Contacts of the helix formed by residues 66 - 87 (chain K) 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 K).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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10K PHE* 3.8 7.6 - - - -
22K PHE* 4.2 18.2 - - + -
60K VAL* 4.1 7.0 - - + +
62K THR* 3.7 35.4 - - + +
64K TYR 3.8 2.2 - - - +
65K PRO* 1.3 77.0 - - - +
67K SER* 1.3 61.5 + - - +
68K THR* 3.5 19.4 + - - -
69K ASP* 2.9 31.7 + - - +
70K VAL* 3.2 12.3 + - - +
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Residues in contact with SER 67 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7K VAL* 6.3 1.8 - - - -
10K PHE* 3.8 19.7 - - - -
66K THR* 1.3 75.2 - - - +
68K THR* 1.3 53.6 + - - +
70K VAL* 3.2 5.9 + - - +
71K HIS* 2.8 60.6 + - - -
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Residues in contact with THR 68 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22K PHE* 5.4 1.7 - - - -
30K ALA* 3.9 18.5 + - - +
33K TRP* 3.8 28.7 - - + -
34K GLU 5.7 0.2 - - - +
37K LEU* 5.7 1.8 - - + -
59K ILE* 3.9 12.3 - - + -
60K VAL* 3.7 26.7 - - + +
66K THR* 3.1 11.8 + - - -
67K SER* 1.3 81.2 + - - +
69K ASP* 1.3 62.6 + - - +
71K HIS* 3.9 5.8 + - - +
72K VAL* 3.0 26.8 + - + +
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Residues in contact with ASP 69 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58K PHE* 3.4 20.2 - - - +
59K ILE* 2.8 36.5 + - - +
60K VAL 4.7 1.0 + - - -
62K THR* 4.6 0.5 + - - -
64K TYR 4.5 0.2 - - - +
65K PRO* 4.1 2.7 - - + -
66K THR* 2.9 39.8 + - - +
68K THR* 1.3 78.4 - - - +
70K VAL* 1.3 57.7 + - - +
73K PHE* 2.9 32.1 + - - +
103K TRP* 2.9 28.0 + - - +
107K MET* 3.9 15.0 - - + -
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Residues in contact with VAL 70 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
6K LEU* 4.0 18.4 - - + +
7K VAL* 3.8 30.5 - - + +
10K PHE* 3.4 39.5 - - + -
66K THR 3.2 8.9 + - - +
67K SER* 3.2 9.3 + - - +
69K ASP* 1.3 74.8 - - - +
71K HIS* 1.3 58.0 + - - +
73K PHE* 3.3 4.0 + - - +
74K GLU* 2.9 28.8 + - - +
107K MET* 3.8 19.1 - - + -
111K LEU* 4.0 11.2 - - + -
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Residues in contact with HIS 71 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7K VAL* 3.7 35.7 - - + +
37K LEU* 3.6 32.4 - - + +
67K SER* 2.8 42.6 + - - +
68K THR* 3.9 4.9 + - - +
70K VAL* 1.3 76.6 - - + +
72K VAL* 1.3 61.4 + - - +
74K GLU* 3.5 17.1 + - - +
75K VAL* 3.8 5.0 + - - +
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Residues in contact with VAL 72 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33K TRP* 4.2 25.8 - - + -
37K LEU* 4.0 26.0 - - + -
42K ILE* 4.1 12.1 - - + -
49K LEU* 3.7 28.9 - - + -
59K ILE* 3.4 30.7 - - + -
68K THR* 3.0 13.1 + - + +
71K HIS* 1.3 71.1 - - - +
73K PHE* 1.3 61.8 + - - +
75K VAL* 3.2 4.7 + - - +
76K ALA* 2.9 28.9 + - + +
103K TRP* 3.8 2.5 - - + -
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Residues in contact with PHE 73 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
6K LEU* 4.2 12.8 - - + -
69K ASP 2.9 20.7 + - - +
70K VAL* 3.5 4.5 - - - +
72K VAL* 1.3 76.6 - - - +
74K GLU* 1.3 64.2 + - - +
76K ALA* 4.3 0.2 - - - -
77K LEU* 2.9 50.9 + - + +
103K TRP* 3.3 16.3 - + + -
104K ILE* 3.9 36.6 - - + -
107K MET* 3.5 25.6 - - + -
108K GLN* 3.6 25.4 - - + -
111K LEU* 4.0 22.9 - - + -
113K VAL* 4.0 16.8 - - + -
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Residues in contact with GLU 74 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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4K SER* 2.6 42.6 + - - -
5K ASP 4.8 0.2 + - - -
6K LEU* 3.9 32.6 + - + +
7K VAL* 3.8 10.4 - - - +
70K VAL 2.9 16.0 + - - +
71K HIS* 3.6 11.2 - - - +
72K VAL 3.3 0.2 - - - -
73K PHE* 1.3 76.5 - - - +
75K VAL* 1.3 58.9 + - + +
77K LEU* 5.4 0.2 - - - -
78K PRO* 3.3 19.6 - - - +
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Residues in contact with VAL 75 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37K LEU* 4.0 15.9 - - + -
42K ILE* 3.7 29.2 - - + -
71K HIS 3.9 13.2 - - - +
72K VAL 3.2 5.2 + - - +
73K PHE 3.1 0.4 - - - -
74K GLU* 1.3 79.7 - - + +
76K ALA* 1.3 67.2 + - - +
77K LEU 3.4 0.4 - - - -
78K PRO* 3.2 16.9 - - - +
79K LEU* 3.4 14.7 + - + +
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Residues in contact with ALA 76 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42K ILE* 4.6 6.2 - - + +
46K LEU* 4.6 3.8 - - + -
49K LEU* 4.4 12.6 - - + -
72K VAL* 2.9 17.2 + - + +
73K PHE 4.0 0.7 - - - +
75K VAL* 1.3 75.9 - - - +
