Contacts of the helix formed by residues 56 - 85 (chain H) in PDB entry 6T90
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 SER 56 (chain H).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78G ARG* 4.0 12.6 - - - +
79G ILE 3.0 16.8 + - - -
80G ILE* 3.8 17.6 - - - -
81G PRO* 3.9 3.6 - - - +
55H ILE* 1.3 77.1 - - - +
57H SER* 1.3 59.5 + - - +
58H LYS* 3.5 4.9 + - - +
59H ALA* 3.0 23.2 + - - +
60H MET* 2.9 25.6 + - - +
20J C 3.5 12.1 - - - -
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Residues in contact with SER 57 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56H SER* 1.3 69.2 - - - +
58H LYS* 1.3 72.6 + - - +
60H MET* 3.3 8.3 + - - +
61H GLY* 3.0 23.4 + - - -
20J C 2.8 34.3 + - - -
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Residues in contact with LYS 58 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
100B GLY* 5.5 6.0 + - - +
101B PHE* 6.3 0.8 - - - -
81G PRO* 3.8 21.3 - - + -
105G GLN* 6.2 6.7 - - + -
56H SER* 3.2 5.6 + - - +
57H SER* 1.3 85.8 + - - +
59H ALA* 1.3 66.6 + - - +
61H GLY* 3.1 10.8 + - - +
62H ILE* 3.2 18.2 + - - +
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Residues in contact with ALA 59 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
79G ILE* 3.5 18.4 - - + +
80G ILE 4.1 8.7 - - - -
81G PRO* 4.1 5.5 - - - +
84G LEU* 3.7 18.4 - - + +
55H ILE* 3.5 15.9 - - + -
56H SER* 3.0 22.6 + - - +
58H LYS* 1.3 76.7 - - - +
60H MET* 1.3 58.7 + - - +
62H ILE* 3.1 5.8 + - - +
63H MET* 3.0 29.5 + - - +
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Residues in contact with MET 60 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39H SER* 3.6 38.8 - - - +
42H VAL* 3.8 33.2 - - + -
43H TYR* 4.2 8.1 - - + +
55H ILE* 3.8 28.9 - - + +
56H SER 2.9 13.2 + - - +
57H SER* 3.6 11.9 - - - +
58H LYS 3.1 0.2 - - - -
59H ALA* 1.3 74.9 - - - +
61H GLY* 1.3 65.8 + - - +
63H MET* 3.0 2.6 + - - +
64H ASN* 2.9 39.7 + - - +
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Residues in contact with GLY 61 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
100B GLY* 4.2 14.2 - - - -
102B GLY 5.8 0.2 + - - -
57H SER 3.0 14.9 + - - -
58H LYS* 3.1 5.5 + - - -
60H MET* 1.3 76.2 - - - +
62H ILE* 1.3 60.9 + - - +
64H ASN* 3.5 7.8 + - - +
65H SER* 3.1 24.9 + - - -
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Residues in contact with ILE 62 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
99B TYR* 4.1 21.7 - - + +
100B GLY* 4.2 21.3 - - - +
81G PRO* 3.6 29.4 - - + -
84G LEU* 3.7 20.0 - - + -
88G ILE* 6.3 0.9 - - + -
103G ILE* 3.6 34.5 - - + -
104G ALA* 4.3 4.3 - - + +
58H LYS 3.2 12.1 + - - +
59H ALA 3.1 6.9 + - - +
60H MET 3.1 0.4 - - - -
61H GLY* 1.3 75.8 - - - +
63H MET* 1.3 68.8 + - - +
65H SER* 3.0 3.6 + - - -
66H PHE* 2.9 22.4 + - + +
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Residues in contact with MET 63 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60G THR* 3.8 36.8 - - + +
63G ILE* 4.4 12.3 - - + -
64G LEU* 4.0 16.8 - - + -
84G LEU* 4.0 25.4 - - + -
42H VAL* 4.0 28.0 - - + -
55H ILE* 4.2 11.9 - - + -
59H ALA 3.0 17.6 + - - +
60H MET* 3.0 8.2 + - - +
62H ILE* 1.3 77.2 - - - +
64H ASN* 1.3 56.8 + - - +
66H PHE* 3.3 20.6 + - + +
67H VAL* 3.0 32.2 + - - +
