Contacts of the helix formed by residues 32 - 59 (chain H) in PDB entry 6MZL
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 GLN 32 (chain H).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
20H LYS* 3.3 13.0 - - - +
30H GLN 4.2 2.4 + - - +
31H ILE* 1.3 76.7 - - - +
33H GLU* 1.3 62.4 + - - +
34H GLU* 3.5 4.6 - - + +
35H THR* 2.8 33.5 + - + +
36H CYS 4.0 1.0 + - - -
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Residues in contact with GLU 33 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16H SER* 4.1 11.2 - - - +
17H GLU* 4.9 12.1 - - + +
20H LYS* 3.4 21.5 - - - +
32H GLN* 1.3 75.2 - - - +
34H GLU* 1.3 63.8 + - + +
36H CYS* 3.2 7.1 + - - +
37H GLN* 2.9 45.9 + - - +
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Residues in contact with GLU 34 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32H GLN* 3.5 3.6 - - + +
33H GLU* 1.3 77.9 - - + +
35H THR* 1.3 58.7 + - + +
37H GLN* 3.5 20.2 - - - +
38H LEU* 2.9 39.7 + - + +
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Residues in contact with THR 35 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31H ILE* 3.4 15.8 - - + +
32H GLN* 2.8 37.6 + - + +
34H GLU* 1.3 76.8 - - + +
36H CYS* 1.3 59.6 + - - +
38H LEU* 3.3 8.0 + - - +
39H LEU* 2.9 35.4 + - - +
66L VAL* 4.3 22.0 - - - +
67L ASP 5.0 9.6 - - - +
68L ALA* 5.1 7.2 - - + +
71L VAL* 5.0 13.0 - - + +
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Residues in contact with CYS 36 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16H SER* 3.9 20.9 - - - +
19H MET* 4.5 9.6 - - + -
20H LYS* 3.7 25.4 - - + -
23H ALA* 5.7 1.6 - - - -
31H ILE* 3.7 29.6 - - - -
32H GLN 4.3 1.1 - - - +
33H GLU 3.2 8.1 + - - +
35H THR* 1.3 78.9 + - - +
37H GLN* 1.3 59.5 + - - +
39H LEU* 3.6 16.9 - - - +
40H THR* 2.9 33.9 + - - +
51L LEU* 6.0 2.9 - - - -
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Residues in contact with GLN 37 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13H VAL* 4.6 8.9 - - + +
16H SER* 4.2 16.0 + - - -
33H GLU* 2.9 36.3 + - - +
34H GLU* 3.5 24.9 - - - +
35H THR 3.2 0.2 - - - -
36H CYS* 1.3 76.4 - - - +
38H LEU* 1.3 58.9 + - + +
40H THR* 2.6 22.9 + - - -
41H ASP* 2.9 23.9 + - - +
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Residues in contact with LEU 38 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
257F GLU* 3.7 31.9 - - - +
286F THR* 6.1 2.0 - - + -
34H GLU* 2.9 25.2 + - + +
35H THR* 3.8 5.8 - - - +
37H GLN* 1.3 74.1 - - + +
39H LEU* 1.3 60.1 + - - +
41H ASP* 3.3 12.7 + - + +
42H GLU* 2.9 45.5 + - + +
68L ALA* 5.9 4.5 - - + -
71L VAL* 5.3 4.3 - - + -
72L ARG* 4.0 29.6 - - - +
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Residues in contact with LEU 39 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19H MET* 6.1 4.0 - - + -
35H THR* 2.9 24.3 + - - +
36H CYS* 3.6 18.2 - - - +
37H GLN 3.3 0.2 - - - -
38H LEU* 1.3 77.1 - - - +
40H THR* 1.3 56.8 + - + +
42H GLU* 3.4 7.3 + - - +
43H VAL* 3.0 38.1 + - + +
47L VAL* 6.0 7.4 - - + -
50L ILE* 3.8 31.0 - - + -
51L LEU* 4.4 22.9 - - + -
66L VAL* 6.4 1.3 - - + -
71L VAL* 3.8 35.2 - - + -
75L ILE* 5.4 0.9 - - + -
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Residues in contact with THR 40 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12H THR 5.0 0.7 - - - +
