Contacts of the helix formed by residues 66 - 86 (chain H) in PDB entry 2HQT
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 THR 66 (chain H).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10H PHE* 3.9 9.0 - - - -
60H VAL* 4.1 8.4 - - + +
62H THR* 3.9 29.8 - - + +
64H TYR 3.9 1.8 - - - +
65H PRO* 1.3 77.1 - - - +
67H SER* 1.3 56.9 - - - +
68H THR* 3.4 20.4 + - - -
69H ASP* 2.8 34.9 + - - +
70H VAL* 3.1 12.6 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with SER 67 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7H VAL* 6.5 0.9 - - - -
10H PHE* 3.9 18.4 - - - -
66H THR* 1.3 72.4 - - - +
68H THR* 1.3 56.9 + - - +
70H VAL* 3.2 6.4 + - - +
71H HIS* 2.8 55.9 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with THR 68 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31H ALA 4.8 9.6 + - - +
33H TRP* 3.9 29.6 - - + -
34H GLU 5.8 0.4 - - - +
59H ILE* 3.9 12.5 - - + +
60H VAL* 3.8 24.3 - - + +
66H THR* 3.1 12.5 + - - -
67H SER* 1.3 75.0 - - - +
69H ASP* 1.3 65.8 + - - +
71H HIS* 4.2 6.4 + - - +
72H VAL* 3.2 25.0 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 69 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58H PHE* 3.6 15.0 - - - +
59H ILE* 2.9 27.9 + - - +
60H VAL 4.9 0.7 + - - -
62H THR* 4.6 0.7 + - - -
65H PRO* 3.5 7.9 - - + +
66H THR* 2.8 42.4 + - - +
68H THR* 1.3 75.0 - - - +
70H VAL* 1.3 63.1 + - - +
73H PHE* 3.0 26.9 + - - +
103H TRP* 2.9 34.0 + - - +
107H MET* 3.9 18.4 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 70 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
6H LEU* 3.8 32.5 - - + +
7H VAL* 4.1 11.7 - - + +
10H PHE* 3.5 39.3 - - + -
66H THR 3.1 10.2 + - - +
67H SER* 3.2 7.6 + - - +
69H ASP* 1.3 77.4 - - - +
71H HIS* 1.3 61.9 + - + +
73H PHE* 3.4 4.3 + - - +
74H GLU* 3.0 30.1 + - - +
107H MET* 4.0 18.2 - - + -
111H LEU* 4.3 10.3 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with HIS 71 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
4H SER 6.3 0.2 - - - -
7H VAL* 4.6 20.1 - - + +
37H LEU* 5.8 7.0 - - + -
67H SER* 2.8 41.4 + - - +
68H THR* 4.2 6.0 + - - +
70H VAL* 1.3 80.8 - - + +
72H VAL* 1.3 67.0 + - + +
73H PHE 3.5 0.2 + - - -
74H GLU* 3.6 24.7 + - - +
75H VAL* 3.7 12.1 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 72 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33H TRP* 4.0 34.3 - - + +
37H LEU* 6.1 1.6 - - + -
42H ILE* 4.3 20.9 - - + +
49H LEU* 3.8 22.9 - - + -
59H ILE* 3.6 21.3 - - + -
68H THR* 3.2 18.0 + - + +
71H HIS* 1.3 78.5 - - + +
73H PHE* 1.3 54.0 + - - +
75H VAL* 3.2 5.0 + - - +
76H ALA* 2.8 31.6 + - + +
103H TRP* 3.8 14.6 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 73 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
6H LEU* 4.0 15.9 - - + -
69H ASP 3.0 19.4 + - - +
70H VAL* 3.5 4.7 - - - +
71H HIS 3.3 0.2 - - - -
72H VAL* 1.3 74.9 - - - +
74H GLU* 1.3 61.3 + - - +
76H ALA* 4.3 0.9 - - - -
77H LEU* 2.9 58.0 + - + +
103H TRP* 3.5 17.1 - + + -
104H ILE* 3.9 28.3 - - + -
107H MET* 3.4 24.0 - - + -
108H GLN* 3.6 30.1 - - + -
111H LEU* 3.9 22.4 - - + -
113H VAL* 4.0 15.9 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 74 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
4H SER* 3.2 33.5 + - - -
5H ASP 4.8 0.2 + - - -
6H LEU* 4.1 34.1 + - + +
7H VAL* 5.0 1.7 + - - +
70H VAL* 3.0 19.1 + - - +
71H HIS* 3.7 20.3 - - - +
72H VAL 3.3 0.4 - - - -
73H PHE* 1.3 77.4 - - - +
75H VAL* 1.3 60.6 - - + +
77H LEU* 5.5 0.2 - - - -
78H PRO* 3.3 21.2 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 75 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37H LEU* 6.2 5.4 - - + -
42H ILE* 3.1 42.2 - - + -
71H HIS 3.7 10.7 + - - +
72H VAL 3.2 7.4 + - - +
73H PHE 3.1 0.2 - - - -
74H GLU* 1.3 84.4 - - + +
76H ALA* 1.3 62.4 + - - +
78H PRO* 3.3 10.2 - - - +
79H LEU* 3.5 12.7 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 76 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42H ILE* 5.0 3.1 - - + +
