Contacts of the helix formed by residues 49 - 76 (chain G) in PDB entry 2W5J
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 49 (chain G).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35G ALA* 4.9 1.8 - - + -
39G ILE* 2.9 39.7 - - + -
45G ALA 3.2 5.0 + - - +
47G GLY 2.8 3.1 - - - +
48G LYS* 1.3 73.2 - - - +
50G ARG* 1.3 68.5 + - + +
52G THR* 2.7 21.7 + - - -
53G LEU 3.3 6.3 + - - -
36H VAL* 3.7 32.7 - - + +
39H ILE* 4.8 3.1 - - + +
40H ALA* 6.0 0.9 - - - +
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Residues in contact with ARG 50 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47F GLY 4.2 0.6 + - - -
48F LYS* 3.1 21.8 + - - +
51F GLY* 3.4 14.7 + - - -
52F THR* 2.7 57.0 + - + +
55F LEU* 4.6 9.4 - - + -
39G ILE* 6.0 2.0 - - + +
46G GLU* 3.4 24.7 + - + +
47G GLY* 2.9 23.5 + - - +
49G ILE* 1.3 77.2 - - + +
51G GLY* 1.3 64.9 + - - +
52G THR 2.8 0.3 + - - -
53G LEU* 2.9 8.6 + - - -
54G LEU* 2.7 41.2 + - + +
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Residues in contact with GLY 51 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47G GLY 2.7 16.7 + - - -
50G ARG* 1.3 72.0 - - - +
52G THR* 1.3 55.5 + - - +
54G LEU* 4.5 6.1 - - - +
55G LEU* 3.2 21.8 + - - +
50H ARG* 3.3 22.4 + - - -
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Residues in contact with THR 52 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48G LYS 3.8 3.8 + - - -
49G ILE* 2.7 13.1 + - - -
50G ARG 2.8 0.2 + - - -
51G GLY* 1.3 70.6 - - - -
53G LEU* 1.3 56.1 + - - -
54G LEU 3.2 1.3 - - - -
55G LEU* 2.8 16.8 + - + +
56G SER* 2.4 40.2 + - - +
32H ALA* 5.5 1.6 - - - +
35H ALA* 5.2 3.8 - - + -
36H VAL* 5.4 9.3 - - - +
39H ILE* 5.3 5.8 - - + +
50H ARG* 2.6 36.0 + - + +
53H LEU* 3.0 38.8 - - + -
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Residues in contact with LEU 53 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52F THR* 3.0 27.4 - - + -
55F LEU* 3.2 26.2 - - + -
56F SER* 3.6 11.9 - - - +
31G ALA* 5.6 3.6 - - - +
32G ALA* 3.8 18.8 - - - +
35G ALA* 3.9 19.3 - - + -
49G ILE 3.3 3.7 + - - +
50G ARG* 2.9 15.0 + - - +
52G THR* 1.3 80.1 - - - +
54G LEU* 1.3 70.2 + - + +
56G SER* 3.3 3.9 - - - -
57G LEU* 2.4 69.8 + - + +
32H ALA* 5.9 1.1 - - - -
36H VAL* 4.9 5.4 - - + +
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Residues in contact with LEU 54 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55F LEU* 3.2 45.3 - - + -
59F PHE* 4.6 7.9 - - + -
50G ARG* 2.7 32.3 + - + +
51G GLY* 4.5 4.5 - - - +
53G LEU* 1.3 82.9 - - + +
55G LEU* 1.3 55.4 + - - +
57G LEU* 3.8 2.9 - - - -
58G ALA* 2.6 36.3 + - - +
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Residues in contact with LEU 55 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51G GLY 3.2 16.6 + - - +
52G THR* 2.8 23.4 + - + +
54G LEU* 1.3 73.3 - - - +
56G SER* 1.3 58.7 + - - +
58G ALA* 3.0 24.0 - - - +
59G PHE* 3.2 23.9 - - + -
50H ARG* 4.6 8.1 - - + -
53H LEU* 3.1 22.4 - - + -
54H LEU* 3.0 44.9 - - + -
