Contacts of the helix formed by residues 50 - 78 (chain C) in PDB entry 6M4G
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 50 (chain C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48C SER* 2.9 4.1 + - - -
49C ARG* 1.3 87.1 - - + +
51C ALA* 1.3 62.5 + - - +
52C PRO* 3.5 1.8 - - - -
53C VAL* 3.0 30.4 - - - +
54C TYR* 3.4 5.0 + - - +
90D THR* 5.4 1.9 - - - +
91D SER* 3.7 18.7 - - - -
118D VAL* 3.8 9.3 - - + +
121D TYR* 3.9 25.6 - - + -
122D THR* 4.2 16.4 - - + -
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Residues in contact with ALA 51 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38C LEU* 5.8 3.6 - - + -
47C LEU* 5.3 3.1 - - + -
48C SER* 2.8 17.1 + - - +
50C THR* 1.3 79.2 - - - +
52C PRO* 1.3 65.5 - - + +
54C TYR* 3.3 3.5 + - - +
55C LEU* 3.0 27.0 + - - +
89D ILE* 3.5 14.8 - - + +
90D THR 3.5 24.5 - - - +
91D SER* 4.0 9.0 - - - +
94D ILE* 4.3 9.1 - - + +
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Residues in contact with PRO 52 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21C ARG* 5.3 2.9 - - - +
31C VAL* 4.1 8.5 - - + +
34C VAL* 3.7 24.1 - - + +
35C GLU* 4.0 35.9 - - + +
38C LEU* 4.8 7.2 - - + -
47C LEU* 5.2 5.8 - - + -
48C SER 4.0 13.5 - - - +
49C ARG 4.1 7.4 - - - +
50C THR 3.7 1.1 - - - -
51C ALA* 1.3 92.7 - - + +
53C VAL* 1.3 64.0 + - + +
55C LEU* 4.3 4.7 - - + +
56C ALA* 2.9 31.4 + - - +
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Residues in contact with VAL 53 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21C ARG* 4.8 5.2 - - - +
25C ALA* 5.8 1.3 - - + -
27C LEU* 4.3 8.7 - - + +
31C VAL* 4.1 25.8 - - + -
49C ARG 4.7 3.1 - - - +
50C THR* 3.0 34.1 - - - +
52C PRO* 1.3 78.2 - - + +
54C TYR* 1.3 57.5 + - - +
56C ALA* 3.4 1.7 + - - +
57C ALA* 2.9 30.1 + - - +
117D ALA* 4.6 2.4 - - - +
118D VAL* 3.4 26.5 - - + -
121D TYR* 4.1 39.5 - - + -
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Residues in contact with TYR 54 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
50C THR 3.7 1.6 - - - +
51C ALA 3.3 8.2 + - - +
52C PRO 3.3 0.2 - - - -
53C VAL* 1.3 82.6 - - - +
55C LEU* 1.3 57.0 + - - +
57C ALA* 3.2 2.4 + - - +
58C VAL* 3.0 30.0 + - + +
91D SER* 3.4 25.6 - - - +
94D ILE* 3.6 22.4 - - + -
95D GLN* 3.2 42.6 - - + +
98D VAL* 4.6 8.3 - - + -
110D ALA 4.8 2.5 - - - -
111D VAL* 3.1 28.6 + - - +
114D GLY* 3.0 47.3 - - - -
115D THR* 3.2 13.5 - - + -
118D VAL* 3.6 12.8 - - + -
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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
----------------------------------------------------------
34C VAL* 5.2 4.5 - - + -
38C LEU* 4.5 17.7 - - + -
51C ALA 3.0 16.9 + - - +
52C PRO* 4.0 5.6 - - + +
54C TYR* 1.3 77.5 - - - +
56C ALA* 1.3 58.5 + - - +
58C VAL* 3.0 19.2 - - + +
59C ILE* 3.0 43.6 + - + +
70D PHE* 3.5 34.3 - - + +
73D ILE* 3.7 30.5 - - + -
74D ALA* 5.1 3.8 - - + -
94D ILE* 3.9 19.3 - - + -
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Residues in contact with ALA 56 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27C LEU* 5.1 3.1 - - + -
29C PHE* 4.1 23.5 - - + +
31C VAL* 4.4 16.2 - - + -
34C VAL* 4.3 21.2 - - + +
52C PRO 2.9 18.5 + - - +
53C VAL 4.0 2.7 - - - +
55C LEU* 1.3 78.4 - - - +
57C ALA* 1.3 58.5 + - - +
59C ILE* 3.9 3.5 - - - -