46H LEU* 4.9 8.3 - - + -
49H LEU* 4.5 14.8 - - + -
72H VAL* 2.8 22.4 + - + +
73H PHE 4.2 1.3 - - - +
75H VAL* 1.3 72.1 - - - +
77H LEU* 1.3 67.8 + - - +
79H LEU* 3.1 9.2 + - - +
80H ILE* 2.8 32.8 + - + +
100H ILE* 5.0 1.1 - - + -
103H TRP* 4.2 20.9 - - + -
104H ILE* 4.6 3.4 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 77 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
6H LEU* 5.9 1.8 - - + -
73H PHE* 2.9 49.8 + - + +
74H GLU* 5.5 0.4 - - - -
76H ALA* 1.3 73.5 - - - +
78H PRO* 1.4 66.1 - - + +
80H ILE* 3.8 1.4 - - - +
81H LYS* 3.0 38.5 + - + +
104H ILE* 3.9 22.8 - - + +
108H GLN* 3.9 5.4 - - - +
113H VAL* 4.2 16.4 - - + -
117H ASP* 3.7 18.2 - - + +
119H LEU* 3.8 30.7 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with PRO 78 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
74H GLU 3.3 25.4 - - - +
75H VAL* 3.3 9.6 - - - +
77H LEU* 1.4 97.1 - - + +
79H LEU* 1.3 59.7 + - - +
81H LYS* 3.4 10.5 + - + +
82H ASP* 2.8 35.3 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 79 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42H ILE* 3.8 15.9 - - + -
43H GLN* 3.7 35.7 - - + +
46H LEU* 3.3 39.0 - - + -
75H VAL* 3.5 12.9 + - + +
76H ALA* 3.1 9.3 + - - +
78H PRO* 1.3 76.7 - - - +
80H ILE* 1.3 59.7 + - + +
82H ASP* 3.3 5.3 + - + -
83H LEU* 2.9 68.2 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 80 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46H LEU* 4.3 19.5 - - + -
76H ALA* 2.8 20.2 + - + +
77H LEU 3.9 2.2 - - - +
79H LEU* 1.3 74.1 - - - +
81H LYS* 1.3 64.6 + - - +
83H LEU* 3.4 15.5 + - + +
84H VAL* 3.0 28.2 + - + +
93H THR* 6.0 0.9 - - + -
97H TYR* 4.2 31.2 - - + -
100H ILE* 4.1 12.3 - - + -
101H LEU* 4.1 13.5 - - + -
104H ILE* 3.9 15.7 - - + -
119H LEU* 3.3 27.1 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 81 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
77H LEU* 3.0 32.4 + - + +
78H PRO* 3.7 9.4 - - + +
79H LEU 3.2 0.4 - - - -
80H ILE* 1.3 78.0 - - - +
82H ASP* 1.3 60.2 + - - +
84H VAL* 3.5 3.5 + - - +
85H ALA* 3.0 26.5 + - - +
116H THR 3.3 19.6 + - - -
117H ASP* 3.5 17.2 + - - +
118H LYS 3.1 30.4 + - - -
119H LEU* 3.7 22.4 - - + +
120H GLU 5.0 0.4 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 82 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78H PRO* 2.8 29.1 + - - +
79H LEU* 4.0 5.6 - - + +
81H LYS* 1.3 75.4 - - - +
83H LEU* 1.3 68.6 + - + +
85H ALA* 3.3 7.8 + - - +
86H SER* 2.9 30.5 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 83 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43H GLN* 4.1 14.4 - - - +
46H LEU* 3.6 31.0 - - + -
79H LEU* 2.9 45.3 + - + +
80H ILE* 3.8 9.6 - - + +
82H ASP* 1.3 83.0 - - + +
84H VAL* 1.3 60.9 + - - +
86H SER* 3.5 7.5 + - - +
87H SER* 3.3 23.6 + - - -
93H THR* 4.4 12.7 + - + +
97H TYR* 4.1 20.6 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 84 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
80H ILE* 3.0 30.1 + - + +
81H LYS* 3.7 5.2 - - - +
83H LEU* 1.3 74.6 - - - +
85H ALA* 1.3 67.6 + - - +
87H SER* 3.3 20.1 + - - +
90H VAL* 4.3 21.2 - - + +
93H THR* 4.0 18.4 - - + -
94H TYR* 4.2 23.1 - - + +
101H LEU* 5.8 0.2 - - + -
119H LEU* 4.5 14.8 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 85 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
81H LYS 3.0 17.6 + - - +
82H ASP* 3.3 10.3 + - - +
84H VAL* 1.3 78.9 - - - +
86H SER* 1.3 58.9 + - - +
87H SER 3.3 2.4 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with SER 86 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82H ASP 2.9 20.3 + - - -
83H LEU* 3.5 10.2 + - - +
84H VAL 3.2 0.2 - - - -
85H ALA* 1.3 78.2 - - - +
87H SER* 1.3 61.9 + - - +
88H LYS* 3.7 7.8 + - - +
82M ASP* 4.4 23.3 - - - -
----------------------------------------------------------
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