Contacts of the helix formed by residues 23 - 55 (chain I) in PDB entry 6XXD
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 23 (chain I).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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3F LEU* 5.2 1.6 - - - +
22I PRO* 1.3 73.4 - - - +
24I LEU* 1.3 62.6 + - - +
25I LEU* 3.4 4.7 + - - +
26I ALA* 2.9 35.7 + - - +
27I ALA* 3.5 18.9 + - - +
42L ASP* 5.2 2.4 + - - -
46L PHE* 3.7 20.6 - - + -
68L GLY* 2.8 35.0 + - - -
70L LYS* 4.8 6.9 - - - +
105M PRO 4.1 3.4 - - - -
106M ASP* 3.1 35.0 + - - +
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Residues in contact with LEU 24 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
4G ILE* 4.0 19.7 - - + -
8G ILE* 3.4 36.1 - - + -
21I ILE* 5.4 4.3 - - + -
22I PRO* 3.2 20.2 + - + +
23I ASN* 1.3 69.7 - - - +
25I LEU* 1.3 66.5 + - - +
27I ALA* 3.2 4.2 + - - +
28I ARG* 3.1 28.6 + - + +
44M VAL* 3.5 21.8 - - + -
48M GLU* 3.8 17.3 - - + +
57M TYR* 5.5 0.2 - - - +
88M TYR* 3.5 24.5 - - - +
104M THR 5.3 0.7 - - - +
105M PRO* 3.1 20.9 + - + +
108M GLY* 6.2 0.7 - - - -
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Residues in contact with LEU 25 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23I ASN* 3.4 1.0 + - - -
24I LEU* 1.3 78.9 - - - +
26I ALA* 1.3 60.5 + - - +
28I ARG* 3.5 9.1 + - + +
29I LYS* 3.3 45.0 + - + +
96I GLY* 5.9 2.5 - - - +
86M ASN* 3.0 31.2 - - + +
87M SER* 4.9 5.8 - - - +
105M PRO* 3.7 16.9 + - + +
106M ASP* 3.8 39.0 - - + +
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Residues in contact with ALA 26 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23I ASN* 2.9 26.8 + - + +
25I LEU* 1.3 74.1 - - - +
27I ALA* 1.3 65.7 + - - +
29I LYS* 3.4 27.4 + - + +
30I ARG* 3.8 5.2 + - - +
46L PHE* 3.7 25.1 - - + -
49L MET* 3.8 21.6 - - + +
67L LEU 4.4 7.0 - - - +
68L GLY* 4.9 0.4 - - - -
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Residues in contact with ALA 27 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3F LEU* 4.4 27.1 - - + -
7F LEU* 5.6 6.6 - - + +
10F ILE* 5.3 3.6 - - - +
8G ILE* 4.2 15.0 - - + -
12G ILE* 4.7 5.5 - - + +
23I ASN 3.5 13.6 + - - +
24I LEU 3.2 9.5 + - - +
26I ALA* 1.3 80.2 - - - +
28I ARG* 1.3 59.9 - - - +
30I ARG* 3.8 6.5 + - - +
31I ALA* 3.6 16.8 + - - +
49L MET* 5.6 2.9 - - - -
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Residues in contact with ARG 28 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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8G ILE* 3.7 20.5 - - + +
11G ALA* 4.1 15.4 - - - +
12G ILE* 4.2 9.3 - - + +
15G ILE* 3.4 29.7 - - - +
24I LEU 3.1 18.1 + - - +
25I LEU* 3.9 8.1 - - + +
26I ALA 3.3 0.2 - - - -
27I ALA* 1.3 73.3 - - - +
29I LYS* 1.3 54.9 + - - +
31I ALA* 3.2 7.7 + - - +
32I ASN* 2.7 52.6 + - - +
48M GLU* 3.0 23.9 + - - -
51M GLN* 3.4 38.1 + - - +
52M ILE* 5.6 0.4 - - - +
57M TYR* 3.6 23.3 - - - -
86M ASN* 6.3 1.1 - - - +
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Residues in contact with LYS 29 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25I LEU* 3.3 45.5 + - + +
