Contacts of the helix formed by residues 78 - 106 (chain Q) 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 GLU 78 (chain Q).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64Q GLN* 5.4 10.5 + - - +
77Q ASP* 1.3 83.5 + - - +
79Q ASP* 1.3 65.2 + - - +
80Q VAL 3.2 1.8 - - - -
81Q GLU* 2.8 31.7 + - - +
82Q GLU* 2.8 34.5 - - - +
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Residues in contact with ASP 79 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
77Q ASP* 4.2 10.1 + - - +
78Q GLU* 1.3 80.1 - - - +
80Q VAL* 1.3 59.1 + - + +
82Q GLU* 3.3 16.2 + - - +
83Q MET* 3.0 35.8 + - + +
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Residues in contact with VAL 80 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
917D ILE* 6.1 1.8 - - + -
76Q LEU* 5.1 12.3 - - + -
77Q ASP* 4.1 31.4 - - + +
79Q ASP* 1.3 76.3 - - + +
81Q GLU* 1.3 59.0 + - + +
83Q MET* 3.3 8.1 + - - +
84Q LEU* 2.9 45.9 + - + +
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Residues in contact with GLU 81 (chain Q).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
917D ILE* 6.1 0.7 - - + -
63Q LEU* 3.7 21.4 - - + +
64Q GLN* 3.7 28.8 + - - +
67Q VAL* 3.7 19.9 - - + +
68Q ARG* 5.7 1.7 + - - -
76Q LEU* 3.4 28.3 - - + +
77Q ASP 3.9 15.7 - - - +
78Q GLU* 2.8 14.4 + - + +
80Q VAL* 1.3 79.2 - - + +
82Q GLU* 1.3 57.9 + - - +
84Q LEU* 3.3 17.2 + - + +
85Q LEU* 2.9 32.0 + - - +
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Residues in contact with GLU 82 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60Q LYS* 2.9 43.8 + - - +
78Q GLU* 2.8 50.8 + - - +
79Q ASP* 3.3 19.7 + - - +
81Q GLU* 1.3 76.0 - - - +
83Q MET* 1.3 61.7 + - + +
85Q LEU* 3.2 8.7 + - + +
86Q GLN* 2.9 28.6 + - - +
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Residues in contact with MET 83 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
79Q ASP* 3.0 20.7 + - + +
80Q VAL* 3.3 10.3 + - - +
82Q GLU* 1.3 73.5 - - - +
84Q LEU* 1.3 60.7 + - - +
86Q GLN* 3.3 23.8 + - - +
87Q ILE* 3.0 46.9 + - + +
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Residues in contact with LEU 84 (chain Q).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
910D LEU* 4.1 10.7 - - + +
913D LEU* 3.9 39.1 - - + +
917D ILE* 3.7 30.7 - - + -
63Q LEU* 5.8 4.5 - - + -
80Q VAL* 2.9 30.8 + - + +
81Q GLU* 3.5 19.3 - - + +
82Q GLU 3.3 0.2 - - - -
83Q MET* 1.3 76.8 - - + +
85Q LEU* 1.3 55.7 + - - +
87Q ILE* 3.5 4.9 + - + +
88Q ALA* 2.9 30.4 + - - +
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Residues in contact with LEU 85 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
910D LEU* 4.2 7.2 - - + -
58Q LEU* 3.7 34.8 - - + +
59Q THR 4.8 4.5 - - - +
60Q LYS* 3.8 35.9 - - + -
63Q LEU* 3.7 39.3 - - + -
81Q GLU 2.9 17.1 + - - +
82Q GLU* 3.2 10.5 + - + +
84Q LEU* 1.3 76.2 - - - +
86Q GLN* 1.3 58.9 + - - +
88Q ALA* 3.3 3.9 + - + +
89Q ASP* 2.9 40.1 + - - +