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Residues in contact with ASN 64 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37H SER* 3.6 13.3 - - - -
38H TYR* 2.8 39.8 + - - +
39H SER* 4.1 8.2 - - - +
42H VAL* 5.5 0.9 - - - -
60H MET* 2.9 46.6 + - - +
61H GLY* 3.9 7.6 - - - +
62H ILE 3.1 0.2 - - - -
63H MET* 1.3 75.2 - - - +
65H SER* 1.3 65.5 + - - +
67H VAL* 3.4 4.2 + - - +
68H ASN* 3.1 33.8 + - - +
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Residues in contact with SER 65 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
99B TYR* 3.7 29.0 - - - -
100B GLY* 3.2 18.2 + - - -
102B GLY* 3.6 21.7 + - - -
103B GLY* 5.1 8.1 - - - +
61H GLY 3.1 10.3 + - - -
62H ILE 3.0 8.5 + - - -
64H ASN* 1.3 76.2 - - - +
66H PHE* 1.3 63.0 + - - +
68H ASN* 3.4 6.7 + - - +
69H ASP* 2.9 25.1 + - - +
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Residues in contact with PHE 66 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
99B TYR* 3.8 26.6 - + + -
56G LEU* 5.4 1.1 - - + -
59G LEU* 4.1 28.7 - - + -
60G THR* 4.4 7.0 - - - -
63G ILE* 3.4 35.9 - - + -
94G LEU* 5.7 0.2 - - + -
97G LEU* 5.0 5.4 - - + -
98G LEU* 3.9 19.7 - - + -
62H ILE* 2.9 13.9 + - + +
63H MET* 3.5 21.1 - - + +
65H SER* 1.3 77.2 - - - +
67H VAL* 1.3 74.3 + - + +
69H ASP* 3.1 2.8 + - - +
70H ILE* 3.0 54.4 + - + +
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Residues in contact with VAL 67 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26G PHE* 4.4 15.5 - - + -
56G LEU* 4.1 19.8 - - + +
60G THR* 3.7 23.3 - - + +
38H TYR* 3.6 40.2 - - + -
42H VAL* 4.8 9.2 - - + -
63H MET* 3.0 21.1 + - + +
64H ASN* 3.4 3.1 + - - +
66H PHE* 1.3 84.5 - - + +
68H ASN* 1.3 64.0 + - - +
70H ILE* 3.4 2.4 + - - -
71H PHE* 3.0 22.7 + - + +
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Residues in contact with ASN 68 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
103B GLY* 4.1 22.6 + - - +
34G LEU* 6.0 0.7 - - - +
38H TYR* 3.5 24.4 + - - -
64H ASN* 3.1 24.2 + - - +
65H SER* 3.9 5.0 - - - +
67H VAL* 1.3 77.5 - - - +
69H ASP* 1.3 61.4 + - - +
71H PHE* 3.5 7.8 + - - +
72H GLU* 3.0 24.7 + - - +
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Residues in contact with ASP 69 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
92B LYS* 5.8 3.9 + - - -
97B THR* 4.0 15.0 + - + +
99B TYR* 2.7 34.4 + - + +
103B GLY 6.3 0.2 - - - -
101G VAL* 4.7 1.2 - - - +
65H SER 2.9 18.2 + - - +
66H PHE 3.1 0.9 + - - +
68H ASN* 1.3 74.1 - - - +
70H ILE* 1.3 66.7 + - + +
72H GLU* 3.3 8.6 + - - +
73H ARG* 3.1 52.2 + - - +
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Residues in contact with ILE 70 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56G LEU* 3.7 20.9 - - + -
59G LEU* 3.9 15.7 - - + -
97G LEU* 4.2 29.8 - - + -
98G LEU* 5.0 3.4 - - + -
66H PHE* 3.0 52.8 + - + +
67H VAL* 4.1 0.9 - - - +
69H ASP* 1.3 78.1 - - + +
71H PHE* 1.3 65.7 + - - +
73H ARG* 3.2 18.1 + - + +
74H ILE* 3.0 40.4 + - + +
103H LEU* 5.4 2.5 - - + -
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Residues in contact with PHE 71 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31G VAL* 4.1 13.0 - - + -
34G LEU* 3.7 38.6 - - + -
35G LEU* 3.8 20.4 - - + -
40G TYR* 4.0 20.4 - + - -