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Residues in contact with SER 56 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31G ALA* 5.2 0.2 - - - -
52G THR* 2.4 22.2 + - - +
53G LEU* 3.4 4.0 - - - -
55G LEU* 1.3 68.3 - - - +
57G LEU* 1.3 56.2 + - - -
58G ALA 2.7 16.0 + - - -
59G PHE* 2.7 20.2 + - - -
60G MET* 3.2 10.2 + - - -
28H GLN 6.2 0.2 - - - -
29H GLY* 6.1 0.4 - - - -
32H ALA* 3.2 35.1 - - - +
53H LEU* 3.5 9.9 - - - +
57H LEU* 3.4 24.6 - - - +
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Residues in contact with LEU 57 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55F LEU* 4.6 0.2 - - + -
56F SER* 3.6 22.0 - - - +
59F PHE* 3.2 49.2 - - + -
28G GLN* 4.0 18.8 - - + +
31G ALA* 4.0 24.9 - - + -
32G ALA 4.3 2.0 - - - +
53G LEU* 2.4 64.8 + - + +
54G LEU* 3.6 4.3 - - - +
56G SER* 1.3 71.2 - - - +
58G ALA* 1.3 65.3 + - - +
60G MET* 4.1 8.8 - - - +
61G GLU* 3.6 11.3 + - - +
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Residues in contact with ALA 58 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59F PHE* 5.1 0.6 - - - -
54G LEU 2.6 16.4 + - - +
55G LEU* 3.0 17.9 - - + +
56G SER 2.7 2.6 + - - -
57G LEU* 1.3 76.5 - - - +
59G PHE* 1.3 67.1 + - + +
60G MET 3.2 0.2 - - - -
61G GLU* 2.9 21.9 + - - +
62G ALA* 3.2 4.2 + - - -
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Residues in contact with PHE 59 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55G LEU* 3.2 34.5 - - + -
56G SER 2.7 10.7 + - - -
58G ALA* 1.3 77.3 - - + +
60G MET* 1.3 59.8 + - - +
62G ALA* 3.4 14.4 - - + -
63G LEU* 3.9 4.3 - - - +
28H GLN* 5.5 4.7 - - + -
54H LEU* 4.6 4.9 - - + -
57H LEU* 3.1 63.3 - - + -
58H ALA* 4.9 0.9 - - - -
61H GLU* 2.9 45.9 - - + +
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Residues in contact with MET 60 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63F LEU* 6.1 0.4 - - + -
24G PRO* 4.3 14.4 - - + -
28G GLN* 3.7 36.6 - - + +
56G SER 3.2 8.7 + - - +
57G LEU* 4.3 5.2 - - - +
58G ALA 3.0 1.2 + - - -
59G PHE* 1.3 75.3 - - - +
61G GLU* 1.3 60.5 + - - +
62G ALA 2.9 5.2 + - - -
63G LEU* 2.9 31.7 - - - +
64G THR* 3.7 3.8 + - - +
25H GLY* 5.5 4.5 - - - +
29H GLY* 6.0 3.4 - - - +
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Residues in contact with GLU 61 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59F PHE* 3.0 47.0 - - + +
62F ALA* 3.0 22.9 - - - +
63F LEU* 3.3 17.2 + - + +
66F TYR* 2.6 24.1 + - - -
24G PRO* 5.0 0.2 - - - +
57G LEU 3.6 3.3 + - - +
58G ALA* 2.9 12.9 + - - +
60G MET* 1.3 79.2 - - + +
62G ALA* 1.3 57.8 + - - +
64G THR* 2.9 39.5 + - - -
65G ILE* 3.2 12.7 - - + +
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Residues in contact with ALA 62 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58G ALA 3.2 5.3 + - - +
59G PHE* 3.4 18.8 - - + -
60G MET 2.9 0.8 + - - -
61G GLU* 1.3 76.1 - - - +
63G LEU* 1.3 59.2 + - - +
64G THR 3.1 0.2 - - - -
65G ILE* 2.7 38.5 + - + +
66G TYR* 2.9 19.9 - - + +
61H GLU* 3.0 18.2 - - - +
