Contacts of the helix formed by residues 77 - 106 (chain R) in PDB entry 6MZL
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 ASP 77 (chain R).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
75R GLN* 4.4 1.1 + - - +
76R LEU* 1.3 84.2 - - - +
78R GLU* 1.3 75.5 + - - +
79R ASP* 4.6 6.9 + - - +
80R VAL* 3.9 23.2 - - + +
81R GLU* 3.3 25.2 - - - +
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Residues in contact with GLU 78 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60R LYS* 5.3 0.5 + - - -
64R GLN* 5.4 7.9 - - - +
77R ASP* 1.3 85.1 + - - +
79R ASP* 1.3 60.3 + - - +
80R VAL 3.1 1.3 - - - -
81R GLU* 2.6 32.4 + - - +
82R GLU* 2.8 44.3 + - - +
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Residues in contact with ASP 79 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
77R ASP* 4.6 5.4 + - - +
78R GLU* 1.3 77.3 - - - +
80R VAL* 1.3 65.0 + - + +
82R GLU* 3.3 14.8 - - - +
83R MET* 3.0 31.5 + - + +
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Residues in contact with VAL 80 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
76R LEU* 4.7 14.8 - - + -
77R ASP* 3.9 33.4 - - + +
79R ASP* 1.3 77.0 - - + +
81R GLU* 1.3 59.4 + - + +
83R MET* 3.2 5.8 + - - +
84R LEU* 2.9 44.2 + - + +
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Residues in contact with GLU 81 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
917E ILE* 6.4 0.4 - - + -
63R LEU* 3.7 18.2 - - + +
64R GLN* 3.7 31.6 + - - +
67R VAL* 4.1 14.1 - - + +
68R ARG* 5.2 2.9 + - - -
76R LEU* 3.3 31.3 - - + +
77R ASP 3.3 19.3 - - - +
78R GLU* 2.6 18.4 + - + +
80R VAL* 1.3 75.1 - - + +
82R GLU* 1.3 57.6 + - - +
84R LEU* 3.3 19.4 - - + +
85R LEU* 2.9 32.5 + - - +
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Residues in contact with GLU 82 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60R LYS* 3.1 44.4 + - - +
64R GLN* 5.7 1.2 + - - -
78R GLU* 2.8 60.2 + - - +
79R ASP* 3.3 15.1 - - - +
80R VAL 3.3 0.2 - - - -
81R GLU* 1.3 76.0 - - - +
83R MET* 1.3 61.7 + - + +
85R LEU* 3.3 7.8 + - + +
86R GLN* 2.9 29.2 + - - +
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Residues in contact with MET 83 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
79R ASP* 3.0 23.2 + - + +
80R VAL* 3.6 5.4 - - - +
82R GLU* 1.3 77.9 - - + +
84R LEU* 1.3 63.4 + - + +
86R GLN* 3.3 22.5 + - - +
87R ILE* 3.0 41.9 + - + +
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Residues in contact with LEU 84 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
910E LEU* 5.9 2.5 - - + -
913E LEU* 5.2 24.7 - - + +
917E ILE* 4.2 27.4 - - + -
63R LEU* 5.7 8.5 - - + -
80R VAL* 2.9 28.7 + - + +
81R GLU* 3.3 27.8 - - + +
83R MET* 1.3 77.5 - - - +
85R LEU* 1.3 58.6 + - + +
87R ILE* 3.4 3.1 + - - +
88R ALA* 2.8 31.5 + - - +
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Residues in contact with LEU 85 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
910E LEU* 5.2 5.2 - - + -
58R LEU* 3.7 32.8 - - + +
59R THR 4.3 7.4 - - - +
60R LYS* 4.0 36.3 - - + -
63R LEU* 3.7 40.8 - - + -
81R GLU 2.9 19.3 + - - +
82R GLU* 3.3 8.9 + - + +
84R LEU* 1.3 75.0 - - - +
86R GLN* 1.3 58.1 + - - +
88R ALA* 3.3 3.9 + - + +
89R ASP* 2.9 41.0 + - - +
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Residues in contact with GLN 86 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82R GLU 2.9 16.9 + - - +
83R MET* 3.6 29.0 - - - +
85R LEU* 1.3 76.7 - - - +
87R ILE* 1.3 66.4 + - + +
89R ASP* 3.2 9.5 + - - +
90R ASP* 3.0 41.1 + - - +
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Residues in contact with ILE 87 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
83R MET* 3.0 29.6 + - + +
84R LEU* 4.2 3.4 - - - +
86R GLN* 1.3 87.2 - - + +
88R ALA* 1.3 57.7 + - - +
90R ASP* 3.2 22.9 + - + +
91R PHE* 2.9 26.3 + - - +
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Residues in contact with ALA 88 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
906E THR* 5.2 3.5 - - + +
909E ARG* 5.9 3.6 - - + -
910E LEU* 3.9 27.8 - - + -
913E LEU* 4.8 7.9 - - + -
