Contacts of the helix formed by residues 64 - 95 (chain C) in PDB entry 4DAJ
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 ILE 64 (chain C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63C THR* 1.3 83.1 - - - +
65C TRP* 1.3 58.1 + - + +
67C VAL* 3.7 8.7 - - + +
68C VAL* 2.9 40.2 + - + +
131C ASN* 5.8 4.7 - - - +
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Residues in contact with TRP 65 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63C THR 4.2 6.7 - - - +
64C ILE* 1.3 78.0 - - + +
66C GLN* 1.3 65.1 + - + +
68C VAL* 3.0 19.0 + - + +
69C PHE* 3.0 13.8 + - + +
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Residues in contact with GLN 66 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63C THR* 3.1 28.8 + - - +
65C TRP* 1.3 82.7 - - + +
67C VAL* 1.3 62.5 + - + +
69C PHE* 3.2 9.2 + - - +
70C ILE* 2.9 31.2 + - - +
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Residues in contact with VAL 67 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63C THR* 3.1 22.7 + - - +
64C ILE* 3.7 8.5 - - + +
66C GLN* 1.3 87.0 - - + +
68C VAL* 1.3 58.0 + - + +
70C ILE* 3.9 5.3 - - - +
71C ALA* 2.9 29.9 + - + +
128C ILE 5.3 9.2 - - - +
129C ILE* 5.3 9.2 - - - +
131C ASN* 6.4 0.2 - - - +
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Residues in contact with VAL 68 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64C ILE* 2.9 32.1 + - + +
65C TRP* 3.0 11.8 + - + +
67C VAL* 1.3 74.8 - - + +
69C PHE* 1.3 66.5 + - - +
71C ALA* 3.1 7.7 + - + +
72C PHE* 2.9 25.2 + - + +
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Residues in contact with PHE 69 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65C TRP* 3.0 12.5 + - + +
66C GLN* 3.5 12.6 - - - +
68C VAL* 1.3 78.4 - - - +
70C ILE* 1.3 57.4 + - - +
72C PHE* 3.1 8.8 + - - +
73C LEU* 2.9 24.3 + - - +
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Residues in contact with ILE 70 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66C GLN 2.9 18.7 + - - +
67C VAL* 4.1 5.2 - - - +
69C PHE* 1.3 72.8 - - - +
71C ALA* 1.3 58.6 + - - +
73C LEU* 2.9 20.6 - - + +
74C THR* 2.9 25.1 + - - -
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Residues in contact with ALA 71 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67C VAL* 2.9 24.1 + - + +
68C VAL* 3.1 10.7 + - + +
70C ILE* 1.3 77.2 - - - +
72C PHE* 1.3 56.7 - - - +
74C THR* 2.9 26.2 + - - -
75C GLY* 2.9 9.2 + - - -
125C THR* 4.0 20.3 - - + +
129C ILE* 5.5 9.9 - - + -
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Residues in contact with PHE 72 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68C VAL* 2.9 14.8 + - + +
69C PHE* 3.7 8.5 - - - +
71C ALA* 1.3 71.5 - - - +
73C LEU* 1.3 60.6 + - - +
75C GLY* 3.2 8.0 + - - +
76C PHE* 2.9 29.5 + - + +
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Residues in contact with LEU 73 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69C PHE 2.9 10.6 + - - +
70C ILE* 2.9 26.2 - - + +
72C PHE* 1.3 74.0 - - - +
74C THR* 1.3 62.9 + - - +
76C PHE* 3.0 26.8 + - + +
77C LEU* 3.0 21.4 + - + +
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Residues in contact with THR 74 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70C ILE 2.9 10.7 + - - -
71C ALA* 2.9 15.3 + - - -
73C LEU* 1.3 74.3 - - - +
75C GLY* 1.3 62.1 + - - +
77C LEU* 3.2 9.4 + - - +
78C ALA* 2.9 24.1 + - - +
121C MET* 4.6 2.8 - - - +
125C THR* 3.6 26.7 - - - -
530C TRP* 3.8 22.1 - - - -
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Residues in contact with GLY 75 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
71C ALA 2.9 11.4 + - - -
72C PHE* 3.2 13.0 + - - -
73C LEU 3.1 0.6 - - - -
74C THR* 1.3 75.4 - - - +
76C PHE* 1.3 62.7 + - - +
78C ALA* 3.2 8.6 + - - +
79C LEU* 2.9 23.1 + - - +
122C ASN* 5.8 2.5 - - - -
125C THR* 5.3 1.2 + - - +