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Residues in contact with LEU 63 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
20G ALA* 4.2 1.9 - - - +
24G PRO* 3.2 25.4 - - + -
59G PHE 3.9 4.5 - - - +
60G MET* 2.9 27.4 - - - +
62G ALA* 1.3 78.0 - - - +
64G THR* 1.3 57.4 + - - +
66G TYR* 3.6 23.4 - - + +
67G GLY 4.6 0.5 + - - -
20H ALA 4.4 1.6 - - - +
21H SER* 3.7 20.0 - - - +
24H PRO* 3.9 14.6 - - + -
25H GLY* 4.3 5.6 - - - +
61H GLU* 3.4 21.5 - - + +
64H THR* 3.1 46.7 - - + +
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Residues in contact with THR 64 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63F LEU* 3.1 30.8 - - + +
66F TYR* 3.5 9.9 - - - -
20G ALA* 2.7 42.9 - - - +
24G PRO* 3.1 18.8 - - + -
60G MET 3.8 4.7 - - - +
61G GLU* 2.9 30.0 + - - -
63G LEU* 1.3 75.5 - - - +
65G ILE* 1.3 65.0 + - - +
66G TYR 3.2 1.6 - - - -
67G GLY 3.2 4.3 + - - -
68G LEU* 3.1 15.9 + - - +
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Residues in contact with ILE 65 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66F TYR* 3.4 29.8 - - + +
61G GLU* 3.2 13.5 - - + +
62G ALA* 2.7 32.1 + - + +
64G THR* 1.3 78.3 + - - +
66G TYR* 1.3 63.9 + - + +
67G GLY 2.9 2.2 - - - -
68G LEU* 2.7 13.9 + - + -
69G VAL* 2.5 45.5 + - + +
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Residues in contact with TYR 66 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62G ALA* 2.9 32.9 - - + +
63G LEU* 3.6 20.2 - - + +
65G ILE* 1.3 80.5 - - + +
67G GLY* 1.3 57.3 + - - +
69G VAL* 3.4 8.2 - - - +
70G VAL* 3.1 32.2 + - - +
61H GLU* 2.6 36.2 + - - +
64H THR* 3.5 11.4 - - - -
65H ILE* 3.3 27.6 - - + +
68H LEU* 3.3 38.6 - - + +
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Residues in contact with GLY 67 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17G VAL* 3.0 28.5 - - - -
20G ALA* 4.6 2.7 - - - -
63G LEU 4.6 1.8 + - - -
64G THR 3.2 7.3 + - - -
65G ILE 2.8 1.0 + - - -
66G TYR* 1.3 77.4 - - - +
68G LEU* 1.3 52.1 + - - +
69G VAL 2.9 1.3 - - - -
70G VAL* 2.7 9.4 + - - -
71G ALA* 2.2 37.4 + - - +
17H VAL 6.1 0.7 - - - -
18H GLY* 6.1 2.2 - - - -
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Residues in contact with LEU 68 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66F TYR* 3.5 52.5 - - + +
69F VAL* 4.9 3.8 - - + -
70F VAL* 3.4 31.9 - - + -
17G VAL* 4.0 3.9 + - - +
64G THR 3.1 7.8 + - - +
65G ILE* 2.7 23.4 + - + +
67G GLY* 1.3 70.7 - - - +
69G VAL* 1.3 59.3 + - - +
71G ALA* 3.5 5.6 - - + -
72G LEU* 3.2 45.8 + - + +
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Residues in contact with VAL 69 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65G ILE* 2.5 32.3 + - + +
66G TYR* 3.4 15.0 - - - +
67G GLY 2.8 0.2 + - - -
68G LEU* 1.3 71.3 - - - +
70G VAL* 1.3 63.2 - - + +
71G ALA 3.1 0.2 - - - -
72G LEU* 3.3 4.9 + - - +
73G ALA* 2.7 41.5 + - + +
68H LEU* 4.8 5.6 - - + -
72H LEU* 4.9 7.2 - - + -
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Residues in contact with VAL 70 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14G GLY* 5.6 0.3 - - - -