26I ALA* 3.4 16.2 + - - +
28I ARG* 1.3 77.6 - - - +
30I ARG* 1.3 59.3 + - + +
32I ASN* 3.4 3.3 + - - +
33I ASP* 3.1 33.7 + - - +
96I GLY* 3.6 22.9 + - - +
97I GLY* 3.6 18.1 - - - +
98I THR* 4.1 18.4 - - + +
49L MET* 5.9 1.3 - - + -
67L LEU 5.5 4.0 + - - +
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Residues in contact with ARG 30 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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7F LEU* 4.3 20.4 - - + -
10F ILE* 3.5 19.5 - - + +
26I ALA 3.8 11.2 + - - +
27I ALA 3.8 6.1 + - - +
28I ARG 3.2 0.6 - - - -
29I LYS* 1.3 75.7 - - - +
31I ALA* 1.3 63.7 + - - +
33I ASP* 3.4 15.8 + - - +
34I THR* 2.9 26.2 + - - -
98I THR* 3.7 26.7 + - - +
111I LYS* 5.2 3.4 - - - +
49L MET* 3.5 39.6 + - + +
52L ILE* 4.3 20.9 - - + +
53L ASP* 2.7 40.7 + - - -
67L LEU* 4.2 10.7 + - - +
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Residues in contact with ALA 31 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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10F ILE* 4.5 7.2 - - + +
12G ILE* 3.2 47.1 - - + -
15G ILE* 5.2 4.9 - - + -
16G LEU* 4.7 5.7 - - + +
27I ALA 3.6 6.4 + - - +
28I ARG 3.2 7.4 + - - +
30I ARG* 1.3 78.6 - - - +
32I ASN* 1.3 62.8 + - - +
34I THR* 3.3 11.4 + - - -
35I VAL* 3.2 25.3 + - - +
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Residues in contact with ASN 32 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
15G ILE* 5.7 4.7 - - - +
28I ARG* 2.7 39.8 + - - +
29I LYS 3.5 5.8 - - - +
31I ALA* 1.3 72.2 - - - +
33I ASP* 1.3 63.8 + - - +
35I VAL* 3.4 8.9 + - - +
36I VAL* 3.2 26.7 + - - +
94I HIS* 3.2 43.7 + - + -
96I GLY 2.9 23.7 + - - +
97I GLY* 4.3 1.1 - - - -
86M ASN* 3.5 14.2 + - - +
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Residues in contact with ASP 33 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29I LYS 3.1 18.0 + - - +
30I ARG* 3.6 19.1 + - - +
31I ALA 3.3 0.4 - - - -
32I ASN* 1.3 73.4 - - - +
34I THR* 1.3 56.5 + - - +
36I VAL* 3.3 4.1 + - - +
37I THR* 2.7 39.7 + - - +
94I HIS* 5.5 0.9 - - - +
97I GLY* 3.8 3.6 - - - -
98I THR* 2.7 49.2 + - - +
99I VAL 4.7 0.2 - - - +
101I PHE* 3.8 27.1 - - + -
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Residues in contact with THR 34 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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10F ILE* 3.2 20.2 + - + +
13F ILE* 4.3 20.4 - - + -
16G LEU* 4.3 20.4 - - + -
19G VAL* 4.8 1.8 - - + -
20G LEU* 3.8 24.2 - - + -
30I ARG 2.9 16.5 + - - -
31I ALA* 3.3 10.8 + - - -
33I ASP* 1.3 76.1 - - - +
35I VAL* 1.3 58.2 + - - +
37I THR* 3.8 5.7 - - - -
38I ALA* 2.8 32.6 + - - +
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Residues in contact with VAL 35 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
15G ILE* 3.3 34.1 - - + -
16G LEU* 5.6 0.2 - - + -
19G VAL* 4.0 25.0 - - + +
31I ALA 3.2 11.3 + - - +
32I ASN* 3.6 13.5 - - - +
33I ASP 3.3 0.2 - - - -
34I THR* 1.3 77.4 - - - +
36I VAL* 1.3 57.7 - - - +
38I ALA* 3.9 1.2 - - - +
39I TYR* 3.0 28.2 + - - +
73I PRO* 3.9 29.8 - - + -
76I VAL* 4.3 10.1 - - + -
