Contacts of the helix formed by residues 58 - 87 (chain G) in PDB entry 1F33
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 ASN 58 (chain G).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56G GLY 3.4 0.2 + - - -
57G ALA* 1.3 76.2 - - + +
59G PHE* 1.3 63.7 + - - +
60G ILE* 3.7 2.9 - - - -
61G ALA* 3.4 22.4 - - - +
62G VAL* 3.2 30.4 + - + +
114G VAL* 4.4 2.8 - - + +
115G GLN* 5.9 3.6 - - - +
118G LEU* 5.8 0.2 - - - +
165G ASN* 3.2 32.7 + - - +
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Residues in contact with PHE 59 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51G HIS 4.6 1.3 - - - -
52G TRP 5.5 2.0 - - - -
54G MET* 3.2 41.8 - - + +
55G ARG* 4.3 2.0 - - - -
56G GLY 3.2 24.2 + - - +
57G ALA 3.2 0.2 - - - -
58G ASN* 1.3 74.9 - - - +
60G ILE* 1.3 87.7 + - + +
62G VAL* 3.3 2.2 + - - +
63G HIS* 2.7 73.4 + + + +
114G VAL* 4.2 7.2 - - + -
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Residues in contact with ILE 60 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58G ASN* 5.5 0.9 - - - -
59G PHE* 1.3 100.1 - - + +
61G ALA* 1.3 70.5 + - + +
63G HIS* 3.3 8.8 - - + +
64G GLU* 2.9 61.9 + - + +
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Residues in contact with ALA 61 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58G ASN* 3.4 21.4 + - - +
59G PHE 3.4 0.6 - - - -
60G ILE* 1.3 85.4 - - + +
62G VAL* 1.3 58.8 + - + +
64G GLU* 3.9 7.1 - - - +
65G MET* 2.8 31.0 + - - +
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Residues in contact with VAL 62 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
54G MET* 3.4 31.6 - - + -
58G ASN* 3.2 37.8 + - - +
59G PHE 3.3 1.9 + - - +
61G ALA* 1.3 74.1 - - + +
63G HIS* 1.3 67.3 + - - +
65G MET* 3.6 9.1 - - + +
66G LEU* 2.9 30.5 + - + +
114G VAL* 4.3 11.9 - - + -
118G LEU* 3.8 18.8 - - + -
165G ASN* 4.2 22.2 - - + +
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Residues in contact with HIS 63 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51G HIS* 2.7 84.1 + + - -
52G TRP* 4.7 6.1 - + - -
54G MET* 4.1 8.0 - - - -
59G PHE* 2.7 52.7 + + + +
60G ILE* 3.3 12.6 - - + +
62G VAL* 1.3 75.7 - - - +
64G GLU* 1.3 72.0 + - + +
66G LEU* 3.6 1.6 + - - +
67G ASP 3.4 4.9 + - - -
82H GLU* 4.6 14.5 + - + -
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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 ILE* 2.9 48.3 + - + +
61G ALA* 4.0 5.5 - - - +
63G HIS* 1.3 81.5 - - + +
65G MET* 1.3 66.3 + - - +
67G ASP* 3.0 18.4 + - - +
68G GLY* 3.1 9.2 + - - -
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Residues in contact with MET 65 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61G ALA 2.8 23.0 + - - +
62G VAL* 3.6 15.3 - - + +
64G GLU* 1.3 71.8 - - - +
66G LEU* 1.3 78.9 + - + +
68G GLY* 2.9 13.3 + - - -
69G PHE* 3.1 50.9 + - + -
118G LEU* 5.1 2.5 - - + -
161G PHE* 3.9 23.3 - - + +
162G ILE* 4.4 8.1 - - + -
165G ASN* 3.7 27.8 - - - +
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Residues in contact with LEU 66 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47G THR* 3.3 24.5 - - + +
51G HIS* 4.0 21.3 - - + +
54G MET* 3.3 34.8 - - + -
62G VAL* 2.9 24.8 + - + +
63G HIS 3.8 4.0 - - - +
65G MET* 1.3 87.0 - - + +
