Contacts of the helix formed by residues 68 - 102 (chain B) in PDB entry 4L0R
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 THR 68 (chain B).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66B SER* 4.2 0.7 - - - -
67B PRO* 1.3 88.9 - - - +
69B VAL* 1.3 58.1 + - - +
70B GLU* 2.9 42.4 - - + +
71B LEU* 4.1 15.6 - - - +
72B LYS* 3.2 28.0 + - - +
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Residues in contact with VAL 69 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67B PRO 3.9 1.6 + - - -
68B THR* 1.3 71.6 - - - +
70B GLU* 1.3 83.3 + - - +
72B LYS* 4.2 13.2 - - + -
73B ASP* 3.1 25.7 + - + +
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Residues in contact with GLU 70 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68B THR* 2.9 23.9 - - + +
69B VAL* 1.3 91.5 - - - +
71B LEU* 1.3 57.3 + - - +
73B ASP* 3.6 5.3 + - - +
74B LYS* 3.2 40.2 + - - +
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Residues in contact with LEU 71 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62B LEU* 5.8 5.2 - - + -
66B SER* 3.3 23.6 - - - +
67B PRO* 4.4 13.0 - - + -
68B THR* 3.7 15.8 + - - +
69B VAL 3.3 0.2 - - - -
70B GLU* 1.3 77.1 - - - +
72B LYS* 1.3 67.4 + - - +
74B LYS* 3.2 18.2 + - + +
75B LEU* 3.0 41.9 + - + +
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Residues in contact with LYS 72 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63B ILE* 2.9 32.9 + - + +
64B GLN* 3.8 11.7 + - - +
66B SER* 2.9 40.0 + - - -
67B PRO 4.5 5.2 - - - -
68B THR 3.2 15.8 + - - +
69B VAL* 3.8 15.0 - - + +
71B LEU* 1.3 78.0 - - - +
73B ASP* 1.3 57.9 + - - +
75B LEU* 3.4 5.1 + - - +
76B GLU* 3.0 46.7 + - - +
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Residues in contact with ASP 73 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69B VAL* 3.1 21.4 + - + +
70B GLU* 3.8 5.4 - - - +
72B LYS* 1.3 73.6 - - - +
74B LYS* 1.3 66.3 + - - +
76B GLU* 3.3 14.1 + - - +
77B CYS* 3.1 36.2 + - - -
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Residues in contact with LYS 74 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70B GLU* 3.2 26.9 + - - +
71B LEU* 3.2 24.0 + - + +
73B ASP* 1.3 78.1 - - - +
75B LEU* 1.3 62.6 + - + +
77B CYS* 3.6 7.4 + - - +
78B GLU* 3.3 21.2 + - - +
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Residues in contact with LEU 75 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59B LEU* 3.7 23.7 - - + +
62B LEU* 3.6 34.8 - - + -
63B ILE* 3.4 27.1 - - + -
66B SER* 3.5 24.9 - - - +
71B LEU* 3.0 32.6 + - + +
72B LYS* 3.8 1.1 - - - +
74B LYS* 1.3 76.5 - - + +
76B GLU* 1.3 59.6 + - - +
77B CYS 3.3 0.2 - - - -
78B GLU* 3.4 10.6 + - - +
79B LEU* 2.9 27.9 + - - +
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Residues in contact with GLU 76 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63B ILE* 3.7 31.9 - - + +
72B LYS* 3.0 34.6 + - - +
73B ASP* 3.8 12.7 + - - +
75B LEU* 1.3 72.5 - - - +
77B CYS* 1.3 66.4 + - - +
79B LEU* 3.5 8.0 + - + +
80B GLU* 3.0 23.7 + - - +
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Residues in contact with CYS 77 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
73B ASP* 3.1 37.1 + - - +
74B LYS* 3.7 7.9 - - - +
75B LEU 3.3 0.2 - - - -
76B GLU* 1.3 77.6 - - - +
78B GLU* 1.3 57.8 + - - +
80B GLU* 3.3 8.1 + - - +
81B ALA* 3.1 24.9 + - - +
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Residues in contact with GLU 78 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59B LEU* 3.8 26.6 - - + +
74B LYS 3.3 11.4 + - - +
75B LEU* 3.7 17.3 - - - +
77B CYS* 1.3 76.7 - - - +
79B LEU* 1.3 59.9 + - - +
81B ALA* 3.3 8.1 + - + +
82B LEU* 2.9 28.9 + - + +
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Residues in contact with LEU 79 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56B HIS* 3.4 52.0 - - + +
59B LEU* 3.7 24.0 - - + +
60B ALA* 4.3 10.3 - - + +
63B ILE* 3.8 18.2 - - + -
75B LEU 2.9 18.4 + - - +
76B GLU* 3.7 9.2 - - + +
78B GLU* 1.3 76.0 - - - +
80B GLU* 1.3 58.6 + - - +
82B LEU* 3.3 2.9 + - - +
83B VAL* 2.9 36.2 + - + +
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Residues in contact with GLU 80 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
76B GLU 3.0 17.4 + - - +
77B CYS* 3.7 7.4 - - - +
78B GLU 3.2 0.4 - - - -
79B LEU* 1.3 77.1 - - - +
81B ALA* 1.3 62.3 + - - +