52G LEU* 3.7 29.9 - - + +
56G LEU* 3.8 24.6 - - + +
38H TYR* 5.0 6.1 - - - +
67H VAL* 3.0 19.9 + - + +
68H ASN* 3.6 8.3 - - - +
70H ILE* 1.3 77.3 - - - +
72H GLU* 1.3 69.4 + - + +
74H ILE* 3.9 2.9 - - - +
75H ALA* 2.9 24.1 + - + +
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Residues in contact with GLU 72 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
92B LYS* 4.1 16.7 + - - -
103B GLY 5.1 1.0 - - - +
80D ARG* 3.2 32.3 + - - -
40G TYR* 4.2 17.5 - - + +
68H ASN 3.0 14.6 + - - +
69H ASP* 3.9 8.0 - - - +
70H ILE 3.2 0.2 - - - -
71H PHE* 1.3 88.2 - - + +
73H ARG* 1.3 59.0 + - + +
75H ALA* 4.0 0.3 - - - +
76H GLY* 2.8 27.6 + - - -
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Residues in contact with ARG 73 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
97B THR* 5.5 2.8 + - - -
97G LEU* 3.2 47.5 + - - +
98G LEU* 4.9 4.8 - - - +
101G VAL* 5.0 6.5 - - - +
69H ASP* 3.1 43.4 + - - +
70H ILE* 3.8 16.5 - - + +
72H GLU* 1.3 78.1 - - + +
74H ILE* 1.3 63.5 + - + +
76H GLY* 3.3 1.1 + - - -
77H GLU* 3.0 20.3 + - - +
102H LEU* 3.5 32.1 + - + +
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Residues in contact with ILE 74 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52G LEU* 3.9 29.8 - - + -
55G VAL* 4.0 20.6 - - + -
56G LEU* 5.1 0.7 - - + -
59G LEU* 5.4 0.4 - - + -
70H ILE* 3.0 33.6 + - + +
71H PHE 4.1 1.8 - - - +
73H ARG* 1.3 77.6 - - + +
75H ALA* 1.3 63.1 + - - +
77H GLU 3.3 0.3 + - - -
78H ALA* 2.9 22.2 + - - +
95H ILE* 3.9 24.7 - - + +
98H ALA* 3.8 13.8 - - + +
99H VAL* 4.2 11.9 - - + -
102H LEU* 3.7 20.0 - - + -
103H LEU* 5.7 5.2 - - + -
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Residues in contact with ALA 75 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35G LEU* 3.8 26.9 - - + -
40G TYR* 3.6 31.9 - - + +
52G LEU* 5.1 1.7 - - + +
71H PHE* 2.9 22.7 + - + +
72H GLU 4.0 0.4 - - - +
74H ILE* 1.3 77.7 - - - +
76H GLY* 1.3 56.2 + - - +
78H ALA* 3.4 6.2 + - - +
79H SER* 3.0 28.6 + - - -
90H ILE* 4.8 1.5 - - - +
95H ILE* 5.2 2.2 - - - -
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Residues in contact with GLY 76 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40G TYR* 4.0 11.3 - - - -
72H GLU* 2.8 19.5 + - - -
73H ARG* 3.7 1.1 - - - -
75H ALA* 1.3 73.9 - - - +
77H GLU* 1.3 63.9 + - - +
79H SER* 3.3 6.0 + - - -
80H ARG* 3.1 21.4 + - - +
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Residues in contact with GLU 77 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
73F TYR* 2.9 29.8 + - - -
93F ARG* 4.2 15.8 + - - +
73H ARG 3.0 15.2 + - - +
76H GLY* 1.3 73.7 - - - +
78H ALA* 1.3 66.5 + - - +
80H ARG* 3.1 23.4 + - - +
81H LEU* 2.9 24.7 + - + +
98H ALA* 3.9 26.5 - - + +
101H LEU* 3.5 17.8 - - + +
102H LEU* 4.3 13.9 - - + +
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Residues in contact with ALA 78 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
74H ILE 2.9 17.8 + - - +
75H ALA* 3.8 4.5 - - - +
76H GLY 3.3 0.2 - - - -
77H GLU* 1.3 76.5 - - - +
79H SER* 1.3 61.9 + - - +
81H LEU* 3.3 6.5 + - - +
82H ALA* 3.1 22.9 + - - +
90H ILE* 4.2 10.4 - - + +
94H GLU* 3.9 25.5 - - + +
95H ILE* 3.9 25.4 - - + -
98H ALA* 3.9 6.4 - - + +
