Contacts of the helix formed by residues 49 - 76 (chain F) in PDB entry 6KE9
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 LEU 49 (chain F).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121E PRO* 3.5 28.9 - - + -
47F SER* 3.3 10.6 + - - +
48F GLY* 1.3 77.2 - - - +
50F ILE* 1.3 62.2 + - - +
51F TYR 3.3 1.2 + - - -
52F GLU* 3.6 8.0 + - - +
53F GLU* 3.3 22.3 + - - +
7I G 5.7 2.5 - - - +
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Residues in contact with ILE 50 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
104E PHE* 4.1 8.1 - - + -
119E ILE* 3.3 43.5 - - + +
120E MET* 3.4 31.6 - - - +
121E PRO* 3.8 0.9 - - - -
124E ILE* 3.6 19.1 - - + -
34F ILE* 4.6 4.3 - - + -
38F ALA* 6.1 0.2 - - + -
46F ILE* 3.7 16.2 - - + -
47F SER* 3.4 22.4 - - - +
48F GLY 3.3 0.4 - - - -
49F LEU* 1.3 74.3 - - - +
51F TYR* 1.3 56.8 + - - +
53F GLU* 3.1 4.3 + - - +
54F THR* 2.8 50.5 + - - +
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Residues in contact with TYR 51 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31F LYS* 3.5 53.0 + - + -
34F ILE* 3.7 26.3 - - + +
35F ARG* 3.4 32.9 - - + +
46F ILE* 3.3 30.9 + - + +
47F SER 3.7 12.6 - - - -
48F GLY* 3.4 26.2 - - - +
49F LEU 3.3 1.0 - - - -
50F ILE* 1.3 75.1 - - - +
52F GLU* 1.3 56.9 + - - +
54F THR 3.5 0.2 + - - -
55F ARG* 3.2 56.1 + - - +
7I G 5.7 0.2 - - - -
8I G 4.3 5.0 + - - -
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Residues in contact with GLU 52 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27F GLN* 3.3 17.1 + - - -
48F GLY 4.8 1.0 + - - +
49F LEU* 3.6 10.0 + - - +
50F ILE 3.4 0.4 - - - -
51F TYR* 1.3 75.4 - - - +
53F GLU* 1.4 58.1 + - - +
55F ARG* 2.9 40.6 + - - +
56F GLY* 3.3 19.4 + - - -
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Residues in contact with GLU 53 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121E PRO* 3.7 21.7 - - + +
124E ILE* 4.1 18.1 - - + +
125E GLN* 2.9 36.8 + - - +
49F LEU 3.3 12.4 + - - +
50F ILE* 3.1 9.3 + - - +
52F GLU* 1.4 74.9 - - - +
54F THR* 1.3 59.3 + - - +
55F ARG 3.2 1.1 - - - -
56F GLY* 3.2 3.2 + - - +
57F VAL* 3.0 39.5 + - - +
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Residues in contact with THR 54 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
100E LEU* 4.1 26.9 - - + -
104E PHE* 3.5 33.6 - - + -
124E ILE* 4.0 6.3 - - - +
34F ILE* 3.8 24.1 - - + +
37F LEU* 5.7 0.2 - - + -
50F ILE* 2.8 28.8 + - - +
51F TYR 3.8 4.3 - - - -
53F GLU* 1.3 70.9 - - - +
55F ARG* 1.3 57.2 + - - +
57F VAL* 3.3 6.5 + - - +
58F LEU* 2.8 35.3 + - + +
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Residues in contact with ARG 55 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26F ILE* 3.4 49.2 - - + +
27F GLN* 3.5 29.9 + - - +
29F ILE* 2.8 30.7 + - + +
30F THR* 3.8 11.1 - - - +
31F LYS* 3.9 6.7 - - - +
34F ILE* 3.4 21.1 - - + +
51F TYR* 3.2 36.5 + - - +
52F GLU* 2.9 31.4 + - - +
54F THR* 1.3 76.2 - - - +
56F GLY* 1.3 61.7 + - - +
58F LEU* 3.4 3.9 + - - +
59F LYS* 3.0 20.8 + - - +
