Contacts of the helix formed by residues 32 - 60 (chain L) 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 GLU 32 (chain L).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28C MET* 5.8 4.9 - - - +
65H LYS* 5.7 10.5 - - + +
66H LEU 4.2 7.4 + - - +
67H THR* 4.8 17.8 - - + +
68H THR* 5.8 0.2 - - - +
31L TYR* 1.3 78.8 - - - +
33L PRO* 1.3 74.2 - - + +
34L ARG* 3.5 7.3 + - + +
35L VAL* 3.5 26.8 + - + +
36L ILE* 3.4 25.3 + - - +
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Residues in contact with PRO 33 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31L TYR 4.9 0.2 - - - +
32L GLU* 1.3 86.3 - - + +
34L ARG* 1.3 61.3 + - + +
36L ILE* 3.3 15.9 + - + +
37L ASN* 2.9 41.2 + - - +
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Residues in contact with ARG 34 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31C SER* 6.2 1.8 - - - -
34C ARG* 6.2 0.2 - - - +
38C ARG* 5.6 5.9 - - - +
68H THR* 4.9 5.2 - - + -
32L GLU* 3.3 6.4 - - + +
33L PRO* 1.3 78.9 - - + +
35L VAL* 1.3 62.7 + - + +
37L ASN* 3.3 7.4 + - + +
38L GLN* 2.9 52.4 + - + +
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Residues in contact with VAL 35 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66H LEU* 3.4 24.0 - - + +
67H THR* 3.6 22.4 - - - +
68H THR* 3.6 32.1 - - + +
71H ILE* 3.8 21.1 - - + -
31L TYR* 6.1 0.7 - - + -
32L GLU* 3.7 27.1 - - + +
34L ARG* 1.3 78.1 - - + +
36L ILE* 1.3 56.4 + - + +
38L GLN* 3.5 1.6 + - - +
39L MET* 2.9 35.4 + - + +
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Residues in contact with ILE 36 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16L ALA* 5.2 7.0 - - + +
19L MET* 3.7 35.5 - - + +
23L LEU* 3.9 28.9 - - + -
31L TYR* 4.4 10.3 - - + -
32L GLU 3.4 17.0 + - - +
33L PRO* 3.3 17.2 + - + +
35L VAL* 1.3 77.4 - - + +
37L ASN* 1.3 61.6 + - - +
39L MET* 3.3 8.1 + - - +
40L LEU* 2.9 34.2 + - + +
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Residues in contact with ASN 37 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13L PRO* 5.7 4.3 - - - +
16L ALA* 5.3 6.6 - - - +
33L PRO* 2.9 30.2 + - - +
34L ARG* 3.9 7.4 - - + +
36L ILE* 1.3 79.2 - - - +
38L GLN* 1.3 58.2 + - + +
40L LEU* 3.3 21.5 + - - +
41L GLU* 2.9 39.1 + - - +
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Residues in contact with GLN 38 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63C ASP* 5.1 7.9 + - - -
68H THR* 3.3 26.8 - - + +
34L ARG* 2.9 40.5 + - + +
35L VAL* 4.0 3.8 - - - +
37L ASN* 1.3 75.3 - - + +
39L MET* 1.3 60.1 + - - +
41L GLU* 4.3 9.9 - - - +
42L PHE* 2.9 53.7 + - + +
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Residues in contact with MET 39 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47H ILE* 4.5 31.2 - - + +
50H ILE* 5.2 8.5 - - + -
51H ALA* 6.0 3.1 - - + +
71H ILE* 3.6 47.6 - - + -
19L MET* 4.4 15.3 - - + -
35L VAL* 2.9 23.0 + - + +
36L ILE* 3.4 8.5 - - - +
38L GLN* 1.3 76.0 - - - +
40L LEU* 1.3 56.1 + - - +
42L PHE* 3.9 5.0 - - - +
43L ALA* 2.9 33.8 + - + +
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Residues in contact with LEU 40 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14H LEU* 6.1 2.9 - - + -
13L PRO* 6.4 0.7 - - + -
15L ASP* 3.7 43.7 - - + +
16L ALA 4.4 0.7 - - - +
18L MET* 5.9 1.6 - - + -
19L MET* 3.7 28.2 - - + -
36L ILE* 2.9 19.1 + - + +
37L ASN* 3.3 30.3 - - + +
39L MET* 1.3 76.1 - - - +
41L GLU* 1.3 60.5 + - + +
43L ALA* 3.3 5.1 + - + +
44L PHE* 2.9 53.2 + - + -
----------------------------------------------------------
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Residues in contact with GLU 41 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60C LEU* 6.1 0.7 - - - +
37L ASN* 2.9 25.8 + - + +
38L GLN* 3.3 9.9 + - - +
40L LEU* 1.3 77.7 - - + +
42L PHE* 1.3 62.1 + - + +
44L PHE* 3.4 7.6 + - + +
45L ARG* 3.0 50.0 + - - +
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Residues in contact with PHE 42 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60C LEU* 5.4 12.6 - - + -