60C GLU* 2.9 33.1 + - - +
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Residues in contact with ALA 57 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27C LEU* 4.2 8.7 - - + +
53C VAL 2.9 12.9 + - - +
54C TYR 3.2 4.2 + - - +
56C ALA* 1.3 76.7 - - - +
58C VAL* 1.3 60.6 + - - +
60C GLU* 3.7 9.9 - - - +
61C TYR* 2.9 27.0 + - - +
113D GLU* 3.7 16.5 - - + +
114D GLY* 4.0 3.1 - - - -
117D ALA* 3.3 34.1 - - + -
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Residues in contact with VAL 58 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
54C TYR* 3.0 16.9 + - + +
55C LEU* 3.0 37.9 - - + +
57C ALA* 1.3 76.5 - - - +
59C ILE* 1.3 66.9 + - + +
61C TYR* 3.1 6.4 + - - +
62C LEU* 2.9 32.6 + - + +
73D ILE* 4.5 4.5 - - + -
94D ILE* 4.9 1.1 - - + -
98D VAL* 4.0 24.2 - - + -
102D LEU* 4.8 0.7 - - + -
110D ALA* 3.1 43.3 - - + +
114D GLY* 4.9 0.2 - - - -
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Residues in contact with ILE 59 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29C PHE* 3.8 15.0 - - + -
34C VAL* 5.4 5.8 - - + -
55C LEU* 3.0 33.3 + - + +
56C ALA* 4.3 2.9 - - - +
58C VAL* 1.3 77.5 - - + +
60C GLU* 1.3 57.1 + - - +
62C LEU* 3.3 7.8 + - + +
63C THR* 2.9 32.8 + - + +
37D TYR* 6.1 0.9 - - + -
65D PHE* 6.2 0.2 - - + -
66D VAL* 3.7 28.5 - - + +
69D ILE* 4.2 18.6 - - + -
70D PHE* 3.9 41.7 - - + -
73D ILE* 4.8 3.6 - - + -
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Residues in contact with GLU 60 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26C GLU 5.0 0.3 - - - +
27C LEU* 3.1 39.0 - - - +
28C SER* 2.6 42.3 + - - -
29C PHE* 3.8 16.7 + - + +
56C ALA 2.9 20.5 + - - +
57C ALA 3.7 4.3 - - - +
59C ILE* 1.3 78.7 - - - +
61C TYR* 1.3 56.4 + - - +
63C THR* 2.8 19.2 + - - -
64C ALA* 2.9 19.6 + - + +
44D VAL* 4.6 10.5 - - + +
47D GLN* 4.7 2.6 - - - +
----------------------------------------------------------
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Residues in contact with TYR 61 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57C ALA 2.9 17.4 + - - +
58C VAL* 3.1 6.0 + - - +
60C GLU* 1.3 77.9 - - - +
62C LEU* 1.3 68.8 + - + +
64C ALA* 3.4 6.1 + - + -
65C LYS* 2.9 67.5 + - + +
106D LEU* 4.4 21.3 - - + +
109D HIS* 3.4 37.0 + + + +
110D ALA* 4.2 15.9 - - + -
113D GLU* 3.7 33.9 - - + -
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Residues in contact with LEU 62 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58C VAL* 2.9 25.4 + - + +
59C ILE* 3.3 6.5 + - + +
61C TYR* 1.3 86.2 - - + +
63C THR* 1.3 58.5 + - - +
65C LYS* 3.8 3.3 - - + +
66C VAL* 2.9 31.7 + - - +
100C LEU* 5.1 10.5 - - + -
65D PHE* 4.3 18.6 - - + -
69D ILE* 4.0 33.2 - - + -
73D ILE* 5.2 1.3 - - + -
102D LEU* 3.9 33.4 - - + -
106D LEU* 4.1 22.0 - - + -
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Residues in contact with THR 63 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29C PHE* 3.5 20.3 - - + -
59C ILE* 2.9 17.7 + - + +
60C GLU* 2.8 21.1 + - - -
62C LEU* 1.3 75.8 - - - +
64C ALA* 1.3 56.2 + - - +
65C LYS 3.1 0.2 - - - -
66C VAL* 3.2 7.7 - - - +
67C LEU* 2.9 36.3 + - - +
41D VAL* 5.1 3.8 - - + -
44D VAL* 4.1 14.5 - - - +
62D MET* 4.6 7.6 - - + -
65D PHE* 4.6 7.6 - - + -
66D VAL* 3.6 31.4 - - + -
----------------------------------------------------------
