Contacts of the helix formed by residues 63 - 85 (chain A) in PDB entry 2WXW
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 63 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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62A LEU* 1.3 77.6 - - - +
64A THR* 1.3 60.4 + - - +
65A GLU* 3.8 16.0 - - + +
66A ASP* 3.0 29.5 + - - +
67A LYS* 3.1 26.4 + - - +
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Residues in contact with THR 64 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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63A ASP* 1.3 72.9 - - - +
65A GLU* 1.3 68.6 + - - +
67A LYS* 3.6 30.9 + - + +
68A LEU* 3.6 18.6 + - - +
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Residues in contact with GLU 65 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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10A LEU* 4.3 7.5 - - + +
63A ASP* 3.2 11.1 - - + +
64A THR* 1.3 82.1 + - - +
66A ASP* 1.3 66.4 + - - +
68A LEU* 3.3 15.5 + - + +
69A ARG* 3.1 29.4 + - - +
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Residues in contact with ASP 66 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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62A LEU* 3.5 30.5 - - + +
63A ASP* 3.0 39.3 + - - +
65A GLU* 1.3 76.9 - - - +
67A LYS* 1.3 53.7 + - - +
69A ARG* 3.1 31.1 + - - +
70A ALA* 2.8 35.4 + - - +
150A ALA* 6.0 0.3 - - - -
153A ALA* 5.3 1.5 - - + +
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Residues in contact with LYS 67 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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59A ALA 5.4 3.8 - - - -
60A ALA 6.0 0.7 - - - -
62A LEU* 4.3 31.0 - - + -
63A ASP 3.1 14.0 + - - +
64A THR* 3.6 25.8 - - + +
65A GLU 3.2 0.4 - - - -
66A ASP* 1.3 77.4 - - - +
68A LEU* 1.3 58.5 + - + +
70A ALA* 3.5 7.9 + - - +
71A ALA* 3.0 27.0 + - - +
157A LEU* 5.3 6.5 - - + -
435A SER 4.3 8.5 - - - +
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Residues in contact with LEU 68 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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10A LEU* 3.9 13.1 - - + +
64A THR 3.6 14.5 + - - +
65A GLU* 3.3 14.5 + - + +
67A LYS* 1.3 74.9 - - + +
69A ARG* 1.3 54.8 + - - +
71A ALA* 3.3 8.6 + - + +
72A MET* 2.8 34.7 + - - +
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Residues in contact with ARG 69 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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10A LEU* 2.8 64.9 + - + +
11A VAL* 5.0 7.0 - - + +
65A GLU* 3.1 20.4 + - - +
66A ASP* 3.1 30.9 + - - +
68A LEU* 1.3 74.3 - - - +
70A ALA* 1.3 59.5 + - - +
72A MET* 3.2 2.8 + - - +
73A VAL* 2.8 32.0 + - - +
146A LYS* 3.7 34.8 - - - +
150A ALA* 3.7 25.1 - - + +
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Residues in contact with ALA 70 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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62A LEU* 5.3 0.2 - - + -
66A ASP 2.8 19.8 + - - +
67A LYS* 3.7 4.0 - - - +
69A ARG* 1.3 72.0 - - - +
71A ALA* 1.3 57.6 + - - +
73A VAL* 3.2 8.9 - - - +
74A GLY 3.0 20.6 + - - -
150A ALA* 4.1 9.3 - - - +
153A ALA* 4.1 8.3 - - + -
154A VAL* 3.2 21.1 - - + +
157A LEU* 3.4 30.7 - - + -
436A ALA* 3.4 5.7 - - - +
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Residues in contact with ALA 71 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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67A LYS 3.0 15.1 + - - +
68A LEU* 3.5 13.7 - - + +
70A ALA* 1.3 76.8 - - - +
72A MET* 1.3 62.5 + - - +
74A GLY 3.2 0.9 + - - -
75A MET* 3.0 16.7 + - - +
435A SER 4.4 4.7 - - - +
436A ALA* 3.5 8.4 - - - +
437A THR* 2.6 42.4 + - + +
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Residues in contact with MET 72 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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7A PRO 3.8 20.2 - - - +
