Contacts of the helix formed by residues 51 - 69 (chain C) in PDB entry 2O1X
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 HIS 51 (chain C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45C CYS* 3.9 2.3 - - - -
49C GLY 4.0 1.9 - - - -
50C LEU* 1.3 84.3 - - - +
52C LEU* 1.3 70.1 + - - +
53C ALA 3.9 0.4 - - - -
54C SER* 4.8 4.5 - - - +
55C SER* 3.5 15.2 + - - -
82C HIS* 4.0 46.6 - + + +
85C TYR* 3.6 12.5 - + - -
101C LYS* 3.9 26.0 + - + +
108C GLY 5.3 1.3 - - - -
109C PHE* 4.3 15.6 - + - -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 52 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41C ILE* 4.3 0.5 - - - +
42C VAL* 6.4 2.2 - - + -
45C CYS* 3.4 44.2 - - + +
46C SER* 4.9 6.1 - - - +
49C GLY* 6.4 0.7 - - - -
50C LEU 5.5 3.4 - - - +
51C HIS* 1.3 80.1 - - - +
53C ALA* 1.3 66.5 + - + +
54C SER 3.5 0.5 + - - -
55C SER* 3.7 5.4 + - - -
56C LEU* 3.6 24.3 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 53 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52C LEU* 1.3 78.4 - - + +
54C SER* 1.3 65.4 + - - +
55C SER 3.3 0.2 - - - -
56C LEU* 3.1 19.1 + - + +
57C GLY* 3.1 21.1 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with SER 54 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51C HIS* 4.5 7.0 + - - +
52C LEU 3.4 0.6 - - - -
53C ALA* 1.3 77.4 - - - +
55C SER* 1.3 62.9 + - - +
57C GLY* 3.6 1.6 + - - -
58C ALA* 3.5 13.3 + - - +
82C HIS* 2.8 45.7 + - - -
83C GLN* 3.6 18.0 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with SER 55 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41C ILE* 4.2 10.8 - - - -
51C HIS 3.5 8.8 + - - -
52C LEU 3.7 6.7 + - - -
54C SER* 1.3 75.1 - - - +
56C LEU* 1.3 66.9 + - - +
58C ALA* 2.9 14.2 + - - +
59C VAL* 3.1 16.2 + - - +
62C ILE* 4.9 0.7 - - - +
82C HIS 3.3 12.8 + - - -
83C GLN* 3.6 14.7 - - - +
85C TYR* 3.1 41.4 - - - -
86C ALA 4.9 0.9 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 56 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38C ARG* 3.4 54.5 + - + +
41C ILE* 4.1 13.9 - - + -
42C VAL* 3.9 25.4 - - + -
52C LEU* 3.6 14.6 - - + +
53C ALA* 3.1 26.3 + - + +
55C SER* 1.3 79.6 - - - +
57C GLY* 1.3 59.7 + - - +
59C VAL* 3.4 13.3 + - - +
60C ASP* 4.9 0.3 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 57 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53C ALA 3.1 13.4 + - - -
54C SER 3.6 2.4 + - - -
55C SER 3.2 0.2 - - - -
56C LEU* 1.3 75.8 - - - +
58C ALA* 1.3 58.2 + - - +
59C VAL 3.4 0.4 - - - -
60C ASP* 4.6 8.1 + - - +
61C ILE* 5.1 2.1 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 58 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
54C SER 3.5 11.2 + - - +
55C SER 2.9 9.4 + - - +
57C GLY* 1.3 76.6 - - - +
59C VAL* 1.3 63.3 + - - +
60C ASP 3.3 2.7 - - - -
61C ILE* 3.2 16.1 - - + +
62C ILE* 3.1 30.9 + - + +
78C PHE* 5.6 1.3 - - + -
83C GLN* 3.8 29.2 - - + +
151C VAL* 6.0 2.7 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 59 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34C THR* 4.0 20.6 - - + +
37C LEU* 4.6 9.0 - - + -
38C ARG* 3.3 32.5 - - + +
41C ILE* 3.7 27.8 - - + -
55C SER 3.2 15.7 - - - +
56C LEU* 3.4 10.5 - - - +
57C GLY 3.4 1.4 - - - -
58C ALA* 1.3 76.9 - - - +
60C ASP* 1.3 52.6 + - - +
61C ILE 3.3 0.7 + - - -
62C ILE* 4.1 0.5 - - - +
63C THR* 2.6 38.8 + - + +
86C ALA* 3.9 18.1 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 60 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34C THR* 3.1 25.1 + - - +
38C ARG* 2.7 20.4 + - - -
56C LEU 4.9 1.7 - - - +
57C GLY 4.6 6.4 + - - +
58C ALA 3.3 0.8 - - - -
59C VAL* 1.3 76.3 - - - +
61C ILE* 1.3 56.9 + - + +
63C THR* 3.4 12.5 + - - -
