Contacts of the helix formed by residues 46 - 76 (chain D) in PDB entry 1VEQ
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 46 (chain D).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45B PRO* 2.7 40.8 + - - +
46B ASN* 4.2 17.9 - - + +
45D PRO* 1.3 82.7 - - + +
47D PHE* 1.3 65.4 + - - +
48D ILE 3.7 1.3 - - - -
49D GLY* 3.6 11.2 + - - +
50D VAL* 3.8 9.6 + - - +
102D VAL* 3.6 32.3 - - - +
103D GLN* 4.8 4.1 + - - +
155D HIS* 4.4 3.0 - - - -
46I ASN* 4.3 12.6 - - + +
155I HIS* 4.9 1.1 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 47 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39D HIS 5.0 1.3 - - - -
40D TRP 5.6 0.2 - - - -
42D VAL* 3.5 37.0 - - + +
44D GLY 3.6 21.2 + - - +
45D PRO 3.2 3.8 + - - -
46D ASN* 1.3 76.1 - - - +
48D ILE* 1.3 76.9 + - + +
49D GLY 3.1 1.0 + - - -
50D VAL* 3.1 3.8 + - - +
51D HIS* 3.0 53.7 + + + -
102D VAL* 4.7 5.2 - - - -
150I TRP* 4.1 16.2 - + - -
151I PHE* 3.4 32.8 - + - -
154I ALA* 3.6 23.3 - - + +
155I HIS* 3.3 27.0 + + + +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 48 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46D ASN 3.7 0.2 - - - -
47D PHE* 1.3 81.9 - - + +
49D GLY* 1.3 72.4 + - - +
50D VAL 3.2 0.2 + - - -
51D HIS* 4.1 9.9 - - + -
52D GLU* 3.0 49.5 + - - +
49I GLY* 4.2 24.0 - - - +
53I MET* 3.3 41.7 - - + -
151I PHE* 4.1 27.4 - - + -
155I HIS* 3.6 14.1 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 49 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48B ILE* 4.1 22.4 - - - +
49B GLY* 5.3 5.6 - - - -
46D ASN* 3.6 9.6 + - - +
47D PHE 3.1 1.6 + - - -
48D ILE* 1.3 85.0 - - - +
50D VAL* 1.3 59.2 + - - +
52D GLU* 4.0 2.6 - - - +
53D MET* 3.1 20.7 + - - +
155D HIS* 5.6 0.7 - - - -
49I GLY* 5.3 5.1 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 50 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38D VAL* 5.4 0.7 - - + -
42D VAL* 4.5 13.7 - - + -
46D ASN* 3.8 6.4 + - - +
47D PHE 3.1 6.7 + - - +
49D GLY* 1.3 71.1 - - - +
51D HIS* 1.3 61.2 + - - +
53D MET* 2.6 42.8 + - + +
54D ILE* 3.1 28.5 + - + +
102D VAL* 3.2 35.0 - - + -
105D HIS* 6.5 0.2 - - + -
106D LEU* 3.9 21.8 - - + -
155D HIS* 4.0 18.1 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with HIS 51 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39D HIS* 2.7 77.8 + + - +
42D VAL* 5.3 3.1 - - - +
47D PHE* 3.0 41.6 + + + +
48D ILE* 3.6 12.3 - - + +
50D VAL* 1.3 81.3 - - - +
52D GLU* 1.3 67.2 + - + +
54D ILE* 3.7 11.0 + - - +
55D ASP 4.1 0.3 + - - -
70G GLU* 3.2 23.4 + - + -
204G FE 4.0 1.2 - - - -
150I TRP* 4.4 7.2 - + - -
151I PHE* 3.8 25.6 - + - -
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 52 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39D HIS* 5.1 1.6 - - - -
48D ILE* 3.0 39.3 + - + +
49D GLY 4.1 2.2 - - - +
51D HIS* 1.3 81.2 - - + +
53D MET* 1.3 66.2 + - - +
54D ILE 3.1 3.7 + - - -
55D ASP* 3.6 9.4 + - + +
56D PRO* 3.3 18.0 - - - +
53I MET* 6.2 0.3 - - - -
151I PHE* 6.1 0.3 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with MET 53 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48B ILE* 3.3 39.9 - - + -
49D GLY 3.1 15.4 + - - +
50D VAL* 2.6 31.6 + - + +