94I HIS* 4.6 7.0 - - + +
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Residues in contact with VAL 36 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32I ASN 3.2 13.9 + - - +
33I ASP* 3.7 8.3 - - - +
35I VAL* 1.3 75.2 - - - +
37I THR* 1.3 59.6 + - - +
39I TYR* 3.5 4.2 + - - +
40I LEU* 3.0 32.8 + - + +
76I VAL* 4.5 10.1 - - + -
92I ALA* 3.5 32.3 - - + +
93I GLY 3.7 4.0 - - - +
94I HIS* 3.4 35.9 - - + +
101I PHE* 3.6 26.0 - - + -
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Residues in contact with THR 37 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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13F ILE* 5.6 3.4 - - + +
14F ALA* 5.6 7.7 - - + +
17F ALA* 4.0 27.1 - - + -
33I ASP* 2.7 28.7 + - - +
34I THR* 4.0 6.7 - - - -
36I VAL* 1.3 74.7 - - - +
38I ALA* 1.3 55.7 + - - +
40I LEU* 3.8 2.0 - - - +
41I ASN* 2.9 30.7 + - + +
101I PHE* 3.3 22.6 - - + -
109I VAL* 4.3 21.6 - - + +
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Residues in contact with ALA 38 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19G VAL* 3.9 33.2 - - + +
20G LEU* 4.0 14.4 - - + -
34I THR 2.8 20.3 + - - +
35I VAL 3.9 3.6 - - - +
37I THR* 1.3 76.4 - - - +
39I TYR* 1.3 58.8 - - - +
41I ASN* 3.3 7.1 + - - +
42I ASP* 2.8 35.5 + - - +
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Residues in contact with TYR 39 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19G VAL* 5.7 0.4 - - - +
35I VAL 3.0 18.6 + - - +
36I VAL* 4.0 4.9 - - - +
37I THR 3.4 0.2 - - - -
38I ALA* 1.3 72.3 - - - +
40I LEU* 1.3 57.0 + - + +
42I ASP* 3.4 9.1 + - - +
43I ALA* 2.8 33.6 + - - +
61I GLN* 3.1 20.8 + - - -
69I LEU* 3.8 24.8 - - + +
70I LYS* 2.9 29.1 + - + -
71I SER 3.4 19.5 - - - -
72I THR* 3.5 6.5 + - - -
73I PRO* 3.7 26.0 - - + -
76I VAL* 5.4 3.6 - - + -
78I PHE* 3.6 44.4 - + + -
92I ALA* 5.7 1.3 - - + -
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Residues in contact with LEU 40 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36I VAL* 3.0 24.2 + - + +
37I THR 3.9 0.2 - - - +
39I TYR* 1.3 72.8 - - + +
41I ASN* 1.3 61.3 + - - +
43I ALA* 3.5 3.8 - - - +
44I VAL* 2.9 35.2 + - - +
78I PHE* 3.9 18.2 - - + -
90I MET* 3.8 20.5 - - + +
92I ALA* 3.6 22.2 - - + -
101I PHE* 3.3 44.4 - - + +
102I ALA 3.9 1.3 - - - +
103I ALA* 3.8 8.5 - - + -
109I VAL* 3.8 26.2 - - + -
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Residues in contact with ASN 41 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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4C ILE* 5.0 3.6 - - - +
5D GLU* 5.9 0.8 + - - -
17F ALA* 5.8 7.4 - - + +
21F ILE* 3.8 29.7 - - - +
37I THR* 2.9 21.8 + - + +
38I ALA* 3.5 8.9 + - - +
40I LEU* 1.3 76.4 - - - +
42I ASP* 1.3 61.9 + - - +
44I VAL* 3.7 6.1 + - - +
45I LYS* 3.5 48.1 + - - +
109I VAL* 4.0 12.1 - - + +
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Residues in contact with ASP 42 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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19G VAL 3.7 18.3 - - - +
20G LEU 6.1 0.2 - - - -
21G ILE 5.3 1.0 - - - +
