Contacts of the helix formed by residues 43 - 67 (chain C) in PDB entry 2ZQK
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 LYS 43 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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24C ASP 2.9 26.1 + - - +
25C ASN* 2.9 21.6 + - - +
26C GLN 3.4 18.2 - - - +
27C LYS* 3.8 20.2 - - + +
41C VAL 3.9 2.0 + - - -
42C LEU* 1.3 72.0 - - - +
44C ASP* 1.3 54.9 + - - +
45C ASP* 2.6 13.9 + - + +
46C VAL* 2.6 38.5 + - + +
47C VAL 3.2 5.0 + - - -
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Residues in contact with ASP 44 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27C LYS* 3.3 28.2 + - - +
42C LEU 3.2 2.8 + - - -
43C LYS* 1.3 69.6 - - - +
45C ASP* 1.3 60.1 + - - +
46C VAL 3.1 2.7 + - - -
47C VAL* 3.6 22.2 + - + +
48C ALA* 3.8 14.9 + - - +
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Residues in contact with ASP 45 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43C LYS* 2.6 15.2 + - + +
44C ASP* 1.3 79.0 - - - +
46C VAL* 1.3 62.9 + - + +
48C ALA* 5.2 1.9 - - - +
49C ASN* 3.8 16.7 + - - +
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Residues in contact with VAL 46 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19C ALA* 4.5 9.9 - - + -
25C ASN* 4.5 25.4 - - + +
42C LEU* 4.7 9.9 - - + -
43C LYS* 2.6 29.1 + - + +
45C ASP* 1.3 81.0 - - + +
47C VAL* 1.3 65.3 + - - +
48C ALA 3.1 1.6 - - - -
49C ASN* 3.7 10.8 - - + +
50C ILE* 2.9 55.5 + - + +
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Residues in contact with VAL 47 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41C VAL* 5.0 7.0 - - + -
42C LEU* 3.3 31.4 - - + +
43C LYS 3.2 0.8 + - - -
44C ASP* 3.6 19.3 + - + +
46C VAL* 1.3 76.5 - - - +
48C ALA* 1.3 51.7 + - - +
50C ILE* 3.6 6.7 - - - +
51C GLU* 2.8 44.6 + - + +
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Residues in contact with ALA 48 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44C ASP 3.8 13.1 + - - +
45C ASP 5.2 2.5 - - - -
46C VAL 3.1 0.2 - - - -
47C VAL* 1.3 77.6 - - - +
49C ASN* 1.3 53.8 + - - +
50C ILE 2.7 14.4 + - - -
51C GLU* 4.1 6.3 - - - +
52C GLU* 2.8 30.6 + - + +
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Residues in contact with ASN 49 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
15C LEU* 5.3 0.2 - - - +
45C ASP 3.8 18.3 + - - +
46C VAL* 3.3 13.1 + - + +
48C ALA* 1.3 77.2 - - - +
50C ILE* 1.3 61.4 + - - +
52C GLU* 4.5 9.6 - - - +
53C GLN* 3.9 26.7 + - - +
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Residues in contact with ILE 50 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12C ARG* 3.8 9.6 - - + +
15C LEU* 3.6 45.8 - - + +
16C THR* 3.2 26.5 - - - +
19C ALA* 3.6 13.9 - - + -
42C LEU* 4.4 4.7 - - + -
46C VAL* 2.9 43.0 + - + +
47C VAL* 3.6 6.3 - - - +
48C ALA 2.7 0.4 - - - -
49C ASN* 1.3 84.4 - - - +
51C GLU* 1.3 65.6 + - - +
52C GLU 3.2 1.6 - - - -
53C GLN 3.8 2.1 + - - +
54C ALA* 3.3 20.6 + - - +
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Residues in contact with GLU 51 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8C GLU* 4.6 5.4 - - - +
12C ARG* 2.7 42.3 + - - +
47C VAL* 2.8 28.2 + - + +
48C ALA* 3.0 6.0 + - - +
50C ILE* 1.3 77.0 - - - +
52C GLU* 1.3 61.7 + - - +
54C ALA* 3.6 14.8 + - - +
55C LYS* 3.4 20.9 + - - +
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Residues in contact with GLU 52 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48C ALA* 2.8 18.7 + - + +
49C ASN* 4.6 7.7 - - - +
51C GLU* 1.3 79.0 - - - +
53C GLN* 1.3 74.2 + - - +
54C ALA 3.2 2.5 + - - -
55C LYS* 3.7 9.6 + - - +
56C ALA* 3.5 22.5 + - - +
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Residues in contact with GLN 53 (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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11C THR* 3.9 4.5 + - - -
15C LEU* 3.8 29.1 - - + +
49C ASN* 3.9 25.2 + - - +
50C ILE 3.8 3.7 + - - -
52C GLU* 1.3 89.1 - - + +
54C ALA* 1.3 62.5 + - - +
55C LYS 3.3 1.3 - - - -
56C ALA* 4.0 10.5 - - + +
57C ALA* 3.4 19.8 + - - +
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Residues in contact with ALA 54 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8C GLU* 3.0 29.0 - - + +
11C THR* 3.1 21.7 - - - +
12C ARG* 3.2 39.7 - - + +
15C LEU* 4.9 0.2 - - - -
50C ILE 3.3 13.4 + - - +
51C GLU 3.6 8.7 - - - +
52C GLU 3.2 0.6 - - - -
53C GLN* 1.3 79.9 - - - +
55C LYS* 1.3 62.1 + - - +
57C ALA* 3.5 3.5 - - - +
58C GLY 3.6 0.5 + - - -
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Residues in contact with LYS 55 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8C GLU* 3.1 22.3 + - - +
51C GLU* 3.4 23.4 + - - +