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Residues in contact with GLY 56 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52F GLU 3.3 9.4 + - - -
53F GLU* 3.2 9.0 + - - -
55F ARG* 1.3 78.4 - - - +
57F VAL* 1.4 55.2 + - - +
59F LYS* 3.5 6.0 + - - +
60F VAL* 3.2 34.1 + - - +
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Residues in contact with VAL 57 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
99E TYR* 3.4 34.6 + - + +
100E LEU* 4.3 5.2 - - + -
103E LEU* 3.7 15.3 - - + -
124E ILE* 4.0 14.1 - - + -
128E ARG* 3.6 31.5 + - - +
53F GLU* 3.0 26.3 + - - +
54F THR* 3.8 6.3 - - - +
56F GLY* 1.4 71.3 - - - +
58F LEU* 1.3 60.0 + - - +
60F VAL* 3.5 7.8 + - - +
61F PHE* 3.1 26.7 + - - +
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Residues in contact with LEU 58 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62E ILE* 4.6 3.4 - - + -
67E PHE* 4.5 5.6 - - + -
70E LEU* 4.3 11.4 - - + -
96E CYS* 3.6 35.9 - - + -
99E TYR* 6.1 0.2 - - + -
100E LEU* 3.9 29.1 - - + +
26F ILE* 4.9 4.0 - - + -
29F ILE* 3.7 46.7 - - + -
54F THR* 2.8 22.4 + - + +
55F ARG* 3.8 4.0 - - - +
57F VAL* 1.3 69.3 - - - +
59F LYS* 1.4 60.0 + - - +
61F PHE* 3.3 8.3 + - + +
62F LEU* 2.9 28.8 + - + +
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Residues in contact with LYS 59 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70E LEU* 5.3 1.1 - - - -
73E GLU* 3.9 20.5 + - - -
74E ILE* 4.0 25.3 - - + +
77E ASP* 5.8 2.9 - - - -
26F ILE* 4.0 32.9 - - + +
55F ARG 3.0 18.3 + - - +
56F GLY* 3.7 6.5 - - - +
58F LEU* 1.4 72.7 - - - +
60F VAL* 1.4 56.7 + - + +
62F LEU* 3.4 2.4 + - - +
63F GLU* 2.8 60.4 + - - +
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Residues in contact with VAL 60 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
128E ARG* 5.0 20.6 - - - +
56F GLY 3.2 18.0 + - - +
57F VAL* 3.8 8.7 - - - +
59F LYS* 1.4 71.7 - - + +
61F PHE* 1.3 67.3 + - - +
63F GLU* 3.2 15.5 + - - +
64F ASN* 2.9 44.5 + - - +
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Residues in contact with PHE 61 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
92E LEU* 5.8 0.9 - - + -
95E ALA* 3.7 21.5 - - + -
96E CYS* 3.6 39.9 - - - -
99E TYR* 3.4 39.5 - + + -
57F VAL 3.1 13.9 + - - +
58F LEU* 3.3 10.3 + - - +
60F VAL* 1.3 78.1 - - - +
62F LEU* 1.3 61.5 + - + +
64F ASN* 3.6 5.0 + - - +
65F VAL* 3.1 51.6 + - + +
90F LEU* 4.2 5.8 - - + -
93F GLN* 6.2 0.4 - - + -
95F ARG* 3.4 33.0 - - + -
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Residues in contact with LEU 62 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67E PHE* 4.1 20.9 - - + -
70E LEU* 4.0 22.9 - - + -
71E VAL* 4.3 10.1 - - + -
74E ILE* 3.7 27.8 - - + -
92E LEU* 3.7 18.4 - - + -
96E CYS* 3.5 26.9 - - - -
58F LEU* 2.9 18.8 + - + +
61F PHE* 1.3 73.1 - - + +
63F GLU* 1.3 68.2 + - - +
65F VAL* 4.5 1.1 - - - +
66F ILE* 2.8 48.7 + - + +
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Residues in contact with GLU 63 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
