Contacts of the helix formed by residues 33 - 61 (chain C) in PDB entry 2WY2
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 33 (chain C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28C GLN* 2.9 37.3 + - - +
29C ALA* 4.1 0.8 + - - -
31C GLN* 3.8 19.1 - - - +
32C GLY* 1.3 79.6 - - - +
34C PHE* 1.3 65.9 + - - +
35C ALA* 3.2 3.4 - - + +
36C ALA* 4.2 8.4 - - + +
37C ALA* 3.1 21.8 + - - +
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Residues in contact with PHE 34 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29C ALA* 4.9 12.6 - - + -
32C GLY* 3.4 14.0 + - - -
33C ASP* 1.3 71.5 - - - +
35C ALA* 1.3 60.7 + - - +
37C ALA* 3.6 3.8 - - - +
38C LYS* 2.9 35.2 + - + +
95C ILE* 4.7 7.9 - - + -
98C HIS* 4.1 7.0 - - + -
99C GLU* 3.4 55.6 - - + +
102C LYS 3.9 4.7 - - - -
103C ALA* 3.1 42.4 - - - -
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Residues in contact with ALA 35 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33C ASP* 3.2 1.5 - - + -
34C PHE* 1.3 79.6 - - - +
36C ALA* 1.3 63.6 + - - +
38C LYS* 3.4 7.4 + - - +
39C ALA* 3.1 22.7 + - - +
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Residues in contact with ALA 36 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28C GLN* 3.3 28.7 - - + +
33C ASP* 3.5 12.4 + - + +
35C ALA* 1.3 75.8 - - - +
37C ALA* 1.3 67.3 + - - +
39C ALA* 3.3 6.2 + - - +
40C MET* 2.9 33.1 + - + +
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Residues in contact with ALA 37 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25C ALA* 3.5 28.0 - - - +
28C GLN* 3.8 2.6 - - - +
29C ALA* 4.1 7.4 - - + +
33C ASP 3.1 19.5 + - - +
34C PHE* 3.6 8.1 - - - +
35C ALA 3.2 0.2 - - - -
36C ALA* 1.3 77.3 - - - +
38C LYS* 1.3 63.1 + - - +
40C MET* 3.1 4.2 + - - +
41C MET* 2.9 29.1 + - - +
95C ILE* 4.2 21.8 - - + -
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Residues in contact with LYS 38 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34C PHE* 2.9 18.9 + - + +
35C ALA* 3.6 7.4 - - - +
37C ALA* 1.3 76.5 - - - +
39C ALA* 1.3 62.1 + - - +
41C MET* 3.3 20.2 + - + +
42C ASP* 3.0 23.2 + - - +
95C ILE* 5.7 0.6 - - - +
99C GLU* 5.7 3.4 + - - -
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Residues in contact with ALA 39 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35C ALA 3.1 17.4 + - - +
36C ALA* 3.6 7.4 - - - +
37C ALA 3.2 0.4 - - - -
38C LYS* 1.3 75.2 - - - +
40C MET* 1.3 65.1 - - + +
42C ASP* 3.3 6.9 + - - +
43C GLN* 3.2 32.6 + - - +
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Residues in contact with MET 40 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21C LEU* 3.9 31.8 - - + +
24C ALA* 3.6 30.5 - - + -
25C ALA* 3.5 24.5 - - + +
28C GLN* 4.7 9.0 - - + +
36C ALA* 2.9 25.9 + - + +
39C ALA* 1.3 75.2 - - + +
41C MET* 1.3 66.2 + - - +
43C GLN* 3.4 14.7 + - - +
44C SER* 2.9 23.6 + - - -
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Residues in contact with MET 41 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22C ALA* 6.0 0.7 - - - +
25C ALA* 3.9 7.0 - - + -
37C ALA 2.9 20.7 + - - +
38C LYS* 3.5 22.2 - - + +
40C MET* 1.3 77.7 - - - +
42C ASP* 1.3 56.6 + - - +
44C SER* 3.2 7.7 + - - -
45C ARG* 2.9 30.0 + - - +
88C ARG* 3.6 14.2 + - - +
91C ILE* 5.6 0.9 - - - -
92C THR* 3.2 44.2 - - + +
95C ILE* 3.3 38.6 - - + -
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Residues in contact with ASP 42 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38C LYS 3.0 10.9 + - - +
39C ALA* 3.6 11.4 - - - +
41C MET* 1.3 79.1 - - - +
43C GLN* 1.3 63.7 + - + +
45C ARG* 3.2 18.5 + - - +
46C MET* 3.0 40.9 + - - +
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Residues in contact with GLN 43 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21C LEU* 5.0 14.2 - - + +
39C ALA* 3.2 19.4 + - - +
