Contacts of the helix formed by residues 24 - 51 (chain A) in PDB entry 1HS7
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 24 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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23A THR* 1.3 87.7 - - - +
25A GLN* 1.3 55.0 + - - +
26A LYS* 3.2 18.5 - - + +
27A THR* 3.3 15.4 + - - +
28A LYS* 2.7 36.7 + - - +
84A LEU* 5.3 9.8 - - + +
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Residues in contact with GLN 25 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23A THR 3.7 2.0 + - - -
24A ASN* 1.3 72.6 - - - +
26A LYS* 1.3 64.6 + - + +
28A LYS* 3.1 10.7 + - + +
29A GLU* 2.9 55.1 + - + +
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Residues in contact with LYS 26 (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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24A ASN* 3.2 12.5 - - + +
25A GLN* 1.3 82.9 - - + +
27A THR* 1.3 62.2 + - - +
29A GLU* 3.1 27.3 + - - +
30A LEU 3.4 4.3 + - - -
82A ASN* 3.9 9.1 + - - +
84A LEU* 3.4 21.1 - - + -
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Residues in contact with THR 27 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23A THR 4.3 16.2 - - - +
24A ASN* 3.3 16.1 + - - +
26A LYS* 1.3 79.3 - - - +
28A LYS* 1.3 63.9 + - - +
30A LEU* 3.1 22.1 + - - +
31A SER* 3.2 5.4 + - - -
84A LEU* 3.1 38.3 - - - +
88A ASN* 3.6 19.5 + - - +
91A LEU* 3.5 24.5 - - + +
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Residues in contact with LYS 28 (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 THR* 4.6 24.1 - - - +
24A ASN 2.7 23.4 + - - +
25A GLN* 3.2 14.6 - - + +
27A THR* 1.3 76.6 - - - +
29A GLU* 1.3 62.0 + - + +
31A SER* 3.2 21.2 + - - +
32A ASN* 3.0 22.0 + - - +
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Residues in contact with GLU 29 (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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25A GLN* 2.9 38.6 + - - +
26A LYS* 3.1 15.9 + - - +
28A LYS* 1.3 76.9 - - - +
30A LEU* 1.3 62.5 + - - +
32A ASN* 3.1 28.3 + - - +
33A LEU* 3.3 15.3 - - + +
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Residues in contact with LEU 30 (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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26A LYS 3.4 2.2 + - - -
27A THR 3.1 8.2 + - - +
29A GLU* 1.3 74.8 - - - +
31A SER* 1.3 58.6 + - - +
32A ASN 3.0 1.6 - - - -
33A LEU* 2.8 33.2 + - + +
34A ILE* 2.9 19.0 + - + -
79A ILE* 3.2 49.8 - - + +
82A ASN* 3.3 28.2 - - - +
84A LEU* 4.5 3.4 - - + -
85A ILE* 4.1 20.9 - - + +
91A LEU* 3.4 34.8 - - + -
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Residues in contact with SER 31 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27A THR 3.2 6.9 + - - -
28A LYS* 3.2 18.4 + - - -
30A LEU* 1.3 80.7 - - - +
32A ASN* 1.3 54.4 + - - +
34A ILE* 4.1 9.9 - - - +
35A GLU* 2.5 54.8 + - - +
91A LEU* 4.4 16.7 - - - +
94A ASP* 5.5 1.0 + - - -
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Residues in contact with ASN 32 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28A LYS* 3.0 23.3 + - - +
29A GLU* 3.1 23.1 - - - +
30A LEU 3.0 0.6 - - - -
31A SER* 1.3 80.2 - - - +
33A LEU* 1.3 61.1 + - + +
35A GLU* 3.6 16.5 + - - +
36A THR* 3.3 20.3 + - - -
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Residues in contact with LEU 33 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29A GLU* 3.3 14.8 - - + +
30A LEU* 2.8 21.4 + - + +
32A ASN* 1.3 77.2 - - + +
34A ILE* 1.3 59.8 + - - +
36A THR* 3.1 14.2 + - - +
37A PHE* 2.9 25.8 + - - +
75A VAL* 3.8 9.5 - - + +
78A LYS* 3.6 63.7 - - + +
79A ILE* 3.6 16.2 - - + +
82A ASN* 5.3 3.4 - - + -
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Residues in contact with ILE 34 (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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30A LEU* 2.9 27.2 + - + +