67G ASP* 1.3 63.7 + - - +
69G PHE* 3.0 35.9 + - + +
70G ARG 3.1 10.0 + - - -
118G LEU* 5.5 0.4 - - + -
121G LEU* 3.7 27.1 - - + -
125G TYR* 5.0 0.9 - - - +
162G ILE* 4.8 6.1 - - + -
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Residues in contact with ASP 67 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48G LYS* 2.8 34.6 + - - +
51G HIS* 3.9 19.4 + - + -
63G HIS 3.4 3.2 + - - +
64G GLU* 3.0 12.2 + - - +
66G LEU* 1.3 78.6 - - - +
68G GLY* 1.3 64.7 + - - +
70G ARG* 3.2 27.9 + - - +
71G THR* 3.3 12.9 + - - -
78H ASP* 4.5 0.5 - - - +
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Residues in contact with GLY 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 8.1 + - - -
65G MET 2.9 9.5 + - - -
67G ASP* 1.3 79.6 - - - +
69G PHE* 1.3 64.3 + - - +
71G THR* 3.2 16.1 + - - -
72G ALA* 3.3 12.3 + - - +
158G PHE* 5.6 0.2 - - - -
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Residues in contact with PHE 69 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65G MET* 3.5 39.5 - - + -
66G LEU* 3.0 20.9 + - + +
68G GLY* 1.3 77.3 - - - +
70G ARG* 1.3 51.1 + - - +
72G ALA* 3.1 3.6 + - - +
73G LEU* 2.7 39.3 + - - +
125G TYR* 3.6 26.5 - + - +
158G PHE* 3.4 56.5 - + + -
161G PHE* 3.6 29.8 - + + -
162G ILE* 3.7 21.5 - - + -
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Residues in contact with ARG 70 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44G SER* 4.1 24.3 - - - +
47G THR* 4.5 8.0 - - + +
48G LYS* 2.9 37.9 - - + +
66G LEU 3.1 10.6 + - - +
67G ASP* 3.3 24.0 + - - +
69G PHE* 1.3 77.1 - - - +
71G THR* 1.3 68.4 + - - +
73G LEU* 3.2 11.7 + - - +
74G ILE* 2.9 54.8 + - - +
74H ILE* 2.9 40.2 - - - +
77H LEU* 5.2 3.4 - - - +
78H ASP* 3.5 20.2 + - - -
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Residues in contact with THR 71 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67G ASP* 3.3 13.0 + - - -
68G GLY* 3.2 11.9 + - - -
69G PHE 3.2 0.4 - - - -
70G ARG* 1.3 86.5 + - - +
72G ALA* 1.3 61.9 + - - +
74G ILE* 3.3 6.7 + - - +
75G ASP* 3.1 34.9 + - - +
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Residues in contact with ALA 72 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68G GLY 3.3 7.1 + - - +
69G PHE 3.1 3.7 + - - +
71G THR* 1.3 76.7 - - - +
73G LEU* 1.3 67.1 + - - +
75G ASP* 3.2 8.4 + - - +
76G HIS* 3.0 31.1 + - + -
154G ASP* 4.2 12.1 - - - +
158G PHE* 3.5 31.9 - - + -
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Residues in contact with LEU 73 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40G PHE* 3.8 20.6 - - + +
43G LEU* 4.0 15.3 - - + -
44G SER* 3.9 22.9 - - - +
47G THR* 3.8 11.0 - - - +
69G PHE 2.7 23.0 + - - +
70G ARG* 3.4 6.3 - - - +
72G ALA* 1.3 73.4 - - - +
74G ILE* 1.3 58.3 + - - +
76G HIS* 3.4 4.5 + - + +
77G LEU* 2.9 32.6 + - - +
125G TYR* 3.5 24.2 - - + +
155G LEU* 4.1 25.4 - - + -
158G PHE* 4.1 19.7 - - + -
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Residues in contact with ILE 74 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44G SER* 4.6 10.8 - - - +
70G ARG* 2.9 47.0 + - - +
71G THR* 3.6 7.0 - - - +
73G LEU* 1.3 76.0 - - - +
75G ASP* 1.3 63.5 + - - +
77G LEU* 3.4 15.9 - - + +
78G ASP* 2.8 34.2 + - - +