13H VAL* 3.4 16.3 - - - +
14H LEU* 3.8 35.0 + - + +
16H SER* 5.4 0.9 - - - -
19H MET* 3.7 39.3 - - + -
36H CYS 2.9 18.2 + - - +
37H GLN* 2.6 23.6 + - - -
39H LEU* 1.3 74.5 - - + +
41H ASP* 1.3 56.2 + - - +
43H VAL* 4.1 4.7 - - - +
44H SER* 2.9 32.1 + - - -
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Residues in contact with ASP 41 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
257F GLU* 4.1 8.1 - - - +
11H ASN* 4.8 6.8 + - - +
13H VAL* 3.3 28.0 - - - +
37H GLN* 2.9 26.0 + - - +
38H LEU* 3.4 25.1 - - + +
40H THR* 1.3 76.6 - - - +
42H GLU* 1.3 58.2 + - + +
44H SER* 2.4 23.3 + - - -
45H TYR* 2.9 39.6 + - + +
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Residues in contact with GLU 42 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
286F THR* 6.5 0.7 - - + -
289F GLU* 5.9 0.4 - - - +
38H LEU* 2.9 26.3 + - + +
39H LEU* 3.9 9.6 - - - +
41H ASP* 1.3 75.6 - - + +
43H VAL* 1.3 63.1 + - + +
45H TYR* 3.2 17.8 + - + +
46H ARG* 3.0 32.6 + - - +
71L VAL* 3.5 14.6 - - - +
72L ARG* 3.9 16.1 + - - -
75L ILE* 3.3 50.6 - - + +
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Residues in contact with VAL 43 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14H LEU* 6.1 4.9 - - + -
39H LEU* 3.0 24.2 + - + +
40H THR* 4.1 4.5 - - - +
42H GLU* 1.3 76.3 - - + +
44H SER* 1.3 57.6 + - - +
46H ARG* 3.3 10.3 + - + +
47H ILE* 2.9 47.7 + - + +
43L ALA* 4.7 7.4 - - + +
46L TYR* 5.9 2.9 - - + -
47L VAL* 3.8 33.7 - - + +
50L ILE* 3.8 24.2 - - + -
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Residues in contact with SER 44 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11H ASN* 5.5 6.1 + - - +
12H THR 3.9 21.4 + - - -
13H VAL* 5.6 0.3 - - - +
40H THR 2.9 18.3 + - - -
41H ASP* 2.4 28.8 + - - -
43H VAL* 1.3 74.3 - - - +
45H TYR* 1.3 64.0 + - - +
47H ILE* 3.8 9.5 - - - +
48H LYS* 2.9 47.0 + - - +
22L ILE* 5.9 4.3 - - - -
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Residues in contact with TYR 45 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
257F GLU* 5.0 3.3 + - - +
283F SER 4.2 1.2 + - - -
284F SER* 3.6 41.6 - - - +
285F LEU 4.0 6.2 + - - -
286F THR* 2.6 33.8 + - - -
290F HIS* 3.5 27.8 - + + -
11H ASN* 4.2 27.2 + - - -
41H ASP* 2.9 46.5 + - + +
42H GLU* 3.2 16.8 + - + +
44H SER* 1.3 79.1 + - - +
46H ARG* 1.3 58.6 + - + +
48H LYS* 3.4 6.3 + - + +
49H GLU* 2.9 36.9 + - - +
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Residues in contact with ARG 46 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
289F GLU* 4.5 5.9 + - - -
42H GLU* 3.0 24.2 + - - +
43H VAL* 3.3 9.8 + - + +
45H TYR* 1.3 78.0 - - + +
47H ILE* 1.3 57.5 + - + +
49H GLU* 3.8 11.5 - - - +
50H ILE* 3.0 44.5 + - + +
50L ILE* 4.7 14.1 - - - +
75L ILE* 3.5 42.4 + - - +
78L ARG* 3.7 32.6 + - - +
79L ALA* 3.6 16.7 - - - +
83L PHE* 5.4 14.1 - - + +
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Residues in contact with ILE 47 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14H LEU* 6.5 0.9 - - + -
43H VAL* 2.9 35.2 + - + +
44H SER* 3.8 7.9 - - - +
45H TYR 3.3 0.2 - - - -
46H ARG* 1.3 76.9 - - + +
48H LYS* 1.3 59.7 + - + +
50H ILE* 3.5 7.4 + - + +
51H ALA* 2.9 28.3 + - + +