52D GLU* 1.3 72.1 - - - +
54D ILE* 1.3 60.8 + - + +
56D PRO* 3.6 10.1 - - - +
57D GLN 4.5 2.1 + - - -
106D LEU* 4.1 25.8 - - + -
148D PHE* 4.1 28.8 - - + -
151D PHE* 4.0 21.5 - - + -
152D VAL* 4.7 2.9 - - - -
155D HIS* 3.9 17.0 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 54 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35D LEU* 3.5 32.3 - - + +
38D VAL* 3.1 33.9 - - + -
39D HIS* 3.9 17.0 - - + -
42D VAL* 4.9 0.4 - - + -
50D VAL* 3.1 28.9 + - + +
51D HIS* 3.9 7.2 - - - +
52D GLU 3.1 0.4 - - - -
53D MET* 1.3 85.2 - - + +
55D ASP* 1.3 70.2 + - - +
56D PRO 3.3 0.4 - - - -
57D GLN* 3.0 12.5 + - - +
58D VAL* 3.1 30.1 + - + +
106D LEU* 6.2 1.1 - - + -
109D LEU* 5.5 2.7 - - + -
148D PHE* 4.6 8.7 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 55 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36D LYS* 3.2 28.6 + - - +
39D HIS* 3.2 26.8 + - - -
51D HIS 4.1 2.5 + - - +
52D GLU* 3.6 10.5 + - + +
54D ILE* 1.3 76.1 - - - +
56D PRO* 1.4 66.7 - - + +
58D VAL* 2.9 10.9 + - - +
59D GLU* 2.8 35.3 + - + +
204G FE 3.8 4.3 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with PRO 56 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52D GLU 3.3 14.4 - - - +
53D MET* 3.6 8.3 - - - +
54D ILE 3.5 2.9 - - - -
55D ASP* 1.4 93.4 - - + +
57D GLN* 1.3 55.4 + - - +
59D GLU* 3.4 7.0 + - + +
60D LEU* 2.9 33.2 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 57 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35D LEU* 4.6 4.7 - - + -
53D MET 4.5 1.5 + - - +
54D ILE 3.0 7.7 + - - +
56D PRO* 1.3 78.1 - - - +
58D VAL* 1.3 57.9 + - - +
60D LEU* 3.5 18.5 - - - +
61D VAL* 2.9 42.7 + - + +
64D TYR* 5.6 1.0 - - - -
113D TYR* 3.1 28.7 + - - +
144D GLU* 4.2 5.7 + - - +
145D LEU* 3.6 25.9 - - - +
148D PHE* 2.9 61.3 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 58 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32D HIS* 4.3 7.5 - - + +
35D LEU* 3.4 30.1 - - + -
36D LYS* 3.6 25.8 - - + +
54D ILE* 3.1 25.1 - - + +
55D ASP* 2.9 12.2 + - - +
57D GLN* 1.3 73.6 - - - +
59D GLU* 1.3 57.3 - - + +
60D LEU 2.7 13.7 + - - -
61D VAL* 3.0 5.3 + - - +
62D ARG* 2.9 23.9 + - - +
62G ARG* 2.7 37.8 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 59 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55D ASP* 2.8 23.2 + - + +
56D PRO* 3.9 7.2 - - + +
58D VAL* 1.3 71.8 - - + +
60D LEU* 1.3 58.1 + - - +
62D ARG* 4.5 5.0 - - - +
63D GLY* 3.6 14.1 + - - -
59G GLU* 3.7 31.2 - - - +
62G ARG* 3.8 19.3 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 60 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56D PRO 2.9 18.3 + - - +
57D GLN* 3.5 19.3 - - - +
58D VAL 2.7 1.4 + - - -
59D GLU* 1.3 78.7 - - - +
61D VAL* 1.3 59.8 + - - +
62D ARG 3.3 1.1 - - - -
63D GLY* 2.9 16.6 + - - -
64D TYR* 3.0 45.0 + - + +
144D GLU* 3.5 34.1 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 61 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28D TYR* 3.7 28.8 - - + +
31D LEU* 3.5 32.3 - - + -
32D HIS* 3.4 27.1 - - + -
35D LEU* 5.0 1.8 - - + -
57D GLN* 2.9 41.8 + - - +
58D VAL* 3.0 1.1 + - - +
60D LEU* 1.3 69.9 - - - +
62D ARG* 1.3 62.2 + - - +
