Contacts of the helix formed by residues 40 - 77 (chain X) in PDB entry 2LPZ
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 ASP 40 (chain X).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37X LYS* 3.1 29.2 + - + +
38X PRO 3.2 0.4 - - - -
39X SER* 1.3 76.8 + - - +
41X PRO* 1.3 65.8 - - - +
42X ALA* 2.9 21.7 + - - +
43X LEU* 3.4 32.2 - - + +
44X LEU* 2.9 31.2 + - - +
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Residues in contact with PRO 41 (chain X).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39X SER 3.2 11.4 - - - +
40X ASP* 1.3 91.3 - - - +
42X ALA* 1.3 55.3 + - - +
44X LEU* 3.7 11.0 - - + +
45X ALA* 2.9 32.6 + - - +
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Residues in contact with ALA 42 (chain X).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40X ASP* 2.9 16.3 + - - +
41X PRO* 1.3 80.2 - - - +
43X LEU* 1.3 58.8 + - + +
45X ALA* 4.1 3.6 - - - +
46X ALA* 3.1 31.0 + - - +
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Residues in contact with LEU 43 (chain X).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30X ALA* 4.8 6.5 - - + +
33X LYS* 3.5 56.3 - - + +
34X LEU* 3.5 19.4 - - + +
37X LYS* 3.7 23.3 - - + +
40X ASP* 3.2 25.6 + - + +
42X ALA* 1.3 76.2 - - + +
44X LEU* 1.3 60.2 + - - +
46X ALA* 4.6 4.3 - - + -
47X TYR* 2.9 34.7 + - - +
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Residues in contact with LEU 44 (chain X).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34X LEU* 3.6 22.0 - - + -
38X PRO* 3.2 28.3 - - + +
39X SER* 4.5 5.4 - - - -
40X ASP 2.9 20.3 + - - +
41X PRO* 3.7 8.7 - - + +
43X LEU* 1.3 77.0 - - - +
45X ALA* 1.3 57.0 + - - +
47X TYR* 4.1 0.9 - - + +
48X GLN* 2.9 35.8 + - + +
56c LEU* 4.8 10.3 - - + -
60c ALA* 5.5 9.0 - - + -
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Residues in contact with ALA 45 (chain X).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41X PRO 2.9 18.1 + - - +
42X ALA* 4.1 4.0 - - - +
44X LEU* 1.3 76.8 - - - +
46X ALA* 1.3 58.3 + - - +
48X GLN* 4.2 4.4 - - - +
49X SER* 3.0 33.4 + - - -
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Residues in contact with ALA 46 (chain X).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30X ALA* 4.8 5.8 - - + -
42X ALA 3.1 19.7 + - - +
43X LEU* 4.1 5.2 - - + +
45X ALA* 1.3 78.1 - - - +
47X TYR* 1.3 62.1 + - - +
49X SER* 3.7 3.7 - - - -
50X LYS* 3.1 41.7 + - - +
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Residues in contact with TYR 47 (chain X).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27X VAL* 3.4 41.5 - - + -
30X ALA* 3.8 15.7 - - + +
31X LEU* 3.6 33.2 - - + +
34X LEU* 3.3 25.8 - - + -
43X LEU 2.9 20.5 + - - +
44X LEU* 4.1 1.6 - - + +
46X ALA* 1.3 77.6 - - - +
48X GLN* 1.3 55.1 + - + +
50X LYS* 3.2 2.6 + - - +
51X LEU* 2.7 65.7 + - + +
64c THR* 3.9 23.1 - - + +
68c PHE* 3.6 21.6 - + - -
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Residues in contact with GLN 48 (chain X).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44X LEU 2.9 20.2 + - - +
45X ALA* 4.2 3.9 - - - +
47X TYR* 1.3 82.5 - - + +
49X SER* 1.3 63.5 + - - +
51X LEU* 3.6 11.7 - - + +
