Contacts of the helix formed by residues 66 - 86 (chain T) 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 T).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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10T PHE* 3.9 8.3 - - - -
20T VAL* 5.9 4.5 - - + -
22T PHE* 4.1 17.7 - - + -
60T VAL* 4.1 7.1 - - - +
62T THR* 3.7 32.8 - - + +
64T TYR 3.8 2.0 - - - +
65T PRO* 1.3 78.7 - - - +
67T SER* 1.3 66.0 + - - +
68T THR* 3.4 19.4 + - - -
69T ASP* 2.9 26.0 + - - +
70T VAL* 3.2 11.4 + - - +
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Residues in contact with SER 67 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7T VAL* 6.0 3.6 - - - -
10T PHE* 3.9 16.1 - - - -
66T THR* 1.3 73.9 - - - +
68T THR* 1.3 57.6 + - - +
70T VAL* 4.3 7.9 - - - -
71T HIS* 2.8 57.0 + - - -
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Residues in contact with THR 68 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22T PHE* 5.3 1.4 - - - -
30T ALA* 3.5 27.2 + - - +
33T TRP* 3.9 28.9 - - + -
37T LEU* 6.1 0.4 - - + -
59T ILE* 4.0 13.0 - - + -
60T VAL* 3.7 20.1 - - + +
66T THR* 3.0 12.8 + - - -
67T SER* 1.3 80.2 + - - +
69T ASP* 1.3 56.9 + - - +
71T HIS* 3.3 5.5 + - - -
72T VAL* 2.9 38.7 + - + +
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Residues in contact with ASP 69 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58T PHE* 3.5 14.3 - - - +
59T ILE* 2.8 34.9 + - - +
60T VAL 4.7 0.9 + - - -
62T THR* 4.6 0.3 + - - -
65T PRO* 3.5 7.2 - - + +
66T THR* 2.9 39.7 + - - +
68T THR* 1.3 75.7 - - - +
70T VAL* 1.3 58.2 + - - +
73T PHE* 2.9 32.6 + - - +
103T TRP* 3.0 29.1 + - - +
107T MET* 3.9 18.2 - - + -
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Residues in contact with VAL 70 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
6T LEU* 3.9 26.4 - - + +
7T VAL* 3.9 27.1 - - + -
10T PHE* 3.5 39.7 - - + -
65T PRO* 5.3 0.2 - - + -
66T THR 3.2 9.5 + - - +
67T SER* 3.7 9.0 - - - +
68T THR 3.2 0.2 - - - -
69T ASP* 1.3 77.0 - - - +
71T HIS* 1.3 64.1 + - - +
73T PHE* 3.7 3.4 - - - +
74T GLU* 3.1 24.1 + - + +
107T MET* 4.0 18.2 - - + -
111T LEU* 4.3 6.5 - - + -
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Residues in contact with HIS 71 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7T VAL* 3.6 33.9 - - + +
37T LEU* 3.6 32.1 - - + +
67T SER* 2.8 41.3 + - - +
68T THR* 3.9 4.5 + - - +
70T VAL* 1.3 79.4 - - + +
72T VAL* 1.3 63.0 + - - +
74T GLU* 3.5 24.1 + - - +
75T VAL* 3.7 4.0 + - - +
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Residues in contact with VAL 72 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33T TRP* 4.2 18.2 - - + -
37T LEU* 4.0 22.7 - - + -
42T ILE* 4.2 15.3 - - + +
49T LEU* 3.8 25.8 - - + -
59T ILE* 3.5 27.8 - - + -
68T THR* 2.9 29.9 + - + +
71T HIS* 1.3 74.2 - - - +
73T PHE* 1.3 54.0 + - - +
75T VAL* 3.2 5.0 + - - +
76T ALA* 2.8 37.7 + - + +
103T TRP* 3.9 2.0 - - + -
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Residues in contact with PHE 73 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
6T LEU* 4.0 15.9 - - + -
69T ASP 2.9 22.2 + - - +
70T VAL* 3.7 3.4 - - - +
72T VAL* 1.3 76.6 - - - +
74T GLU* 1.3 65.6 + - - +
76T ALA* 4.2 1.1 - - - -
77T LEU* 2.9 51.6 + - + +
103T TRP* 3.4 15.8 - + + -
104T ILE* 3.9 28.3 - - + -
107T MET* 3.4 24.5 - - + -
108T GLN* 3.5 32.8 - - + -
111T LEU* 4.0 22.9 - - + -
113T VAL* 4.0 15.7 - - + -
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Residues in contact with GLU 74 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
4T SER* 2.6 39.1 + - - -
6T LEU* 3.9 32.7 + - + +
7T VAL* 5.7 1.8 - - - -
70T VAL* 3.1 17.1 + - - +
71T HIS* 3.6 16.6 - - - +
72T VAL 3.2 0.4 - - - -
73T PHE* 1.3 76.5 - - - +
75T VAL* 1.3 61.4 + - + +
77T LEU* 4.9 1.1 - - - +
78T PRO* 3.3 20.3 - - - +
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Residues in contact with VAL 75 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37T LEU* 3.9 23.6 - - + -
42T ILE* 3.9 28.5 - - + -
71T HIS 3.7 3.8 + - - +
72T VAL 3.2 6.8 + - - +
73T PHE 3.1 0.4 - - - -
74T GLU* 1.3 85.1 - - + +
76T ALA* 1.3 63.1 + - - +
77T LEU 3.4 0.7 - - - -
78T PRO* 3.3 15.6 - - - +
79T LEU* 3.4 13.9 + - + +
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Residues in contact with ALA 76 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42T ILE* 4.9 8.7 - - + -