63D GLY 2.9 1.6 - - - -
64D TYR* 2.8 28.9 + - + +
65D ALA* 3.0 9.9 + - - +
113D TYR* 4.4 1.8 - - - +
145D LEU* 4.6 4.3 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 62 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32D HIS* 4.2 20.6 + - + +
58D VAL 2.9 14.8 + - - +
59D GLU* 4.5 6.5 - - - +
61D VAL* 1.3 78.3 - - - +
63D GLY* 1.3 60.3 + - - +
65D ALA* 3.1 22.8 + - + +
66D ASP* 3.4 8.3 + - - +
32G HIS* 3.3 31.1 + - - -
36G LYS* 4.5 21.4 - - + +
58G VAL* 2.8 41.7 + - - +
59G GLU* 3.8 23.0 + - - +
62G ARG* 3.5 51.0 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 63 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59D GLU 3.6 9.1 + - - -
60D LEU* 2.9 14.0 + - - -
61D VAL 2.9 1.4 - - - -
62D ARG* 1.3 81.9 - - - +
64D TYR* 1.3 62.1 + - - +
66D ASP* 3.9 4.3 + - - +
67D GLU* 3.4 23.6 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 64 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28D TYR* 3.5 12.5 - + + -
57D GLN* 5.6 1.1 - - - -
60D LEU* 3.0 48.5 + - + +
61D VAL* 2.8 19.5 + - + +
63D GLY* 1.3 75.4 - - - +
65D ALA* 1.3 59.9 + - - +
67D GLU* 3.4 14.4 - - - -
68D VAL* 3.0 36.0 + - - +
140D ALA* 4.6 3.3 + - + -
141D HIS* 3.1 53.0 - + + +
144D GLU* 3.4 25.4 + - + +
145D LEU* 4.0 22.7 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 65 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25D LEU* 4.4 6.5 - - + +
28D TYR* 4.5 12.6 - - + -
29D ASN* 4.3 19.3 - - - +
32D HIS* 5.1 0.9 - - + -
61D VAL 3.0 6.7 + - - +
62D ARG* 3.1 22.4 + - + +
64D TYR* 1.3 75.1 - - - +
66D ASP* 1.3 68.5 + - - +
67D GLU 3.0 1.6 + - - -
68D VAL* 3.0 4.2 + - - +
69D ALA* 2.9 24.1 + - - +
36G LYS* 6.1 1.3 - - + -
40G TRP* 4.1 14.1 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 66 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62D ARG 3.4 7.7 + - - +
63D GLY* 4.3 6.3 - - - +
65D ALA* 1.3 77.8 - - - +
67D GLU* 1.3 58.6 + - - +
70D GLU* 2.7 54.7 + - - +
207D FE 2.1 31.6 - - - -
36G LYS* 3.2 19.3 + - - +
39G HIS* 3.0 17.0 + - - -
40G TRP* 3.2 13.5 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 67 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63D GLY 3.4 15.8 + - - +
64D TYR* 3.4 18.2 - - - +
65D ALA 3.0 0.4 - - - -
66D ASP* 1.3 80.3 + - - +
68D VAL* 1.3 62.4 + - - +
70D GLU* 4.0 4.6 - - - +
71D ARG* 3.2 21.3 + - - +
137D LEU* 4.7 18.6 - - + +
141D HIS* 3.0 27.5 + - + +
147F LYS* 5.1 8.2 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 68 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21D LEU* 3.6 42.6 - - + +
24D GLN* 4.7 1.8 - - + -
25D LEU* 4.2 14.6 - - + +
28D TYR* 3.7 21.3 - - + -
64D TYR 3.0 19.0 + - - +
65D ALA* 3.0 3.8 + - - +
67D GLU* 1.3 72.7 - - - +
69D ALA* 1.3 62.4 + - - +
71D ARG* 2.8 23.9 + - - +
72D ILE* 2.9 13.4 + - + +
137D LEU* 4.4 9.0 - - + -
138D LEU* 4.9 6.1 - - + -
141D HIS* 3.9 12.6 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 69 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25D LEU* 3.2 28.2 - - + +
65D ALA 2.9 11.6 + - - +
68D VAL* 1.3 72.8 - - - +
70D GLU* 1.3 54.6 + - - +
71D ARG 2.7 1.7 + - - -
72D ILE* 2.7 26.6 + - - +
73D ALA* 3.1 11.0 + - - -
79D PRO* 3.4 14.5 - - + +