31A SER* 3.8 7.2 - - - +
33A LEU* 1.3 75.3 - - - +
35A GLU* 1.3 57.7 + - + +
37A PHE* 2.8 3.5 + - - +
38A ALA* 2.6 35.9 + - + +
79A ILE* 3.2 28.0 - - + -
85A ILE* 4.1 0.9 - - + -
91A LEU* 3.5 32.1 - - + +
94A ASP* 3.6 26.5 - - + +
95A PHE* 3.7 12.6 - - + +
98A LEU* 3.1 21.1 - - + -
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Residues in contact with GLU 35 (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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31A SER* 2.5 38.3 + - - +
32A ASN* 3.6 19.0 + - - +
34A ILE* 1.3 74.5 - - + +
36A THR* 1.3 60.2 + - - +
38A ALA* 3.7 8.3 - - - +
39A GLU* 3.4 18.5 + - - +
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Residues in contact with THR 36 (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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32A ASN 3.3 9.5 + - - -
33A LEU* 3.1 8.8 + - - +
34A ILE 3.0 0.4 - - - -
35A GLU* 1.3 77.8 - - - +
37A PHE* 1.3 57.4 + - - +
38A ALA 3.2 0.2 - - - -
39A GLU* 2.9 18.0 + - - +
40A GLN* 2.6 53.0 + - + +
75A VAL* 3.1 33.0 - - + -
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Residues in contact with PHE 37 (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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33A LEU 2.9 7.4 + - - +
34A ILE* 2.8 10.0 + - - +
36A THR* 1.3 76.5 - - - +
38A ALA* 1.3 51.7 + - - +
40A GLN* 3.4 2.9 - - + -
41A SER* 2.5 41.1 + - - -
72A CYS* 3.0 43.7 - - + -
75A VAL* 3.2 20.6 - - + -
76A ARG* 3.1 28.5 - - + -
79A ILE* 4.2 1.1 - - + -
95A PHE* 3.9 12.1 - + - -
98A LEU* 3.2 24.0 - - + -
99A LYS* 3.0 40.2 - - + -
102A TYR* 3.9 13.5 - + + -
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Residues in contact with ALA 38 (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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34A ILE* 2.6 20.9 + - + +
35A GLU* 3.7 10.5 - - - +
37A PHE* 1.3 73.1 - - - +
39A GLU* 1.3 56.6 + - - +
41A SER* 3.3 4.7 - - - -
42A ARG* 2.8 46.3 + - - +
98A LEU* 3.3 27.3 - - + +
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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
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35A GLU 3.4 10.2 + - - +
36A THR* 2.9 19.3 + - - +
38A ALA* 1.3 76.3 - - - +
40A GLN* 1.3 70.8 + - + +
41A SER 3.0 1.3 - - - -
42A ARG* 3.0 12.0 + - - +
43A VAL* 2.8 37.6 + - + +
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Residues in contact with GLN 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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36A THR* 2.6 50.2 + - + +
37A PHE* 3.5 9.2 - - - +
39A GLU* 1.3 79.9 + - + +
41A SER* 1.3 52.4 + - - +
43A VAL* 3.0 10.0 + - - +
44A LEU* 2.7 35.5 + - - +
68A LEU* 4.0 18.4 - - - +
71A ASN* 4.3 21.3 + - - +
72A CYS* 3.6 37.7 - - + -
75A VAL* 5.2 1.2 - - + +
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Residues in contact with SER 41 (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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37A PHE* 2.5 22.8 + - - -
38A ALA* 3.3 11.4 - - - -
40A GLN* 1.3 73.7 - - - +
42A ARG* 1.3 63.7 + - - +
44A LEU* 4.7 0.7 - - - -
45A GLU* 3.2 6.9 + - - +
98A LEU* 3.3 29.3 + - - +
101A LYS* 3.3 26.4 - - - +
102A TYR* 4.0 8.0 - - - +
105A LEU* 2.8 30.2 - - - +
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Residues in contact with ARG 42 (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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38A ALA* 2.8 36.4 + - - +
39A GLU* 3.0 9.6 + - - +
41A SER* 1.3 74.4 - - - +
43A VAL* 1.3 52.3 + - + +
45A GLU* 3.0 23.7 - - - +
46A LYS* 2.7 35.2 + - - +
98A LEU* 5.3 3.0 - - - +
101A LYS* 3.0 27.0 - - - +
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Residues in contact with VAL 43 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39A GLU* 2.8 27.2 + - + +
