Contacts of the helix formed by residues 48 - 77 (chain G) in PDB entry 5JKL
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 48 (chain G).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41G PHE* 3.0 30.6 + - + +
46G VAL* 3.7 14.1 - - + +
47G ALA* 1.3 82.3 - - - +
49G LYS* 1.3 63.0 + - - +
50G ASN 3.2 3.7 + - - -
51G PHE* 3.3 24.1 + - + +
52G ALA* 3.1 17.7 + - - +
167G GLU* 4.0 30.1 - - + +
168G TYR* 4.0 23.1 - - + +
171G ASP* 3.2 28.0 - - + +
172G LYS* 4.5 4.5 - - - +
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Residues in contact with LYS 49 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41G PHE 5.0 1.3 - - - -
42G ASP* 5.6 6.3 - - - +
47G ALA 3.7 4.2 + - - -
48G LEU* 1.3 73.5 - - - +
50G ASN* 1.3 63.0 + - - +
52G ALA* 3.4 8.2 + - + +
53G LYS* 3.0 54.2 + - + +
171G ASP* 3.5 4.2 + - - +
172G LYS* 5.7 0.2 - - - +
71H LYS* 5.8 4.0 - - - +
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Residues in contact with ASN 50 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49G LYS* 1.3 75.9 - - - +
51G PHE* 1.3 57.1 + - - -
52G ALA 3.3 0.2 - - - -
53G LYS* 3.4 23.0 + - - +
54G TYR* 2.9 29.6 + - - +
171G ASP* 2.8 51.0 + - - +
172G LYS* 4.4 10.3 - - - +
175G LEU* 3.8 19.6 - - + +
176G GLY* 3.7 19.2 - - - -
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Residues in contact with PHE 51 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41G PHE* 3.5 26.2 - + + -
48G LEU* 3.3 19.9 + - + +
50G ASN* 1.3 73.7 - - - +
52G ALA* 1.3 64.6 + - - +
54G TYR* 3.3 2.0 + - - +
55G PHE* 3.1 37.9 + + - -
96G GLY* 3.5 36.6 - - - -
100G MET* 3.8 22.4 - - + -
155G LEU* 4.1 10.5 - - + -
167G GLU* 3.8 22.9 - - + -
170G PHE* 3.6 27.6 - + - -
171G ASP* 3.0 25.2 + - + -
175G LEU* 3.8 13.7 - - + -
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Residues in contact with ALA 52 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38G SER* 2.7 48.5 + - - +
41G PHE* 3.7 6.2 - - + +
42G ASP* 4.2 15.5 - - + +
48G LEU 3.1 12.7 + - - +
49G LYS* 3.5 12.8 - - + +
51G PHE* 1.3 78.0 - - - +
53G LYS* 1.3 58.3 + - + +
56G LEU* 3.0 16.6 + - - +
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Residues in contact with LYS 53 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49G LYS* 3.0 44.8 + - + +
50G ASN* 3.8 22.9 + - - +
51G PHE 3.3 0.2 - - - -
52G ALA* 1.3 76.2 - - + +
54G TYR* 1.3 61.7 + - - +
56G LEU* 3.4 6.7 + - - +
57G HIS* 3.1 24.4 + - - +
175G LEU 6.1 0.4 - - - +
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Residues in contact with TYR 54 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34G TYR* 5.8 0.4 - + - -
50G ASN 2.9 18.4 + - - +
51G PHE 3.6 4.5 - - - +
53G LYS* 1.3 75.4 - - - +
55G PHE* 1.3 88.1 + + - +
57G HIS* 3.4 7.8 + + - +
58G GLN* 3.0 54.4 + - + +
100G MET* 3.9 19.5 - - + -
147G GLU* 2.6 37.8 + - - +
148G LEU* 3.8 14.9 - - + +
151G HIS* 3.7 18.4 - + - -
175G LEU* 3.9 22.9 - - + +
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Residues in contact with PHE 55 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34G TYR* 3.4 52.6 - + - +
37G MET* 3.9 24.2 - - + -
38G SER* 3.7 8.3 - - - +
41G PHE* 3.7 28.5 - + - -
51G PHE* 3.1 36.4 + + - +
54G TYR* 1.3 94.2 - + - +
56G LEU* 1.3 58.2 + - - +
58G GLN* 3.2 2.3 + - + -
59G SER* 2.9 24.4 + - - -
