Contacts of the helix formed by residues 58 - 87 (chain B) 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 B).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56B GLY 3.4 0.2 + - - -
57B ALA* 1.3 75.3 - - + +
59B PHE* 1.3 63.0 + - - +
60B ILE* 3.7 2.4 - - - +
61B ALA* 3.5 21.1 - - - +
62B VAL* 3.2 30.7 + - + +
114B VAL* 4.7 2.9 - - + -
115B GLN* 5.9 2.9 - - - +
118B LEU* 5.8 0.4 - - - +
165B ASN* 3.1 32.5 + - - +
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Residues in contact with PHE 59 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51B HIS 4.5 1.1 - - - -
52B TRP 5.5 2.0 - - - -
54B MET* 3.3 41.0 - - + +
55B ARG* 4.4 1.6 - - - -
56B GLY 3.1 23.7 + - - +
58B ASN* 1.3 73.8 - - - +
60B ILE* 1.3 86.1 + - + +
62B VAL* 3.2 2.9 + - - +
63B HIS* 2.7 72.1 + + + +
114B VAL* 4.2 7.9 - - + -
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Residues in contact with ILE 60 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58B ASN* 5.5 1.3 - - - +
59B PHE* 1.3 99.3 - - + +
61B ALA* 1.3 69.3 + - + +
63B HIS* 3.2 9.9 + - + +
64B GLU* 2.9 63.0 + - + +
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Residues in contact with ALA 61 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58B ASN* 3.5 21.7 + - - +
59B PHE 3.4 0.4 - - - -
60B ILE* 1.3 85.4 - - + +
62B VAL* 1.3 57.9 + - + +
64B GLU* 3.5 7.3 + - - +
65B MET* 2.8 30.8 + - - +
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Residues in contact with VAL 62 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
54B MET* 3.5 29.6 - - + -
58B ASN* 3.2 38.5 + - - +
59B PHE 3.2 2.3 + - - +
61B ALA* 1.3 74.6 - - + +
63B HIS* 1.3 67.0 + - - +
65B MET* 3.6 9.5 - - + +
66B LEU* 2.9 31.7 + - + +
114B VAL* 4.3 11.9 - - + -
118B LEU* 3.8 23.1 - - + -
165B ASN* 4.2 17.7 - - + +
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Residues in contact with HIS 63 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82A GLU* 4.5 14.7 + - + -
51B HIS* 2.6 85.9 + + - -
52B TRP* 4.6 6.1 - + - -
54B MET* 4.1 7.4 - - - -
59B PHE* 2.7 53.3 + + + +
60B ILE* 3.3 11.4 - - + +
62B VAL* 1.3 75.1 - - - +
64B GLU* 1.3 74.0 + - + +
66B LEU* 3.6 1.9 + - - +
67B ASP 3.5 4.5 + - - -
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Residues in contact with GLU 64 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51B HIS* 5.0 0.2 - - - -
60B ILE* 2.9 44.7 + - + +
61B ALA* 4.0 5.5 - - - +
63B HIS* 1.3 81.8 - - + +
65B MET* 1.3 65.3 + - - +
67B ASP* 3.0 19.0 + - - +
68B GLY* 3.1 9.5 + - - -
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Residues in contact with MET 65 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61B ALA 2.8 23.2 + - - +
62B VAL* 3.6 15.7 - - + +
64B GLU* 1.3 72.5 - - - +
66B LEU* 1.3 76.9 + - + +
68B GLY* 3.0 11.8 + - - -
69B PHE* 3.1 51.3 + - + -
118B LEU* 5.1 2.2 - - + -
161B PHE* 3.9 22.7 - - + +
162B ILE* 4.5 8.3 - - + -
165B ASN* 3.7 28.5 - - - +
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Residues in contact with LEU 66 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47B THR* 3.3 25.5 - - + +
51B HIS* 3.9 20.9 - - + +
54B MET* 3.3 33.7 - - + -
62B VAL* 2.9 24.0 + - + +