70H ARG* 3.0 42.6 - - - +
74H ILE* 4.2 15.0 - - + -
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Residues in contact with ASP 75 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
71G THR* 3.1 29.0 + - - +
72G ALA* 3.2 9.3 + - - +
74G ILE* 1.3 80.3 - - - +
76G HIS* 1.3 66.9 + - + +
78G ASP* 3.8 6.6 - - - +
79G THR* 2.7 29.6 + - - +
----------------------------------------------------------
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Residues in contact with HIS 76 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40G PHE* 4.0 16.4 - + + -
72G ALA* 3.0 31.5 + - + +
73G LEU* 3.8 6.1 - - + +
75G ASP* 1.3 76.7 - - + +
77G LEU* 1.3 65.3 + - - +
79G THR* 2.9 10.5 + - - -
80G MET* 2.9 28.8 + - + +
147G ILE* 4.7 2.9 + - + +
150G ALA* 3.4 32.4 - - + +
151G ALA* 3.4 24.1 + - + +
154G ASP* 2.7 36.1 + - + +
155G LEU* 5.5 2.0 - - + -
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Residues in contact with LEU 77 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37G VAL* 4.0 8.6 - - + +
40G PHE* 4.0 13.0 - - + +
41G ILE* 3.3 46.2 - - + +
44G SER* 4.7 2.7 - - - +
73G LEU 2.9 16.7 + - - +
74G ILE* 3.4 22.0 - - + +
76G HIS* 1.3 76.6 - - - +
78G ASP* 1.3 81.2 + - - +
80G MET* 3.1 18.0 + - - +
81G ALA* 3.0 20.3 + - - +
52H TRP* 3.6 22.2 - - + -
70H ARG* 5.1 3.8 - - - +
----------------------------------------------------------
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Residues in contact with ASP 78 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
74G ILE* 2.8 24.9 + - - +
75G ASP* 3.8 7.9 - - - +
77G LEU* 1.3 90.7 - - - +
79G THR* 1.3 63.2 + - - +
81G ALA* 3.3 1.8 + - - +
82G GLU* 2.9 37.6 + - - +
48H LYS* 2.8 32.5 + - - +
52H TRP* 3.3 17.5 + - - +
67H ASP* 4.5 0.3 - - - +
70H ARG* 3.5 17.5 + - - -
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Residues in contact with THR 79 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
75G ASP* 2.7 19.8 + - - +
76G HIS* 2.9 13.1 + - - -
78G ASP* 1.3 77.6 - - - +
80G MET* 1.3 62.4 + - - +
82G GLU* 3.4 11.0 + - - +
83G ARG* 3.0 21.5 + - - +
147G ILE* 3.8 20.4 - - + +
153I ARG* 3.5 28.9 - - - +
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Residues in contact with MET 80 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33G LEU* 3.6 23.2 - - + +
36G GLN* 3.7 28.9 - - + -
37G VAL* 4.0 11.0 - - + +
40G PHE* 3.7 38.6 - - + -
76G HIS* 2.9 14.5 + - + +
77G LEU* 3.6 26.0 - - - +
79G THR* 1.3 73.7 - - - +
81G ALA* 1.3 64.7 + - - +
83G ARG* 3.2 5.7 + - - +
84G ALA* 3.0 20.1 + - - +
147G ILE* 3.6 20.0 - - + -
148G LEU* 3.8 18.4 - - - -
151G ALA* 4.9 4.7 - - - -
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Residues in contact with ALA 81 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37G VAL* 3.8 12.5 - - + +
77G LEU 3.0 12.2 + - - +
78G ASP 3.6 3.6 - - - +
80G MET* 1.3 75.9 - - - +
82G GLU* 1.3 62.4 + - - +
84G ALA* 3.2 6.9 + - - +
85G VAL* 3.1 26.6 + - - +
91G ALA* 3.8 14.1 - - + +
52H TRP* 3.4 45.3 - - + +
----------------------------------------------------------
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Residues in contact with GLU 82 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78G ASP* 2.9 30.1 + - - +
