Contacts of the helix formed by residues 46 - 73 (chain C) in PDB entry 5XF6
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 GLY 46 (chain C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45C ALA* 1.3 77.9 - - - +
47C ALA* 1.3 59.8 + - - +
48C PRO 3.6 0.2 - - - -
49C VAL* 3.4 9.7 + - - +
50C TYR* 2.9 31.2 + - - +
1101C SO4 2.9 26.1 + - - -
88D SER* 3.5 8.4 - - - -
115D VAL* 3.6 10.9 - - - +
118D TYR* 5.4 3.6 - - - -
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Residues in contact with ALA 47 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34C LEU* 4.3 9.2 - - + -
43C VAL* 4.4 0.7 - - + -
44C GLY 3.5 4.4 + - - +
46C GLY* 1.3 75.4 - - - +
48C PRO* 1.3 65.2 - - + +
50C TYR* 3.2 2.4 + - - +
51C LEU* 2.9 31.8 + - - +
1101C SO4 3.6 3.4 + - - -
86D ILE* 3.5 29.4 - - + +
87D THR 3.8 12.8 - - - +
88D SER* 3.9 9.4 - - - +
91D ILE* 3.9 11.0 - - + +
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Residues in contact with PRO 48 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17C ARG* 4.3 0.2 - - - +
27C VAL* 3.8 16.4 - - + +
30C VAL* 3.7 14.4 - - + +
31C HIS* 3.6 55.0 - - + +
34C LEU* 4.0 9.4 - - + -
43C VAL* 4.4 0.9 - - + -
44C GLY 3.2 16.6 - - - +
45C ALA 3.6 9.2 - - - +
47C ALA* 1.3 92.0 - - + +
49C VAL* 1.3 55.9 + - - +
51C LEU* 4.5 0.2 - - + -
52C ALA* 2.9 33.1 + - - +
----------------------------------------------------------
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Residues in contact with VAL 49 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17C ARG* 5.3 0.2 - - - +
21C ALA* 4.1 6.7 - - + -
23C LEU* 3.7 4.5 - - - +
27C VAL* 3.7 28.0 - - + -
45C ALA 3.9 12.3 - - - +
46C GLY* 3.4 10.3 + - - +
47C ALA 3.1 0.4 - - - -
48C PRO* 1.3 76.4 - - - +
50C TYR* 1.3 65.8 + - - +
53C ALA* 3.2 23.0 + - - +
114D ALA* 3.5 32.5 - - + +
115D VAL* 3.5 15.7 - - + -
118D TYR* 3.8 31.0 - - + -
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Residues in contact with TYR 50 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46C GLY 2.9 17.0 + - - +
47C ALA 3.7 3.1 - - - +
49C VAL* 1.3 75.8 - - - +
51C LEU* 1.3 62.6 + - - +
53C ALA* 3.3 4.0 + - - +
54C VAL* 3.1 35.6 + - + +
88D SER* 3.9 24.9 - - - -
91D ILE* 3.7 18.6 - - + -
92D GLN* 2.4 59.7 + - + +
95D VAL* 4.6 4.3 - - + -
108D VAL* 3.4 22.0 + - - +
111D GLY* 3.6 21.8 - - - -
112D THR* 3.8 17.3 - - - -
115D VAL* 3.8 8.7 - - + -
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Residues in contact with LEU 51 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30C VAL* 4.0 7.6 - - + -
34C LEU* 3.9 20.9 - - + -
47C ALA 2.9 17.2 + - - +
48C PRO 4.2 2.0 - - - +
50C TYR* 1.3 76.2 - - - +
52C ALA* 1.3 64.9 + - - +
54C VAL* 3.2 4.1 + - + +
55C LEU* 2.9 45.9 + - + +
67D PHE* 3.8 36.6 - - + +
70D ILE* 3.7 41.3 - - + -
71D ALA* 5.2 1.3 - - + -
91D ILE* 4.1 19.5 - - + +
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Residues in contact with ALA 52 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23C LEU* 4.2 12.8 - - + -
25C PHE* 3.6 18.4 - - + +
27C VAL* 4.3 13.5 - - + -
30C VAL* 4.1 21.3 - - + +
48C PRO 2.9 21.0 + - - +
49C VAL 3.8 3.4 - - - +
51C LEU* 1.3 77.0 - - - +