99G ALA* 4.0 19.7 - - + -
100G MET* 3.8 24.2 - - + -
103G ALA* 4.2 7.2 - - + -
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Residues in contact with LEU 56 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35G LEU* 3.8 20.2 - - + -
38G SER* 3.4 20.5 - - - +
39G TYR* 4.2 17.0 - - + +
52G ALA 3.0 13.4 + - - +
53G LYS* 3.8 6.5 - - - +
54G TYR 3.3 0.4 - - - -
55G PHE* 1.3 73.6 - - - +
57G HIS* 1.3 63.9 + - - +
59G SER* 3.2 6.7 + - - -
60G HIS* 3.1 40.2 + - + +
67H GLU* 3.7 28.0 - - - +
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Residues in contact with HIS 57 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53G LYS 3.1 13.2 + - - +
54G TYR* 3.4 11.2 - + - +
56G LEU* 1.3 75.1 - - - +
58G GLN* 1.3 78.3 + - - +
60G HIS* 3.2 10.2 + - - +
61G GLU* 3.0 43.1 + - + +
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Residues in contact with GLN 58 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34G TYR* 3.7 31.6 - - + +
54G TYR* 3.0 56.7 + - + +
55G PHE* 3.7 7.9 - - - +
57G HIS* 1.3 93.9 - - - +
59G SER* 1.3 57.8 + - - +
61G GLU* 3.3 25.5 + - - +
62G GLU* 3.0 34.8 + - - +
107G GLU* 5.6 0.3 - - - +
144G ALA* 5.8 3.6 - - - +
147G GLU* 4.2 5.3 + - - -
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Residues in contact with SER 59 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31G SER* 2.8 48.1 + - - +
34G TYR* 3.6 7.3 - - - +
35G LEU* 3.7 15.6 - - - +
55G PHE 2.9 14.6 + - - -
56G LEU* 3.2 12.1 + - - -
58G GLN* 1.3 76.8 - - - +
60G HIS* 1.3 62.6 + - - +
62G GLU 3.3 1.0 + - - -
63G ARG* 3.1 11.6 + - - +
63H ARG* 3.0 24.3 + - - -
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Residues in contact with HIS 60 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56G LEU* 3.1 30.5 + - + +
57G HIS* 3.7 10.6 - - - +
59G SER* 1.3 76.8 - - - +
61G GLU* 1.3 62.3 + - - +
63G ARG* 3.3 9.2 + - + +
64G GLU* 3.1 20.3 + - - +
63H ARG* 3.5 23.2 - - + +
67H GLU* 2.7 35.3 + - - -
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Residues in contact with GLU 61 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57G HIS* 3.0 32.4 + - + +
58G GLN* 3.4 29.0 + - - +
60G HIS* 1.3 78.6 - - - +
62G GLU* 1.4 62.6 + - - +
64G GLU* 3.2 10.5 + - + +
65G HIS* 3.0 57.9 + - + +
140G GLU* 4.5 11.6 - - - +
144G ALA* 5.6 6.1 - - - +
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Residues in contact with GLU 62 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27G GLU* 2.8 16.3 - - - +
30G ALA* 3.9 17.8 - - + +
31G SER* 3.6 22.0 - - - +
34G TYR* 3.7 18.7 - - + -
58G GLN* 3.0 23.4 + - - +
59G SER 3.3 0.2 + - - -
61G GLU* 1.4 78.4 - - - +
63G ARG* 1.3 63.0 + - - +
65G HIS* 3.1 14.1 + - - +
66G ALA* 3.0 22.2 + - - +
107G GLU* 3.2 24.2 - - - +
110G VAL* 6.3 0.2 - - - -
201G FE 2.1 31.5 - - - -
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Residues in contact with ARG 63 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28G LEU* 4.2 19.1 - - - +
31G SER* 3.9 12.6 - - - +
59G SER 3.1 13.9 + - - +
60G HIS* 3.6 11.7 - - + +
61G GLU 3.2 0.2 - - - -
62G GLU* 1.3 75.5 - - - +
64G GLU* 1.3 61.3 + - - +
66G ALA* 3.2 4.4 + - - +
67G GLU* 2.4 55.3 + - - +
31H SER* 3.5 19.8 + - - -
32H TYR* 5.5 0.8 - - - +
35H LEU* 3.7 20.7 - - - +
56H LEU* 4.2 0.4 - - - +