40C MET* 3.8 19.3 - - - +
42C ASP* 1.3 76.9 - - + +
44C SER* 1.3 63.9 + - - +
46C MET* 3.2 14.9 + - - +
47C ALA* 2.9 24.5 + - - +
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Residues in contact with SER 44 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18C ALA* 2.7 31.4 + - - +
21C LEU* 3.3 16.9 - - - +
22C ALA* 3.4 6.8 + - - +
40C MET 2.9 17.9 + - - -
41C MET* 3.4 7.6 - - - -
43C GLN* 1.3 77.0 - - - +
45C ARG* 1.3 61.8 + - - +
47C ALA* 3.2 8.3 + - - +
48C LEU* 3.0 27.3 + - - +
88C ARG* 4.0 17.5 - - - +
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Residues in contact with ARG 45 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41C MET 2.9 13.4 + - - +
42C ASP* 3.4 20.7 + - - +
44C SER* 1.3 76.3 - - - +
46C MET* 1.3 59.5 + - + +
48C LEU* 3.2 7.0 + - + +
49C ASN* 2.8 30.4 + - + +
88C ARG* 3.8 25.1 - - - +
46D GLU* 5.8 2.0 + - - -
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Residues in contact with MET 46 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42C ASP* 3.0 33.2 + - - +
43C GLN* 3.5 14.6 - - - +
45C ARG* 1.3 78.3 - - + +
47C ALA* 1.3 63.7 + - - +
49C ASN* 3.2 8.3 + - - +
50C GLU* 3.0 24.3 + - - +
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Residues in contact with ALA 47 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14C ASN* 3.7 22.6 + - - +
17C GLN* 6.4 0.7 - - + -
18C ALA* 4.6 12.3 - - + +
21C LEU* 5.1 6.5 - - + -
43C GLN 2.9 13.3 + - - +
44C SER* 3.2 12.3 + - - +
46C MET* 1.3 77.9 - - - +
48C LEU* 1.3 56.9 + - - +
50C GLU* 3.4 7.1 + - - +
51C ALA* 3.0 27.6 + - - +
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Residues in contact with LEU 48 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
15C SER* 4.9 5.4 - - - -
18C ALA* 3.3 26.9 - - + -
44C SER 3.0 13.2 + - - +
45C ARG* 3.5 8.1 - - + +
47C ALA* 1.3 73.4 - - - +
49C ASN* 1.3 57.4 + - - +
51C ALA* 3.4 4.5 - - + +
52C HIS* 2.6 38.6 + - + +
81C LEU* 5.0 9.7 - - + +
84C SER* 4.0 19.3 - - - +
85C MET* 4.1 27.6 - - + +
88C ARG* 3.3 44.4 - - + -
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Residues in contact with ASN 49 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45C ARG* 2.8 19.3 + - + +
46C MET* 3.2 9.6 + - - +
48C LEU* 1.3 76.0 - - - +
50C GLU* 1.3 57.9 + - - +
52C HIS* 3.6 6.7 - - - +
53C LEU* 2.9 49.5 + - - +
43D LEU* 6.2 1.6 - - - +
46D GLU* 5.4 5.7 + - - -
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Residues in contact with GLU 50 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14C ASN* 4.2 12.6 + - - +
46C MET 3.0 15.9 + - - +
47C ALA* 3.7 6.7 - - - +
49C ASN* 1.3 76.4 + - - +
51C ALA* 1.3 62.6 - - - +
53C LEU* 3.3 13.7 + - + +
54C VAL* 3.1 31.7 + - + +
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Residues in contact with ALA 51 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11C LEU* 3.7 16.6 - - + +
14C ASN* 3.9 20.4 - - + +
15C SER 5.4 0.4 - - - +
47C ALA 3.0 17.7 + - - +
48C LEU* 3.4 7.9 - - + +
50C GLU* 1.3 77.9 - - - +
52C HIS* 1.3 62.9 + - - +
54C VAL* 3.2 6.0 + - - +
55C GLN* 3.0 22.3 + - - +
81C LEU* 3.5 26.9 - - + +
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Residues in contact with HIS 52 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48C LEU 2.6 21.9 + - - +
49C ASN* 3.6 8.0 + - - +
51C ALA* 1.3 73.1 - - - +
53C LEU* 1.3 53.6 + - - +
55C GLN* 3.1 15.3 + - + +
56C THR* 2.7 58.4 + - - -
81C LEU* 4.7 8.2 - - + +
82C MET* 6.4 1.8 - - - -
85C MET* 4.8 22.0 - - + +
12D ALA* 5.3 4.0 + - - -
40D PRO* 4.0 27.9 - - + +
42D THR* 5.7 0.6 + - - -
43D LEU* 4.4 11.3 - - + +
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Residues in contact with LEU 53 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49C ASN* 2.9 40.7 + - - +
50C GLU* 3.5 11.4 - - + +
51C ALA 3.2 0.2 - - - -
