Contacts of the helix formed by residues 1 - 31 (chain A) 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 ALA 1 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
2A GLU* 1.3 69.4 + - + +
3A GLU 3.5 1.3 - - - +
4A LEU* 4.1 25.6 - - + +
5A GLU* 2.4 62.5 + - - +
65A GLU* 5.3 6.5 - - - +
73A VAL* 5.2 9.1 - - - +
68C MET* 4.3 19.8 - - + -
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Residues in contact with GLU 2 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1A ALA* 1.3 82.0 - - + +
3A GLU* 1.3 67.8 + - + +
5A GLU* 3.8 1.9 - - - +
6A GLU* 3.0 26.6 + - - +
68C MET* 6.1 0.2 - - - +
85D GLY 5.6 6.7 - - - +
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Residues in contact with GLU 3 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1A ALA* 5.1 0.2 - - - +
2A GLU* 1.3 82.8 - - + +
4A LEU* 1.3 62.7 + - + +
5A GLU 3.0 1.6 - - - -
6A GLU* 2.7 10.1 + - - +
7A VAL* 2.4 49.8 + - + +
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Residues in contact with LEU 4 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1A ALA* 3.4 24.6 + - + +
3A GLU* 1.3 78.4 - - + +
5A GLU* 1.3 57.1 + - - +
7A VAL* 3.6 6.8 - - + +
8A VAL* 2.8 36.0 + - - +
58A LEU* 3.6 30.7 - - + +
65A GLU* 5.1 7.6 - - - +
71A SER* 4.3 18.8 - - - +
73A VAL* 4.7 11.4 - - + -
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Residues in contact with GLU 5 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1A ALA 2.4 52.3 + - - +
2A GLU* 3.8 2.0 - - - +
4A LEU* 1.3 65.8 - - - +
6A GLU* 1.3 63.7 + - - +
8A VAL* 3.3 7.7 + - - +
9A MET* 3.1 26.0 + - - +
73A VAL* 5.3 7.4 - - + -
68C MET* 4.0 20.6 - - - +
15D SER* 3.6 35.9 + - - +
18D LEU* 4.0 16.4 - - - +
84D TYR* 5.9 0.7 - - - -
87D VAL* 5.2 8.0 - - - +
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Residues in contact with GLU 6 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
2A GLU 3.0 19.4 + - - +
3A GLU* 2.7 11.8 + - - +
5A GLU* 1.3 73.7 - - - +
7A VAL* 1.3 63.4 + - + +
9A MET* 3.3 15.5 + - - +
10A GLY* 3.0 18.0 + - - -
58D PRO* 5.5 3.1 - - - +
59D GLN* 3.8 24.3 + - - +
81D SER* 4.8 8.8 - - - +
84D TYR* 5.6 4.1 - - + -
85D GLY* 4.6 17.5 + - - -
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Residues in contact with VAL 7 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3A GLU* 2.4 53.9 + - + +
4A LEU* 3.6 9.2 - - + +
6A GLU* 1.3 67.2 - - + +
8A VAL* 1.3 58.8 + - - +
10A GLY* 3.1 3.8 + - - -
11A LEU* 2.8 32.7 + - + +
54A VAL* 4.1 12.8 - - + -
58A LEU* 3.8 30.7 - - + -
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Residues in contact with VAL 8 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
4A LEU 2.8 27.8 + - - +
5A GLU* 3.3 6.9 + - - +
7A VAL* 1.3 76.7 - - + +
9A MET* 1.3 52.7 + - - +
11A LEU* 3.0 10.9 + - + +
12A ILE* 2.7 40.9 + - + +
58A LEU* 5.6 3.8 - - + -
73A VAL* 3.4 38.1 - - + +
76A HIS* 3.5 42.2 - - + -
77A ALA* 4.4 11.9 - - + +
15D SER* 4.8 3.8 - - - +
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Residues in contact with MET 9 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
5A GLU* 3.1 15.6 + - - +
6A GLU* 3.4 17.0 - - - +
7A VAL 3.2 0.2 - - - -
8A VAL* 1.3 74.9 - - - +