59H SER* 2.5 27.5 + - - -
60H HIS* 3.4 21.1 - - + +
63H ARG* 5.1 17.8 - - - +
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Residues in contact with GLU 64 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60G HIS 3.1 13.1 + - - +
61G GLU* 3.2 13.3 + - - +
63G ARG* 1.3 76.5 - - - +
65G HIS* 1.3 72.5 + - - +
67G GLU* 3.4 13.5 + - + +
68G LYS* 3.1 47.6 + - - +
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Residues in contact with HIS 65 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27G GLU* 3.2 19.5 - - - +
61G GLU* 3.0 49.8 + - + +
62G GLU* 3.1 16.5 + - - +
64G GLU* 1.3 86.7 - - - +
66G ALA* 1.3 61.5 + - - +
68G LYS* 4.7 0.9 - - + -
69G LEU* 3.3 10.4 + - - +
136G HIS 5.5 3.4 - - - -
137G TYR* 2.7 39.7 + + + -
140G GLU* 4.9 19.3 + - + +
141G GLN* 4.7 7.8 + - - -
201G FE 2.2 29.8 - - - -
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Residues in contact with ALA 66 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24G ILE* 4.1 7.6 - - + +
27G GLU* 3.8 22.2 - - + +
28G LEU* 3.6 34.1 - - + +
62G GLU 3.0 9.0 + - - +
63G ARG* 3.2 8.7 + - - +
65G HIS* 1.3 78.3 - - - +
67G GLU* 1.3 57.0 + - + +
69G LEU* 3.2 7.6 + - - +
70G MET* 3.0 35.3 + - - +
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Residues in contact with GLU 67 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63G ARG* 2.4 56.9 + - - +
64G GLU* 3.8 13.1 - - + +
66G ALA* 1.3 74.6 - - + +
68G LYS* 1.3 57.6 + - - +
70G MET* 3.3 5.0 + - - +
71G LYS* 2.9 26.0 + - - +
35H LEU* 4.0 12.6 - - + -
39H TYR* 3.4 26.5 + - - +
56H LEU* 3.6 14.2 - - - +
60H HIS* 2.8 30.4 + - - -
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Residues in contact with LYS 68 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64G GLU* 3.1 36.5 + - + +
65G HIS* 5.9 0.2 - - - -
67G GLU* 1.3 76.0 - - - +
69G LEU* 1.3 57.7 + - - +
71G LYS* 3.4 14.4 + - + +
72G LEU* 3.0 26.2 + - - +
132G PHE* 3.9 13.1 - - + -
136G HIS* 3.4 48.8 + - + +
137G TYR* 3.4 18.4 - - + +
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Residues in contact with LEU 69 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
20G ILE* 3.8 31.1 - - + +
23G GLN* 3.6 36.8 - - + +
24G ILE* 3.6 17.9 - - + +
27G GLU* 3.6 23.6 - - + -
65G HIS 3.3 7.1 + - - +
66G ALA 3.2 4.3 + - - +
68G LYS* 1.3 76.5 - - - +
70G MET* 1.3 58.8 + - - +
72G LEU* 3.3 4.7 + - + +
73G GLN* 3.0 28.1 + - - +
114G LEU* 6.0 0.4 - - + -
117G LEU* 5.3 2.5 - - + -
132G PHE* 3.7 23.8 - - + -
133G ILE* 6.3 0.2 - - + -
137G TYR* 3.2 19.3 - - + +
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Residues in contact with MET 70 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24G ILE* 3.8 31.0 - - + -
66G ALA* 3.0 18.8 + - - +
67G GLU* 3.3 8.7 + - - +
69G LEU* 1.3 75.5 - - - +
71G LYS* 1.4 62.2 + - - +
73G GLN* 3.3 4.1 + - - +
74G ASN* 3.2 20.3 + - - +
80G ILE* 3.7 28.7 - - + +
82G LEU* 4.2 12.3 - - + -
35H LEU* 3.9 39.0 - - + +
36H SER* 4.9 1.3 - - - -
39H TYR* 3.5 44.9 - - + -
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Residues in contact with LYS 71 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67G GLU 2.9 14.0 + - - +
68G LYS* 3.4 17.5 - - + +
69G LEU 3.2 0.2 - - - -
70G MET* 1.4 76.6 - - - +
72G LEU* 1.3 57.0 + - - +
74G ASN* 3.3 3.6 + - - +