8A PHE* 3.6 37.7 - - + -
9A HIS* 4.2 8.3 - - + +
10A LEU* 3.8 39.3 - - + -
11A VAL* 4.2 10.5 - - + -
68A LEU 2.8 16.9 + - - +
69A ARG* 3.2 7.2 + - - +
71A ALA* 1.3 76.6 - - - +
73A VAL* 1.3 62.1 + - - +
75A MET* 3.0 15.1 + - - +
76A LEU* 3.0 23.1 + - + +
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Residues in contact with VAL 73 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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11A VAL* 4.8 10.5 - - + +
69A ARG 2.8 19.5 + - - +
70A ALA* 3.2 19.5 - - - +
72A MET* 1.3 73.4 - - - +
74A GLY* 1.3 60.6 + - - +
76A LEU* 3.6 8.4 + - - +
77A ALA* 3.1 21.7 + - - +
107A PHE* 3.5 30.2 - - + -
147A VAL* 4.2 18.2 - - + +
150A ALA* 3.8 17.3 - - + +
151A LEU* 4.0 11.7 - - + +
154A VAL* 3.6 17.3 - - + -
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Residues in contact with GLY 74 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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70A ALA 3.0 11.4 + - - -
71A ALA 3.5 4.9 - - - -
72A MET 3.1 0.6 - - - -
73A VAL* 1.3 78.8 - - - +
75A MET* 1.3 56.9 + - - +
77A ALA* 3.1 7.1 + - - +
78A ASN* 2.8 31.1 + - - +
104A THR* 5.7 0.2 - - - -
151A LEU* 6.0 1.1 - - - -
154A VAL* 4.9 1.8 - - - -
436A ALA 3.6 4.0 - - - -
437A THR 3.7 6.3 - - - -
438A ALA* 3.3 24.7 - - - -
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Residues in contact with MET 75 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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8A PHE* 5.4 2.0 - - + -
71A ALA 3.0 13.8 + - - +
72A MET* 3.0 11.4 + - - +
74A GLY* 1.3 71.7 - - - +
76A LEU* 1.3 63.0 + - + +
78A ASN* 3.1 19.3 + - - +
79A PHE* 2.8 63.8 + - + -
334A ASN* 3.8 25.6 - - + +
432A TYR* 5.1 3.8 - - - +
437A THR* 3.8 21.7 + - + +
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Residues in contact with LEU 76 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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8A PHE* 3.3 46.4 - - + -
11A VAL* 5.3 4.9 - - + -
72A MET* 3.0 34.2 + - + +
73A VAL* 3.7 9.2 - - - +
74A GLY 3.3 0.2 - - - -
75A MET* 1.3 75.9 - - - +
77A ALA* 1.3 57.2 - - - +
79A PHE* 3.8 7.2 - - + +
80A LEU* 2.9 30.5 + - - +
83A ARG* 5.3 1.1 - - - +
107A PHE* 3.6 23.2 - - + -
129A LEU 4.1 10.5 - - - +
130A GLY* 4.1 7.6 - - - -
131A VAL* 3.9 36.1 - - + +
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Residues in contact with ALA 77 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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73A VAL 3.1 11.2 + - - +
74A GLY* 3.1 10.9 + - - +
76A LEU* 1.3 76.8 - - - +
78A ASN* 1.3 65.6 + - - +
80A LEU* 3.6 2.2 + - - +
81A GLY 3.1 16.8 + - - -
103A PRO* 3.5 31.5 - - - +
104A THR* 4.0 20.0 - - + -
107A PHE* 3.8 22.8 - - + -
151A LEU* 5.3 1.6 - - + -
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Residues in contact with ASN 78 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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74A GLY 2.8 17.0 + - - +
75A MET* 3.1 24.1 + - - +
77A ALA* 1.3 76.9 - - - +
79A PHE* 1.3 59.5 + - + +
81A GLY* 3.0 4.9 + - - -
82A PHE* 3.0 46.9 + - + -
334A ASN* 3.7 12.7 - - - +
432A TYR* 4.4 2.8 - - - -
437A THR 3.1 21.8 + - - -
438A ALA* 3.5 3.2 - - - +
439A LEU* 3.1 43.9 + - + +
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Residues in contact with PHE 79 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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8A PHE* 4.4 24.9 - + - -
75A MET* 2.8 58.5 + - + +
76A LEU* 4.0 8.1 - - + +
78A ASN* 1.3 72.5 - - + +
80A LEU* 1.3 52.5 + - - +
82A PHE* 3.3 21.5 + + - +
83A ARG* 2.7 52.4 + - - +
330A GLN* 5.3 10.1 - - + -
331A ASN* 5.5 5.2 - - + -
334A ASN* 5.1 3.6 - - - -