53C ALA* 1.3 57.0 + - - +
55C LEU* 3.6 6.3 + - - +
56C GLU* 3.0 27.0 + - - +
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Residues in contact with ALA 53 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23C LEU* 3.8 25.2 - - + +
49C VAL 3.2 12.9 + - - +
50C TYR 3.5 9.4 - - - +
51C LEU 3.1 0.2 - - - -
52C ALA* 1.3 76.9 - - - +
54C VAL* 1.3 55.3 + - - +
56C GLU* 3.2 2.8 + - - +
57C TYR* 2.7 34.7 + - - +
110D GLU* 3.5 30.3 - - + +
111D GLY* 3.9 5.2 - - - -
114D ALA* 4.0 2.7 - - + -
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Residues in contact with VAL 54 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
50C TYR* 3.1 31.7 + - + +
51C LEU* 3.2 9.2 + - - +
53C ALA* 1.3 73.2 - - - +
55C LEU* 1.3 67.0 + - - +
57C TYR* 3.1 8.2 + - - +
58C LEU* 2.9 38.4 + - + +
70D ILE* 3.8 26.9 - - + -
95D VAL* 4.0 14.1 - - + -
99D LEU* 4.7 2.2 - - + -
107D ALA* 3.8 35.0 - - + +
111D GLY* 4.8 0.4 - - - -
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Residues in contact with LEU 55 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25C PHE* 3.9 15.0 - - + -
30C VAL* 4.6 9.4 - - + -
51C LEU* 2.9 34.7 + - + +
52C ALA* 3.7 8.7 - - - +
54C VAL* 1.3 76.7 - - - +
56C GLU* 1.3 52.4 + - - +
58C LEU* 3.5 4.0 + - + +
59C THR* 2.6 39.3 + - - +
34D TYR* 4.6 1.6 - - - +
62D PHE* 5.4 0.2 - - - -
63D VAL* 4.0 26.0 - - + +
66D VAL* 3.8 30.1 - - + -
67D PHE* 3.9 38.4 - - + +
70D ILE* 4.8 0.2 - - + -
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Residues in contact with GLU 56 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22C GLY 4.7 2.1 - - - +
23C LEU* 3.5 21.6 - - - +
24C GLN* 2.8 41.9 + - - +
25C PHE* 2.8 36.1 + - + +
52C ALA 3.0 16.9 + - - +
53C ALA* 3.6 5.4 - - - +
54C VAL 3.2 0.2 - - - -
55C LEU* 1.3 73.2 - - - +
57C TYR* 1.3 66.3 + - - +
59C THR* 3.9 1.4 + - - -
60C ALA* 3.0 26.6 + - + +
41D VAL* 3.9 13.2 - - + +
44D GLN* 4.9 3.6 - - - +
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Residues in contact with TYR 57 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53C ALA 2.7 21.2 + - - +
54C VAL* 3.4 5.8 - - - +
56C GLU* 1.3 74.4 - - - +
58C LEU* 1.3 71.5 + - + +
60C ALA* 3.1 7.6 + - + +
61C GLU* 3.1 45.7 + - + +
102D GLU 4.6 0.3 + - - -
103D LEU* 3.6 43.9 - - + +
106D HIS* 3.2 33.8 - + + +
107D ALA* 3.6 22.7 - - + -
110D GLU* 3.9 33.7 - - + +
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Residues in contact with LEU 58 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
54C VAL* 2.9 28.5 + - + +
55C LEU* 3.9 4.3 - - + +
57C TYR* 1.3 78.3 - - + +
59C THR* 1.3 64.4 + - - +
61C GLU* 3.3 4.7 + - + +
62C ILE* 3.0 24.1 + - - +
93C LEU* 5.0 6.6 - - + +
96C LEU* 4.6 7.6 - - + -
62D PHE* 3.8 16.7 - - + -
66D VAL* 3.7 36.1 - - + -
99D LEU* 4.1 31.2 - - + -
103D LEU* 3.9 33.7 - - + -
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Residues in contact with THR 59 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25C PHE* 3.4 30.5 - - + -
55C LEU* 2.6 28.6 + - - +
56C GLU* 4.2 1.4 + - - -
58C LEU* 1.3 75.3 - - - +
60C ALA* 1.3 62.3 + - - +
62C ILE* 3.2 7.6 - - - +
63C LEU* 3.0 38.6 + - - +
38D VAL* 4.7 5.4 - - - -