83B VAL* 3.5 21.5 + - - +
84B GLY* 3.2 17.2 + - - -
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Residues in contact with ALA 81 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
77B CYS 3.1 13.1 + - - +
78B GLU* 3.3 11.2 + - + +
80B GLU* 1.3 74.1 - - - +
82B LEU* 1.3 65.7 + - - +
84B GLY* 2.9 12.2 + - - -
85B ARG* 3.1 22.8 + - + +
----------------------------------------------------------
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Residues in contact with LEU 82 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52B MET* 3.8 35.2 - - + +
55B ASP* 4.0 9.0 - - + +
56B HIS* 3.6 38.4 - - + +
59B LEU* 3.8 17.3 - - + -
78B GLU* 2.9 17.7 + - + +
79B LEU 3.6 5.4 - - - +
81B ALA* 1.3 76.2 - - - +
83B VAL* 1.3 58.0 + - - +
85B ARG* 3.2 24.3 + - - +
86B MET* 2.8 33.1 + - - +
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Residues in contact with VAL 83 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56B HIS* 3.7 26.9 - - + +
79B LEU* 2.9 24.7 + - + +
80B GLU* 3.7 22.0 - - - +
81B ALA 3.2 0.2 - - - -
82B LEU* 1.3 75.7 - - - +
84B GLY* 1.3 56.9 + - - +
86B MET* 3.4 9.9 + - + +
87B GLU* 3.0 43.3 + - + +
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Residues in contact with GLY 84 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
80B GLU 3.2 9.7 + - - -
81B ALA* 2.9 9.0 + - - -
83B VAL* 1.3 76.5 - - - +
85B ARG* 1.3 57.0 + - - +
87B GLU* 3.3 8.5 + - - +
88B ALA* 3.1 28.3 + - - +
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Residues in contact with ARG 85 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52B MET* 3.5 35.6 - - + +
81B ALA* 3.1 19.4 + - + +
82B LEU* 3.6 23.9 - - + +
84B GLY* 1.3 76.6 - - - +
86B MET* 1.3 56.7 + - - +
88B ALA* 3.5 7.1 + - - +
89B LYS* 2.9 30.7 + - - +
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Residues in contact with MET 86 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53A SER* 5.0 5.6 - - - -
57A GLN* 6.5 1.3 - - + -
49B PHE* 3.3 29.4 - - + -
52B MET* 3.6 32.8 - - + +
53B SER* 3.5 28.9 - - - +
56B HIS* 4.0 37.0 - - + +
82B LEU* 2.8 22.5 + - - +
83B VAL* 3.7 9.6 - - + +
84B GLY 3.3 0.2 - - - -
85B ARG* 1.3 76.4 - - - +
87B GLU* 1.3 56.6 + - - +
89B LYS* 3.6 0.6 + - - -
90B ALA* 3.1 23.6 + - - +
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Residues in contact with GLU 87 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57A GLN* 5.2 6.6 + - - +
61A LYS* 5.0 9.8 + - - -
83B VAL* 3.0 34.8 + - + +
84B GLY* 3.3 9.4 + - - +
86B MET* 1.3 73.5 - - - +
88B ALA* 1.3 66.0 + - - +
90B ALA* 3.2 7.9 + - - +
91B ASN* 3.1 33.1 + - - +
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Residues in contact with ALA 88 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84B GLY 3.1 16.1 + - - +
85B ARG* 3.7 7.2 - - - +
87B GLU* 1.3 74.9 - - - +
89B LYS* 1.3 63.3 + - - +
91B ASN* 3.3 12.4 + - - +
92B GLN* 3.2 30.3 + - - +
----------------------------------------------------------
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Residues in contact with LYS 89 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45B LEU* 3.5 27.3 - - - +
48B GLU* 3.1 38.0 + - + +
49B PHE* 3.8 22.7 - - + +
52B MET* 4.2 17.4 - - + +
85B ARG 2.9 19.5 + - - +
86B MET 3.9 4.5 - - - +
88B ALA* 1.3 75.5 - - - +
90B ALA* 1.3 63.7 + - - +
92B GLN* 3.2 40.0 + - - +
93B ILE* 3.1 22.7 + - + +
----------------------------------------------------------
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Residues in contact with ALA 90 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
54A PHE* 3.6 29.4 - - + -
49B PHE* 4.1 7.4 - - + -
86B MET 3.1 18.2 + - - +
87B GLU* 3.2 8.5 + - - +
89B LYS* 1.3 76.9 - - - +
91B ASN* 1.3 59.7 + - - +
93B ILE* 3.3 9.1 + - - +
94B THR* 2.9 33.2 + - - +
----------------------------------------------------------
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Residues in contact with ASN 91 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
87B GLU* 3.1 22.0 + - - +
88B ALA* 3.5 10.8 - - - +
90B ALA* 1.3 76.1 - - - +
92B GLN* 1.3 60.4 + - + +
94B THR* 3.2 8.7 + - - -
95B LYS* 2.9 33.6 + - - +
----------------------------------------------------------
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Residues in contact with GLN 92 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45B LEU* 3.2 22.1 - - + +
