ASP* 3.0 23.9 + - - +
60B SER 5.4 0.5 + - - -
61B ASP* 4.1 4.3 + - - -
52C LYS* 2.9 30.1 + - - +
82C VAL 3.0 8.6 + - - -
83C LYS* 3.2 13.9 + - - -
85C LEU* 1.3 75.7 - - - +
87C ALA* 1.3 62.5 + - - +
89C LYS* 3.4 16.0 + - - +
90C ALA* 3.4 13.9 + - - +
39E ARG* 5.1 1.0 + - - -
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Residues in contact with ALA 87 (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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83C LYS 3.0 12.0 + - - +
84C ALA* 3.5 12.6 - - - +
85C LEU 3.1 0.2 - - - -
86C SER* 1.3 79.2 - - - +
88C ALA* 1.3 61.7 + - - +
90C ALA* 3.6 6.8 + - - +
91C SER* 3.3 23.9 + - - -
96C THR* 4.1 12.7 - - + +
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Residues in contact with ALA 88 (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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21C VAL* 3.9 25.4 - - + -
25C GLN* 3.3 4.5 + - - +
44C LYS* 3.2 7.6 + - - +
48C ALA* 5.4 0.4 - - + -
84C ALA 3.0 13.4 + - - +
85C LEU* 3.1 15.9 + - + +
87C ALA* 1.3 76.1 - - - +
89C LYS* 1.3 64.3 + - - +
91C SER 2.9 20.3 - - - +
96C THR* 3.6 28.0 - - - +
97C GLY* 4.4 1.1 - - - -
100C ALA* 5.2 0.2 - - + -
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Residues in contact with LYS 89 (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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2B CYS 4.9 1.4 + - - -
3B ASP* 2.7 38.7 + - - +
44C LYS* 2.7 29.3 + - - +
45C GLU* 3.3 51.2 + - - +
48C ALA* 3.6 14.3 - - + +
49C GLU* 2.7 42.6 + - - +
52C LYS* 4.3 4.7 - - - +
85C LEU 3.0 16.7 + - - +
86C SER* 3.4 8.5 - - - +
87C ALA 3.3 0.2 - - - -
88C ALA* 1.3 77.4 - - - +
90C ALA* 1.3 57.7 + - - +
91C SER 3.2 0.3 + - - -
39E ARG* 3.4 21.7 + - - +
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Residues in contact with ALA 90 (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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4B LEU 5.0 2.0 - - - +
86C SER 3.4 12.0 + - - +
87C ALA* 3.6 5.6 + - - +
88C ALA 3.3 0.6 - - - -
89C LYS* 1.3 77.6 - - - +
91C SER* 1.3 59.1 + - - +
35E HIS* 5.9 2.9 - - - +
39E ARG* 3.4 29.8 - - - +
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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
------------------------------------------------------------
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