58R LEU* 5.9 2.5 - - + -
84R LEU 2.8 19.0 + - - +
85R LEU* 3.6 8.7 - - + +
87R ILE* 1.3 77.2 - - - +
89R ASP* 1.3 59.1 + - - +
91R PHE* 3.1 12.4 + - - +
92R ILE* 2.9 32.0 + - + +
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Residues in contact with ASP 89 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56R GLN* 5.9 3.3 - - - +
57R VAL* 4.2 20.1 + - + +
58R LEU* 4.5 17.2 + - - +
85R LEU* 2.9 29.6 + - - +
86R GLN* 3.2 8.2 + - - +
88R ALA* 1.3 71.9 - - - +
90R ASP* 1.3 63.4 + - - +
92R ILE* 3.1 25.3 + - + +
93R GLU* 2.9 26.0 + - - +
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Residues in contact with ASP 90 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
86R GLN* 3.0 25.0 + - - +
87R ILE* 3.2 33.5 + - + +
89R ASP* 1.3 76.5 - - - +
91R PHE* 1.3 60.2 + - - +
93R GLU* 3.2 10.2 + - - +
94R SER* 2.9 24.8 + - - -
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Residues in contact with PHE 91 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
905E ALA 5.5 1.1 - - - -
906E THR* 5.4 8.5 - - + -
909E ARG* 3.7 45.8 - - + +
87R ILE 2.9 13.0 + - - +
88R ALA* 3.1 13.2 + - - +
90R ASP* 1.3 74.6 - - - +
92R ILE* 1.3 64.5 + - + +
94R SER* 2.3 39.6 + - - -
95R VAL* 2.8 34.4 + - + +
119R HIS* 4.6 13.2 - + - -
123R GLN* 4.5 22.0 - - + -
124R TRP* 5.6 4.5 - - - -
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Residues in contact with ILE 92 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
873E LEU* 4.1 17.3 - - + -
878E LEU* 4.0 31.6 - - + -
882E ILE* 6.2 0.4 - - + -
902E VAL* 6.0 4.7 - - + -
906E THR* 3.7 36.3 - - + +
57R VAL* 5.0 4.3 - - + -
58R LEU* 5.8 0.7 - - + -
88R ALA* 2.9 18.6 + - + +
89R ASP* 3.1 33.0 + - - +
91R PHE* 1.3 78.2 - - + +
93R GLU* 1.3 57.7 + - - +
95R VAL* 3.1 12.3 + - + +
96R VAL* 2.9 31.8 + - + +
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Residues in contact with GLU 93 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
881E ARG* 4.6 14.0 + - - +
885E ILE* 3.7 33.4 - - - +
89R ASP 2.9 12.2 + - - +
90R ASP* 3.2 12.8 + - - +
92R ILE* 1.3 77.2 - - - +
94R SER* 1.3 55.6 + - - +
96R VAL* 3.2 15.9 + - - +
97R THR* 2.8 39.3 + - - +
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Residues in contact with SER 94 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
90R ASP 2.9 11.4 + - - -
91R PHE* 2.3 45.0 + - - -
93R GLU* 1.3 78.0 - - - +
95R VAL* 1.3 56.7 + - - +
97R THR* 3.1 8.7 + - - -
98R ALA* 2.9 28.9 + - - +
119R HIS* 5.6 2.7 + - - -
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Residues in contact with VAL 95 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
902E VAL* 4.2 27.8 - - + -
906E THR* 5.7 3.6 - - - +
91R PHE* 2.8 51.3 + - + +
92R ILE* 3.1 13.2 + - + +
94R SER* 1.3 73.4 + - - +
96R VAL* 1.3 61.5 + - + +
98R ALA* 3.8 4.9 - - - +
99R ALA* 2.8 33.3 + - + +
119R HIS* 4.6 17.3 - - + -
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Residues in contact with VAL 96 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
878E LEU* 5.5 2.7 - - + -
881E ARG 6.0 0.4 - - - -
882E ILE* 3.8 37.2 - - + +
885E ILE* 4.2 21.5 - - + -
92R ILE* 2.9 27.3 + - + +
93R GLU* 3.2 26.0 + - - +
95R VAL* 1.3 77.9 - - + +
97R THR* 1.3 57.0 + - - +
99R ALA* 3.3 5.3 + - - +
100R CYS* 2.9 47.7 + - - -
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Residues in contact with THR 97 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
885E ILE* 6.4 0.7 - - - -
80M ASP* 6.0 1.3 - - - +
93R GLU* 2.8 26.1 + - - +
94R SER* 3.1 11.5 + - - -
96R VAL* 1.3 77.9 - - - +
98R ALA* 1.3 62.3 + - - +
100R CYS* 3.3 7.9 + - - +
101R GLN* 3.0 41.8 + - + +
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Residues in contact with ALA 98 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
94R SER 2.9 15.0 + - - +
95R VAL 3.9 3.6 - - - +
97R THR* 1.3 76.7 - - - +
99R ALA* 1.3 57.5 + - - +
101R GLN* 3.4 9.7 + - - +
102R LEU* 2.9 36.0 + - + +
119R HIS* 3.9 25.1 - - + +
122R ARG* 3.8 23.3 - - - +
----------------------------------------------------------