41D VAL* 4.0 9.4 - - - +
59D MET* 3.9 15.9 - - - +
62D PHE* 4.2 5.6 - - + -
63D VAL* 3.9 16.2 - - + -
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Residues in contact with ALA 60 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56C GLU* 3.0 19.8 + - + +
57C TYR* 3.5 6.7 - - + +
59C THR* 1.3 76.4 + - - +
61C GLU* 1.3 59.9 + - - +
63C LEU* 3.3 3.0 + - - +
64C GLU* 2.8 32.1 + - - +
41D VAL* 3.6 22.0 - - + -
45D VAL* 4.6 13.8 - - + +
----------------------------------------------------------
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Residues in contact with GLU 61 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57C TYR* 3.1 39.3 + - + +
58C LEU* 3.3 12.1 + - + +
60C ALA* 1.3 77.8 - - - +
62C ILE* 1.3 61.8 + - - +
64C GLU* 3.8 6.2 - - - +
65C LEU* 3.3 37.4 + - + +
90C ASP* 5.3 3.9 - - - +
93C LEU* 4.6 12.6 - - + -
103D LEU* 4.0 20.8 - - + +
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Residues in contact with ILE 62 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58C LEU 3.0 13.9 + - - +
59C THR* 3.2 17.0 - - - +
61C GLU* 1.3 76.0 - - - +
63C LEU* 1.3 59.5 + - - +
65C LEU* 3.4 3.2 + - - +
66C ALA* 2.8 31.6 + - - +
83C LEU* 4.1 22.9 - - + -
86C ALA* 4.8 4.3 - - + -
87C VAL* 3.4 33.7 - - + -
93C LEU* 4.4 19.5 - - + -
97C LEU* 4.8 8.7 - - + -
102C ILE* 6.0 0.7 - - + -
58D ILE* 6.4 1.1 - - + -
59D MET* 3.4 27.1 - - + -
62D PHE* 4.2 13.2 - - + -
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Residues in contact with LEU 63 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59C THR* 3.0 26.3 + - - +
60C ALA 3.9 2.9 - - - +
62C ILE* 1.3 73.0 - - - +
64C GLU* 1.3 67.5 + - - +
66C ALA* 4.2 2.0 - - - -
67C GLY* 2.8 20.1 + - - -
78C ILE* 4.3 18.6 - - + +
83C LEU* 4.8 4.0 - - + -
38D VAL* 3.6 33.7 - - + +
41D VAL* 4.4 3.8 - - + -
42D LEU* 3.9 22.7 - - + +
45D VAL* 4.2 11.4 - - + -
46D HIS* 3.4 8.4 - - - -
51D ILE* 4.4 10.3 - - + -
59D MET* 4.1 29.2 - - + -
----------------------------------------------------------
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Residues in contact with GLU 64 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60C ALA 2.8 18.4 + - - +
61C GLU* 3.8 7.9 - - - +
62C ILE 3.3 0.4 - - - -
63C LEU* 1.3 76.8 - - - +
65C LEU* 1.3 67.0 + - + +
68C ASN* 3.2 23.3 + - - +
45D VAL* 3.3 33.1 - - + +
46D HIS* 2.8 41.1 + - - -
----------------------------------------------------------
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Residues in contact with LEU 65 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61C GLU* 3.3 29.7 + - - +
62C ILE 3.9 1.1 - - - +
63C LEU 3.2 0.4 - - - -
64C GLU* 1.3 82.3 - - + +
66C ALA* 1.3 62.3 + - - +
68C ASN* 3.3 19.5 + - + +
69C ALA* 3.3 19.8 + - - +
86C ALA* 3.7 27.4 - - + +
90C ASP* 4.1 18.6 - - + +
93C LEU* 3.9 24.5 - - + -
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Residues in contact with ALA 66 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62C ILE 2.8 22.2 + - - +
63C LEU* 3.9 3.8 - - - +
65C LEU* 1.3 69.3 - - - +
67C GLY* 1.3 65.7 + - - +
68C ASN 3.1 0.4 - - - -
69C ALA* 3.0 3.8 + - - +
70C ALA* 2.9 22.2 + - - +
