Contacts of the helix formed by residues 76 - 98 (chain C) in PDB entry 6O81
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 76 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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69C THR* 5.8 4.2 - - - +
73C PRO 4.7 9.0 - - - -
74C SER 3.6 4.7 + - - +
75C GLU* 1.3 72.3 - - - +
77C THR* 1.3 55.0 + - - +
78C VAL 3.3 1.8 - - - -
79C GLY* 3.6 8.0 - - - +
80C ASN* 2.5 37.9 + - - +
238C THR* 3.4 39.9 + - + +
246C ARG* 4.9 7.2 - - - +
275C SER* 4.1 4.0 - - - -
277C GLN* 2.6 31.9 + - - +
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Residues in contact with THR 77 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31C SER* 4.8 12.5 + - - +
34C MET* 4.7 18.5 - - + -
35C ALA* 4.5 16.4 - - + -
38C THR* 6.0 0.4 - - - +
75C GLU* 3.5 5.7 - - - +
76C THR* 1.3 76.8 + - - +
78C VAL* 1.3 61.0 + - + +
80C ASN* 2.9 24.4 + - - +
81C MET* 3.0 17.7 + - + +
237C LYS* 4.9 15.2 + - - -
238C THR* 5.2 2.6 + - - -
272C PHE* 3.7 35.9 + - + +
273C LYS* 5.0 5.2 - - - +
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Residues in contact with VAL 78 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18C PHE* 3.6 21.3 - - + -
22C LEU* 4.0 19.7 - - + -
34C MET* 4.0 13.9 - - + +
38C THR* 3.4 36.4 - - + +
68C MET* 4.4 27.4 - - + +
69C THR* 5.4 1.1 - - + +
75C GLU* 3.7 18.8 - - + +
77C THR* 1.3 76.7 - - + +
79C GLY* 1.3 60.5 + - - +
81C MET* 3.8 0.9 - - - +
82C VAL* 2.9 34.9 + - - +
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Residues in contact with GLY 79 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65C GLY 5.6 0.2 - - - -
68C MET* 6.2 0.4 - - - -
69C THR* 4.2 23.3 - - - -
76C THR* 3.2 11.5 + - - +
78C VAL* 1.3 83.8 - - - +
80C ASN* 1.3 57.6 + - - +
82C VAL* 3.4 5.9 + - - +
83C ARG* 2.9 36.8 + - - +
351C LEU* 4.3 8.2 - - - +
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Residues in contact with ASN 80 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
76C THR* 2.5 38.6 + - - +
77C THR* 2.9 19.8 + - - +
79C GLY* 1.3 75.3 - - - +
81C MET* 1.3 65.0 + - - +
83C ARG* 3.7 14.2 - - - +
84C ARG* 2.8 24.1 + - - +
272C PHE 3.0 21.1 + - - +
273C LYS 4.6 1.8 - - - -
274C LEU 3.3 29.5 + - - +
275C SER* 3.9 11.0 - - - -
344C TYR* 3.2 22.7 + - + +
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Residues in contact with MET 81 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35C ALA* 4.9 7.4 - - + +
38C THR* 4.6 9.4 - - + -
39C LEU* 3.7 32.3 - - + -
42C LEU* 4.4 3.1 - - + -
77C THR* 3.0 24.6 + - + +
78C VAL* 3.9 5.2 - - - +
79C GLY 3.3 0.2 - - - -
80C ASN* 1.3 83.5 + - - +
82C VAL* 1.3 59.4 + - - +
84C ARG* 3.3 32.4 + - + +
85C VAL* 3.0 33.3 + - - +
140C LEU* 4.6 9.4 - - + -
144C LEU* 4.9 5.8 - - + -
271C MET 4.7 2.5 - - - +
272C PHE* 3.7 37.2 - - + -
344C TYR* 4.5 5.4 - - - +
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Residues in contact with VAL 82 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38C THR* 5.2 0.9 - - + -
42C LEU* 4.0 24.9 - - + -
61C ILE* 3.7 26.0 - - + +
65C GLY* 4.1 6.7 - - - +
68C MET* 3.8 28.7 - - + -
78C VAL 2.9 21.7 + - - +
79C GLY* 3.6 5.6 - - - +
81C MET* 1.3 75.4 - - - +
83C ARG* 1.3 57.9 + - - +
85C VAL* 3.3 4.1 + - - +
86C LEU* 2.9 28.3 + - + +
351C LEU* 3.8 26.7 - - + -
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Residues in contact with ARG 83 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69C THR* 5.9 0.8 - - - +