22G PRO* 4.4 14.6 - - - +
23G ASN 5.2 1.8 + - - -
38I ALA* 2.8 23.4 + - - +
39I TYR* 3.6 10.8 - - + +
41I ASN* 1.3 76.3 + - - +
43I ALA* 1.3 64.8 + - - +
45I LYS* 3.1 35.0 + - - +
46I PHE* 3.2 25.3 + - + -
69I LEU* 3.7 18.2 - - + -
70I LYS* 5.4 5.2 + - - +
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Residues in contact with ALA 43 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39I TYR* 2.8 20.7 + - + +
40I LEU* 3.3 10.1 + - - +
42I ASP* 1.3 74.0 - - - +
44I VAL* 1.3 56.9 + - - +
46I PHE* 3.6 2.0 + - - +
47I GLN* 3.1 33.4 + - - +
64I LEU* 4.5 2.7 - - + +
69I LEU* 4.0 18.5 - - + +
78I PHE* 4.0 20.9 - - + -
90I MET* 3.6 19.3 - - + -
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Residues in contact with VAL 44 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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4C ILE* 4.1 12.1 - - + -
21F ILE* 5.6 6.5 - - + -
24F LEU* 3.5 20.2 - - + -
40I LEU 2.9 19.8 + - - +
41I ASN* 3.8 9.6 - - - +
42I ASP 3.3 0.2 - - - -
43I ALA* 1.3 75.1 - - - +
45I LYS* 1.3 63.6 + - - +
47I GLN* 3.5 5.9 + - - +
48I GLU* 3.2 22.3 + - - +
88I TYR* 3.4 25.5 + - + +
90I MET* 4.0 14.8 - - + -
103I ALA* 4.3 6.7 - - + -
104I THR 5.3 2.7 - - - +
108I GLY* 5.6 1.6 - - - -
109I VAL* 3.9 20.2 - - + +
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Residues in contact with LYS 45 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3C LEU* 4.1 37.2 - - + +
4C ILE* 3.8 31.9 - - + +
7C LEU* 3.4 24.1 - - + +
5D GLU* 4.5 8.7 - - - +
22G PRO* 4.2 11.2 - - + +
41I ASN* 3.5 41.5 + - - +
42I ASP* 3.1 25.7 + - - +
44I VAL* 1.3 77.4 - - - +
46I PHE* 1.3 63.5 + - + +
48I GLU* 3.1 3.8 + - - +
49I MET* 3.0 24.6 + - - +
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Residues in contact with PHE 46 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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23G ASN* 3.7 28.5 - - + -
26G ALA* 3.7 10.1 - - + -
42I ASP* 3.2 27.7 + - + +
43I ALA 3.6 2.2 + - - +
45I LYS* 1.3 81.5 - - + +
47I GLN* 1.3 60.1 + - - +
49I MET* 3.5 29.0 - - - +
50I TYR* 3.2 21.7 + - - +
64I LEU* 3.4 27.8 - - + +
67I LEU* 3.9 19.3 - - + +
68I GLY* 3.3 23.1 - - - -
69I LEU* 3.3 44.0 - - + -
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Residues in contact with GLN 47 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43I ALA 3.1 25.0 + - - +
44I VAL* 3.6 7.9 - - - +
46I PHE* 1.3 76.7 - - - +
48I GLU* 1.3 58.1 + - - +
50I TYR* 3.5 4.4 + - - +
51I GLN* 3.1 25.1 + - - +
57I TYR* 3.5 29.7 - - + -
58I THR* 2.9 52.3 + - - +
64I LEU* 3.8 6.5 - - + +
80I ILE* 4.3 3.4 - - - +
88I TYR* 4.0 22.0 - - + +
90I MET* 3.4 32.8 - - + +
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Residues in contact with GLU 48 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
4C ILE* 3.7 20.9 - - + -
7C LEU* 4.6 9.0 - - + +
8C ILE* 3.5 19.6 - - + +
11C ALA* 4.8 1.7 - - + +
24F LEU* 3.7 25.0 - - + +
28F ARG* 3.0 28.7 + - - -
44I VAL 3.2 13.6 + - - +
45I LYS 3.1 9.4 + - - +
47I GLN* 1.3 75.3 - - - +
49I MET* 1.3 62.2 + - - +
51I GLN* 3.4 6.3 + - - +
52I ILE* 3.2 28.1 + - + +