19L MET* 5.2 9.9 - - + -
22L ILE* 4.6 28.5 - - + -
39L MET* 4.5 23.3 - - + +
43L ALA* 3.8 30.3 - - + -
----------------------------------------------------------
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Residues in contact with LYS 48 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
283F SER* 6.0 0.2 + - - -
284F SER* 5.4 14.1 - - - -
9H LEU* 6.3 0.4 - - - +
10H SER 3.7 5.9 + - - -
11H ASN* 4.2 7.9 + - - +
12H THR* 3.6 25.4 - - - +
44H SER* 2.9 29.4 + - - +
45H TYR* 4.0 5.6 - - + +
47H ILE* 1.3 77.8 - - + +
49H GLU* 1.3 58.9 + - + +
51H ALA* 3.3 8.5 + - - +
52H GLN* 2.9 37.5 + - - +
22L ILE* 4.2 37.5 - - + +
25L ASP* 3.7 22.3 + - + +
26L MET* 4.0 14.2 - - - +
----------------------------------------------------------
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Residues in contact with GLU 49 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
284F SER* 4.6 11.2 + - - +
290F HIS* 3.2 29.1 + - - +
294F ASN* 3.9 23.2 + - - +
45H TYR* 2.9 23.9 + - - +
46H ARG* 3.8 10.8 - - - +
48H LYS* 1.3 75.6 - - + +
50H ILE* 1.3 61.9 + - + +
52H GLN* 3.3 16.3 + - - +
53H ASP* 3.0 36.2 + - - +
83L PHE* 3.2 34.3 - - + -
----------------------------------------------------------
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Residues in contact with ILE 50 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46H ARG* 3.0 28.1 + - + +
47H ILE* 3.9 5.6 - - - +
49H GLU* 1.3 75.6 - - + +
51H ALA* 1.3 57.6 + - - +
53H ASP* 3.3 8.1 + - + +
54H ALA* 2.9 28.1 + - - +
71H ILE* 4.1 25.4 - - + -
74H ALA* 4.5 16.6 - - + +
75H LEU* 4.7 17.7 - - + -
77H LEU* 4.8 17.7 - - + -
39L MET* 5.2 7.6 - - + -
46L TYR* 6.3 2.0 - - + -
----------------------------------------------------------
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Residues in contact with ALA 51 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47H ILE* 2.9 21.7 + - + +
48H LYS* 3.5 8.3 - - - +
49H GLU 3.2 0.4 - - - -
50H ILE* 1.3 74.1 - - - +
52H GLN* 1.3 60.2 + - - +
54H ALA* 3.4 5.6 + - - +
55H LEU* 2.9 35.8 + - + +
66H LEU* 5.3 4.2 - - + +
71H ILE* 6.4 1.3 - - - -
22L ILE* 5.8 2.7 - - + -
23L LEU* 5.7 5.8 - - + -
26L MET* 3.8 22.2 - - + -
39L MET* 6.0 3.1 - - + +
----------------------------------------------------------
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Residues in contact with GLN 52 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
277F ASP* 4.3 4.2 + - - +
280F ARG* 3.7 27.1 + - - +
281F VAL* 3.4 36.5 - - - +
284F SER* 5.0 3.2 + - - -
294F ASN* 5.2 3.1 + - - +
48H LYS* 2.9 22.4 + - - +
49H GLU* 3.6 17.8 - - - +
51H ALA* 1.3 74.6 - - - +
53H ASP* 1.3 59.3 + - - +
55H LEU* 3.4 4.5 + - - +
56H LYS* 3.0 39.8 + - + +
26L MET* 3.7 18.2 - - + +
----------------------------------------------------------
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Residues in contact with ASP 53 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
605F HIS* 4.9 11.5 - - + -
49H GLU* 3.0 24.3 + - - +
50H ILE* 3.5 11.8 - - - +
51H ALA 3.2 0.2 - - - -
52H GLN* 1.3 77.0 - - - +
54H ALA* 1.3 56.7 + - - +
56H LYS* 3.2 31.0 + - - +
57H PHE* 2.9 42.1 + - + -
74H ALA* 5.0 6.5 - - + +
77H LEU* 4.3 18.9 - - + +
----------------------------------------------------------