10A GLY* 1.3 58.1 + - - +
12A ILE* 3.3 7.9 + - - +
13A ILE* 2.8 37.2 + - + +
10D CYS* 4.9 10.1 - - + -
15D SER* 3.0 39.9 - - - +
16D THR* 4.2 4.3 - - - +
57D GLY* 5.7 1.6 - - - -
58D PRO* 5.1 3.4 - - + -
59D GLN* 4.2 29.2 - - + +
84D TYR* 3.1 44.6 - - + +
200D PO3 4.2 5.8 - - - +
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Residues in contact with GLY 10 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
6A GLU 3.0 13.6 + - - -
7A VAL* 3.1 4.9 + - - -
9A MET* 1.3 77.8 - - - +
11A LEU* 1.3 50.8 - - - +
13A ILE* 3.3 6.8 + - - +
14A ASN* 2.7 37.6 + - - +
59D GLN* 4.6 8.2 - - - +
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Residues in contact with LEU 11 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7A VAL* 2.8 27.3 + - + +
8A VAL* 3.4 9.9 - - - +
10A GLY* 1.3 74.1 - - - +
12A ILE* 1.3 53.9 + - - +
14A ASN* 3.5 4.7 - - + +
15A SER* 2.7 37.4 + - - -
51A ALA* 3.7 38.6 - - + +
54A VAL* 4.0 13.2 - - + -
55A GLN* 5.0 2.2 - - - +
58A LEU* 3.7 30.5 - - + -
77A ALA* 3.8 28.3 - - + -
81A LEU* 4.4 14.0 - - + +
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Residues in contact with ILE 12 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8A VAL* 2.7 26.3 + - + +
9A MET* 3.6 3.8 - - - +
11A LEU* 1.3 70.7 - - - +
13A ILE* 1.3 58.5 + - - +
15A SER* 2.6 20.8 + - - -
16A GLY* 2.8 12.3 + - - -
76A HIS* 3.1 61.5 - - + +
77A ALA* 4.2 4.3 - - - -
80A HIS* 3.2 32.7 + - + +
11D SER* 2.9 31.5 + - - +
200D PO3 3.2 11.9 - - - +
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Residues in contact with ILE 13 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9A MET* 2.8 22.4 + - + +
10A GLY* 3.6 6.3 - - - +
12A ILE* 1.3 77.4 - - - +
14A ASN* 1.3 52.1 + - - +
16A GLY* 3.1 2.0 + - - -
17A GLN* 2.7 40.5 + - - +
10D CYS* 4.7 2.2 - - + -
11D SER* 3.4 31.6 - - - +
41D GLU* 5.3 4.3 - - - +
59D GLN* 3.8 30.3 - - + +
60D ILE* 3.6 27.4 - - + -
62D TYR* 4.3 18.8 - - + +
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Residues in contact with ASN 14 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10A GLY 2.7 21.5 + - - +
11A LEU* 3.5 9.3 - - - +
13A ILE* 1.3 75.7 - - - +
15A SER* 1.3 57.7 + - - +
17A GLN* 3.2 10.3 + - - +
18A ALA* 2.8 29.7 + - - +
47A ALA* 3.7 34.7 + - - +
48A LEU* 5.9 0.2 - - - -
50A GLU* 4.2 15.6 + - - +
51A ALA* 3.9 16.9 - - + +
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Residues in contact with SER 15 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11A LEU 2.7 17.2 + - - -
12A ILE 2.6 22.2 + - - -
14A ASN* 1.3 72.2 - - - +
16A GLY* 1.3 65.7 + - - +
18A ALA* 3.2 7.9 + - - +
19A ARG* 3.0 15.6 + - - +
48A LEU* 4.9 1.6 - - - -
80A HIS* 3.5 35.6 + - - +
81A LEU* 4.1 13.6 - - - +
84A SER* 2.9 31.2 + - - -
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Residues in contact with GLY 16 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12A ILE 2.8 9.2 + - - -
13A ILE* 3.1 4.2 + - - -
15A SER* 1.3 84.4 + - - +
17A GLN* 1.3 55.0 + - - +
19A ARG* 3.3 14.0 + - - +
20A SER* 2.9 29.3 + - - -
80A HIS* 5.8 1.3 - - - -
84A SER* 4.8 0.2 - - - -
11D SER* 5.8 3.6 - - - -
41D GLU* 6.0 2.5 - - - -