52X SER* 2.9 40.7 + - - +
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Residues in contact with SER 49 (chain X).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45X ALA 3.0 22.0 + - - -
46X ALA* 3.7 4.7 - - - -
48X GLN* 1.3 85.1 + - - +
50X LYS* 1.3 61.0 + - - +
52X SER* 2.8 21.5 + - - -
53X GLU* 3.6 14.8 + - - +
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Residues in contact with LYS 50 (chain X).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23X LEU* 3.5 12.7 - - + +
26X GLN* 2.9 55.7 + - + +
27X VAL* 3.8 15.0 - - + +
30X ALA* 4.9 3.4 - - + -
46X ALA* 3.1 30.3 + - - +
47X TYR* 3.9 2.7 - - - +
49X SER* 1.3 76.7 - - - +
51X LEU* 1.3 60.4 + - - +
52X SER 3.4 0.2 - - - -
53X GLU* 3.4 13.8 + - - +
54X TYR* 2.8 26.0 + - - +
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Residues in contact with LEU 51 (chain X).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27X VAL* 3.7 15.3 - - + -
47X TYR* 2.7 58.2 + - + +
48X GLN* 3.3 12.1 + - + +
50X LYS* 1.3 71.5 - - - +
52X SER* 1.3 58.9 + - - +
53X GLU 3.1 2.0 - - - -
54X TYR* 3.0 18.9 + - + +
55X ASN* 2.8 34.8 + - - +
64c THR* 5.6 2.2 - - - -
67c VAL* 3.8 42.4 - - + -
68c PHE* 4.9 6.5 - - + -
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Residues in contact with SER 52 (chain X).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39S SER* 5.8 0.3 - - - -
48X GLN* 2.9 26.7 + - - +
49X SER* 2.8 24.1 + - - -
51X LEU* 1.3 75.8 - - - +
53X GLU* 1.3 62.1 + - - +
55X ASN* 3.5 26.4 + - - +
56X LEU* 4.1 9.9 + - - +
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Residues in contact with GLU 53 (chain X).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38S PRO* 5.8 1.2 - - - +
39S SER* 3.5 33.8 + - - +
23X LEU* 3.7 28.1 - - + +
26X GLN* 5.8 0.2 - - - +
49X SER* 3.6 15.2 + - - +
50X LYS* 3.4 14.8 + - - +
51X LEU 3.1 0.4 - - - -
52X SER* 1.3 78.0 + - - +
54X TYR* 1.3 59.4 + - - +
55X ASN 3.0 1.8 - - - -
56X LEU* 2.9 24.1 + - - +
57X TYR 3.0 8.0 + - - -
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Residues in contact with TYR 54 (chain X).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41R PRO* 4.6 1.9 - - - +
23X LEU* 3.9 5.6 - - + +
24X GLN* 4.0 21.8 + - + +
27X VAL* 3.8 24.0 - - + -
28X THR* 6.0 0.2 - - - -
50X LYS 2.8 17.8 + - - +
51X LEU* 3.0 26.6 + - + +
53X GLU* 1.3 73.1 - - - +
55X ASN* 1.3 64.3 + - - +
56X LEU 3.2 0.2 - - - -
57X TYR* 3.1 47.7 + + + +
58X ARG* 2.9 38.1 + - - +
8c TYR* 4.6 3.8 + - - -
67c VAL* 5.8 0.2 - - + -
68c PHE* 3.8 19.1 - + - -
71c ILE* 3.5 30.0 - - + +
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Residues in contact with ASN 55 (chain X).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51X LEU* 2.8 16.0 + - - +
52X SER* 3.5 26.6 + - - +
53X GLU 3.0 0.2 - - - -
54X TYR* 1.3 78.3 - - - +
56X LEU* 1.3 60.4 + - + +
58X ARG* 3.7 2.8 + - - +
59X ASN* 3.1 28.7 + - - +
67c VAL* 3.4 27.9 - - - +
70c ASP* 5.9 0.9 - - - +
71c ILE* 3.9 16.7 - - + +
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Residues in contact with LEU 56 (chain X).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38S PRO* 3.7 31.9 - - + +