46T LEU* 5.1 0.4 - - + -
49T LEU* 4.6 7.2 - - + -
72T VAL* 2.8 27.7 + - + +
73T PHE 3.1 2.0 + - - +
75T VAL* 1.3 73.4 - - - +
77T LEU* 1.3 65.6 + - - +
79T LEU* 3.4 3.8 + - - -
80T ILE* 2.5 44.6 + - + +
100T ILE* 5.1 0.4 - - + -
103T TRP* 4.1 22.4 - - + -
104T ILE* 4.6 2.5 - - + -
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Residues in contact with LEU 77 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
73T PHE* 2.9 41.5 + - + +
74T GLU 5.2 0.2 - - - -
76T ALA* 1.3 77.8 - - - +
78T PRO* 1.3 73.5 - - + +
80T ILE* 3.8 0.9 - - - +
81T LYS* 2.9 31.0 + - - +
104T ILE* 4.0 17.0 - - + +
108T GLN* 3.7 20.2 - - - +
113T VAL* 4.1 15.9 - - + -
117T ASP* 3.8 20.0 - - + +
119T LEU* 3.9 23.1 - - + +
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Residues in contact with PRO 78 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
74T GLU 3.3 20.2 - - - +
75T VAL* 3.3 16.4 - - - +
77T LEU* 1.3 99.5 - - + +
79T LEU* 1.3 59.2 + - - -
81T LYS* 3.9 11.5 - - + +
82T ASP* 2.8 37.6 + - - +
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Residues in contact with LEU 79 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42T ILE* 4.2 9.2 - - + -
43T GLN* 3.4 39.5 - - + +
46T LEU* 3.4 33.4 - - + -
75T VAL* 3.4 18.5 + - + +
76T ALA* 3.4 4.9 + - - +
77T LEU 3.2 0.6 + - - -
78T PRO* 1.3 79.6 - - - +
80T ILE* 1.3 58.6 + - + +
82T ASP* 3.3 5.8 + - + +
83T LEU* 3.0 57.4 + - + +
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Residues in contact with ILE 80 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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46T LEU* 4.1 22.0 - - + -
76T ALA* 2.5 51.7 + - + +
77T LEU 4.0 0.7 - - - +
79T LEU* 1.3 73.5 - - + +
81T LYS* 1.3 60.3 + - - +
83T LEU* 3.2 13.4 + - + +
84T VAL* 2.8 37.3 + - + +
93T THR* 6.1 0.7 - - + -
97T TYR* 5.4 12.3 - - + -
100T ILE* 4.1 13.7 - - + -
101T LEU* 3.9 12.8 - - + -
104T ILE* 3.9 14.8 - - + -
119T LEU* 3.5 26.9 - - + -
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Residues in contact with LYS 81 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
77T LEU* 2.9 31.1 + - - +
78T PRO* 3.9 9.4 - - + +
80T ILE* 1.3 78.4 - - - +
82T ASP* 1.3 60.8 + - - +
84T VAL* 3.5 2.3 + - - +
85T ALA* 3.0 28.6 + - + +
116T THR 4.7 3.0 + - - +
117T ASP* 2.7 42.5 + - - +
118T LYS 4.3 12.6 - - - +
119T LEU* 3.8 21.5 - - + +
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Residues in contact with ASP 82 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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78T PRO* 2.8 28.1 + - - +
79T LEU* 3.7 6.5 - - + +
80T ILE 3.1 0.2 - - - -
81T LYS* 1.3 79.0 - - - +
83T LEU* 1.3 60.0 + - + +
85T ALA* 3.4 7.3 + - - +
86T SER* 2.5 35.1 + - - -
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Residues in contact with LEU 83 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43T GLN* 3.6 13.7 - - - +
46T LEU* 3.8 29.2 - - + -
79T LEU* 3.0 36.5 + - + +
80T ILE* 3.5 14.6 - - + +
82T ASP* 1.3 79.9 - - + +
84T VAL* 1.3 61.5 + - - +
86T SER* 3.5 6.5 + - - +
87T SER* 3.3 22.9 + - - -
93T THR* 4.4 13.9 + - + +
97T TYR* 4.0 25.1 - - + +
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Residues in contact with VAL 84 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
80T ILE* 2.8 36.9 + - + +
81T LYS* 3.7 6.7 - - - +
83T LEU* 1.3 72.4 - - - +
85T ALA* 1.3 64.5 + - - +
87T SER* 3.2 21.0 + - - +
90T VAL* 3.9 13.6 - - + +
93T THR* 4.4 14.4 - - + -
94T TYR* 3.7 39.9 - - + +
101T LEU* 5.5 0.2 - - + -
119T LEU* 4.2 12.6 - - + -
120T GLU* 5.7 3.8 - - + +
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Residues in contact with ALA 85 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
81T LYS* 3.0 18.1 + - + +
82T ASP* 3.9 9.4 - - - +
83T LEU 3.4 0.2 - - - -
84T VAL* 1.3 78.8 - - - +
86T SER* 1.3 58.7 + - - +
87T SER 3.3 1.8 + - - +
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Residues in contact with SER 86 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82T ASP 2.5 24.4 + - - -
83T LEU* 3.5 7.8 + - - +
84T VAL 3.2 0.2 - - - -
85T ALA* 1.3 76.0 - - - +
87T SER* 1.3 63.2 + - - +
88T LYS* 3.5 15.6 + - - +
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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