40A GLN* 3.1 17.9 - - - +
42A ARG* 1.3 74.9 - - - +
44A LEU* 1.3 56.0 + - - +
46A LYS* 2.7 34.6 + - + +
47A GLU* 2.6 33.8 + - - +
68A LEU* 3.1 43.7 - - + -
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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
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40A GLN 2.7 17.0 + - - +
43A VAL* 1.3 72.0 - - - +
45A GLU* 1.3 52.1 + - - +
47A GLU 3.6 0.2 - - - -
48A CYS* 2.5 73.2 + - - +
64A ILE* 4.4 2.7 - - + -
68A LEU* 3.6 35.7 - - + -
69A ILE* 3.8 22.4 - - + +
72A CYS* 4.3 3.6 - - - -
102A TYR* 3.6 24.7 - - + -
105A LEU* 3.4 29.2 - - + -
106A GLN* 3.6 14.4 - - - +
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Residues in contact with GLU 45 (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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41A SER 3.2 5.7 + - - +
42A ARG* 3.0 38.2 - - - +
44A LEU* 1.3 79.7 - - - +
46A LYS* 1.3 58.9 + - - +
48A CYS* 3.9 4.2 - - - +
49A THR* 2.8 31.4 + - - +
101A LYS* 3.5 21.1 + - - -
105A LEU* 3.0 26.5 - - + +
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Residues in contact with LYS 46 (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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42A ARG 2.7 14.2 + - - +
43A VAL* 2.7 42.0 + - + +
45A GLU* 1.3 72.0 - - + +
47A GLU* 1.3 94.6 + - - +
49A THR* 2.7 29.4 + - - +
50A LYS* 3.4 8.0 + - - +
55A ARG* 6.1 0.4 - - - +
63A LYS* 4.5 6.0 - - - +
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Residues in contact with GLU 47 (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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43A VAL 2.6 12.9 + - - +
44A LEU 4.0 0.7 - - - +
46A LYS* 1.3 110.5 + - + +
48A CYS* 1.3 58.0 + - - +
50A LYS* 3.1 50.3 + - - +
51A ILE* 3.1 17.5 - - - +
60A LEU* 3.5 7.4 - - + +
63A LYS* 3.0 41.5 - - - +
64A ILE* 3.4 22.4 - - + -
68A LEU* 3.1 17.3 - - + -
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Residues in contact with CYS 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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44A LEU* 2.5 55.1 + - - +
45A GLU* 3.9 5.8 - - - +
47A GLU* 1.3 73.5 - - - +
49A THR* 1.3 63.5 + - - +
51A ILE* 3.3 22.7 + - - +
64A ILE* 4.2 3.4 - - - -
105A LEU* 3.5 9.4 - - + +
108A SER* 6.0 1.3 - - - -
109A TYR* 3.1 45.4 - - + +
112A ARG* 3.5 16.5 + - - +
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Residues in contact with THR 49 (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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45A GLU 2.8 17.7 + - - +
46A LYS* 2.7 28.7 - - - +
48A CYS* 1.3 77.8 - - - +
50A LYS* 1.3 61.6 + - + +
53A SER* 3.9 8.5 - - - -
112A ARG* 3.0 30.2 + - - +
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Residues in contact with LYS 50 (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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46A LYS 3.4 5.1 + - - +
47A GLU* 3.1 58.0 + - - +
48A CYS 3.2 0.2 - - - -
49A THR* 1.3 80.8 - - + +
51A ILE* 1.3 54.1 - - - +
52A GLY 3.1 0.7 + - - -
53A SER* 2.6 39.9 + - - +
55A ARG* 3.4 58.9 + - + +
56A ASP 3.7 4.3 + - - -
57A SER* 5.2 0.6 + - - -
60A LEU* 3.1 24.3 - - + +
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Residues in contact with ILE 51 (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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47A GLU 3.1 14.6 + - - +
48A CYS* 3.3 14.5 + - - +
50A LYS* 1.3 75.6 - - - +
52A GLY* 1.3 66.0 + - - +
53A SER* 3.1 3.5 + - - -
60A LEU* 3.6 33.7 - - + -
61A ARG* 4.3 16.4 - - - +
64A ILE* 3.9 2.9 - - + -
109A TYR* 3.3 46.2 - - + +
112A ARG* 3.9 22.1 + - + -
113A LYS* 3.7 28.7 - - + +
116A PHE* 4.4 0.2 - - - -
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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