52C GLU* 3.7 8.8 + - - +
53C GLN 3.3 0.2 - - - -
54C ALA* 1.3 77.3 - - - +
56C ALA* 1.3 50.6 + - - +
57C ALA 2.7 5.2 + - - -
58C GLY* 2.5 24.4 + - - -
59C GLU* 2.7 17.4 + - + +
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Residues in contact with ALA 56 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52C GLU* 3.5 20.5 + - - +
53C GLN* 4.0 11.0 - - + -
54C ALA 3.6 0.2 - - - -
55C LYS* 1.3 77.0 - - - +
57C ALA* 1.3 57.1 + - - +
58C GLY 3.3 0.2 - - - -
59C GLU* 3.9 12.6 - - - +
60C GLU* 3.9 19.8 + - - +
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Residues in contact with ALA 57 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7C THR* 3.5 10.4 + - - +
11C THR* 3.3 42.8 - - + +
53C GLN 3.4 10.0 + - - +
54C ALA 3.5 1.3 - - - +
55C LYS 2.7 0.4 + - - -
56C ALA* 1.3 77.9 - - - +
58C GLY* 1.3 58.5 + - - +
59C GLU 3.4 0.4 - - - -
60C GLU* 5.8 0.2 - - - -
61C ALA* 3.0 20.9 + - - +
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Residues in contact with GLY 58 (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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5C SER* 3.7 13.5 + - - -
7C THR* 3.4 19.3 - - - -
8C GLU* 4.6 2.9 - - - -
54C ALA 3.6 4.3 + - - -
55C LYS* 2.5 18.0 + - - -
57C ALA* 1.3 73.2 - - - +
59C GLU* 1.3 60.9 + - - +
60C GLU 3.7 0.2 - - - -
61C ALA* 3.7 4.3 - - - +
62C LYS* 3.4 20.8 + - - +
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Residues in contact with GLU 59 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55C LYS* 2.7 14.0 + - + +
56C ALA* 4.0 13.0 - - - +
57C ALA 3.4 0.2 - - - -
58C GLY* 1.3 75.0 - - - +
60C GLU* 1.3 60.4 + - + +
61C ALA 3.0 3.8 - - - -
62C LYS* 2.9 12.2 + - - +
63C GLN* 2.8 37.2 + - + +
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Residues in contact with GLU 60 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56C ALA 3.9 12.6 + - - +
57C ALA* 5.8 0.7 - - - -
59C GLU* 1.3 76.8 - - + +
61C ALA* 1.3 55.8 + - - +
62C LYS 3.0 5.6 - - - -
63C GLN* 3.9 12.6 - - + -
64C GLN* 3.0 42.1 + - + +
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Residues in contact with ALA 61 (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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7C THR* 3.4 26.9 - - + +
57C ALA 3.0 26.3 + - - +
58C GLY* 3.7 4.5 - - - +
59C GLU 3.0 0.6 - - - -
60C GLU* 1.3 77.3 - - - +
62C LYS* 1.3 59.2 + - - +
64C GLN* 4.8 1.5 - - - +
65C ALA* 3.3 19.9 + - - +
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Residues in contact with LYS 62 (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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58C GLY 3.4 11.0 + - - +
59C GLU* 2.9 13.6 + - - +
61C ALA* 1.3 79.7 - - - +
63C GLN* 1.3 52.6 + - - +
64C GLN 2.7 3.9 + - - -
65C ALA* 2.6 12.8 + - + +
66C ILE* 2.6 48.8 + - + +
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Residues in contact with GLN 63 (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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59C GLU* 2.8 30.5 + - + +
60C GLU* 4.1 11.0 - - + -
62C LYS* 1.3 72.3 - - + +
64C GLN* 1.3 52.9 + - - +
66C ILE* 2.9 27.0 - - - +
67C GLU* 2.7 46.8 - - - +
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Residues in contact with GLN 64 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60C GLU* 3.0 36.4 + - + +
61C ALA* 4.8 1.8 - - - -
62C LYS 2.7 5.5 + - - -
63C GLN* 1.3 73.4 - - + +
65C ALA* 1.3 57.7 + - - +
66C ILE 2.9 9.0 + - - -
67C GLU* 3.0 54.3 + - - +
68C ASN* 3.1 9.2 + - - +
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Residues in contact with ALA 65 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61C ALA 3.3 21.2 + - - +
62C LYS* 2.6 16.4 + - + +
64C GLN* 1.3 70.0 - - - +
66C ILE* 1.3 55.8 + - - +
68C ASN* 2.6 26.4 + - - +
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Residues in contact with ILE 66 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62C LYS* 2.6 24.0 + - + +
63C GLN* 2.9 42.2 - - - +
65C ALA* 1.3 81.0 - - - +
67C GLU* 1.3 63.9 + - + +
68C ASN* 2.5 25.9 + - - +
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Residues in contact with GLU 67 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63C GLN* 2.7 38.5 - - - +
64C GLN* 3.0 35.7 + - - +
66C ILE* 1.3 81.3 - - + +
68C ASN* 1.3 73.3 + - - +
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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
------------------------------------------------------------
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) + - + + + + + -
------------------------------------------------------------
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