77K LEU* 1.3 66.7 + - - +
79K LEU* 3.2 4.7 + - - -
80K ILE* 2.7 42.6 + - + +
100K ILE* 5.2 0.4 - - + -
103K TRP* 4.0 24.0 - - + -
104K ILE* 4.8 1.6 - - + -
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Residues in contact with LEU 77 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
6K LEU* 5.8 3.1 - - + -
73K PHE* 2.9 48.6 + - + +
74K GLU* 4.9 0.4 - - - +
76K ALA* 1.3 72.9 - - - +
78K PRO* 1.3 66.4 - - + +
80K ILE* 3.3 1.0 + - - +
81K LYS* 2.9 34.1 + - + +
104K ILE* 3.9 19.0 - - + +
108K GLN* 3.8 18.6 - - - +
113K VAL* 4.1 12.3 - - + -
117K ASP* 3.5 21.8 - - + +
119K LEU* 3.9 21.3 - - + +
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Residues in contact with PRO 78 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
74K GLU 3.3 19.3 - - - +
75K VAL* 3.2 18.4 - - - +
77K LEU* 1.3 99.4 - - + +
79K LEU* 1.3 54.9 + - - +
81K LYS* 3.5 10.3 - - + +
82K ASP* 3.0 27.7 + - - +
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Residues in contact with LEU 79 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42K ILE* 4.3 7.6 - - + -
43K GLN* 3.5 42.0 - - + +
46K LEU* 3.4 30.3 - - + -
75K VAL* 3.4 12.5 + - + +
76K ALA 3.2 8.4 + - - +
78K PRO* 1.3 78.0 - - - +
80K ILE* 1.3 62.9 + - + +
82K ASP* 3.0 14.2 + - + +
83K LEU* 2.8 43.1 + - + +
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Residues in contact with ILE 80 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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46K LEU* 3.8 30.1 - - + -
76K ALA* 2.7 41.5 + - + +
77K LEU 3.9 2.0 - - - +
79K LEU* 1.3 75.1 - - + +
81K LYS* 1.3 65.8 + - - +
83K LEU* 3.3 12.9 + - + +
84K VAL* 2.9 30.0 + - + +
93K THR* 6.1 0.4 - - + -
97K TYR* 5.2 11.9 - - + -
100K ILE* 3.9 23.3 - - + -
101K LEU* 3.9 14.4 - - + -
104K ILE* 3.9 5.8 - - + -
119K LEU* 3.3 29.6 - - + -
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Residues in contact with LYS 81 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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77K LEU* 2.9 27.6 + - + +
78K PRO* 3.5 10.8 - - + +
80K ILE* 1.3 78.4 - - - +
82K ASP* 1.3 51.8 + - - +
84K VAL* 3.3 2.6 + - - +
85K ALA* 2.8 35.5 + - - +
116K THR 3.8 15.3 + - - -
117K ASP* 3.6 21.8 - - - +
118K LYS 3.1 26.6 + - - +
119K LEU* 3.9 21.0 - - + +
120K GLU 5.4 0.8 - - - +
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Residues in contact with ASP 82 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78K PRO 3.0 14.6 + - - +
79K LEU* 3.0 17.8 + - + +
81K LYS* 1.3 74.0 - - - +
83K LEU* 1.3 64.7 + - - +
85K ALA* 3.6 8.0 - - - +
86K SER* 2.8 39.4 + - - -
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Residues in contact with LEU 83 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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43K GLN* 5.8 6.5 - - - +
46K LEU* 3.8 28.3 - - + -
79K LEU* 2.8 28.7 + - + +
80K ILE* 3.7 11.2 - - + +
82K ASP* 1.3 81.4 - - - +
84K VAL* 1.3 61.8 + - - +
86K SER* 3.4 8.6 + - - +
87K SER* 3.0 24.9 + - - -
93K THR* 4.5 14.4 + - + -
97K TYR* 3.8 27.6 - - + +
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Residues in contact with VAL 84 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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80K ILE* 2.9 29.5 + - + +
81K LYS 3.7 3.8 - - - +
83K LEU* 1.3 75.1 - - - +
85K ALA* 1.3 64.2 + - - +
87K SER* 3.2 20.1 + - - +
90K VAL* 3.9 16.1 - - + +
93K THR* 3.9 18.2 - - + -
94K TYR* 3.5 43.3 - - + +
119K LEU* 4.5 14.4 - - + -
120K GLU* 6.5 0.9 - - + -
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Residues in contact with ALA 85 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
81K LYS 2.8 21.1 + - - +
82K ASP* 3.6 11.0 - - - +
84K VAL* 1.3 75.6 - - - +
86K SER* 1.3 59.2 + - - +
87K SER 3.6 1.9 + - - +
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Residues in contact with SER 86 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82K ASP* 2.8 34.0 + - - -
83K LEU* 3.5 12.5 + - - +
85K ALA* 1.3 71.7 - - - +
87K SER* 1.3 66.2 + - - +
88K LYS* 3.5 12.8 + - - +
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Residues in contact with SER 87 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
83K LEU 3.0 14.2 + - - -
84K VAL* 3.2 14.2 + - - +
85K ALA 3.3 2.0 - - - +
86K SER* 1.3 79.7 - - - +
88K LYS* 1.3 61.4 + - - +
89K ASP 2.8 22.2 + - - -
90K VAL* 4.0 14.3 + - - +
92K SER* 4.9 0.2 + - - -
93K THR* 2.8 28.5 + - - -
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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