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Residues in contact with ALA 64 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60C GLU* 2.9 20.3 + - + +
61C TYR* 3.5 7.6 - - + +
63C THR* 1.3 75.9 + - - +
65C LYS* 1.3 59.1 + - - +
67C LEU* 5.1 1.3 - - - -
68C GLU* 3.1 24.0 - - - +
44D VAL* 3.8 22.7 - - + -
48D VAL* 4.2 11.6 - - + +
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Residues in contact with LYS 65 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61C TYR* 2.9 53.6 + - + +
62C LEU* 3.8 6.3 - - + +
63C THR 3.1 0.2 - - - -
64C ALA* 1.3 81.0 - - - +
66C VAL* 1.3 63.1 + - - +
67C LEU 3.5 0.2 - - - -
68C GLU* 3.9 13.5 - - + +
69C LEU* 3.3 32.8 + - - +
96C LEU* 3.3 47.2 - - + +
97C LEU* 4.5 8.1 - - + -
106D LEU* 4.8 4.0 - - + -
109D HIS* 5.5 4.0 - - - -
----------------------------------------------------------
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Residues in contact with VAL 66 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62C LEU 2.9 19.5 + - - +
63C THR* 3.2 6.3 - - - +
65C LYS* 1.3 76.0 - - - +
67C LEU* 1.3 63.0 + - + +
69C LEU* 3.1 7.0 + - - +
70C ALA* 2.9 25.3 + - + +
87C LEU* 5.6 4.0 - - + -
90C VAL* 5.1 6.0 - - + +
91C VAL* 4.3 23.8 - - + -
97C LEU* 4.6 15.0 - - + +
101C PHE* 5.6 4.0 - - + -
62D MET* 3.1 42.6 - - + -
65D PHE* 4.3 11.7 - - + -
----------------------------------------------------------
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Residues in contact with LEU 67 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63C THR* 2.9 20.3 + - - +
64C ALA* 5.1 0.2 - - - -
66C VAL* 1.3 74.9 - - + +
68C GLU* 1.3 60.2 + - - +
70C ALA* 4.0 14.1 - - + +
71C GLY* 2.9 23.2 + - - -
82C ILE* 4.8 6.3 - - + -
87C LEU* 5.7 2.2 - - + -
41D VAL* 3.4 41.1 - - + +
44D VAL* 4.2 9.2 - - + -
45D LEU* 4.1 22.0 - - + +
48D VAL* 4.4 7.6 - - + -
49D HIS* 3.6 7.3 - - - -
54D ILE* 4.2 13.5 - - + -
62D MET* 3.7 33.0 - - + -
----------------------------------------------------------
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Residues in contact with GLU 68 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64C ALA 3.1 24.9 + - - +
65C LYS* 3.9 13.5 + - + +
66C VAL 3.2 1.0 - - - -
67C LEU* 1.3 78.4 - - - +
69C LEU* 1.3 79.6 + - - +
72C ASN* 2.8 47.9 + - - +
48D VAL* 3.4 26.3 - - + +
49D HIS* 3.0 12.1 + - + +
----------------------------------------------------------
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Residues in contact with LEU 69 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65C LYS* 3.3 28.3 - - + +
66C VAL* 3.1 6.7 + - - +
68C GLU* 1.3 92.7 - - - +
70C ALA* 1.3 59.7 + - - +
72C ASN* 3.7 8.6 - - + +
73C GLU* 2.8 40.3 + - + +
90C VAL* 4.5 14.8 - - + -
94C ASP* 3.3 40.4 - - + +
96C LEU* 6.1 0.4 - - + -
97C LEU* 3.6 15.9 - - + -
----------------------------------------------------------
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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 VAL* 2.9 16.7 + - + +
67C LEU* 3.4 11.6 + - + +
69C LEU* 1.3 77.9 - - - +
71C GLY* 1.3 56.0 + - - +
73C GLU* 3.4 1.7 + - - +
74C ALA* 2.9 30.1 + - - +
82C ILE* 3.9 33.3 - - + +
86C LEU* 4.6 6.9 - - + +
87C LEU* 5.0 6.7 - - + -
90C VAL* 4.5 18.3 - - + +
----------------------------------------------------------