79G THR* 3.7 8.7 - - - +
81G ALA* 1.3 72.5 - - - +
83G ARG* 1.3 60.4 + - - +
85G VAL* 3.3 5.5 + - - +
86G GLN* 2.9 44.8 + - - +
48H LYS* 5.5 0.5 + - - -
51H HIS* 4.8 6.1 + - - -
52H TRP* 4.3 12.5 - - + -
63H HIS* 4.6 10.2 + - + -
157I LYS* 4.0 27.9 + - - +
160I TRP* 3.8 27.6 - - + -
161I PHE* 5.5 0.5 - - - -
----------------------------------------------------------
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Residues in contact with ARG 83 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33G LEU* 3.5 17.5 - - + -
79G THR 3.0 13.8 + - - +
80G MET* 3.5 9.2 - - - +
82G GLU* 1.3 73.3 - - - +
84G ALA* 1.3 66.9 + - - +
86G GLN* 3.2 19.9 + - - +
87G LEU* 3.1 42.4 + - + +
141G ASP* 2.7 39.4 + - - -
143G ASP* 3.2 26.2 + - - +
144G THR* 3.6 8.9 + - - +
147G ILE* 3.6 23.8 - - + -
133I ARG* 4.0 4.9 - - - +
153I ARG* 5.1 4.3 + - - +
156I ASP* 2.7 40.6 + - - +
----------------------------------------------------------
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Residues in contact with ALA 84 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30G VAL* 3.6 26.6 - - + +
33G LEU* 3.4 22.6 - - + +
34G ASN* 4.5 9.6 - - - +
37G VAL* 6.2 0.4 - - + -
80G MET 3.0 11.7 + - - +
81G ALA* 3.2 11.6 + - - +
83G ARG* 1.3 76.7 - - - +
85G VAL* 1.3 62.7 + - - +
87G LEU* 3.1 8.9 + - - -
88G GLY 3.5 0.2 + - - -
89G GLY* 3.0 19.7 + - - -
90G VAL 5.2 0.2 - - - -
91G ALA* 4.9 8.1 - - - +
----------------------------------------------------------
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Residues in contact with VAL 85 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
15G LEU* 6.4 0.4 - - + -
81G ALA 3.1 13.1 + - - +
82G GLU* 3.7 7.9 - - - +
84G ALA* 1.3 76.0 - - - +
86G GLN* 1.3 57.2 + - - +
88G GLY* 3.0 19.1 + - - -
89G GLY 3.7 12.0 + - - +
91G ALA* 4.0 13.9 - - + +
52H TRP* 3.5 22.9 - - + +
53H ASN* 3.5 26.7 - - - +
54H MET 6.1 0.4 - - - +
55H ARG* 3.9 19.2 + - + +
160I TRP* 3.3 29.8 - - + +
----------------------------------------------------------
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Residues in contact with GLN 86 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17G THR* 4.0 19.4 + - - +
19G ASN* 4.2 9.3 + - - +
82G GLU* 2.9 41.0 + - - +
83G ARG* 3.2 37.1 + - - +
85G VAL* 1.3 77.1 - - - +
87G LEU* 1.3 59.5 + - - +
88G GLY 3.1 3.7 + - - -
55H ARG* 5.7 0.3 + - - -
153I ARG* 4.3 4.3 - - - +
156I ASP* 3.7 13.8 - - + +
157I LYS* 3.8 21.0 + - - +
160I TRP* 3.5 48.3 - - + +
----------------------------------------------------------
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Residues in contact with LEU 87 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14G LEU* 3.8 3.5 - - - +
17G THR* 4.6 0.9 - - - -
19G ASN* 4.1 12.3 - - - +
21G VAL* 3.8 35.0 - - + -
26G LYS* 3.1 43.9 - - + +
29G THR* 3.3 40.2 - - + +
30G VAL* 4.1 7.9 - - + +
33G LEU* 4.8 1.3 - - + -
83G ARG* 3.1 39.2 + - + +
84G ALA 3.1 9.2 + - - +
86G GLN* 1.3 75.3 - - - +
88G GLY* 1.3 59.9 + - - +
89G GLY 3.4 2.1 + - - -
141G ASP* 4.2 4.5 - - - +
----------------------------------------------------------
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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