52C HIS* 1.3 78.4 - - - +
54C VAL* 1.3 63.3 + - + +
56C THR* 3.2 19.1 + - - +
57C LYS* 3.2 12.6 + - - +
39D PHE* 5.4 4.5 - - + -
43D LEU* 5.2 10.5 - - + -
47D LYS* 3.7 33.7 - - - +
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Residues in contact with VAL 54 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7C VAL* 4.1 12.8 - - + -
11C LEU* 4.0 15.7 - - + -
50C GLU* 3.1 23.5 + - + +
51C ALA* 3.2 8.0 + - - +
53C LEU* 1.3 76.1 - - + +
55C GLN* 1.3 63.9 + - - +
57C LYS* 3.2 9.0 + - - +
58C LEU* 3.0 37.1 + - + +
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Residues in contact with GLN 55 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11C LEU* 4.9 2.9 - - + +
51C ALA 3.0 6.4 + - - +
52C HIS* 3.1 16.8 + - + +
54C VAL* 1.3 74.8 - - - +
56C THR* 1.3 67.5 + - - +
58C LEU* 2.7 24.3 + - - +
59C ILE* 2.8 20.0 + - + +
74C LEU* 3.4 24.1 + - + +
77C ALA* 3.9 4.0 - - - +
78C GLN* 3.3 46.5 - - - +
81C LEU* 2.8 42.5 - - + +
82C MET* 5.6 0.5 - - - +
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Residues in contact with THR 56 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52C HIS* 2.7 48.1 + - - -
53C LEU* 3.3 13.1 + - - +
55C GLN* 1.3 73.1 - - - +
57C LYS* 1.3 57.7 + - - +
59C ILE* 3.0 15.7 + - + +
60C GLU* 2.9 27.9 + - + +
12D ALA 5.3 2.2 - - - +
13D GLY* 6.0 0.2 - - - -
38D ALA 3.6 11.9 - - - +
39D PHE* 3.5 41.3 - - + -
40D PRO* 4.5 5.6 - - + -
43D LEU* 5.1 1.0 - - - +
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Residues in contact with LYS 57 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53C LEU 3.2 6.9 + - - +
54C VAL* 3.2 12.2 + - + +
55C GLN 3.2 0.6 - - - -
56C THR* 1.3 79.3 - - - +
58C LEU* 1.3 67.0 + - + +
60C GLU* 3.9 12.8 - - - +
61C GLY* 3.1 23.2 + - - -
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Residues in contact with LEU 58 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
4C LEU* 3.6 30.7 - - + +
7C VAL* 3.8 19.1 - - + -
8C VAL* 5.6 5.2 - - + -
11C LEU* 3.7 29.6 - - + -
54C VAL* 3.0 16.4 + - + +
55C GLN* 2.7 12.9 + - + +
57C LYS* 1.3 81.0 - - + +
59C ILE* 1.3 57.3 + - - +
61C GLY 4.2 0.8 - - - -
62C ASP* 3.5 22.3 - - - +
71C SER* 6.0 1.6 - - - -
74C LEU* 4.1 17.7 - - + +
77C ALA* 5.6 2.9 - - + -
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Residues in contact with ILE 59 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55C GLN* 2.8 15.9 + - + +
56C THR* 3.0 21.1 + - + +
58C LEU* 1.3 77.0 - - - +
60C GLU* 1.3 59.3 + - + +
61C GLY 3.3 1.8 - - - -
62C ASP* 3.0 18.2 - - - +
74C LEU* 3.9 23.3 - - + -
78C GLN* 5.2 11.2 - - - +
12D ALA* 4.2 17.7 - - + +
13D GLY* 2.8 23.8 - - - +
14D MET* 3.5 41.1 - - + +
17D SER* 2.6 23.4 + - - -
38D ALA 5.5 0.2 - - - +
200D PO3 4.3 1.8 - - - +
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Residues in contact with GLU 60 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56C THR* 2.9 16.1 + - - +
57C LYS* 3.4 13.7 + - - +
59C ILE* 1.3 79.0 - - + +
61C GLY* 1.3 58.4 + - - +
62C ASP* 3.4 2.1 + - - +
17D SER* 3.1 29.3 - - - +
20D VAL* 3.6 19.7 - - + +
21D SER* 4.8 4.9 + - - -
24D ARG* 4.1 14.5 + - - +
36D ILE 2.7 27.9 - - - +
37D GLU* 3.1 29.9 - - - +
38D ALA* 3.7 19.6 + - + +
39D PHE* 5.5 1.0 - - - -
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Residues in contact with GLY 61 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57C LYS 3.1 13.4 + - - -
58C LEU* 4.2 3.8 - - - -
60C GLU* 1.3 78.0 - - - +
62C ASP* 1.3 57.3 + - - +
63C ALA* 2.9 22.6 + - - +
21D SER* 5.9 2.0 - - - -
24D ARG* 4.8 12.1 - - - -
----------------------------------------------------------
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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
------------------------------------------------------------
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