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Residues in contact with ALA 99 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
95R VAL* 2.8 23.2 + - + +
96R VAL* 3.7 6.5 - - - +
98R ALA* 1.3 76.5 - - - +
100R CYS* 1.3 58.9 + - - +
102R LEU* 3.7 4.9 - - - +
103R ALA* 2.8 32.5 + - - +
111R LEU* 4.0 24.4 - - + +
115R ASP* 4.9 5.8 - - + -
116R VAL* 5.8 4.5 - - + -
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Residues in contact with CYS 100 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
882E ILE* 5.1 2.2 - - - -
885E ILE* 4.4 11.0 - - - -
886E GLY* 4.0 30.3 - - - -
889E HIS* 4.9 15.5 - - + +
891E ILE* 4.5 7.7 - - + +
96R VAL* 2.9 36.5 + - - +
97R THR* 3.3 7.2 + - - +
99R ALA* 1.3 73.7 - - - +
101R GLN* 1.3 60.9 + - + +
103R ALA* 3.3 4.5 + - - +
104R ARG* 2.9 32.7 + - - +
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Residues in contact with GLN 101 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
73M LEU* 4.5 14.9 - - + +
76M GLN* 4.6 26.7 - - - +
77M CYS* 4.2 20.3 - - - -
80M ASP* 4.7 11.2 + - - +
97R THR* 3.0 33.0 + - + +
98R ALA* 3.7 9.2 - - - +
100R CYS* 1.3 77.4 - - + +
102R LEU* 1.3 62.1 + - + +
104R ARG* 3.3 32.7 + - - +
105R HIS* 2.9 24.9 + - - +
122R ARG* 5.4 0.3 + - - -
----------------------------------------------------------
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Residues in contact with LEU 102 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57M TYR* 4.1 16.6 - - + +
73M LEU* 4.5 3.6 - - + -
98R ALA* 2.9 27.3 + - - +
99R ALA* 4.1 0.7 - - - +
101R GLN* 1.3 83.0 - - + +
103R ALA* 1.3 57.0 + - - +
105R HIS* 3.2 22.3 + - + +
106R ARG* 4.3 3.6 + - - -
115R ASP* 2.9 60.7 - - + +
118R LEU* 3.8 28.5 - - + -
119R HIS* 4.3 6.1 - - + +
122R ARG* 3.4 34.5 - - - +
----------------------------------------------------------
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Residues in contact with ALA 103 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
891E ILE* 3.7 29.6 - - + -
99R ALA 2.8 18.7 + - - +
100R CYS 3.9 1.6 - - - +
101R GLN 3.2 0.2 - - - -
102R LEU* 1.3 76.8 - - - +
104R ARG* 1.3 61.8 + - - +
105R HIS 3.1 1.7 + - - -
106R ARG* 3.6 13.4 + - - +
108R SER* 3.7 21.8 + - - +
110R THR 5.1 3.4 - - - +
111R LEU* 4.2 13.2 - - + -
115R ASP* 3.4 12.8 - - - +
----------------------------------------------------------
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Residues in contact with ARG 104 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
889E HIS* 4.5 26.9 + - + +
891E ILE* 3.9 11.3 - - + +
69M ASP* 4.7 8.8 + - - -
73M LEU* 6.0 3.8 - - - +
100R CYS 2.9 18.1 + - - +
101R GLN* 3.6 37.7 + - - +
103R ALA* 1.3 74.1 - - - +
105R HIS* 1.3 56.7 + - - +
106R ARG 3.4 0.4 - - - -
107R LYS* 2.5 63.4 + - + +
108R SER 5.1 0.2 - - - -
----------------------------------------------------------
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Residues in contact with HIS 105 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57M TYR* 2.6 63.0 + + + +
60M HIS* 3.4 18.5 + - + +
61M ALA* 3.2 29.9 - - + +
69M ASP* 4.5 12.2 - - - +
70M ASP* 6.3 0.9 - - - -
73M LEU* 4.7 10.1 - - + -
101R GLN 2.9 10.5 + - - +
102R LEU* 3.2 26.0 + - - +
104R ARG* 1.3 79.3 - - - +
106R ARG* 1.3 61.3 + - - +
107R LYS* 3.2 13.4 + - - +
115R ASP* 5.3 1.4 + - - -
118R LEU* 5.7 0.6 - - - +
----------------------------------------------------------
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Residues in contact with ARG 106 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60M HIS* 3.4 27.1 - - - +
61M ALA* 4.4 9.9 - - - +
62M LYS* 6.1 4.4 - - - +
102R LEU 4.3 2.6 + - - -
103R ALA* 3.6 9.1 + - - +
104R ARG 3.4 0.4 - - - -
105R HIS* 1.3 84.0 - - + +
107R LYS* 1.3 69.9 + - - +
108R SER* 3.2 14.7 + - - +
110R THR 4.4 5.5 + - - -
112R GLU* 2.4 49.2 + - - +
114R LYS* 3.4 21.2 - - - +
115R ASP* 3.0 39.8 + - - +
----------------------------------------------------------
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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