67C ARG* 4.0 33.2 - - - -
72H ASP* 6.0 0.7 - - - -
75H LEU* 6.3 5.6 - - + -
38L GLN* 2.9 45.9 + - + +
39L MET* 4.3 5.4 - - - +
41L GLU* 1.3 79.0 - - + +
43L ALA* 1.3 56.5 + - - +
45L ARG* 3.3 22.8 + - + +
46L TYR* 2.9 52.1 + + + -
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Residues in contact with ALA 43 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43H VAL* 4.7 4.6 - - + +
47H ILE* 3.8 32.1 - - + -
39L MET* 2.9 22.8 + - + +
40L LEU* 3.3 6.3 + - + +
42L PHE* 1.3 74.3 - - - +
44L PHE* 1.3 62.3 + - + +
46L TYR* 3.2 12.3 + - - +
47L VAL* 2.9 32.0 + - - +
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Residues in contact with PHE 44 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14H LEU* 3.8 19.3 - - + -
19H MET* 3.7 34.3 - - + -
22H VAL* 5.0 21.5 - - + +
15L ASP* 3.5 36.8 - - - -
40L LEU* 2.9 42.2 + - + +
41L GLU* 3.9 6.5 - - + +
43L ALA* 1.3 76.0 - - + +
45L ARG* 1.3 58.8 + - + +
47L VAL* 3.2 9.7 + - + +
48L THR* 2.9 32.0 + - + +
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Residues in contact with ARG 45 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60C LEU* 4.1 31.5 - - - +
41L GLU* 3.0 36.2 + - - +
42L PHE* 3.7 23.5 - - + +
43L ALA 3.2 0.2 - - - -
44L PHE* 1.3 75.7 - - + +
46L TYR* 1.3 60.2 + - - +
48L THR* 2.7 24.2 + - + +
49L THR* 3.0 20.7 + - + +
197N MET* 5.3 11.1 - - - +
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Residues in contact with TYR 46 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43H VAL* 6.1 2.5 - - + -
50H ILE* 6.3 2.2 - - + -
75H LEU* 3.9 32.1 - - + +
42L PHE* 2.9 43.9 + + + -
43L ALA* 3.2 11.2 + - - +
45L ARG* 1.3 72.8 - - - +
47L VAL* 1.3 60.8 + - + +
49L THR* 2.5 23.2 + - + +
50L ILE* 3.0 18.3 + - + +
78L ARG* 3.2 32.9 + - - +
----------------------------------------------------------
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Residues in contact with VAL 47 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14H LEU* 6.2 0.9 - - + -
19H MET* 3.7 31.6 - - + -
22H VAL* 5.5 3.8 - - + -
39H LEU* 6.0 7.4 - - + -
43H VAL* 3.8 33.4 - - + -
43L ALA 2.9 19.9 + - - +
44L PHE* 3.2 17.5 + - + +
46L TYR* 1.3 75.5 - - - +
48L THR* 1.3 58.4 + - + +
50L ILE* 3.1 12.9 + - + +
51L LEU* 2.9 41.2 + - + +
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Residues in contact with THR 48 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22H VAL* 4.3 25.4 - - + +
26H MET* 5.5 13.0 - - + +
44L PHE* 2.9 18.2 + - + +
45L ARG* 2.7 30.1 + - + +
47L VAL* 1.3 75.6 - - - +
49L THR* 1.3 57.1 + - - +
51L LEU* 3.3 15.0 + - + +
52L ASP* 2.9 35.9 + - - +
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Residues in contact with THR 49 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45L ARG* 3.0 18.2 + - + +
46L TYR* 2.5 17.7 + - + -
48L THR* 1.3 76.8 - - - +
50L ILE* 1.3 57.9 + - - +
52L ASP* 3.2 13.7 + - - +
53L ASP* 2.9 32.6 + - - +
78L ARG* 2.4 34.8 + - - +
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Residues in contact with ILE 50 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39H LEU* 3.8 32.1 - - + -
43H VAL* 3.8 28.3 - - + -
46H ARG* 4.7 13.7 - - - +
46L TYR* 3.0 22.7 + - + +
47L VAL* 3.4 11.7 - - + +
49L THR* 1.3 75.0 - - - +
51L LEU* 1.3 58.5 + - + +
53L ASP* 3.2 9.3 + - - +
54L ALA* 2.9 26.4 + - + +
71L VAL* 6.1 1.1 - - + -
74L ALA* 5.0 14.3 - - + +
75L ILE* 5.6 9.4 - - + -
78L ARG* 3.4 21.8 - - - +
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Residues in contact with LEU 51 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19H MET 5.1 1.8 - - - +
22H VAL* 4.8 2.2 - - + +
23H ALA* 3.7 35.0 - - + +
26H MET* 6.3 4.3 - - + -
28H ILE* 3.8 23.3 - - + +
31H ILE* 5.5 2.9 - - + -
36H CYS* 6.0 3.1 - - - -
39H LEU* 4.4 22.4 - - + -
47L VAL* 2.9 31.6 + - + +
48L THR* 3.6 21.1 - - + +
49L THR 3.2 0.2 - - - -
50L ILE* 1.3 75.7 - - + +
52L ASP* 1.3 61.4 + - - +
54L ALA* 3.2 10.6 + - + +
55L LYS* 2.9 32.2 + - - +
