Contacts of the helix formed by residues 37 - 69 (chain A) in PDB entry 4HKC
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 SER 37 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35A GLU 3.9 0.8 + - - -
36A LEU* 1.3 74.2 - - - +
38A ASN* 1.3 60.7 + - - +
39A GLU* 3.5 10.1 + - - +
40A GLU* 2.9 39.7 + - - +
41A ARG* 2.9 28.8 + - - +
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Residues in contact with ASN 38 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37A SER* 1.3 73.5 - - - +
39A GLU* 1.3 57.9 + - - +
41A ARG* 3.4 24.1 + - - +
42A ASN* 3.0 39.4 + - - +
111A GLN* 5.5 3.0 + - - +
113A GLU* 3.1 27.1 - - - +
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Residues in contact with GLU 39 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7A VAL* 4.4 8.6 - - + +
8A GLN* 5.3 0.3 + - - -
11A LYS* 2.7 39.2 + - - -
37A SER* 3.2 8.9 + - - +
38A ASN* 1.3 80.0 - - - +
40A GLU* 1.4 58.1 + - - +
42A ASN* 3.3 10.0 + - - +
43A LEU* 3.0 38.7 + - + +
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Residues in contact with GLU 40 (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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3A LYS* 2.8 41.2 + - - +
4A ASN* 4.7 0.2 - - - +
7A VAL* 3.8 32.3 - - + +
26A MET* 3.3 21.8 - - + +
29A VAL* 4.6 2.0 - - - -
35A GLU 4.4 2.1 - - - +
36A LEU* 3.4 20.5 - - + +
37A SER* 2.9 37.3 + - - +
39A GLU* 1.4 73.9 - - + +
41A ARG* 1.3 65.5 + - - +
43A LEU* 3.3 4.1 + - - -
44A LEU* 3.0 22.0 + - - +
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Residues in contact with ARG 41 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36A LEU* 4.0 12.5 - - + +
37A SER 2.9 16.7 + - - +
38A ASN* 3.4 25.5 + - - +
40A GLU* 1.3 77.2 - - - +
42A ASN* 1.4 81.4 + - - +
44A LEU* 3.3 4.1 + - - +
45A SER* 3.1 24.1 + - - -
113A GLU* 2.9 38.0 + - - +
114A SER* 4.3 16.3 - - - +
117A PHE* 3.6 36.9 - - + +
118A TYR* 3.3 39.3 - - + +
166A ILE* 4.1 11.1 - - - +
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Residues in contact with ASN 42 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38A ASN* 3.0 25.3 + - - +
39A GLU* 3.6 7.6 - - - +
41A ARG* 1.4 95.4 + - - +
43A LEU* 1.3 56.9 + - + +
45A SER* 3.3 7.1 + - - -
46A VAL* 2.9 38.3 + - + +
117A PHE* 3.9 10.9 - - - -
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Residues in contact with LEU 43 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7A VAL* 3.7 33.0 - - + +
10A ALA* 4.8 0.9 - - + -
11A LYS* 4.0 27.4 - - + +
14A GLU* 3.8 14.4 - - - +
22A MET* 3.3 30.0 - - + +
26A MET* 3.9 20.1 - - + +
39A GLU* 3.0 30.4 + - + +
40A GLU* 3.3 6.7 + - - +
42A ASN* 1.3 72.9 - - + +
44A LEU* 1.3 64.4 + - - +
46A VAL* 3.5 2.0 + - + -
47A ALA* 3.0 22.2 + - - +
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Residues in contact with LEU 44 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26A MET* 3.7 38.0 - - + +
27A LYS 4.1 0.7 - - - +
30A THR* 3.7 17.0 - - - +
36A LEU* 4.0 11.7 - - + -
40A GLU 3.0 12.7 + - - +
41A ARG 3.6 8.5 - - - +
43A LEU* 1.3 75.6 - - - +
45A SER* 1.3 56.4 + - - +
47A ALA* 3.4 2.5 + - - +
48A TYR* 3.0 59.1 + - + +
97A VAL* 6.4 0.2 - - + -
100A LEU* 4.4 8.7 - - + -
105A LEU* 3.7 27.6 - - + -
118A TYR* 5.3 1.8 - - + -
121A MET* 4.7 13.5 - - + -