63B HIS* 3.8 4.3 - - - +
65B MET* 1.3 87.2 - - + +
67B ASP* 1.3 63.3 + - - +
69B PHE* 3.0 31.5 + - + +
70B ARG 3.0 10.2 + - - -
118B LEU* 5.5 0.4 - - + -
121B LEU* 3.7 28.3 - - + -
125B TYR* 5.0 0.7 - - - +
162B ILE* 4.7 6.1 - - + -
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Residues in contact with ASP 67 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78A ASP* 4.3 0.5 - - - +
48B LYS* 2.9 33.9 + - - +
51B HIS* 3.9 20.8 + - + -
63B HIS 3.5 2.4 + - - +
64B GLU* 3.0 13.4 + - - +
66B LEU* 1.3 78.0 - - - +
68B GLY* 1.3 64.7 + - - +
70B ARG* 3.2 24.4 + - - +
71B THR* 3.3 16.7 + - - -
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Residues in contact with GLY 68 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64B GLU 3.1 8.5 + - - -
65B MET* 3.0 9.1 + - - -
67B ASP* 1.3 79.1 + - - +
69B PHE* 1.3 63.0 + - - +
71B THR* 3.2 17.3 + - - -
72B ALA* 3.2 12.7 + - - +
158B PHE* 5.6 0.2 - - - -
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Residues in contact with PHE 69 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65B MET* 3.4 39.3 - - + -
66B LEU* 3.0 21.1 + - + +
68B GLY* 1.3 76.5 - - - +
70B ARG* 1.3 54.6 + - - +
72B ALA* 3.0 3.8 + - - +
73B LEU* 2.7 38.2 + - - +
125B TYR* 3.6 26.5 - + - +
158B PHE* 3.4 56.8 - + + -
161B PHE* 3.7 29.4 - + + -
162B ILE* 3.7 21.3 - - + -
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Residues in contact with ARG 70 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
74A ILE* 3.0 39.6 - - - +
77A LEU* 5.0 4.0 - - - +
78A ASP* 3.4 22.6 + - - -
44B SER* 4.1 24.6 + - - +
47B THR* 4.5 6.3 - - + -
48B LYS* 2.9 37.1 - - + +
66B LEU 3.0 10.4 + - - +
67B ASP* 3.3 22.3 + - - +
69B PHE* 1.3 77.5 - - - +
71B THR* 1.3 68.5 + - - +
73B LEU* 3.3 11.0 + - - +
74B ILE* 3.0 52.4 + - - +
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Residues in contact with THR 71 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67B ASP* 3.3 13.2 + - - -
68B GLY* 3.2 12.0 + - - -
69B PHE 3.2 0.4 - - - -
70B ARG* 1.3 87.0 + - - +
72B ALA* 1.3 63.8 + - - +
74B ILE* 3.3 7.6 + - - +
75B ASP* 3.1 33.8 + - - +
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Residues in contact with ALA 72 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68B GLY 3.2 6.2 + - - +
69B PHE 3.0 7.2 + - - +
71B THR* 1.3 77.7 - - - +
73B LEU* 1.3 66.2 + - - +
75B ASP* 3.1 9.6 + - - +
76B HIS* 3.1 30.6 + - + -
154B ASP* 4.2 11.9 - - - +
158B PHE* 3.6 27.8 - - + -
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Residues in contact with LEU 73 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40B PHE* 3.8 21.5 - - + +
43B LEU* 4.2 14.4 - - + -
44B SER* 3.9 25.4 - - - +
47B THR* 3.8 10.1 - - - +
69B PHE 2.7 24.8 + - - +
70B ARG* 3.5 6.1 - - - +
72B ALA* 1.3 73.7 - - - +
74B ILE* 1.3 56.8 - - - +
76B HIS* 3.4 4.3 + - + +
77B LEU* 2.9 32.2 + - - +
125B TYR* 3.5 24.0 - - + +
155B LEU* 4.2 24.5 - - + -
158B PHE* 4.0 20.9 - - + -
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Residues in contact with ILE 74 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70A ARG* 3.0 44.2 - - - +
74A ILE* 4.1 16.2 - - + -
44B SER* 4.6 10.1 - - - +