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Residues in contact with ASP 52 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26H MET* 4.4 12.8 - - - +
48L THR* 2.9 24.1 + - - +
49L THR* 3.2 15.7 + - - +
51L LEU* 1.3 74.7 - - - +
53L ASP* 1.3 60.9 + - - +
55L LYS* 3.2 29.1 + - - +
56L ILE* 2.9 37.1 + - + +
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Residues in contact with ASP 53 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49L THR* 2.9 19.7 + - - +
50L ILE* 3.2 10.3 + - - +
52L ASP* 1.3 75.3 - - - +
54L ALA* 1.3 58.4 + - - +
56L ILE* 3.3 15.7 + - - +
57L TYR* 2.9 47.3 + - + -
70L ASP* 4.3 0.9 - - - -
74L ALA* 4.4 17.1 - - + +
78L ARG* 3.6 28.4 + - - +
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Residues in contact with ALA 54 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28H ILE* 5.6 1.8 - - + -
39H LEU* 6.5 0.4 - - + -
50L ILE* 2.9 14.7 + - + +
51L LEU* 3.4 20.0 - - + +
52L ASP 3.2 0.2 - - - -
53L ASP* 1.3 73.9 - - - +
55L LYS* 1.3 58.7 + - - +
58L SER* 2.9 29.6 + - - -
66L VAL* 3.9 25.4 - - + +
70L ASP* 3.0 25.6 - - - +
71L VAL* 6.2 1.6 - - + -
74L ALA* 5.5 1.0 - - - +
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Residues in contact with LYS 55 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26H MET* 3.5 49.2 + - - +
27H GLY 4.7 2.0 - - - -
28H ILE* 3.7 41.5 - - + +
51L LEU* 2.9 15.5 + - - +
52L ASP* 3.4 23.1 + - - +
54L ALA* 1.3 75.3 - - - +
56L ILE* 1.3 58.2 + - + +
58L SER* 2.7 20.8 + - - -
59L SER* 2.9 18.5 + - - -
----------------------------------------------------------
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Residues in contact with ILE 56 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52L ASP* 2.9 26.1 + - + +
53L ASP* 3.3 20.2 + - - +
55L LYS* 1.3 76.9 - - + +
57L TYR* 1.3 63.6 + - + +
59L SER* 2.6 23.6 + - - -
60L HIS* 2.9 36.2 + - + +
118Q LEU* 3.7 26.5 - - + -
121Q GLU* 5.9 1.1 - - - +
----------------------------------------------------------
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Residues in contact with TYR 57 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53L ASP* 2.9 39.5 + - + -
54L ALA 3.8 0.2 - - - -
56L ILE* 1.3 77.9 - - + +
58L SER* 1.3 59.3 + - - +
60L HIS 4.1 0.2 - - - -
61L ALA* 3.3 7.3 - - - +
70L ASP* 3.3 26.4 - - - +
73L LEU* 3.6 33.7 - - + -
74L ALA* 5.3 7.4 - - + -
77L CYS* 5.5 1.3 - - + -
102Q LEU* 3.7 12.3 - - + +
105Q HIS* 2.7 51.1 + + - +
118Q LEU* 3.6 26.7 - - + +
122Q ARG* 2.3 42.9 + - - -
----------------------------------------------------------
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Residues in contact with SER 58 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28H ILE* 5.6 1.6 - - - +
54L ALA 2.9 16.5 + - - -
55L LYS* 2.7 25.1 + - - -
57L TYR* 1.3 77.9 - - - +
59L SER* 1.3 60.5 + - - +
60L HIS 3.4 0.2 - - - -
61L ALA* 3.5 2.4 + - - -
62L LYS 3.1 2.9 + - - -
63L LYS* 2.9 38.6 + - - +
64L ALA 5.1 2.9 + - - -
65L THR 3.6 26.2 - - - -
66L VAL* 4.6 4.5 - - - +
70L ASP* 3.9 3.3 + - - -
----------------------------------------------------------
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Residues in contact with SER 59 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55L LYS 2.9 16.0 + - - -
56L ILE* 2.6 23.7 + - - -
58L SER* 1.3 77.4 + - - +
60L HIS* 1.3 64.1 + - - +
62L LYS* 3.2 23.1 + - - +
----------------------------------------------------------
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Residues in contact with HIS 60 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56L ILE* 2.9 32.3 + - + +
59L SER* 1.3 82.3 + - - +
61L ALA* 1.3 58.9 + - - +
62L LYS* 3.2 7.2 + - - +
105Q HIS* 3.8 17.7 - - + +
106Q ARG* 3.6 23.9 - - - +
114Q LYS* 4.4 29.7 + - + +
115Q ASP* 5.9 2.5 - - - +
117Q GLN* 5.8 6.1 - - + -
118Q LEU* 3.5 45.3 - - + +
121Q GLU* 4.8 5.9 + - - -
----------------------------------------------------------
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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