39S SER* 3.8 20.2 - - - +
44S LEU* 4.8 9.4 - - + -
16X PHE* 3.6 3.6 - - - -
52X SER 4.3 9.6 - - - +
53X GLU 2.9 10.7 + - - +
55X ASN* 1.3 77.2 - - + +
57X TYR* 1.3 65.7 + - - +
58X ARG 3.0 2.2 - - - -
59X ASN* 4.5 14.8 - - + +
60X ALA* 2.9 44.1 + - + +
61X GLN 3.4 2.6 + - - -
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Residues in contact with TYR 57 (chain X).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38S PRO* 5.7 0.8 - - - +
16X PHE* 3.6 9.8 - - - -
17X ASP* 3.8 23.0 + - - +
20X VAL* 3.2 49.4 - - + -
21X ASP* 5.1 4.9 + - - -
23X LEU* 3.8 11.0 - - + -
24X GLN* 2.8 27.0 + - + +
53X GLU 3.0 5.7 + - - -
54X TYR* 3.1 46.2 - + + +
56X LEU* 1.3 76.0 - - - +
58X ARG* 1.3 82.9 + - - +
61X GLN* 2.7 37.4 - - - +
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Residues in contact with ARG 58 (chain X).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41R PRO* 3.5 33.3 + - + +
42R ALA* 3.6 22.0 - - - +
45R ALA* 3.9 11.0 - - - +
24X GLN* 3.6 22.2 - - - +
54X TYR* 2.9 35.7 + - + +
55X ASN 4.3 1.1 - - - +
56X LEU 3.0 0.4 - - - -
57X TYR* 1.3 102.6 - - + +
59X ASN* 1.3 64.6 + - - +
60X ALA 3.6 0.2 - - - -
61X GLN* 3.6 9.8 + - - +
62X SER* 3.1 25.5 + - - -
8c TYR* 5.9 0.2 + - - -
71c ILE* 3.9 43.1 - - + +
74c ALA* 5.2 0.2 - - - -
75c ILE* 4.2 15.3 - - + +
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Residues in contact with ASN 59 (chain X).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55X ASN 3.1 19.8 + - - +
56X LEU* 4.2 13.3 - - + +
58X ARG* 1.3 77.0 - - - +
60X ALA* 1.3 63.2 + - - +
62X SER* 3.0 10.7 + - - -
63X ASN* 2.7 51.8 + - - +
74c ALA* 4.2 26.3 - - + +
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Residues in contact with ALA 60 (chain X).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34S LEU* 6.2 2.7 - - + -
38S PRO* 4.9 4.0 - - + -
44S LEU* 5.5 9.2 - - + -
16X PHE* 4.0 16.4 - - + -
56X LEU* 2.9 34.6 + - + +
59X ASN* 1.3 76.0 - - - +
61X GLN* 1.3 63.7 + - - +
63X ASN* 3.5 10.7 - - - +
64X THR* 3.1 32.2 + - + +
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Residues in contact with GLN 61 (chain X).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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45R ALA* 4.6 16.9 - - - +
13X SER* 2.8 32.6 + - - +
16X PHE* 3.6 25.1 - - + +
17X ASP* 3.1 27.1 + - - +
56X LEU 3.4 2.8 + - - -
57X TYR* 2.7 36.0 - - - +
58X ARG* 3.6 19.0 + - - +
60X ALA* 1.3 77.6 - - - +
62X SER* 1.3 62.5 + - - +
64X THR* 2.8 22.1 + - - -
65X VAL* 3.3 15.2 + - + +
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Residues in contact with SER 62 (chain X).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45R ALA* 6.4 1.8 - - - -
48R GLN* 4.8 12.8 - - - +
58X ARG 3.1 11.0 + - - -
59X ASN* 3.0 13.2 + - - -
61X GLN* 1.3 78.3 - - - +
63X ASN* 1.3 58.3 + - - +
65X VAL* 3.8 7.4 - - - +
66X LYS* 3.0 28.9 + - - +
74c ALA 3.8 9.9 + - - -
75c ILE* 4.3 16.1 - - - -
78c ASN* 2.9 27.2 + - - +
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Residues in contact with ASN 63 (chain X).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59X ASN* 2.7 46.1 + - - +
60X ALA* 3.5 10.2 - - - +