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Residues in contact with PHE 76 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
72C PHE* 2.9 17.3 + - + +
73C LEU* 3.0 29.2 - - + +
75C GLY* 1.3 73.4 - - - +
77C LEU* 1.3 83.6 + - + +
79C LEU* 2.8 27.0 + - + +
80C VAL* 2.9 37.0 + - + +
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Residues in contact with LEU 77 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
73C LEU* 3.0 11.5 + - + +
74C THR* 3.2 10.7 + - - +
76C PHE* 1.3 85.7 - - + +
78C ALA* 1.3 57.4 + - - +
80C VAL* 3.2 8.9 + - + +
81C THR* 2.9 31.2 + - - -
121C MET* 4.3 10.5 - - + -
530C TRP* 4.5 13.7 - - + -
533C TYR* 5.3 0.2 - - + -
534C ILE* 3.6 30.5 - - + +
537C THR* 3.5 35.0 - - + +
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Residues in contact with ALA 78 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
74C THR 2.9 13.2 + - - +
75C GLY* 3.5 11.2 - - - +
77C LEU* 1.3 76.2 - - - +
79C LEU* 1.3 58.0 + - - +
81C THR* 3.4 1.6 + - - -
82C ILE* 2.9 39.4 + - + +
117C GLY 4.3 5.2 - - - +
121C MET* 3.4 38.3 - - + +
122C ASN* 4.7 11.0 - - - +
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Residues in contact with LEU 79 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
75C GLY 2.9 11.5 + - - +
76C PHE* 2.8 20.0 + - + +
78C ALA* 1.3 74.3 - - - +
80C VAL* 1.3 65.3 + - + +
82C ILE* 2.9 38.1 - - + +
83C ILE* 2.9 31.9 + - + +
----------------------------------------------------------
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Residues in contact with VAL 80 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
76C PHE* 2.9 51.5 + - + +
77C LEU* 3.4 10.1 - - + +
79C LEU* 1.3 75.9 - - + +
81C THR* 1.3 63.7 + - - +
83C ILE* 3.2 14.8 - - + +
84C GLY* 2.9 22.2 + - - -
537C THR* 4.2 18.2 - - + +
540C PRO* 5.7 0.3 - - - +
541C VAL* 5.7 7.6 - - + -
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Residues in contact with THR 81 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
77C LEU 2.9 12.1 + - - -
78C ALA 3.5 8.3 - - - -
80C VAL* 1.3 77.6 - - - +
82C ILE* 1.3 59.6 + - - +
84C GLY* 3.7 0.6 - - - -
85C ASN* 2.8 53.9 + - - +
113C ASP 3.7 12.1 - - - +
116C ILE* 5.3 0.7 - - + -
117C GLY* 4.2 9.4 - - - +
121C MET* 4.2 8.7 - - - -
533C TYR 5.8 0.2 - - - +
536C SER* 4.0 19.1 - - - +
537C THR* 2.7 36.3 + - - +
540C PRO* 4.7 1.6 - - - +
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Residues in contact with ILE 82 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78C ALA* 2.9 25.8 + - + +
79C LEU* 2.9 45.1 - - + +
81C THR* 1.3 72.7 - - - +
83C ILE* 1.3 69.0 + - + +
85C ASN* 3.9 6.4 - - - +
86C ILE* 3.0 30.5 + - + +
114C LEU* 4.7 7.9 - - + +
117C GLY* 3.7 30.7 - - - +
118C VAL* 3.9 13.0 - - + +
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Residues in contact with ILE 83 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
79C LEU* 2.9 38.5 + - + +
80C VAL* 3.2 22.0 - - + +
82C ILE* 1.3 76.8 - - + +
84C GLY* 1.3 62.9 + - - +
86C ILE* 3.1 9.1 + - - +
87C LEU* 2.9 39.1 + - + +
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Residues in contact with GLY 84 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
80C VAL 2.9 18.5 + - - -
81C THR 3.7 0.9 - - - -
83C ILE* 1.3 80.1 - - - +
85C ASN* 1.3 57.7 + - - +
87C LEU* 3.3 13.2 + - - +
88C VAL* 3.0 32.6 + - - +
540C PRO* 4.1 14.9 - - - +
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Residues in contact with ASN 85 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
81C THR* 2.8 29.5 + - - +
82C ILE 3.9 3.5 - - - +
84C GLY* 1.3 71.9 - - - +
86C ILE* 1.3 61.3 + - - +
88C VAL* 3.0 9.5 + - - +
89C ILE* 2.9 33.5 + - - +
110C ALA* 3.6 26.4 - - - +
113C ASP* 3.2 38.8 + - - +
114C LEU* 3.3 14.6 - - + +
540C PRO* 3.1 23.6 - - - +
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Residues in contact with ILE 86 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82C ILE* 3.0 20.1 + - + +