40G TRP* 3.3 37.7 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 70 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66D ASP* 2.7 46.0 + - - +
67D GLU 4.0 0.9 - - - +
69D ALA* 1.3 72.5 - - - +
71D ARG* 1.3 49.8 + - - +
73D ALA* 4.2 4.6 - - - +
74D THR* 2.5 31.9 + - - -
207D FE 2.3 24.5 - - - -
147F LYS* 2.7 46.3 + - - +
150F TRP* 4.2 23.3 - - + -
151F PHE* 4.9 0.9 - - - -
40G TRP* 3.7 11.9 - - + -
51G HIS* 3.2 25.5 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 71 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
6D ILE* 5.3 0.4 - - - -
21D LEU* 3.8 20.0 - - + -
67D GLU 3.2 12.8 + - - +
68D VAL* 2.8 17.3 + - - +
69D ALA 2.7 1.0 + - - -
70D GLU* 1.3 77.6 - - - +
72D ILE* 1.3 62.5 + - - +
74D THR* 3.1 27.3 + - - +
75D LEU* 3.1 22.9 + - + +
131D ASP* 2.8 26.1 + - - -
133D VAL* 3.5 23.9 - - - +
134D SER* 3.0 15.0 + - - +
137D LEU* 4.7 18.2 - - + -
121F ARG* 3.7 4.2 - - - +
143F GLY* 4.3 9.5 + - - -
146F GLU* 2.8 40.5 + - - +
147F LYS* 5.1 1.3 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 72 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18D ALA* 4.5 10.8 - - + +
21D LEU* 3.7 21.5 - - + -
22D GLN* 3.5 44.4 - - + +
25D LEU* 4.5 3.8 - - + -
68D VAL* 2.9 20.0 + - + +
69D ALA* 2.7 20.8 + - - +
71D ARG* 1.3 70.3 - - - +
73D ALA* 1.3 64.3 + - - +
75D LEU* 2.8 25.6 + - - +
76D GLY 3.2 4.7 + - - -
77D LYS* 3.6 21.6 + - + +
78D SER 4.4 0.7 - - - -
79D PRO* 3.5 24.2 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 73 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
4D PHE* 4.0 1.7 - - - -
69D ALA 3.1 9.4 + - - +
70D GLU* 4.2 1.8 - - - +
72D ILE* 1.3 78.6 - - - +
74D THR* 1.3 63.8 + - - +
76D GLY* 3.1 10.2 + - - -
77D LYS 3.5 12.3 - - - +
79D PRO* 3.7 14.5 - - + +
150F TRP* 3.4 43.3 + - + +
40G TRP* 4.4 6.7 - - + +
99G ARG* 3.7 14.6 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with THR 74 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
4D PHE* 3.5 14.7 - - - -
6D ILE* 3.2 20.2 - - + +
70D GLU 2.5 23.4 + - - -
71D ARG* 3.1 20.6 + - - +
72D ILE 3.1 0.4 - - - -
73D ALA* 1.3 79.8 - - - +
75D LEU* 1.3 57.7 + - - +
146F GLU* 3.4 36.8 - - + +
147F LYS* 4.2 8.9 - - - +
149F GLN* 5.7 2.2 - - - +
150F TRP* 3.7 25.2 - - + +
153F ARG* 4.9 2.4 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 75 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
4D PHE* 3.9 1.4 - - - +
5D THR* 3.5 27.5 + - - -
6D ILE* 3.3 22.4 - - + -
9D LEU* 3.9 23.3 - - + -
14D ALA* 3.8 25.5 - - + +
17D VAL* 3.7 29.6 - - + -
18D ALA* 3.9 15.0 - - + +
21D LEU* 4.5 9.6 - - + -
71D ARG* 3.1 25.2 + - - +
72D ILE* 2.8 11.2 + - - +
74D THR* 1.3 80.6 - - - +
76D GLY* 1.3 56.3 + - - +
77D LYS 3.8 2.5 - - - +
131D ASP* 5.3 0.4 - - - +
134D SER* 4.8 2.7 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 76 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
4D PHE* 4.2 21.3 - - - -
72D ILE 3.2 0.4 + - - -
73D ALA 3.1 10.7 + - - -
75D LEU* 1.3 80.5 - - - +
77D LYS* 1.3 62.1 + - - +
99G ARG* 3.1 28.1 + - - -
----------------------------------------------------------
Back to top of page
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