70B ARG* 3.0 46.7 + - - +
71B THR* 3.5 7.2 - - - +
72B ALA 3.2 0.2 - - - -
73B LEU* 1.3 78.0 - - - +
75B ASP* 1.3 63.0 + - - +
77B LEU* 3.4 15.0 - - + +
78B ASP* 2.8 33.2 + - - +
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Residues in contact with ASP 75 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
71B THR* 3.1 27.1 + - - +
72B ALA* 3.1 11.0 + - - +
74B ILE* 1.3 82.7 - - - +
76B HIS* 1.3 62.7 + - + +
78B ASP* 3.4 7.3 + - - +
79B THR* 2.7 29.6 + - - +
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Residues in contact with HIS 76 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40B PHE* 4.0 10.1 - + + -
72B ALA* 3.1 28.4 + - + +
73B LEU* 3.7 8.1 - - + +
75B ASP* 1.3 77.2 - - + +
77B LEU* 1.3 64.5 + - - +
79B THR* 2.9 10.0 + - - -
80B MET* 2.9 27.7 + - + +
147B ILE* 4.7 3.4 + - - +
150B ALA* 3.3 33.6 - - + +
151B ALA* 3.4 30.3 + - + +
154B ASP* 2.7 36.7 + - + +
155B LEU* 5.4 1.8 - - + -
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Residues in contact with LEU 77 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52A TRP* 3.5 24.0 - - + -
70A ARG* 5.0 3.1 - - - +
37B VAL* 4.0 8.6 - - + +
40B PHE* 4.0 12.8 - - + +
41B ILE* 3.3 45.3 - - + +
44B SER* 4.7 2.0 - - - +
73B LEU 2.9 16.0 + - - +
74B ILE* 3.4 22.7 - - + +
76B HIS* 1.3 76.8 - - - +
78B ASP* 1.3 80.7 + - - +
80B MET* 3.1 18.1 + - - +
81B ALA* 2.9 20.8 + - - +
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Residues in contact with ASP 78 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48A LYS* 2.8 31.6 + - - +
52A TRP* 3.3 17.7 - - - +
67A ASP* 4.4 0.3 - - - +
70A ARG* 3.4 18.8 + - - -
74B ILE* 2.8 24.1 + - - +
75B ASP* 3.8 8.0 - - - +
77B LEU* 1.3 91.1 - - - +
79B THR* 1.3 57.8 + - - +
81B ALA* 3.3 1.7 + - - +
82B GLU* 2.9 42.6 + - - +
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Residues in contact with THR 79 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
75B ASP 2.7 19.6 + - - -
76B HIS* 2.9 13.6 + - - -
78B ASP* 1.3 78.8 - - - +
80B MET* 1.3 62.1 + - - +
82B GLU* 3.4 9.8 + - - +
83B ARG* 3.0 21.5 + - - +
147B ILE* 3.8 19.3 - - + -
153E ARG* 3.6 28.0 - - - +
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Residues in contact with MET 80 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33B LEU* 3.6 23.9 - - + +
36B GLN* 3.6 27.1 - - + -
37B VAL* 4.0 11.4 - - + +
40B PHE* 3.6 41.1 - - + -
76B HIS* 2.9 14.3 + - + +
77B LEU* 3.6 25.6 - - - +
79B THR* 1.3 74.2 - - - +
81B ALA* 1.3 66.6 + - - +
83B ARG* 3.1 6.1 + - - +
84B ALA* 3.0 19.2 + - - +
147B ILE* 3.6 20.6 - - + -
148B LEU* 3.8 17.7 - - - -
151B ALA* 5.0 4.0 - - - -
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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
----------------------------------------------------------
52A TRP* 3.3 48.0 - - + +
37B VAL* 3.8 12.7 - - + +
77B LEU 2.9 10.2 + - - +
78B ASP 3.6 3.1 - - - +
80B MET* 1.3 76.5 - - - +
82B GLU* 1.3 62.2 + - - +
84B ALA* 3.1 7.6 + - - +
85B VAL* 3.0 25.8 + - - +
91B ALA* 3.8 12.8 - - + +
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Residues in contact with GLU 82 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48A LYS* 5.4 0.5 + - - -