78C ILE* 4.0 13.9 - - + +
82C HIS* 3.7 18.5 - - - +
83C LEU* 3.7 27.4 - - + -
86C ALA* 3.5 9.3 - - + +
----------------------------------------------------------
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Residues in contact with GLY 67 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63C LEU 2.8 22.4 + - - -
64C GLU 3.9 0.2 - - - -
66C ALA* 1.3 72.2 - - - +
68C ASN* 1.3 64.1 + - - +
70C ALA* 3.3 5.4 + - - +
71C ARG* 3.0 22.2 + - - +
78C ILE* 3.6 15.3 - - - +
46D HIS* 3.6 20.4 - - - -
49D THR* 4.6 5.7 + - - +
----------------------------------------------------------
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Residues in contact with ASN 68 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64C GLU* 3.2 23.1 + - - +
65C LEU* 3.5 22.1 - - - +
66C ALA 3.1 1.0 - - - -
67C GLY* 1.3 77.0 - - - +
69C ALA* 1.3 58.6 + - - +
71C ARG* 3.2 9.2 + - - +
72C ASP* 2.8 40.3 + - - +
46D HIS* 3.2 21.5 - - - -
----------------------------------------------------------
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Residues in contact with ALA 69 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65C LEU 3.3 7.8 + - - +
66C ALA 3.0 8.3 + - - +
68C ASN* 1.3 75.6 - - - +
70C ALA* 1.3 66.9 + - - +
72C ASP* 3.3 8.9 + - - +
73C ASN* 3.2 29.2 + - - +
82C HIS* 3.9 26.2 - - + +
85C LEU* 4.1 23.1 - - + -
86C ALA* 4.9 1.1 - - - +
----------------------------------------------------------
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Residues in contact with ALA 70 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66C ALA 2.9 12.7 + - - +
67C GLY* 3.4 10.5 - - - +
69C ALA* 1.3 76.3 - - - +
71C ARG* 1.3 59.3 + - - +
73C ASN* 3.2 6.6 + - - -
75C LYS* 2.8 40.9 + - - +
78C ILE* 4.2 17.0 - - + +
82C HIS* 3.7 30.7 - - + +
49D THR* 4.8 5.4 - - + -
----------------------------------------------------------
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Residues in contact with ARG 71 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67C GLY 3.0 16.0 + - - +
68C ASN* 3.8 8.7 - - - +
69C ALA 3.2 0.2 - - - -
70C ALA* 1.3 73.2 - - - +
72C ASP* 1.3 70.2 + - - +
74C LYS* 3.0 17.5 + - - +
75C LYS 3.9 7.6 - - - +
46D HIS* 6.4 1.8 - - + -
----------------------------------------------------------
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Residues in contact with ASP 72 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68C ASN* 2.8 33.4 + - - +
69C ALA* 3.3 10.4 + - - +
71C ARG* 1.3 82.1 - - - +
73C ASN* 1.3 62.6 + - - +
74C LYS* 3.4 10.1 + - - -
----------------------------------------------------------
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Residues in contact with ASN 73 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69C ALA 3.2 15.6 + - - +
70C ALA 3.7 7.6 - - - +
71C ARG 3.1 1.2 - - - -
72C ASP* 1.3 82.1 + - - +
74C LYS* 1.3 73.5 + - - +
75C LYS* 3.0 32.7 + - + +
81C ARG* 5.3 6.2 - - - +
82C HIS* 4.1 14.1 + - - +
85C LEU* 4.6 15.2 - - - +
----------------------------------------------------------
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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