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Residues in contact with LEU 80 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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76A LEU 2.9 18.1 + - - +
77A ALA 3.8 4.7 - - - +
78A ASN 3.2 0.2 - - - -
79A PHE* 1.3 76.4 - - - +
81A GLY* 1.3 58.3 + - - +
83A ARG* 3.2 20.7 + - + +
84A ILE* 2.8 51.1 + - + +
103A PRO 5.1 0.7 - - - +
106A VAL* 4.1 12.3 - - + -
107A PHE* 3.7 39.9 - - + -
110A LEU* 4.1 13.7 - - + -
128A ILE* 3.2 33.9 - - + +
129A LEU* 4.2 3.8 - - + +
363A LEU* 5.0 3.6 - - + -
367A GLU* 6.3 0.7 - - + -
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Residues in contact with GLY 81 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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77A ALA 3.1 11.3 + - - -
78A ASN 3.0 7.8 + - - -
80A LEU* 1.3 77.3 - - - +
82A PHE* 1.3 63.9 + - - +
84A ILE* 3.3 13.4 + - - +
85A TYR 3.3 15.2 + - - -
91A LEU* 5.3 0.3 - - - +
101A LEU* 5.7 5.8 - - - +
103A PRO* 4.6 16.4 - - - +
328A PHE* 4.0 14.6 - - - -
439A LEU* 6.1 0.2 - - - -
442A LEU* 6.3 0.9 - - - -
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Residues in contact with PHE 82 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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78A ASN* 3.0 34.2 + - + -
79A PHE* 3.8 15.3 - + - +
81A GLY* 1.3 74.4 - - - +
83A ARG* 1.3 66.2 + - - +
85A TYR* 3.2 19.0 + - - +
86A GLY 4.0 1.6 + - - -
328A PHE* 3.1 38.0 - + + +
330A GLN* 3.3 33.4 - - + +
333A LEU* 3.3 24.2 - - + -
334A ASN* 4.1 11.4 - - - -
439A LEU* 3.9 30.3 - - + -
442A LEU* 4.4 8.1 - - + -
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Residues in contact with ARG 83 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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76A LEU* 4.1 3.0 + - - +
79A PHE* 2.7 32.4 + - - +
80A LEU* 3.3 33.1 - - + +
82A PHE* 1.3 73.3 - - - +
84A ILE* 1.3 55.9 + - + +
86A GLY* 2.8 23.2 + - - -
127A ALA 4.9 0.6 + - - -
128A ILE* 3.4 13.0 + - - +
129A LEU 2.7 31.9 + - - -
130A GLY* 3.2 19.4 + - - -
363A LEU* 6.0 0.4 - - + -
367A GLU* 4.5 25.4 - - - +
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Residues in contact with ILE 84 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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80A LEU* 2.8 34.9 + - + +
81A GLY* 3.6 10.1 - - - +
82A PHE 3.2 0.4 - - - -
83A ARG* 1.3 67.9 - - + +
85A TYR* 1.3 56.2 + - - +
86A GLY 3.0 9.2 + - - -
87A MET* 3.3 10.3 + - - +
91A LEU* 3.1 31.7 - - + +
101A LEU* 4.5 6.3 - - + -
103A PRO* 6.5 0.2 - - + -
106A VAL* 3.7 27.8 - - + -
362A LEU* 3.2 39.3 - - + +
363A LEU* 3.5 27.1 - - + -
367A GLU* 5.9 0.4 - - - -
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Residues in contact with TYR 85 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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81A GLY 3.3 4.8 + - - -
82A PHE 3.2 13.1 + - - +
83A ARG 3.1 1.0 - - - -
84A ILE* 1.3 72.0 - - - +
86A GLY* 1.3 55.4 + - - +
87A MET 3.0 5.6 - - - -
88A HIS* 2.9 27.3 + - - -
89A SER* 4.3 27.5 + - - -
91A LEU* 3.5 25.3 - - + +
92A TRP* 5.3 2.9 - + - -
321A ASP 3.7 7.4 + - - -
324A GLU* 2.5 40.5 + - - -
325A GLY* 3.5 28.0 + - - -
328A PHE* 3.7 34.1 - + + +
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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
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Atomic class I II III IV V VI VII VIII
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I (Hydrophilic) + + + - + + + +
II (Acceptor) + - + - + + + -
III (Donor) + + - - + + - +
IV (Hydrophobic) - - - + + + + +
V (Aromatic) + + + + + + + +
VI (Neutral) + + + + + + + +
VII (Neutral-donor) + + - + + + - +
VIII (Neutral-acceptor) + - + + + + + -
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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