74E ILE* 3.9 21.7 - - + +
78E PHE* 3.4 12.5 - - + -
59F LYS* 2.8 56.0 + - + +
60F VAL* 3.2 20.0 + - - +
62F LEU* 1.3 71.0 - - - +
64F ASN* 1.3 55.4 + - - +
67F ARG* 2.8 53.0 + - - +
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Residues in contact with ASN 64 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60F VAL* 2.9 39.3 + - - +
61F PHE* 3.7 5.3 - - - +
63F GLU* 1.3 77.9 - - - +
65F VAL* 1.3 63.3 + - + +
67F ARG* 3.0 32.0 + - - +
68F ASP* 3.4 14.9 + - - +
93F GLN* 3.7 32.1 + - - +
95G LYS* 6.1 2.6 - - - +
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Residues in contact with VAL 65 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
92E LEU* 3.6 26.9 - - + -
61F PHE* 3.1 37.2 + - + +
62F LEU* 4.1 1.6 - - - +
64F ASN* 1.3 75.2 - - + +
66F ILE* 1.4 57.0 + - - +
68F ASP 3.2 2.9 + - - -
69F ALA* 2.9 24.9 + - + +
86F VAL* 4.5 4.5 - - + +
89F ALA* 3.5 19.8 - - + +
90F LEU* 3.8 34.8 - - + -
93F GLN* 4.0 19.3 - - + -
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Residues in contact with ILE 66 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
71E VAL* 4.1 20.4 - - + +
74E ILE* 3.8 21.5 - - + -
75E ALA* 3.9 30.7 - - + +
78E PHE* 4.1 6.3 - - + -
84E PHE* 4.6 6.1 - - + -
92E LEU* 3.9 23.1 - - + -
62F LEU* 2.8 46.1 + - + +
63F GLU 4.1 0.9 - - - +
65F VAL* 1.4 67.7 - - - +
67F ARG* 1.3 60.2 + - - +
69F ALA* 4.1 7.4 - - + -
70F VAL* 2.9 46.7 + - + +
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Residues in contact with ARG 67 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78E PHE* 3.3 46.9 - - + -
63F GLU* 2.8 37.4 + - - +
64F ASN* 3.0 44.4 + - - +
66F ILE* 1.3 73.6 - - - +
68F ASP* 1.3 59.8 + - - +
70F VAL* 3.4 3.3 + - - +
71F THR* 2.7 38.3 + - - +
----------------------------------------------------------
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Residues in contact with ASP 68 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64F ASN 3.4 5.6 + - - +
65F VAL 3.2 9.0 + - - +
67F ARG* 1.3 87.2 + - - +
69F ALA* 1.3 64.2 + - - +
71F THR* 3.1 9.1 + - - -
72F TYR* 3.0 28.9 + - + -
89F ALA* 3.8 14.1 - - + -
92F ARG* 2.7 39.0 + - - +
93F GLN* 2.8 20.5 + - - +
96H ARG 5.5 0.7 - - - +
97H LEU* 3.9 20.4 - - + +
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Residues in contact with ALA 69 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84E PHE* 6.2 0.2 - - + -
92E LEU* 6.1 0.4 - - + -
65F VAL 2.9 16.6 + - - +
66F ILE* 3.7 9.9 - - + +
68F ASP* 1.3 74.7 - - - +
70F VAL* 1.3 57.6 + - + +
72F TYR* 3.0 8.0 + - - +
73F THR* 2.9 29.8 + - - -
81F VAL* 4.2 9.4 - - + -
85F ASP* 3.6 31.5 - - - +
86F VAL* 4.2 15.9 - - + +
89F ALA* 3.7 4.0 - - + +
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Residues in contact with VAL 70 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
75E ALA* 4.8 1.3 - - + -
78E PHE* 4.6 13.0 - - + +
79E LYS* 3.9 20.0 - - + -
82E LEU* 3.7 37.7 - - + -
66F ILE* 2.9 36.8 + - + +
67F ARG* 3.8 4.5 - - - +
69F ALA* 1.3 71.9 - - + +
71F THR* 1.4 53.7 + - - +