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Residues in contact with GLN 17 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13A ILE* 2.7 26.7 + - - +
14A ASN* 3.5 12.4 - - - +
16A GLY* 1.3 71.9 - - - +
18A ALA* 1.3 54.0 + - - +
20A SER* 3.1 8.8 + - - +
21A LEU* 2.8 56.3 + - + +
62D TYR* 3.8 37.7 + - - +
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Residues in contact with ALA 18 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14A ASN 2.8 13.8 + - - +
15A SER 3.2 9.8 + - - +
17A GLN* 1.3 76.1 - - - +
19A ARG* 1.3 57.7 + - - +
21A LEU* 3.2 5.8 + - - -
22A ALA* 2.8 17.4 + - - +
44A SER* 2.6 30.4 + - - +
47A ALA* 4.6 7.6 - - + +
48A LEU* 3.4 39.0 - - + -
84A SER* 4.7 1.1 - - - -
88A ARG* 6.2 0.9 - - - -
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Residues in contact with ARG 19 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
15A SER 3.0 12.8 + - - +
16A GLY* 3.6 12.4 + - - +
18A ALA* 1.3 75.0 - - - +
20A SER* 1.3 59.5 + - - +
22A ALA* 2.9 9.8 + - + +
23A TYR* 2.8 33.1 + - + +
84A SER* 4.2 17.0 + - - +
87A ALA* 4.8 12.3 - - + -
91A ILE* 5.4 3.8 - - + -
82C MET* 5.3 9.2 - - - +
85C MET* 4.0 27.3 - - - +
86C LEU* 4.4 25.7 - - - +
89C GLU* 4.4 19.8 + - - +
42D THR* 5.2 12.3 - - - +
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Residues in contact with SER 20 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16A GLY 2.9 14.7 + - - -
17A GLN* 3.3 14.5 - - - +
19A ARG* 1.3 77.9 - - - +
21A LEU* 1.3 59.9 + - - +
23A TYR* 3.4 6.9 + - - +
24A ALA* 2.9 29.9 + - - +
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Residues in contact with LEU 21 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17A GLN* 2.8 40.7 + - + +
18A ALA* 3.5 3.4 - - - +
20A SER* 1.3 74.1 - - - +
22A ALA* 1.3 52.4 - - - +
24A ALA* 3.1 5.7 + - + +
25A ALA* 2.6 36.1 + - - +
40A MET* 3.9 30.6 - - + +
43A GLN* 5.0 13.5 - - + +
44A SER* 3.4 31.0 - - - +
47A ALA* 5.1 7.0 - - + -
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Residues in contact with ALA 22 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18A ALA 2.8 12.9 + - - +
19A ARG* 3.2 12.3 - - - +
21A LEU* 1.3 76.3 - - - +
23A TYR* 1.3 62.8 + - - +
25A ALA* 2.9 11.6 + - - +
26A LEU 2.9 18.2 + - - -
41A MET* 6.0 0.9 - - - +
44A SER* 3.5 8.7 + - - +
87A ALA* 6.0 0.2 - - + -
88A ARG* 4.1 22.4 - - + -
91A ILE* 3.6 30.4 - - + +
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Residues in contact with TYR 23 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19A ARG* 2.8 20.5 + - + +
20A SER* 3.8 7.6 - - - +
22A ALA* 1.3 71.8 - - - +
24A ALA* 1.3 60.7 + - + +
26A LEU* 3.1 14.9 + - + +
27A LYS* 2.9 44.8 + - + +
30A LYS* 5.0 7.2 + - - -
91A ILE* 4.2 9.7 - - + +
89C GLU* 3.8 24.5 - - + +
93C GLU* 3.3 26.5 + - + -
----------------------------------------------------------
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Residues in contact with ALA 24 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
20A SER* 2.9 19.0 + - - +
21A LEU* 3.3 7.4 - - + +
23A TYR* 1.3 80.1 - - - +
25A ALA* 1.3 63.4 + - - +
27A LYS* 3.1 11.9 + - + +
28A GLN* 2.9 29.6 + - + +
40A MET* 3.6 18.6 - - + -