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Residues in contact with SER 45 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41A ARG 3.1 17.0 + - - -
42A ASN* 3.6 5.4 - - - -
44A LEU* 1.3 74.5 - - - +
46A VAL* 1.3 59.7 + - - +
48A TYR* 4.0 0.5 - - - +
49A LYS* 2.9 33.4 + - - +
117A PHE* 3.8 26.2 - - - -
121A MET* 4.2 18.7 - - - +
125A TYR* 4.6 1.4 + - - -
1013B LEU* 5.9 3.3 - - - +
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Residues in contact with VAL 46 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14A GLU* 3.5 26.5 - - - +
19A TYR* 4.6 2.7 - - + -
22A MET* 3.9 12.6 - - + -
42A ASN* 2.9 27.1 + - + +
43A LEU* 3.9 5.4 - - + +
44A LEU 3.5 0.2 - - - -
45A SER* 1.3 68.4 - - - +
47A ALA* 1.3 66.3 + - - +
49A LYS* 3.4 5.7 + - - +
50A ASN* 2.9 44.1 + - - +
1013B LEU* 4.8 18.4 - - + -
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Residues in contact with ALA 47 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19A TYR* 4.1 5.1 - - - +
22A MET* 3.7 21.7 - - + +
23A ALA* 3.5 35.2 - - - +
43A LEU 3.0 18.7 + - - +
44A LEU* 3.6 5.8 - - - +
46A VAL* 1.3 78.9 - - - +
48A TYR* 1.3 59.2 + - + +
50A ASN* 3.2 2.8 + - - +
51A VAL* 3.0 31.6 + - - +
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Residues in contact with TYR 48 (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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23A ALA* 3.9 30.7 + - + +
27A LYS* 3.6 19.2 - - - +
44A LEU* 3.0 46.2 + - + +
45A SER* 4.3 2.0 - - - +
47A ALA* 1.3 76.4 - - - +
49A LYS* 1.3 65.6 + - - +
51A VAL* 3.2 7.8 + - + -
52A VAL* 2.9 29.3 + - - +
93A ILE* 4.1 19.3 - - + -
96A ASP* 2.7 33.5 + - - -
97A VAL* 3.2 29.2 - - + -
100A LEU* 4.3 8.9 - - + +
121A MET* 5.2 2.0 - - + -
125A TYR* 3.3 16.4 - - - +
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Residues in contact with LYS 49 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45A SER* 2.9 21.9 + - - +
46A VAL* 3.7 7.4 - - - +
47A ALA 3.3 0.2 - - - -
48A TYR* 1.3 75.4 - - - +
50A ASN* 1.3 60.4 + - - +
52A VAL* 3.5 4.8 - - + +
53A GLY* 2.8 27.0 + - - -
56A ARG* 3.6 6.7 - - - +
125A TYR* 3.4 8.6 + - + +
128A TYR* 3.1 16.6 + - + +
1011B SEP 2.4 44.6 + - - -
1012B ILE 3.8 20.1 + - - +
1013B LEU* 4.4 23.8 - - + -
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Residues in contact with ASN 50 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19A TYR* 3.4 57.9 + - + -
46A VAL* 2.9 36.1 + - - +
47A ALA 3.7 0.9 - - - +
48A TYR 3.1 0.2 - - - -
49A LYS* 1.3 78.9 - - - +
51A VAL* 1.3 65.1 + - - +
53A GLY* 4.7 1.3 - - - -
54A ALA* 3.1 23.9 + - - +
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Residues in contact with VAL 51 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19A TYR* 3.7 25.1 - - + +
20A ASP* 3.9 17.9 - - - +
23A ALA* 4.0 13.2 - - + -
47A ALA 3.0 17.5 + - - +
48A TYR* 3.7 11.7 - - + +
50A ASN* 1.3 78.5 - - - +
52A VAL* 1.3 61.0 + - - +
54A ALA* 3.6 2.4 + - - -
55A ARG* 3.0 38.5 + - - +
93A ILE* 3.4 29.6 - - + -
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Residues in contact with VAL 52 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48A TYR 2.9 21.2 + - - +
49A LYS* 3.5 12.3 - - + +
51A VAL* 1.3 74.0 - - - +
53A GLY* 1.3 65.6 + - - +
55A ARG* 3.0 7.6 + - - +
56A ARG* 2.9 36.4 + - + +
90A LEU* 4.9 4.2 - - + +
93A ILE* 2.7 41.7 - - + -