73F THR* 3.2 6.5 + - - -
74F GLU* 2.8 40.1 + - + +
81F VAL* 3.9 14.4 - - + -
----------------------------------------------------------
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Residues in contact with THR 71 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67F ARG* 2.7 28.1 + - - +
68F ASP* 3.1 9.9 + - - -
70F VAL* 1.4 75.3 - - - +
72F TYR* 1.4 56.1 + - - +
74F GLU* 3.5 12.2 + - - +
75F HIS* 2.9 27.4 + - - +
93H THR* 4.1 19.1 + - - +
96H ARG* 4.3 19.7 + - + -
97H LEU* 3.8 28.7 - - + +
----------------------------------------------------------
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Residues in contact with TYR 72 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68F ASP 3.0 25.2 + - - -
69F ALA 3.3 6.3 - - - +
71F THR* 1.4 73.1 - - - +
73F THR* 1.4 63.8 + - - +
75F HIS* 3.0 7.3 + - + +
76F ALA* 2.9 23.7 + - - +
85F ASP* 3.7 33.7 - - - +
88F TYR* 3.6 33.8 + + + -
89F ALA* 3.9 4.3 - - - -
92F ARG* 3.6 14.5 - - + +
73H GLU* 2.9 24.3 + - - -
77H LEU* 3.6 31.2 - - + -
80H TYR* 3.8 26.8 + + - -
81H ASN* 5.2 2.2 + - - +
97H LEU* 3.7 18.3 - - + +
----------------------------------------------------------
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Residues in contact with THR 73 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82E LEU* 4.6 4.9 - - + -
69F ALA 2.9 14.9 + - - -
70F VAL* 3.4 11.2 - - - -
72F TYR* 1.4 72.7 - - - +
74F GLU* 1.3 64.2 + - - +
76F ALA* 3.1 13.0 + - - +
78F ARG* 3.2 41.0 + - - +
79F LYS 4.1 2.5 - - - -
80F THR 3.3 33.2 - - - +
81F VAL* 3.4 20.6 - - + +
85F ASP* 2.9 17.3 + - - -
----------------------------------------------------------
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Residues in contact with GLU 74 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78E PHE 5.5 2.0 - - - +
79E LYS* 3.8 37.1 - - + +
70F VAL* 2.8 29.1 + - + +
71F THR* 3.6 11.7 - - + +
73F THR* 1.3 73.3 - - - +
75F HIS* 1.4 63.1 + - - +
77F LYS* 2.9 17.2 + - - +
78F ARG 4.5 4.5 - - - -
89H ARG* 3.4 9.7 + - - -
----------------------------------------------------------
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Residues in contact with HIS 75 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
71F THR 2.9 15.7 + - - +
72F TYR 3.0 8.0 + - - +
74F GLU* 1.4 72.5 - - - +
76F ALA* 1.3 57.5 + - - +
77F LYS* 3.0 6.8 + - - +
77H LEU* 3.6 20.1 - - + +
81H ASN* 3.0 33.1 + - + +
83H ARG* 6.1 2.0 - - - -
89H ARG* 2.7 51.8 + - + +
90H GLU* 2.8 40.2 + - + +
93H THR* 2.8 41.6 - - + +
----------------------------------------------------------
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Residues in contact with ALA 76 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
72F TYR 2.9 8.5 + - - +
73F THR 3.1 9.2 + - - +
75F HIS* 1.3 73.0 + - - +
77F LYS* 1.4 65.9 + - - +
78F ARG* 3.4 44.5 + - - +
81H ASN* 3.6 22.4 + - - +
----------------------------------------------------------
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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