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Residues in contact with GLN 86 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82Q GLU 2.9 15.9 + - - +
83Q MET* 3.3 28.3 + - + +
85Q LEU* 1.3 77.5 - - - +
87Q ILE* 1.3 60.4 + - + +
89Q ASP* 3.2 10.3 + - + +
90Q ASP* 3.0 40.9 + - - +
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Residues in contact with ILE 87 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
913D LEU* 5.9 6.5 - - + -
83Q MET* 3.0 29.1 + - + +
84Q LEU* 4.1 7.2 - - + +
86Q GLN* 1.3 80.3 - - + +
88Q ALA* 1.3 57.2 + - - +
90Q ASP* 3.3 18.7 + - + +
91Q PHE* 2.9 26.6 + - + +
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Residues in contact with ALA 88 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
906D THR* 4.7 8.4 - - + +
909D ARG* 6.0 4.3 - - + -
910D LEU* 3.8 30.5 - - + +
913D LEU* 5.2 5.5 - - + +
58Q LEU* 5.9 1.3 - - + -
84Q LEU 2.9 19.5 + - - +
85Q LEU* 3.5 6.7 - - + +
86Q GLN 3.2 0.2 - - - -
87Q ILE* 1.3 77.3 - - - +
89Q ASP* 1.3 59.4 + - - +
91Q PHE* 3.1 10.3 + - - +
92Q ILE* 2.9 31.4 + - + +
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Residues in contact with ASP 89 (chain Q).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
873D LEU* 5.3 0.2 - - - +
881D ARG* 6.1 2.2 - - - +
56Q GLN* 5.8 5.4 - - - +
57Q VAL* 3.9 18.1 + - + +
58Q LEU* 4.8 12.0 + - - +
85Q LEU* 2.9 28.5 + - - +
86Q GLN* 3.2 8.6 + - + +
88Q ALA* 1.3 74.0 - - - +
90Q ASP* 1.3 62.7 + - - +
92Q ILE* 3.2 26.9 + - + +
93Q GLU* 3.0 25.6 + - - +
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Residues in contact with ASP 90 (chain Q).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
86Q GLN* 3.0 26.7 + - - +
87Q ILE* 3.5 26.7 - - + +
88Q ALA 3.3 0.2 - - - -
89Q ASP* 1.3 78.7 - - - +
91Q PHE* 1.3 57.8 + - - +
93Q GLU* 3.2 10.0 + - - +
94Q SER* 3.0 26.0 + - - -
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Residues in contact with PHE 91 (chain Q).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
905D ALA* 5.0 5.8 - - + -
906D THR* 4.6 11.2 - - + -
909D ARG* 3.6 51.6 - - + +
87Q ILE 2.9 13.8 + - - +
88Q ALA* 3.1 13.0 + - - +
90Q ASP* 1.3 74.5 - - - +
92Q ILE* 1.3 60.7 + - - +
94Q SER* 2.5 31.3 + - - -
95Q VAL* 2.9 37.4 + - + +
119Q HIS* 4.7 5.2 - + - -
123Q GLN* 4.3 27.8 - - + -
124Q TRP* 5.0 6.7 - - - -
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Residues in contact with ILE 92 (chain Q).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
873D LEU* 3.7 24.5 - - + -
878D LEU* 3.7 32.3 - - + -
902D VAL* 5.7 4.7 - - + -
906D THR* 3.6 29.2 - - + +
57Q VAL* 4.2 10.3 - - + -
88Q ALA* 2.9 16.8 + - + +
89Q ASP* 3.2 35.0 + - + +
91Q PHE* 1.3 75.3 - - - +
93Q GLU* 1.3 56.5 + - - +
95Q VAL* 3.2 5.3 + - - +
96Q VAL* 2.9 40.3 + - + +
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Residues in contact with GLU 93 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
881D ARG* 3.9 19.9 + - - +
885D ILE* 3.4 34.4 - - - +
89Q ASP 3.0 12.9 + - - +
90Q ASP* 3.2 13.0 + - - +
92Q ILE* 1.3 75.8 - - - +