61X GLN 3.2 0.2 - - - -
62X SER* 1.3 78.2 - - - +
64X THR* 1.3 62.6 + - + +
66X LYS* 3.3 7.0 + - - +
67X VAL* 3.1 28.6 + - + +
78c ASN* 2.9 23.6 + - - +
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Residues in contact with THR 64 (chain X).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31S LEU* 4.4 10.5 - - + +
34S LEU* 5.4 4.0 - - + -
47S TYR* 3.9 35.2 - - + +
51S LEU* 5.6 1.1 - - + -
12X VAL* 4.1 13.2 - - - +
16X PHE* 4.8 14.2 - - + +
60X ALA* 3.1 14.6 + - + +
61X GLN* 2.8 22.5 + - - -
63X ASN* 1.3 76.9 - - + +
65X VAL* 1.3 61.5 + - - +
67X VAL* 3.3 7.2 + - - +
68X PHE* 3.0 33.7 + - - -
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Residues in contact with VAL 65 (chain X).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48R GLN* 5.0 7.6 - - - +
49R SER* 4.5 15.0 - - - +
52R SER* 4.3 13.9 - - - +
9X LEU* 3.4 35.5 - - + +
12X VAL* 3.9 22.9 - - + -
13X SER* 4.1 16.4 - - - +
61X GLN* 3.3 19.2 + - + +
62X SER* 3.8 7.9 - - - +
63X ASN 3.3 0.6 - - - -
64X THR* 1.3 80.1 + - - +
66X LYS* 1.3 65.9 + - - +
68X PHE 3.3 0.9 + - - -
69X LYS* 2.9 21.8 + - + +
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Residues in contact with LYS 66 (chain X).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48R GLN* 6.1 2.7 - - - +
62X SER 3.0 19.4 + - - +
63X ASN* 3.4 7.6 - - - +
65X VAL* 1.3 77.2 - - - +
67X VAL* 1.3 53.1 + - + +
69X LYS* 3.0 8.1 + - - +
70X ASP* 2.6 67.9 + - - +
77c GLN 5.7 0.9 - - - -
78c ASN* 3.3 34.3 - - + +
80c ARG* 4.2 31.8 - - + +
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Residues in contact with VAL 67 (chain X).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51S LEU* 3.8 37.9 - - + -
55S ASN* 3.4 26.7 - - - +
63X ASN* 3.1 16.0 + - + +
64X THR* 3.7 7.6 - - - +
65X VAL 3.3 0.2 - - - -
66X LYS* 1.3 79.2 - - + +
68X PHE* 1.3 60.3 + - + +
70X ASP* 3.0 26.2 + - + +
71X ILE* 3.0 19.0 + - + +
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Residues in contact with PHE 68 (chain X).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41M PRO* 4.0 1.6 - - - +
27S VAL* 6.1 3.4 - - + -
28S THR* 6.5 0.4 - - - -
31S LEU* 3.8 26.0 - - + -
47S TYR* 3.6 23.1 - + - -
51S LEU* 4.9 6.1 - - + -
54S TYR* 3.8 23.3 - + - -
8X TYR* 3.4 34.5 - + + -
9X LEU* 3.5 20.1 - - + +
12X VAL* 3.6 21.3 - - + -
64X THR* 3.0 26.9 + - - +
65X VAL 4.5 0.2 - - - -
67X VAL* 1.3 78.3 - - + +
69X LYS* 1.3 58.0 + - - +
71X ILE* 3.1 32.3 - - + +
72X ASP* 2.9 16.5 - - - +
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Residues in contact with LYS 69 (chain X).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52R SER* 3.9 29.4 - - - +
55R ASN* 4.1 22.0 - - - +
56R LEU* 5.4 11.5 - - + +
9X LEU* 3.6 22.6 - - + +
65X VAL 2.9 14.4 + - - +
66X LYS* 3.3 10.3 - - - +
68X PHE* 1.3 77.2 - - - +
70X ASP* 1.3 66.0 + - - +
71X ILE 3.3 0.4 - - - -
72X ASP* 3.2 12.8 - - + +
73X ALA* 3.0 39.0 + - - +
80c ARG* 4.6 21.8 - - + +
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Residues in contact with ASP 70 (chain X).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55S ASN* 5.9 0.9 - - - +
66X LYS* 2.6 61.7 + - - +