51A HIS* 4.6 7.3 + - - -
52A TRP* 4.2 12.6 - - + -
63A HIS* 4.5 10.9 + - + -
78B ASP* 2.9 30.1 + - - +
79B THR* 3.7 7.6 - - - +
81B ALA* 1.3 75.1 - - - +
83B ARG* 1.3 58.9 + - - +
85B VAL* 3.3 8.1 + - - +
86B GLN* 2.9 45.3 + - - +
157E LYS* 4.0 27.7 + - - +
160E TRP* 3.8 25.5 - - + -
161E PHE* 5.6 0.2 - - - -
----------------------------------------------------------
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Residues in contact with ARG 83 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19B ASN* 4.6 0.4 - - - +
33B LEU* 3.5 16.8 - - + -
79B THR 3.0 14.0 + - - +
80B MET* 3.1 8.9 + - - +
82B GLU* 1.3 76.0 - - - +
84B ALA* 1.3 64.1 + - - +
86B GLN* 3.1 27.1 + - - +
87B LEU* 3.1 36.3 + - + +
141B ASP* 2.7 38.6 + - - -
143B ASP* 3.4 21.6 + - - +
144B THR* 3.6 9.6 + - - +
147B ILE* 3.6 25.1 - - + -
133E ARG* 4.0 4.4 - - - +
153E ARG* 5.2 4.3 + - - +
156E ASP* 2.7 43.6 + - - +
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Residues in contact with ALA 84 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30B VAL* 3.6 25.8 - - + +
33B LEU* 3.4 21.9 - - + +
34B ASN* 4.5 9.2 - - - +
37B VAL* 6.2 0.4 - - + -
80B MET 3.0 11.9 + - - +
81B ALA* 3.3 11.9 - - - +
83B ARG* 1.3 76.6 - - - +
85B VAL* 1.3 62.6 + - - +
87B LEU* 3.1 8.6 + - - -
89B GLY* 3.0 21.2 + - - -
90B VAL 5.2 0.2 - - - -
91B ALA* 4.9 8.7 - - - +
----------------------------------------------------------
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Residues in contact with VAL 85 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52A TRP* 3.4 28.9 - - + +
53A ASN* 3.4 23.3 - - - +
54A MET 6.0 0.4 - - - +
55A ARG* 3.8 19.3 + - - +
15B LEU* 6.4 0.2 - - + -
81B ALA 3.0 13.4 + - - +
82B GLU* 3.7 7.6 - - - +
84B ALA* 1.3 76.2 - - - +
86B GLN* 1.3 62.0 + - - +
88B GLY* 3.0 14.0 + - - -
89B GLY 3.8 10.9 + - - +
91B ALA* 4.0 13.2 - - + +
160E TRP* 3.3 29.1 - - + +
----------------------------------------------------------
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Residues in contact with GLN 86 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55A ARG* 5.6 0.2 + - - -
17B THR* 4.0 19.4 + - - +
19B ASN* 4.2 10.3 + - - +
82B GLU* 2.9 40.1 + - - +
83B ARG* 3.1 38.1 + - - +
85B VAL* 1.3 77.3 - - - +
87B LEU* 1.3 59.1 + - - +
88B GLY 3.3 2.6 + - - -
153E ARG* 4.4 4.3 - - - +
156E ASP* 3.7 14.3 - - + +
157E LYS* 3.8 20.7 + - - +
160E TRP* 3.5 48.5 - - + +
----------------------------------------------------------
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Residues in contact with LEU 87 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14B LEU* 3.8 3.3 - - - +
17B THR* 4.6 1.6 - - - -
19B ASN* 4.2 10.5 - - - +
21B VAL* 3.9 34.8 - - + -
26B LYS* 3.1 42.6 - - + +
29B THR* 3.3 41.7 - - + -
30B VAL* 4.2 8.1 - - + +
33B LEU* 4.8 1.3 - - + -
83B ARG* 3.5 40.2 - - + +
84B ALA 3.1 7.9 + - - +
86B GLN* 1.3 75.6 - - - +
88B GLY* 1.3 59.6 + - - +
89B GLY 3.4 1.2 + - - -
141B ASP* 4.2 4.0 - - - +
----------------------------------------------------------
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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