79C GLY* 2.9 28.4 + - - +
80C ASN* 3.6 12.7 - - - +
81C MET 3.2 0.2 - - - -
82C VAL* 1.3 77.5 - - - +
84C ARG* 1.3 55.3 + - - +
86C LEU* 3.3 10.6 + - + +
87C LYS* 2.9 27.5 + - - +
276C PRO* 3.5 29.7 - - - +
277C GLN* 3.2 28.6 + - - -
344C TYR* 3.6 20.6 - - + -
345C HIS 4.9 1.6 - - - +
348C ASP* 2.4 47.7 + - + +
349C HIS* 3.6 13.8 + - - +
351C LEU* 3.6 29.4 - - - +
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Residues in contact with ARG 84 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
80C ASN 2.8 18.1 + - - +
81C MET* 3.3 26.4 + - + +
83C ARG* 1.3 75.0 - - - +
85C VAL* 1.3 58.8 + - - +
87C LYS* 3.3 3.0 + - - +
88C ILE* 2.9 43.0 + - + +
140C LEU* 4.0 42.5 - - + +
143C GLU* 4.4 10.1 + - - -
271C MET* 5.5 6.3 + - - +
342C GLU 5.3 0.8 + - - -
343C LEU* 3.3 61.4 + - - +
344C TYR* 4.2 3.7 - - + -
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Residues in contact with VAL 85 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39C LEU* 4.1 18.8 - - + -
42C LEU* 3.7 34.8 - - + -
46C ILE* 5.7 5.4 - - + -
57C LEU* 6.0 0.2 - - + -
61C ILE* 5.0 12.3 - - + -
81C MET 3.0 21.0 + - - +
82C VAL* 3.3 5.8 + - - +
84C ARG* 1.3 75.7 - - + +
86C LEU* 1.3 58.3 + - - +
88C ILE* 3.2 9.0 + - + +
89C ILE* 2.9 40.5 + - + +
133C ILE* 5.2 2.9 - - + -
137C ILE* 4.7 19.7 - - + -
140C LEU* 5.2 3.8 - - + -
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Residues in contact with LEU 86 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58C MET* 3.8 32.0 - - + +
61C ILE* 3.8 15.9 - - + -
62C ARG* 4.1 12.1 - - + +
82C VAL 2.9 18.5 + - - +
83C ARG* 3.4 8.5 - - - +
84C ARG 3.2 0.2 - - - -
85C VAL* 1.3 77.5 - - - +
87C LYS* 1.3 56.8 + - - +
89C ILE* 3.2 24.7 - - + +
90C ARG* 2.9 33.6 + - - +
348C ASP* 3.4 31.9 - - + +
351C LEU* 3.9 28.0 - - + -
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Residues in contact with LYS 87 (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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83C ARG 2.9 16.4 + - - +
84C ARG* 3.3 5.6 + - - +
86C LEU* 1.3 74.2 - - - +
88C ILE* 1.3 61.0 + - + +
90C ARG* 3.6 8.8 - - + +
91C GLU* 2.9 35.9 + - + +
341C SER 3.0 27.3 + - - -
342C GLU* 3.2 21.7 + - - +
343C LEU* 3.5 25.3 - - - +
344C TYR* 3.4 22.2 + - - +
345C HIS* 3.9 23.8 - - + +
348C ASP* 4.2 0.2 + - - -
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Residues in contact with ILE 88 (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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84C ARG* 2.9 36.3 + - + +
85C VAL* 3.2 11.9 + - + +
87C LYS* 1.3 78.5 - - + +
89C ILE* 1.3 58.9 + - - +
91C GLU* 3.3 18.3 - - + +
92C GLU* 2.9 28.3 + - + +
133C ILE* 3.9 24.0 - - + +
136C ALA* 3.9 31.4 - - + +
137C ILE* 5.3 4.3 - - + +
140C LEU* 4.1 26.9 - - + -
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Residues in contact with ILE 89 (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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46C ILE* 6.5 0.2 - - + -
54C ALA* 4.9 6.5 - - + +
57C LEU* 3.7 31.6 - - + -
58C MET* 3.8 30.8 - - + +
61C ILE* 5.1 2.5 - - + -
85C VAL* 2.9 24.9 + - + +
86C LEU* 3.2 28.9 - - + +
88C ILE* 1.3 75.5 - - - +
90C ARG* 1.3 56.3 + - - +
92C GLU* 4.0 0.5 - - - +
93C TYR* 2.9 30.8 + - - +
133C ILE* 3.7 41.1 - - + -
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Residues in contact with ARG 90 (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 MET* 3.8 32.4 - - + +