75G GLN* 2.8 59.9 + - + +
39H TYR* 3.7 14.5 - - + +
42H ASP* 4.2 15.5 + - - +
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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
----------------------------------------------------------
12G TYR* 4.0 17.9 - - - +
20G ILE* 4.2 19.3 - - + -
68G LYS 3.0 14.1 + - - +
69G LEU* 3.3 8.0 + - - +
71G LYS* 1.3 74.1 - - - +
73G GLN* 1.4 68.1 + - - +
75G GLN* 3.0 17.5 + - + +
76G ARG* 2.9 32.7 + - + +
128G HIS* 3.8 29.4 - - + +
129G LEU* 4.3 8.7 - - + -
132G PHE* 3.7 39.0 - - + -
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Residues in contact with GLN 73 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12G TYR* 2.7 37.7 + - - -
17G GLU* 3.1 24.7 + - - +
20G ILE* 3.7 11.8 - - + +
21G ASN* 2.9 28.3 + - - +
24G ILE* 4.6 1.3 - - + -
69G LEU 3.0 13.8 + - - +
70G MET* 3.6 8.7 - - - +
72G LEU* 1.4 81.0 - - - +
74G ASN* 1.3 58.8 + - - +
76G ARG* 3.4 1.4 + - - +
77G GLY 3.1 3.8 + - - -
78G GLY* 2.9 49.7 + - - -
79G ARG 3.9 2.0 - - - +
80G ILE* 3.7 23.6 - - + -
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Residues in contact with ASN 74 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8G VAL* 4.2 2.1 - - - +
70G MET 3.2 9.5 + - - +
71G LYS 3.8 2.7 - - - +
73G GLN* 1.3 73.5 - - - +
75G GLN* 1.3 68.3 + - - +
77G GLY* 3.2 11.3 + - - -
78G GLY 3.8 6.6 - - - +
79G ARG* 3.7 9.9 + - - +
80G ILE* 4.0 18.6 + - - +
39H TYR* 2.9 29.6 + - - -
42H ASP* 3.0 42.9 + - - +
43H ARG* 3.6 20.3 - - - +
44H ASP* 4.8 2.8 - - - +
146I LYS* 3.5 15.5 - - - +
----------------------------------------------------------
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Residues in contact with GLN 75 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8G VAL* 3.6 14.2 - - - +
71G LYS* 2.8 47.3 + - + +
72G LEU* 3.0 32.4 + - + +
74G ASN* 1.3 74.1 - - - +
76G ARG* 1.3 62.1 + - - +
132G PHE* 5.2 2.9 - - - -
139I ASN* 4.5 9.3 + - - +
142I VAL* 3.8 26.1 - - + +
143I LYS* 3.9 27.3 - - - +
145I ILE* 5.6 1.0 - - - +
146I LYS* 4.1 29.1 - - + +
----------------------------------------------------------
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Residues in contact with ARG 76 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8G VAL* 3.9 4.6 - - - +
9G ARG* 3.4 26.4 - - - +
10G GLN 3.0 28.0 + - - +
11G ASN* 3.1 23.0 + - - +
12G TYR* 3.6 41.9 - - + +
72G LEU* 2.9 28.5 + - + +
73G GLN 4.1 0.4 - - - +
75G GLN* 1.3 76.5 - - - +
77G GLY* 1.3 61.5 + - - +
78G GLY 3.3 0.4 + - - -
126G ASP* 3.0 30.3 + - - -
128G HIS* 3.1 38.4 + - - +
129G LEU* 3.8 7.1 - - - +
142I VAL* 3.9 19.0 - - - +
----------------------------------------------------------
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Residues in contact with GLY 77 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
6G SER* 3.6 24.1 + - - -
8G VAL* 3.4 19.3 - - - +
9G ARG* 3.8 16.4 + - - +
73G GLN 3.1 3.0 + - - -
74G ASN 3.2 9.3 + - - -
75G GLN 3.4 0.6 - - - -
76G ARG* 1.3 78.9 - - - +
78G GLY* 1.3 64.7 + - - +
79G ARG* 4.1 11.0 + - - +
44H ASP* 4.5 0.2 - - - -
----------------------------------------------------------
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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).
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