88B ALA* 3.2 20.7 + - - +
89B LYS* 3.2 38.8 + - - +
91B ASN* 1.3 76.6 - - + +
93B ILE* 1.3 62.3 + - - +
95B LYS* 3.5 14.6 + - + +
96B VAL* 3.0 30.3 + - + +
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Residues in contact with ILE 93 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
54A PHE* 5.2 13.2 - - + -
42B LEU* 3.7 19.3 - - + +
45B LEU* 3.6 44.2 - - + +
46B GLN* 4.1 15.7 - - + +
49B PHE* 4.0 23.1 - - + -
89B LYS* 3.1 16.9 + - + +
90B ALA* 3.6 9.9 - - - +
92B GLN* 1.3 77.6 - - - +
94B THR* 1.3 58.8 + - - +
96B VAL* 3.4 1.6 + - - -
97B ARG* 2.9 44.7 + - + +
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Residues in contact with THR 94 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
54A PHE* 4.4 13.9 - - - -
90B ALA 2.9 21.4 + - - -
91B ASN* 3.2 9.7 + - - -
93B ILE* 1.3 77.9 - - - +
95B LYS* 1.3 63.0 + - - +
97B ARG* 3.3 10.0 + - - +
98B LYS* 3.1 22.5 + - + +
----------------------------------------------------------
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Residues in contact with LYS 95 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
91B ASN 2.9 13.4 + - - +
92B GLN* 3.6 20.2 - - + +
94B THR* 1.3 79.9 - - - +
96B VAL* 1.3 65.2 + - + +
98B LYS* 2.8 40.0 - - + +
99B TYR* 2.9 46.8 + - + -
----------------------------------------------------------
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Residues in contact with VAL 96 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38B LEU* 4.0 35.2 - - + +
41B VAL* 4.2 17.3 - - + -
42B LEU* 4.3 16.8 - - + -
45B LEU* 4.0 14.6 - - + -
92B GLN* 3.0 20.0 + - + +
93B ILE 4.0 3.4 - - - +
95B LYS* 1.3 83.4 - - + +
97B ARG* 1.3 56.7 + - - +
99B TYR* 3.4 14.6 - - + +
100B GLN* 3.0 29.7 + - + +
----------------------------------------------------------
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Residues in contact with ARG 97 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51A GLN* 4.5 11.7 + - - +
42B LEU* 4.0 23.9 - - + +
46B GLN* 3.1 28.2 - - - +
93B ILE* 2.9 37.4 + - + +
94B THR* 3.5 9.4 - - - +
95B LYS 3.3 0.2 - - - -
96B VAL* 1.3 74.3 - - - +
98B LYS* 1.3 58.3 + - - +
100B GLN* 3.3 12.5 + - - +
101B ALA* 2.9 30.0 + - - +
----------------------------------------------------------
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Residues in contact with LYS 98 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
94B THR* 3.1 12.7 + - + +
95B LYS* 2.8 36.8 + - - +
97B ARG* 1.3 72.7 - - - +
99B TYR* 1.3 85.7 + - - +
101B ALA* 4.3 6.1 - - - -
102B GLN* 2.8 52.6 + - + +
----------------------------------------------------------
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Residues in contact with TYR 99 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38B LEU* 4.4 23.8 - - + -
95B LYS* 2.9 52.2 + - + -
96B VAL* 3.4 18.8 - - + +
98B LYS* 1.3 105.8 - - - +
100B GLN* 1.3 59.4 + - - +
102B GLN* 3.6 4.7 - - - +
103B LEU* 3.0 30.7 - - - +
----------------------------------------------------------
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Residues in contact with GLN 100 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35B ASN* 4.8 8.3 + - - +
38B LEU* 3.9 34.2 + - + +
39B SER* 3.7 23.8 + - - +
42B LEU* 4.1 21.4 - - - +
96B VAL* 3.0 16.7 + - - +
97B ARG* 3.5 17.3 + - - +
99B TYR* 1.3 77.7 - - - +
101B ALA* 1.3 61.1 + - - +
103B LEU* 3.6 7.6 - - - +
104B GLU* 3.2 38.7 + - - +
----------------------------------------------------------
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Residues in contact with ALA 101 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
97B ARG 2.9 16.6 + - - +
98B LYS* 3.8 4.7 - - - +
100B GLN* 1.3 72.7 - - - +
102B GLN* 1.3 70.0 + - - +
103B LEU 2.8 11.5 + - - -
104B GLU* 3.2 22.0 - - - +
105B LYS* 3.9 3.6 + - - +
----------------------------------------------------------
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Residues in contact with GLN 102 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
98B LYS* 2.8 40.5 + - + +
99B TYR* 3.6 5.2 - - - +
101B ALA* 1.3 78.4 + - - +
103B LEU* 1.3 61.7 + - - +
105B LYS* 4.1 16.6 - - + +
----------------------------------------------------------
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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