64C ALA* 3.9 13.0 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 61 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57C GLY 5.1 1.8 + - - +
58C ALA* 3.2 28.0 - - + +
60C ASP* 1.3 80.2 - - - +
62C ILE* 1.3 62.2 + - + +
63C THR 3.3 1.1 - - - -
64C ALA* 3.4 9.9 + - + +
65C LEU* 2.9 47.8 + - + +
151C VAL* 5.2 14.8 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 62 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55C SER 4.9 0.4 - - - +
58C ALA* 3.1 25.9 + - + +
59C VAL 4.1 3.1 - - - +
61C ILE* 1.3 76.2 - - + +
63C THR* 1.3 64.7 + - - +
65C LEU* 3.1 10.0 + - + +
66C HIS* 3.0 30.3 + - + +
78C PHE* 3.8 26.9 - - + -
83C GLN 3.5 24.9 - - - +
84C ALA* 4.5 0.7 - - - -
86C ALA* 3.5 42.4 - - + +
87C HIS* 3.5 20.0 - - + +
90C LEU* 3.9 5.8 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with THR 63 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22C LEU* 4.2 7.7 - - + +
30C LEU* 4.7 16.6 - - + +
33C LEU* 5.4 6.1 - - + -
34C THR* 4.3 19.0 + - - +
37C LEU* 3.7 29.4 - - + -
59C VAL* 2.6 26.8 + - + +
60C ASP* 3.4 12.5 + - - -
62C ILE* 1.3 76.7 - - - +
64C ALA* 1.3 58.2 + - - +
65C LEU 3.1 0.4 + - - -
66C HIS* 3.5 0.7 + - - -
67C TYR* 3.1 28.8 + - - +
86C ALA* 5.7 0.7 - - + -
90C LEU* 4.1 13.0 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 64 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30C LEU* 5.6 8.3 - - + -
60C ASP 3.9 15.7 - - - +
61C ILE* 3.4 13.5 + - + +
62C ILE 3.3 0.4 - - - -
63C THR* 1.3 78.9 + - - +
65C LEU* 1.3 58.2 + - - +
67C TYR* 4.1 9.4 - - + -
68C VAL* 3.2 30.1 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 65 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61C ILE* 2.9 39.2 + - + +
62C ILE* 3.1 9.6 + - - +
64C ALA* 1.3 78.4 - - - +
66C HIS* 1.3 60.7 + - + +
67C TYR 3.2 1.6 - - - -
68C VAL* 4.3 2.1 - - + +
69C LEU* 3.1 41.1 + - + +
76C ILE* 4.1 24.3 - - + +
78C PHE* 5.0 2.7 - - + -
149C ALA* 4.3 23.3 - - + -
151C VAL* 3.7 30.5 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with HIS 66 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19C PRO* 3.5 32.0 - - + +
22C LEU* 3.8 22.0 - - + -
23C LYS* 3.3 14.9 + - - -
62C ILE* 3.0 33.5 + - + +
65C LEU* 1.3 75.9 - - + +
67C TYR* 1.3 61.5 + - - +
69C LEU 3.4 7.4 + - - +
71C SER* 3.9 12.3 + - - -
76C ILE* 3.9 23.0 - - + +
78C PHE* 5.6 0.4 - - - -
87C HIS* 2.8 34.2 + + - -
90C LEU* 4.2 17.7 - - + -
91C THR* 3.5 21.8 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 67 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22C LEU* 3.9 20.8 - - + +
23C LYS* 3.2 36.0 + - + +
25C LEU 3.4 24.2 + - - -
26C SER* 4.7 4.0 - - - -
27C ARG* 3.3 39.7 + - - +
30C LEU* 3.9 32.1 - - + -
63C THR 3.1 19.1 + - - +
64C ALA* 4.3 7.0 - - + -
65C LEU 3.2 0.4 - - - -
66C HIS* 1.3 78.5 - - - +
68C VAL* 1.3 69.5 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 68 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23C LYS* 3.0 12.7 + - - -
64C ALA 3.2 20.3 + - - +
65C LEU* 3.5 3.4 + - + +
66C HIS 3.4 0.4 - - - -
67C TYR* 1.3 88.9 - - + +
69C LEU* 1.3 75.7 + - + +
70C ASP* 3.9 1.2 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 69 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19C PRO* 4.8 0.9 - - - +
23C LYS* 3.6 1.8 - - - -
65C LEU* 3.1 22.2 + - + +
66C HIS* 3.4 20.4 + - - +
68C VAL* 1.3 93.3 - - + +
70C ASP* 1.3 60.6 + - - +
71C SER 3.4 5.5 + - - -
74C ASP* 3.1 38.6 - - + +
75C ARG 5.2 0.2 - - - +
76C ILE* 4.8 10.4 - - + +
147C HIS* 4.6 20.2 - - + +
149C ALA* 4.0 26.5 - - + -
----------------------------------------------------------
Back to top of page
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