62C ARG* 3.5 10.9 - - - +
86C LEU* 2.9 28.8 + - - +
87C LYS* 3.6 6.0 - - - +
88C ILE 3.2 0.4 - - - -
89C ILE* 1.3 78.1 - - - +
91C GLU* 1.3 58.9 + - - +
93C TYR* 3.4 4.3 + - - +
94C GLY* 2.9 24.9 + - - -
345C HIS* 3.5 50.1 + - - +
347C ASP* 4.2 7.5 + - - +
348C ASP* 2.4 45.9 + - - -
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Residues in contact with GLU 91 (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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87C LYS* 2.9 23.6 + - + +
88C ILE* 3.3 21.6 - - + +
90C ARG* 1.3 77.0 - - - +
92C GLU* 1.3 78.2 + - - +
94C GLY* 3.3 2.1 + - - +
95C ARG* 2.5 67.7 + - - +
53L ARG* 4.0 15.2 + - - +
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Residues in contact with GLU 92 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
88C ILE* 2.9 21.0 + - + +
89C ILE 4.0 1.8 - - - +
91C GLU* 1.3 82.7 - - - +
93C TYR* 1.3 59.8 + - - +
95C ARG* 3.2 31.7 + - - +
96C LEU* 2.9 40.0 + - + +
129C LEU* 5.7 3.8 - - + +
132C ASN* 3.6 26.1 + - + +
133C ILE* 3.7 24.2 - - + -
53L ARG* 2.5 38.8 + - - +
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Residues in contact with TYR 93 (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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53C ASN* 3.8 26.1 + - - -
54C ALA* 3.8 25.4 - - + -
58C MET* 5.1 8.1 - - + -
89C ILE 2.9 18.5 + - - +
90C ARG* 3.8 5.6 - - - +
92C GLU* 1.3 76.3 - - - +
94C GLY* 1.3 59.9 + - - +
96C LEU* 4.5 6.1 - - + +
97C HIS* 2.9 67.0 + + + +
126C TYR* 4.9 16.4 - + - -
129C LEU* 5.6 9.8 - - + +
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Residues in contact with GLY 94 (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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90C ARG 2.9 15.4 + - - -
91C GLU* 3.7 3.6 - - - -
92C GLU 3.2 0.2 - - - -
93C TYR* 1.3 80.1 - - - +
95C ARG* 1.3 59.9 + - - +
97C HIS* 4.1 4.1 - - - +
98C GLY* 3.4 19.1 + - - -
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Residues in contact with ARG 95 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
91C GLU* 2.5 40.7 + - - +
92C GLU* 3.2 39.9 + - - +
94C GLY* 1.3 77.0 - - - +
96C LEU* 1.3 67.1 + - + +
98C GLY* 4.5 8.2 + - - +
52L ARG 5.4 5.1 + - - -
53L ARG* 4.9 13.9 - - - +
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Residues in contact with LEU 96 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
92C GLU* 2.9 27.8 + - + +
93C TYR* 3.7 7.2 - - + +
95C ARG* 1.3 83.1 - - + +
97C HIS* 1.3 61.2 + - - +
98C GLY 3.6 1.5 - - - -
126C TYR* 4.9 14.0 + - - +
128C GLN* 4.0 24.9 - - + +
129C LEU* 3.8 32.8 - - + +
132C ASN* 3.9 21.3 - - - +
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Residues in contact with HIS 97 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
93C TYR* 2.9 51.7 + + + +
94C GLY* 4.1 6.1 - - - +
95C ARG 3.5 0.2 - - - -
96C LEU* 1.3 79.0 - - - +
98C GLY* 1.3 64.8 + - - +
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Residues in contact with GLY 98 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
94C GLY 3.4 11.9 + - - -
95C ARG 4.5 6.5 - - - +
96C LEU 3.6 2.9 - - - -
97C HIS* 1.3 86.7 - - - +
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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) + - + + + + + -
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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