94A CYS* 4.7 7.6 - - - +
125A TYR* 3.5 27.8 - - + +
128A TYR* 4.2 18.4 - - + -
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Residues in contact with GLY 53 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49A LYS* 2.8 23.3 + - - -
50A ASN* 3.4 2.4 + - - -
51A VAL 3.3 0.2 - - - -
52A VAL* 1.3 80.2 - - - +
54A ALA* 1.3 61.7 + - - +
56A ARG* 3.2 13.0 + - - +
57A SER* 3.0 25.5 + - - -
60A ARG* 4.6 2.4 + - - -
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Residues in contact with ALA 54 (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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50A ASN 3.1 16.5 + - - +
51A VAL* 3.9 6.1 - - - +
52A VAL 3.2 0.4 - - - -
53A GLY* 1.3 74.1 - - - +
55A ARG* 1.3 70.1 + - - +
57A SER* 3.5 5.6 + - - -
58A SER* 3.0 32.5 + - - +
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Residues in contact with ARG 55 (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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20A ASP* 4.5 14.1 + - - -
51A VAL* 3.0 34.8 + - - +
52A VAL* 3.0 9.6 + - - +
54A ALA* 1.3 85.5 - - - +
56A ARG* 1.4 58.8 + - - +
58A SER* 4.4 2.5 - - - -
59A TRP* 2.9 30.3 + - - +
86A ILE* 3.4 15.5 - - + +
89A GLU* 3.0 43.7 + - + +
90A LEU* 4.0 24.0 - - + +
93A ILE* 3.7 15.2 - - + +
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Residues in contact with ARG 56 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49A LYS* 3.6 8.3 - - - +
52A VAL* 2.9 25.1 + - + +
53A GLY* 3.7 11.9 - - - +
55A ARG* 1.4 74.8 - - - +
57A SER* 1.3 57.8 + - - +
59A TRP* 3.4 4.7 + - - +
60A ARG* 3.0 60.9 + - - +
90A LEU* 4.0 21.1 - - + -
128A TYR* 3.4 38.7 - - + -
131A GLU* 3.0 39.6 + - - +
1007B ARG* 3.2 7.5 - - - +
1011B SEP 2.7 43.9 + - - -
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Residues in contact with SER 57 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53A GLY 3.0 16.0 + - - -
54A ALA* 3.8 5.6 - - - -
56A ARG* 1.3 74.7 - - - +
58A SER* 1.3 64.9 + - - +
60A ARG* 3.2 22.0 + - - +
61A VAL* 3.1 30.2 + - - +
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Residues in contact with SER 58 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
54A ALA 3.0 19.9 + - - -
55A ARG* 3.8 6.0 - - - -
57A SER* 1.3 75.1 + - - +
59A TRP* 1.4 57.2 + - - +
61A VAL* 3.3 7.1 + - - +
62A VAL* 2.9 33.8 + - - +
86A ILE* 4.0 23.1 - - - -
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Residues in contact with TRP 59 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55A ARG 2.9 19.2 + - - +
56A ARG* 3.5 7.4 - - - +
58A SER* 1.4 75.1 - - - +
60A ARG* 1.4 70.2 + - + +
62A VAL* 3.4 2.4 + - - +
63A SER* 2.8 66.7 + - - -
67A GLN* 6.2 0.7 - - - -
83A ARG* 3.5 19.5 - - + +
86A ILE* 3.9 10.3 - - + +
87A GLU* 2.7 53.3 + - + +
90A LEU* 4.7 4.3 - - + -
131A GLU* 3.8 26.2 - - + -
132A VAL* 3.4 19.6 - - + +
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Residues in contact with ARG 60 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53A GLY* 4.6 2.4 + - - -
56A ARG* 3.0 57.8 + - - +
57A SER* 3.2 31.3 + - - +
59A TRP* 1.4 91.4 - - + +
61A VAL* 1.3 64.2 + - + +
63A SER* 3.5 2.5 + - - -
64A SER* 3.0 26.0 + - - -
131A GLU* 4.8 4.0 + - - -
1006B LYS* 5.2 15.8 - - + +
1007B ARG* 5.4 14.9 - - - +