83C ILE* 3.4 11.7 - - - +
85C ASN* 1.3 77.3 - - - +
87C LEU* 1.3 62.7 + - + +
89C ILE* 4.1 4.2 - - + +
90C VAL* 2.9 52.0 + - + +
114C LEU* 3.7 22.0 - - + -
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Residues in contact with LEU 87 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
83C ILE* 2.9 23.1 + - + +
84C GLY* 3.4 13.0 - - - +
86C ILE* 1.3 80.3 - - + +
88C VAL* 1.3 59.0 + - + +
90C VAL* 4.6 4.7 - - + -
91C ALA* 2.8 37.1 + - + +
554C PHE* 4.5 30.5 - - + +
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Residues in contact with VAL 88 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84C GLY 3.0 19.7 + - - +
85C ASN* 3.0 9.4 + - - +
87C LEU* 1.3 76.7 - - + +
89C ILE* 1.3 58.1 + - - +
91C ALA* 3.7 3.0 - - - +
92C PHE* 2.9 31.2 + - + +
106C LEU* 4.6 2.7 - - + +
107C LEU* 4.7 7.6 - - + -
110C ALA* 3.4 26.2 - - + -
540C PRO* 4.2 11.2 - - + +
543C TYR* 3.8 33.7 - - + -
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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
----------------------------------------------------------
85C ASN 2.9 19.0 + - - +
86C ILE* 4.1 5.4 - - + +
88C VAL* 1.3 69.8 - - - +
90C VAL* 1.3 70.6 + - + +
92C PHE* 3.2 5.9 + - - +
93C LYS* 2.9 28.4 + - + +
107C LEU* 4.0 23.7 - - + +
110C ALA* 4.4 9.9 - - + +
111C CYS* 4.1 25.8 - - - -
114C LEU* 3.8 26.9 - - + -
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Residues in contact with VAL 90 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
86C ILE* 2.9 47.1 + - + +
87C LEU* 4.1 5.4 - - + +
89C ILE* 1.3 75.4 - - + +
91C ALA* 1.3 67.6 + - - +
93C LYS* 3.0 4.5 + - - +
94C VAL* 2.9 36.5 + - + +
----------------------------------------------------------
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Residues in contact with ALA 91 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
87C LEU* 2.8 25.9 + - + +
88C VAL* 3.7 3.4 - - - +
90C VAL* 1.3 75.0 - - - +
92C PHE* 1.3 62.9 + - - +
94C VAL* 3.5 8.3 + - - +
95C ASN* 3.0 29.8 + - - +
98C LEU* 3.8 6.1 - - + -
553C THR* 3.6 26.9 - - + -
554C PHE* 5.4 4.9 - - + +
----------------------------------------------------------
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Residues in contact with PHE 92 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
88C VAL* 2.9 20.3 + - + +
89C ILE 3.2 3.6 + - - +
91C ALA* 1.3 75.7 - - - +
93C LYS* 1.3 66.9 + - + +
95C ASN 2.9 25.1 + - - +
98C LEU* 3.6 27.3 - - + +
99C LYS* 3.4 47.9 + - + +
100C THR 4.2 0.2 - - - -
103C ASN* 3.6 32.3 - - + -
104C TYR* 3.9 27.4 - + - -
107C LEU* 3.3 32.1 - - + -
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Residues in contact with LYS 93 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
89C ILE* 2.9 23.1 + - + +
90C VAL* 3.7 4.7 - - - +
92C PHE* 1.3 82.4 - - + +
94C VAL* 1.3 59.9 + - + +
99C LYS* 2.9 24.2 + - - +
107C LEU* 6.1 0.9 - - + -
----------------------------------------------------------
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Residues in contact with VAL 94 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
90C VAL* 2.9 29.8 + - + +
91C ALA* 3.5 12.8 - - - +
93C LYS* 1.3 77.1 - - + +
95C ASN* 1.3 60.7 + - + +
96C LYS 4.2 1.1 + - - -
553C THR* 5.9 1.8 - - + -
----------------------------------------------------------
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Residues in contact with ASN 95 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
91C ALA 3.0 18.8 + - - +
92C PHE 2.9 16.5 - - - +
93C LYS 3.3 0.4 - - - -
94C VAL* 1.3 82.3 - - + +
96C LYS* 1.3 63.5 + - - +
97C GLN* 2.9 26.2 + - - +
98C LEU* 3.3 21.6 + - + +
99C LYS* 3.4 12.8 + - - +
549C THR* 5.4 1.4 - - - +
553C THR* 3.4 31.5 + - + +
----------------------------------------------------------
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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