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Residues in contact with ALA 54 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
50H ILE 2.9 17.1 + - - +
51H ALA* 3.4 5.8 + - - +
53H ASP* 1.3 76.1 - - - +
55H LEU* 1.3 58.0 + - - +
57H PHE* 3.3 12.8 + - - +
58H MET* 2.9 24.9 + - - +
66H LEU* 3.7 19.4 - - + +
70H ASP* 4.8 3.6 - - + +
71H ILE* 4.0 28.3 - - + +
74H ALA* 4.2 9.8 - - + +
----------------------------------------------------------
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Residues in contact with LEU 55 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51H ALA* 2.9 21.4 + - + +
52H GLN* 3.8 5.2 - - - +
54H ALA* 1.3 73.0 - - - +
56H LYS* 1.3 61.1 + - + +
58H MET* 3.8 1.1 - - + +
59H HIS* 2.9 40.9 + - + +
66H LEU* 3.8 31.4 - - + -
23L LEU* 6.3 0.7 - - + -
26L MET* 3.7 37.5 - - + +
28L ILE* 3.7 44.6 - - + -
31L TYR* 4.7 6.5 - - + +
----------------------------------------------------------
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Residues in contact with LYS 56 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
589F TRP* 4.7 6.8 + - + -
605F HIS* 4.9 2.6 - - - -
628F ALA* 5.8 2.2 - - - +
629F ASP* 2.9 35.7 + - + +
647F ALA* 4.6 16.9 - - + +
52H GLN* 3.0 24.0 + - + +
53H ASP* 3.4 31.9 + - - +
55H LEU* 1.3 74.4 - - - +
57H PHE* 1.3 60.0 + - - +
59H HIS* 3.6 4.2 + - - +
60H MET* 3.0 33.6 + - - +
----------------------------------------------------------
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Residues in contact with PHE 57 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
547F TYR* 3.4 29.0 + + - +
563F GLU* 3.2 28.0 - - - -
587F PRO* 3.6 31.9 - - + -
589F TRP* 3.8 14.6 - + - +
605F HIS* 5.7 5.2 - + - -
53H ASP* 2.9 36.4 + - + -
54H ALA* 3.4 12.8 - - - +
55H LEU 3.3 0.2 - - - -
56H LYS* 1.3 76.3 - - - +
58H MET* 1.3 58.0 + - + +
60H MET* 3.0 7.8 + - - +
61H GLY* 2.4 33.1 + - - -
70H ASP* 4.8 7.2 - - + +
73H TYR* 4.4 2.9 - - + -
74H ALA* 3.8 27.6 - - + -
----------------------------------------------------------
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Residues in contact with MET 58 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
473F LEU* 5.6 5.8 - - + -
489F PHE* 5.7 7.6 - - + -
547F TYR* 5.7 3.4 - - - -
54H ALA 2.9 13.4 + - - +
55H LEU* 3.8 1.3 - - - +
57H PHE* 1.3 82.5 - - + +
59H HIS* 1.3 60.5 + - + +
60H MET 3.3 0.7 - - - -
61H GLY* 3.5 13.0 - - - +
62H LYS 2.9 15.9 + - - -
63H ARG* 2.9 66.0 + - + +
65H LYS 3.9 5.4 - - - +
66H LEU* 3.7 21.8 - - + -
67H THR* 6.3 0.7 - - + -
70H ASP* 3.3 44.9 - - + +
----------------------------------------------------------
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Residues in contact with HIS 59 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
673F HIS* 3.6 36.2 + + + -
713F THR* 4.8 19.0 + - - +
731F MET* 5.3 5.8 - - + +
55H LEU* 2.9 33.5 + - + +
56H LYS* 3.7 5.8 - - - +
58H MET* 1.3 77.2 + - + +
60H MET* 1.3 61.2 + - - +
62H LYS* 3.9 13.4 - - - +
63H ARG 5.3 2.9 + - - -
64H GLN* 4.6 26.1 - - + -
28L ILE* 3.4 41.1 - - + +
----------------------------------------------------------
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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