57I TYR* 3.0 28.1 + - - -
88I TYR* 4.5 1.9 - - - -
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Residues in contact with MET 49 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7C LEU* 4.0 26.5 - - + -
26G ALA* 3.8 36.8 - - + +
27G ALA* 5.3 1.3 - - - -
29G LYS* 5.8 1.8 - - + -
30G ARG* 3.5 31.7 + - + +
45I LYS* 3.0 17.5 + - - +
46I PHE* 3.5 33.9 - - + +
47I GLN 3.3 0.4 - - - -
48I GLU* 1.3 75.2 - - - +
50I TYR* 1.3 61.0 + - - +
52I ILE* 3.4 9.8 + - - +
53I ASP* 3.2 28.6 + - - +
67I LEU* 3.6 18.8 - - + +
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Residues in contact with TYR 50 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46I PHE 3.2 16.8 + - - +
47I GLN* 3.7 6.5 - - - +
49I MET* 1.3 73.6 - - - +
51I GLN* 1.3 60.0 + - - +
53I ASP* 4.5 2.5 - - - +
54I ASN* 2.8 69.1 + - + +
56I SER* 3.5 21.0 - - - +
57I TYR 4.8 1.8 - - - -
58I THR* 3.3 37.5 - - + -
63I ALA* 3.8 17.2 - - + +
64I LEU* 4.7 0.7 - - + -
67I LEU* 3.4 28.4 - - + +
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Residues in contact with GLN 51 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
15C ILE* 6.1 0.2 - - - +
28F ARG* 3.5 39.2 + - - +
75F ASN* 4.7 3.0 - - - +
47I GLN 3.1 13.3 + - - +
48I GLU* 3.4 15.3 - - - +
49I MET 3.3 0.2 - - - -
50I TYR* 1.3 75.8 - - - +
52I ILE* 1.3 62.5 + - - +
55I ASN* 3.2 53.9 + - - +
56I SER 3.0 27.5 + - - +
57I TYR* 3.2 26.8 - - + +
85I ALA 3.4 9.1 + - - +
86I ASN* 5.6 3.4 - - - +
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Residues in contact with ILE 52 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7C LEU* 4.5 10.8 - - + +
10C ILE* 5.1 1.6 - - + -
11C ALA* 3.3 43.5 - - + +
14C ALA* 4.9 16.4 - - + -
15C ILE* 6.4 2.2 - - - -
28F ARG* 5.6 1.3 - - - +
30G ARG* 4.3 28.5 - - + +
111G LYS* 3.7 14.8 + - - +
48I GLU 3.2 15.5 + - - +
49I MET* 3.5 15.7 - - - +
50I TYR 3.3 0.2 - - - -
51I GLN* 1.3 77.8 - - - +
53I ASP* 1.3 68.6 + - - +
55I ASN* 4.0 8.4 + - - +
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Residues in contact with ASP 53 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30G ARG* 2.7 39.8 + - - -
111G LYS* 3.9 18.2 + - - +
49I MET 3.2 11.7 + - - +
50I TYR* 3.3 4.8 + - - +
52I ILE* 1.3 83.0 - - - +
54I ASN* 1.3 76.9 + - - +
55I ASN* 3.6 4.9 + - - +
67I LEU* 4.6 10.0 - - - +
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Residues in contact with ASN 54 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
74F ALA* 5.4 0.2 - - - +
50I TYR* 2.8 62.5 + - + +
53I ASP* 1.3 89.8 + - - +
55I ASN* 1.3 73.3 + - - +
56I SER* 3.5 6.1 + - - +
67I LEU* 5.7 0.4 - - - +
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Residues in contact with ASN 55 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
15C ILE* 5.7 7.7 - - - +
74F ALA* 3.3 33.0 - - + +
75F ASN* 2.7 33.5 + - - +
50I TYR 3.9 0.2 + - - -
51I GLN* 3.2 34.2 + - - +
52I ILE* 4.0 11.5 + - - +
53I ASP 4.5 4.1 + - - +
54I ASN* 1.3 80.8 - - - +
56I SER* 1.3 58.1 + - - +
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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