94Q SER* 1.3 57.8 + - - +
96Q VAL* 3.4 8.5 + - - +
97Q THR* 2.9 39.5 + - - +
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Residues in contact with SER 94 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
90Q ASP 3.0 12.2 + - - -
91Q PHE* 2.5 42.0 + - - -
93Q GLU* 1.3 75.4 - - - +
95Q VAL* 1.3 58.8 + - - +
97Q THR* 3.3 7.9 + - - -
98Q ALA* 2.9 29.3 + - - +
119Q HIS* 4.9 4.1 + - - -
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Residues in contact with VAL 95 (chain Q).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
902D VAL* 3.7 35.0 - - + +
905D ALA* 6.4 2.5 - - + -
906D THR* 4.9 4.5 - - - +
91Q PHE* 2.9 47.0 + - + +
92Q ILE* 3.2 7.6 + - - +
94Q SER* 1.3 73.2 + - - +
96Q VAL* 1.3 60.1 + - - +
98Q ALA* 3.4 2.1 + - - +
99Q ALA* 2.8 32.0 + - + +
116Q VAL* 6.3 2.7 - - + -
119Q HIS* 3.7 30.0 - - + +
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Residues in contact with VAL 96 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
878D LEU* 5.5 1.3 - - + -
882D ILE* 3.7 39.5 - - + -
885D ILE* 3.9 40.6 - - + -
902D VAL* 5.5 4.9 - - + -
92Q ILE* 2.9 30.4 + - + +
93Q GLU* 3.6 10.8 - - - +
94Q SER 3.3 0.2 - - - -
95Q VAL* 1.3 77.7 - - + +
97Q THR* 1.3 56.8 + - - +
99Q ALA* 3.4 6.1 + - - +
100Q CYS* 2.9 34.9 + - - -
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Residues in contact with THR 97 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
885D ILE* 5.8 4.0 - - - +
80L ASP* 5.9 1.6 - - - +
93Q GLU* 2.9 28.3 + - - +
94Q SER* 3.6 8.0 - - - -
96Q VAL* 1.3 77.2 - - - +
98Q ALA* 1.3 56.1 + - - +
100Q CYS* 3.3 7.1 + - - +
101Q GLN* 3.0 49.1 + - + +
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Residues in contact with ALA 98 (chain Q).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
94Q SER 2.9 16.7 + - - +
95Q VAL 3.8 3.6 - - - +
96Q VAL 3.4 0.2 - - - -
97Q THR* 1.3 75.2 - - - +
99Q ALA* 1.3 56.4 + - - +
101Q GLN* 3.4 10.1 + - - +
102Q LEU* 2.9 37.0 + - + +
119Q HIS* 3.4 37.0 - - + +
122Q ARG* 4.0 12.6 - - - +
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Residues in contact with ALA 99 (chain Q).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
882D ILE* 6.5 1.8 - - + -
902D VAL* 5.7 3.4 - - + -
95Q VAL* 2.8 22.1 + - + +
96Q VAL* 3.8 6.3 - - - +
98Q ALA* 1.3 74.1 - - - +
100Q CYS* 1.3 61.2 + - - +
102Q LEU* 3.7 3.7 - - - +
103Q ALA* 2.9 31.7 + - - +
111Q LEU* 3.9 28.0 - - + +
115Q ASP* 5.2 4.5 - - + -
116Q VAL* 5.2 8.5 - - + +
119Q HIS* 5.9 1.3 - - - +
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Residues in contact with CYS 100 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
882D ILE* 5.0 3.8 - - - -
885D ILE* 4.1 17.9 - - + -
886D GLY* 4.0 31.6 - - - -
889D HIS* 4.8 15.6 - - + +
891D ILE* 4.5 8.8 - - + +
96Q VAL* 2.9 29.3 + - - +
97Q THR* 3.7 6.3 - - - +
99Q ALA* 1.3 77.2 - - - +
101Q GLN* 1.3 58.1 + - + +
103Q ALA* 3.4 4.8 + - - +
104Q ARG* 2.9 30.8 + - - +