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Residues in contact with SER 79 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39C ASN* 5.6 1.0 + - - +
39G ASN 4.7 1.2 + - - -
40G TYR* 2.6 42.3 + - - +
75H ALA 3.0 13.8 + - - -
76H GLY* 3.4 10.3 - - - -
78H ALA* 1.3 77.2 - - - +
80H ARG* 1.3 62.9 + - - +
82H ALA* 3.2 6.1 + - - +
83H HIS* 3.0 21.8 + - - +
90H ILE* 4.2 5.8 - - - +
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Residues in contact with ARG 80 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
72D GLU* 4.9 7.7 + - - -
73F TYR* 5.0 8.5 - - + -
89F TYR* 4.9 19.5 - - + -
92F LYS* 4.6 25.2 - - - +
93F ARG* 6.3 1.8 - - - +
76H GLY 3.1 8.6 + - - +
77H GLU* 3.1 30.7 + - - +
79H SER* 1.3 80.8 - - - +
81H LEU* 1.3 57.1 + - - +
83H HIS* 3.1 9.2 + - + +
84H TYR* 2.8 32.3 + - + +
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Residues in contact with LEU 81 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
73F TYR* 3.5 38.1 - - + -
76F HIS* 4.3 16.4 - - + +
77H GLU* 2.9 24.0 + - + +
78H ALA* 3.6 7.4 - - - +
80H ARG* 1.3 73.6 - - - +
82H ALA* 1.3 66.4 + - - +
84H TYR* 3.3 4.3 + - + -
85H ASN* 2.9 32.9 + - - +
94H GLU* 3.8 26.9 - - + +
97H THR* 3.7 38.4 - - + -
98H ALA* 4.0 7.4 - - - +
101H LEU* 4.5 1.1 - - + -
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Residues in contact with ALA 82 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
76F HIS* 6.0 0.2 - - - -
40G TYR 5.8 0.2 - - - +
41G SER* 5.5 3.1 - - - -
78H ALA 3.1 12.9 + - - +
79H SER* 3.2 8.5 + - - +
81H LEU* 1.3 76.9 - - - +
83H HIS* 1.3 62.7 + - - +
85H ASN* 3.4 1.5 + - - -
86H LYS 3.2 3.6 + - - -
87H ARG* 2.8 45.7 + - + +
88H SER* 5.2 1.3 - - - -
89H THR 4.1 21.1 - - - +
90H ILE* 4.5 10.1 - - + -
94H GLU* 4.5 8.7 - - + +
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Residues in contact with HIS 83 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37C LYS* 4.2 27.5 + - + -
38C GLY* 4.4 22.2 - - - -
201C PTD 5.5 6.7 - - + +
72D GLU* 6.0 0.4 + - - -
79H SER* 3.0 13.2 + - - +
80H ARG* 3.5 12.1 - - + +
82H ALA* 1.3 77.2 - - - +
84H TYR* 1.3 68.0 + - - +
86H LYS* 2.9 18.5 + - - +
87H ARG 4.3 4.9 + - - +
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Residues in contact with TYR 84 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
201C PTD 5.4 1.2 - - - +
73F TYR* 4.3 26.0 - + + -
79F ARG* 3.7 12.6 + - - -
83F THR* 4.3 2.4 - - - +
85F MET* 3.7 18.0 - - + +
86F ASP* 2.7 31.4 + - - -
89F TYR* 3.5 44.6 - + + +
80H ARG* 2.8 19.3 + - + +
81H LEU* 3.3 6.0 + - + +
83H HIS* 1.3 81.4 - - - +
85H ASN* 1.3 77.9 + - - +
86H LYS* 3.4 11.1 + - - +
----------------------------------------------------------
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Residues in contact with ASN 85 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
73F TYR 5.7 0.2 + - - -
76F HIS* 3.6 27.7 + - + +
77F ALA* 3.3 27.4 - - - +
81H LEU* 2.9 26.3 + - - +
82H ALA* 4.3 1.8 - - - +
84H TYR* 1.3 93.9 - - - +
86H LYS* 1.3 71.5 + - - +
87H ARG* 3.4 25.2 + - + +
----------------------------------------------------------
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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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