17G VAL* 5.4 6.1 - - + +
66G TYR 3.2 16.6 - - - +
67G GLY* 2.7 8.7 + - - +
69G VAL* 1.3 76.7 - - + +
71G ALA* 1.3 62.8 + - - +
72G LEU 3.4 0.2 - - - -
73G ALA* 3.8 6.5 - - - -
74G LEU* 3.2 23.5 + - + +
14H GLY* 5.6 1.6 - - - -
15H LEU* 5.4 15.6 - - + +
68H LEU* 3.4 16.6 - - + -
71H ALA* 4.5 15.3 - - + +
72H LEU* 3.3 25.6 - - + -
75H LEU* 4.2 18.6 - - + -
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Residues in contact with ALA 71 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70F VAL* 4.6 15.2 - - + +
14G GLY* 4.4 20.0 - - - +
17G VAL* 4.2 17.2 - - + +
67G GLY 2.2 31.8 + - - +
68G LEU* 3.4 20.6 - - + +
70G VAL* 1.3 69.5 - - - +
72G LEU* 1.3 60.1 + - + +
74G LEU* 3.9 2.9 + - - +
75G LEU* 3.4 23.0 + - - +
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Residues in contact with LEU 72 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69F VAL* 5.0 7.0 - - + -
70F VAL* 3.4 28.9 - - + -
73F ALA* 5.3 2.0 - - + -
68G LEU* 3.2 34.3 + - + +
69G VAL* 4.0 2.7 - - - +
71G ALA* 1.3 72.5 - - - +
73G ALA* 1.3 61.6 + - - +
74G LEU 3.2 2.0 - - - -
75G LEU* 3.1 21.2 + - + -
76G PHE* 2.7 44.0 + - + +
77G ALA 3.4 2.6 + - - -
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Residues in contact with ALA 73 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69G VAL* 2.7 29.0 + - + +
70G VAL* 3.9 9.4 - - - -
71G ALA 3.5 0.4 - - - -
72G LEU* 1.3 72.8 - - - +
74G LEU* 1.3 56.9 + - - +
77G ALA* 3.0 40.6 - - + +
78G ASN* 3.2 0.3 + - - -
72H LEU* 5.2 2.2 - - + -
75H LEU* 4.5 3.1 - - + -
76H PHE* 3.6 26.4 - - + -
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Residues in contact with LEU 74 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10G VAL* 3.7 22.0 - - - +
13G ALA* 6.0 0.9 - - + -
14G GLY* 5.1 5.2 - - - +
70G VAL* 3.2 21.0 + - + +
71G ALA 4.2 4.0 - - - +
72G LEU 3.2 0.4 - - - -
73G ALA* 1.3 77.0 - - - +
75G LEU* 1.3 56.8 + - - +
78G ASN* 2.7 31.7 - - - +
11H ILE* 4.0 24.2 - - + -
75H LEU* 4.7 9.2 - - + +
----------------------------------------------------------
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Residues in contact with LEU 75 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70F VAL* 4.4 15.7 - - + -
73F ALA* 4.5 11.0 - - + +
74F LEU* 4.8 6.1 - - + +
79F PRO* 3.7 41.3 - - + +
10G VAL* 5.3 10.5 - - + +
11G ILE* 3.9 25.1 - - + -
14G GLY* 6.2 0.7 - - - -
71G ALA 3.4 14.4 + - - +
72G LEU* 3.1 19.2 + - + +
74G LEU* 1.3 83.5 - - - +
76G PHE* 1.3 93.0 + - + +
77G ALA 3.5 0.2 - - - -
78G ASN* 4.1 6.9 - - - +
----------------------------------------------------------
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Residues in contact with PHE 76 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
73F ALA* 3.8 17.3 - - + -
77F ALA* 3.7 26.9 - - + -
79F PRO* 3.5 29.2 - - + -
72G LEU* 2.7 26.9 + - + +
75G LEU* 1.3 104.4 - - + +
77G ALA* 1.3 56.7 + - - +
78G ASN 3.6 0.9 - - - -
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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