----------------------------------------------------------
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Residues in contact with ALA 25 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21A LEU 2.6 15.4 + - - +
22A ALA* 3.1 14.1 - - - +
24A ALA* 1.3 74.0 - - - +
26A LEU* 1.3 62.6 + - - +
28A GLN* 3.2 8.0 + - - +
29A ALA* 3.1 16.6 + - - +
37A ALA* 3.5 18.6 - - - +
40A MET* 3.5 27.3 - - + +
41A MET* 4.0 16.8 - - + +
91A ILE* 5.3 0.2 - - + -
95A ILE* 4.0 4.9 - - + -
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Residues in contact with LEU 26 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22A ALA 2.9 11.1 + - - +
23A TYR* 3.3 15.9 - - + +
25A ALA* 1.3 76.1 - - - +
27A LYS* 1.3 63.3 + - - +
29A ALA* 2.9 15.1 + - + +
30A LYS* 3.0 19.4 + - - +
91A ILE* 3.9 17.5 - - + -
94A LEU* 4.5 11.4 - - + -
95A ILE* 3.9 20.8 - - + +
98A HIS* 3.5 32.8 - - + +
93C GLU* 3.2 46.2 - - + +
----------------------------------------------------------
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Residues in contact with LYS 27 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23A TYR* 2.9 32.6 + - + +
24A ALA* 3.1 14.8 + - + +
26A LEU* 1.3 76.5 - - - +
28A GLN* 1.3 69.3 + - + +
30A LYS* 3.1 22.3 + - + +
31A GLN* 3.1 41.6 + - + +
----------------------------------------------------------
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Residues in contact with GLN 28 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24A ALA* 2.9 21.4 + - + +
25A ALA* 3.2 12.1 + - - +
27A LYS* 1.3 81.7 - - - +
29A ALA* 1.3 62.7 - - - +
31A GLN* 3.0 22.7 + - - +
33A ASP* 2.9 39.5 + - - +
36A ALA* 3.3 25.4 - - + +
37A ALA 3.8 16.2 - - - +
40A MET* 4.7 8.1 - - + -
----------------------------------------------------------
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Residues in contact with ALA 29 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25A ALA 3.1 8.0 + - - +
26A LEU* 2.9 14.3 + - + +
28A GLN* 1.3 79.5 - - - +
30A LYS* 1.3 54.5 + - - +
32A GLY* 2.7 25.5 + - - +
33A ASP 4.4 4.5 - - - +
34A PHE* 4.8 7.1 - - + -
37A ALA* 4.1 7.1 - - + +
95A ILE* 4.0 29.4 - - + -
98A HIS* 4.3 20.6 - - + +
103A ALA 4.3 7.6 - - - +
----------------------------------------------------------
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Residues in contact with LYS 30 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23A TYR* 5.0 7.9 + - - -
26A LEU* 3.0 26.8 + - - +
27A LYS* 3.1 16.4 + - + +
29A ALA* 1.3 76.1 - - - +
31A GLN* 1.3 61.9 + - + +
32A GLY* 3.2 1.0 + - - -
98A HIS* 4.3 16.2 - - - +
103A ALA* 6.1 1.2 - - - +
93C GLU* 3.0 34.1 + - - -
96C GLU* 3.5 27.5 + - - +
100C LYS* 3.6 29.0 + - - +
----------------------------------------------------------
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Residues in contact with GLN 31 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27A LYS* 3.1 42.7 - - + +
28A GLN* 3.0 18.0 + - - +
30A LYS* 1.3 77.9 - - + +
32A GLY* 1.3 60.3 + - - +
33A ASP* 3.3 20.3 + - - +
----------------------------------------------------------
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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