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Residues in contact with VAL 61 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57A SER* 3.1 21.7 + - - +
58A SER* 3.6 9.0 - - - +
60A ARG* 1.3 76.8 - - + +
62A VAL* 1.3 68.0 + - + +
64A SER* 3.3 8.6 + - - -
65A ILE* 3.1 38.9 + - + +
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Residues in contact with VAL 62 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58A SER* 2.9 20.7 + - - +
59A TRP* 4.2 1.8 - - - +
61A VAL* 1.3 80.7 - - + +
63A SER* 1.3 57.7 + - - +
65A ILE* 3.2 11.7 + - + +
66A GLU* 3.0 27.8 + - - +
79A ALA* 3.3 32.5 - - + +
82A TYR* 3.8 20.2 - - + -
83A ARG* 3.7 18.2 - - + +
86A ILE* 3.6 20.9 - - + -
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Residues in contact with SER 63 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59A TRP* 2.8 65.9 + - - -
60A ARG* 3.7 4.3 - - - -
62A VAL* 1.3 71.0 - - - +
64A SER* 1.3 61.8 - - - +
66A GLU* 3.3 14.4 + - - +
67A GLN* 3.1 40.8 + - - +
83A ARG* 3.4 10.6 - - - +
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Residues in contact with SER 64 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60A ARG 3.0 18.1 + - - -
61A VAL* 3.3 7.8 + - - -
63A SER* 1.3 74.6 - - - +
65A ILE* 1.3 63.3 + - - +
67A GLN* 3.4 11.4 + - - +
68A LYS* 2.8 53.6 + - - +
1006B LYS* 4.9 7.4 + - - -
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Residues in contact with ILE 65 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61A VAL* 3.1 34.3 + - + +
62A VAL* 3.2 14.8 + - + +
64A SER* 1.3 75.5 - - - +
66A GLU* 1.3 58.5 + - - +
68A LYS* 3.1 10.5 + - + +
69A THR* 2.9 43.1 + - + +
75A LYS 5.6 0.4 - - - +
79A ALA* 4.1 17.0 - - + -
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Residues in contact with GLU 66 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62A VAL 3.0 14.9 + - - +
63A SER* 3.5 7.8 - - - +
65A ILE* 1.3 78.6 - - - +
67A GLN* 1.3 59.9 + - + +
69A THR* 3.2 11.9 + - - -
76A GLN* 2.7 52.6 - - + +
79A ALA* 3.9 11.4 - - + +
80A ARG* 3.5 19.0 - - - +
83A ARG* 2.8 49.0 + - - +
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Residues in contact with GLN 67 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59A TRP* 6.2 0.8 - - - -
63A SER* 3.1 32.2 + - - +
64A SER* 3.8 7.8 - - - +
65A ILE 3.2 0.2 - - - -
66A GLU* 1.3 81.8 + - + +
68A LYS* 1.4 61.0 + - + +
69A THR 3.2 0.7 - - - -
70A GLU* 3.2 23.9 + - - +
76A GLN* 4.8 0.7 - - - -
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Residues in contact with LYS 68 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64A SER* 2.8 37.3 + - - +
65A ILE* 3.1 13.6 + - + +
67A GLN* 1.4 73.2 - - - +
69A THR* 1.3 60.3 + - + +
70A GLU* 3.3 6.1 + - - +
1006B LYS* 4.8 10.7 - - - +
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Residues in contact with THR 69 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65A ILE* 2.9 30.4 + - + +
66A GLU* 3.2 11.8 + - - -
67A GLN 3.2 0.8 - - - -
68A LYS* 1.3 80.3 - - + +
70A GLU* 1.3 63.7 + - - +
71A GLY 3.4 0.3 + - - -
72A ALA* 3.2 29.2 + - + +
75A LYS* 3.9 26.0 + - + -
76A GLN* 3.4 32.1 - - - +
----------------------------------------------------------
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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).
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