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Residues in contact with GLY 71 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67C LEU 2.9 11.9 + - - -
70C ALA* 1.3 74.3 - - - +
72C ASN* 1.3 61.6 + - - +
74C ALA* 4.0 0.6 - - - +
75C GLN* 3.2 28.6 + - - +
82C ILE* 4.1 10.9 - - - +
49D HIS* 3.3 29.4 + - - -
52D THR* 4.2 13.4 + - - -
----------------------------------------------------------
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Residues in contact with ASN 72 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68C GLU* 2.8 43.4 + - - +
69C LEU* 3.2 13.4 + - + +
71C GLY* 1.3 75.3 - - - +
73C GLU* 1.3 65.6 + - + +
75C GLN* 3.0 27.0 - - - +
76C ASN* 2.9 29.2 + - - +
49D HIS* 3.0 18.6 + - - -
----------------------------------------------------------
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Residues in contact with GLU 73 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69C LEU* 2.8 24.9 + - + +
70C ALA* 4.0 2.7 - - - +
72C ASN* 1.3 80.1 - - + +
74C ALA* 1.3 60.6 + - - +
76C ASN* 4.0 22.2 + - - +
77C SER* 2.9 32.1 + - - -
86C LEU* 4.4 5.4 - - + +
89C MET* 3.6 25.4 - - + +
90C VAL* 3.5 22.4 - - + -
----------------------------------------------------------
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Residues in contact with ALA 74 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70C ALA 2.9 18.1 + - - +
71C GLY 4.3 1.6 - - - +
72C ASN 3.4 0.6 - - - -
73C GLU* 1.3 77.1 - - - +
75C GLN* 1.3 56.5 + - - +
77C SER* 4.2 0.4 - - - -
78C GLY 2.9 2.6 + - - -
79C GLU* 2.4 49.0 + - + +
81C ASN 3.8 23.3 - - - +
82C ILE* 4.5 0.9 - - + -
86C LEU* 3.9 9.4 - - + +
52D THR* 4.1 17.7 - - + +
----------------------------------------------------------
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Residues in contact with GLN 75 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
71C GLY 3.2 14.9 + - - +
72C ASN* 3.0 40.3 - - - +
74C ALA* 1.3 79.0 - - - +
76C ASN* 1.3 62.8 + - - +
78C GLY* 3.7 9.3 + - - +
79C GLU 4.4 3.1 - - - -
49D HIS* 3.6 11.6 + - - -
52D THR* 4.7 8.8 + - - +
----------------------------------------------------------
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Residues in contact with ASN 76 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
72C ASN 2.9 20.2 + - - +
73C GLU* 4.0 24.4 + - - +
75C GLN* 1.3 77.7 - - + +
77C SER* 1.3 63.7 + - - +
----------------------------------------------------------
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Residues in contact with SER 77 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
73C GLU* 2.9 18.6 + - - -
76C ASN* 1.3 79.8 - - - +
78C GLY* 1.3 61.2 + - - +
79C GLU* 3.2 28.3 + - - +
86C LEU* 4.6 2.3 - - - +
89C MET* 5.1 9.4 - - - -
----------------------------------------------------------
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Residues in contact with GLY 78 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
74C ALA 2.9 6.9 + - - -
75C GLN* 3.7 8.3 + - - -
76C ASN 3.4 2.6 - - - -
77C SER* 1.3 79.5 - - - +
79C GLU* 1.3 66.8 + - - +
80C ARG* 3.8 0.5 + - - +
----------------------------------------------------------
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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