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Residues in contact with GLN 101 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
73L LEU* 4.2 14.3 - - + +
76L GLN* 4.6 23.3 - - - +
77L CYS* 3.8 23.9 - - - -
80L ASP* 4.6 13.3 + - - +
97Q THR* 3.0 39.1 + - + +
98Q ALA* 3.7 8.5 - - - +
99Q ALA 3.3 0.2 - - - -
100Q CYS* 1.3 77.1 - - + +
102Q LEU* 1.3 61.0 + - + +
104Q ARG* 3.3 29.2 + - - +
105Q HIS* 2.9 24.4 + - - +
122Q ARG* 5.0 1.0 + - - -
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Residues in contact with LEU 102 (chain Q).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57L TYR* 3.7 16.2 - - + +
73L LEU* 4.5 2.7 - - + -
98Q ALA* 2.9 27.4 + - + +
99Q ALA 4.3 0.2 - - - +
101Q GLN* 1.3 82.2 - - + +
103Q ALA* 1.3 57.3 + - - +
105Q HIS* 3.2 22.1 + - + +
106Q ARG* 4.1 3.5 + - - -
115Q ASP* 2.9 60.7 - - + +
118Q LEU* 3.7 31.4 - - + -
119Q HIS* 4.2 6.5 - - + +
122Q ARG* 3.4 32.3 - - - +
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Residues in contact with ALA 103 (chain Q).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
891D ILE* 3.7 28.7 - - + -
99Q ALA 2.9 19.1 + - - +
100Q CYS* 4.0 1.6 - - - +
102Q LEU* 1.3 73.9 - - - +
104Q ARG* 1.3 62.5 + - - +
105Q HIS 3.2 1.3 + - - -
106Q ARG* 3.8 5.6 + - - +
107Q LYS 3.7 2.3 + - - -
108Q SER* 3.6 28.2 + - - +
110Q THR 5.1 3.4 - - - +
111Q LEU* 4.2 14.8 - - + -
115Q ASP* 3.5 12.6 - - - +
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Residues in contact with ARG 104 (chain Q).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
889D HIS* 4.6 22.3 + - + +
891D ILE* 4.0 9.5 - - + +
69L ASP* 4.4 13.8 + - - -
73L LEU* 5.5 9.1 - - - +
76L GLN* 5.9 4.8 - - - +
100Q CYS 2.9 18.0 + - - +
101Q GLN* 3.7 28.3 + - - +
103Q ALA* 1.3 74.1 - - - +
105Q HIS* 1.3 63.5 + - - +
107Q LYS* 3.1 49.1 + - + +
108Q SER 5.3 0.2 - - - -
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Residues in contact with HIS 105 (chain Q).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57L TYR* 2.7 64.1 + + + +
60L HIS* 3.8 13.3 + - + +
61L ALA* 3.4 30.2 - - + +
69L ASP* 4.5 12.0 - - - +
70L ASP* 5.8 1.9 - - - +
73L LEU* 4.3 14.1 - - + -
101Q GLN 2.9 10.1 + - - +
102Q LEU* 3.2 24.9 + - - +
103Q ALA 3.2 0.2 - - - -
104Q ARG* 1.3 79.4 - - - +
106Q ARG* 1.3 64.0 + - - +
107Q LYS* 3.3 11.6 + - - +
115Q ASP* 5.2 2.2 + - - -
118Q LEU* 5.7 0.2 - - - +
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Residues in contact with ARG 106 (chain Q).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60L HIS* 3.6 25.8 - - - +
61L ALA* 4.5 10.1 - - - +
62L LYS* 6.4 1.9 - - - +
102Q LEU 4.1 2.3 + - - +
103Q ALA* 3.8 6.4 + - - +
104Q ARG 3.5 0.2 - - - -
105Q HIS* 1.3 83.5 - - + +
107Q LYS* 1.3 68.9 + - - +
108Q SER* 3.3 16.4 + - - +
110Q THR 4.2 6.1 + - - -
112Q GLU* 2.6 49.3 + - - +
114Q LYS* 3.6 21.9 - - - +
115Q ASP* 3.0 37.4 + - - +
----------------------------------------------------------
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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