67X VAL* 3.0 15.5 + - + +
69X LYS* 1.3 82.8 + - - +
71X ILE* 1.3 59.0 + - + +
73X ALA* 3.3 8.3 + - - +
74X ALA* 2.9 26.2 + - - +
80c ARG* 4.7 9.2 + - - +
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Residues in contact with ILE 71 (chain X).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41M PRO* 3.4 30.3 - - + -
54S TYR* 3.5 29.8 - - + +
55S ASN* 3.9 38.8 - - - +
58S ARG* 3.9 15.8 - - + +
67X VAL* 3.0 12.5 + - + +
68X PHE* 3.1 27.6 - - + +
70X ASP* 1.3 73.9 - - + +
72X ASP* 1.3 63.0 + - - +
74X ALA* 3.6 8.6 - - + +
75X ILE* 3.2 30.4 + - - +
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Residues in contact with ASP 72 (chain X).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39M SER* 2.7 38.5 - - - +
41M PRO* 3.2 19.8 - - - +
44M LEU* 3.4 23.0 - - + +
56R LEU* 4.5 12.6 - - + +
9X LEU* 4.2 2.6 - - - +
68X PHE 2.9 17.0 - - - +
69X LYS* 3.2 16.9 - - + +
71X ILE* 1.3 76.3 - - - +
73X ALA* 1.3 63.7 + - - +
75X ILE* 3.3 3.5 + - - +
76X ILE* 3.1 30.9 + - - +
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Residues in contact with ALA 73 (chain X).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56R LEU* 5.9 0.6 - - - +
69X LYS* 3.0 28.4 + - - +
70X ASP* 3.3 11.4 + - - +
72X ASP* 1.3 75.8 - - - +
74X ALA* 1.3 57.7 + - - +
76X ILE* 3.3 15.6 - - + +
77X GLN* 2.8 33.5 + - - +
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Residues in contact with ALA 74 (chain X).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59S ASN* 4.2 38.2 - - + +
62S SER* 3.8 10.7 + - - -
70X ASP 2.9 16.1 + - - +
71X ILE* 3.6 12.3 - - - +
72X ASP 3.2 0.4 - - - -
73X ALA* 1.3 77.0 - - - +
75X ILE* 1.3 62.5 + - - +
77X GLN* 3.4 17.8 - - - +
78X ASN* 3.8 6.1 + - - -
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Residues in contact with ILE 75 (chain X).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41M PRO* 3.4 35.0 - - + +
44M LEU* 3.7 38.8 - - + +
45M ALA* 3.9 14.1 - - + +
48M GLN* 4.3 14.3 - - + +
58S ARG* 4.2 27.4 - - + +
62S SER* 4.3 12.4 + - - -
71X ILE 3.2 16.5 + - - +
72X ASP 3.7 6.1 - - - +
73X ALA 3.2 0.6 - - - -
74X ALA* 1.3 78.0 - - - +
76X ILE* 1.3 61.0 + - + +
77X GLN 3.1 0.2 - - - -
78X ASN* 3.0 27.2 + - - +
79X PHE* 3.6 1.4 + - + -
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Residues in contact with ILE 76 (chain X).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44M LEU* 3.8 29.2 - - + -
56R LEU* 3.6 31.0 - - + -
59R ASN* 3.9 22.4 - - - +
60R ALA* 5.4 5.2 - - + -
63R ASN* 4.5 14.0 + - - +
69X LYS* 6.4 0.2 - - - +
72X ASP 3.1 11.9 + - - +
73X ALA* 3.3 24.9 - - + +
75X ILE* 1.3 73.8 - - + +
77X GLN* 1.3 62.2 + - - +
78X ASN 3.1 1.6 - - - -
79X PHE* 3.1 36.6 + - + +
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Residues in contact with GLN 77 (chain X).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66S LYS* 5.7 0.9 - - - -
73X ALA 2.8 18.7 + - - +
74X ALA* 3.4 12.1 - - - +
75X ILE 3.1 0.2 - - - -
76X ILE* 1.3 78.9 - - - +
78X ASN* 1.3 64.2 + - - +
79X PHE 3.3 1.8 + - - -
80X ARG* 5.8 1.4 - - - -
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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