Contacts of the helix formed by residues 23 - 55 (chain D) in PDB entry 1TKP
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 23 (chain D).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
15D GLU 5.5 0.2 - - - -
16D GLY* 4.2 0.2 - - - -
21D ARG 4.0 1.8 + - - -
22D MET* 1.4 74.5 - - - +
24D ALA* 1.3 59.9 + - - +
25D ASP* 3.1 18.4 + - + +
26D ARG* 2.7 49.5 + - - +
27D ALA* 2.9 23.6 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 24 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14D VAL* 3.6 23.0 - - - +
15D GLU* 3.6 14.4 + - - +
16D GLY* 3.7 13.9 - - - +
22D MET 3.8 1.0 + - - -
23D ASP* 1.3 74.3 - - - +
25D ASP* 1.3 57.6 + - - +
27D ALA* 3.7 1.1 - - - +
28D GLU* 2.9 31.4 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 25 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23D ASP* 3.1 13.0 + - + +
24D ALA* 1.3 77.8 - - - +
26D ARG* 1.4 72.5 + - - +
28D GLU* 3.5 8.8 + - - +
29D GLN* 3.6 24.6 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 26 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21D ARG 3.1 25.7 + - - -
22D MET* 3.8 28.2 - - - +
23D ASP* 2.7 33.7 + - - +
25D ASP* 1.4 75.5 + - - +
27D ALA* 1.3 66.9 + - - +
29D GLN* 3.3 24.8 + - - +
30D CYS* 3.5 6.4 + - - -
143D LEU* 3.0 49.5 + - + +
144D GLY* 3.9 14.5 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 27 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14D VAL* 3.7 4.9 - - + -
16D GLY* 3.6 12.6 - - - +
22D MET* 3.9 12.8 - - + +
23D ASP 2.9 17.8 + - - +
24D ALA 4.1 0.7 - - - +
26D ARG* 1.3 76.8 - - - +
28D GLU* 1.3 57.4 - - - +
30D CYS* 3.0 5.2 + - - +
31D VAL* 2.8 30.0 + - - +
88D LEU* 3.4 40.1 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 28 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12D GLY 4.8 7.6 - - - +
14D VAL* 3.5 25.7 - - + +
24D ALA 2.9 19.4 + - - +
25D ASP* 4.0 6.1 - - - +
26D ARG 3.2 0.6 - - - -
27D ALA* 1.3 76.1 - - - +
29D GLN* 1.3 56.7 + - + +
32D ASP* 2.7 61.0 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 29 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25D ASP* 3.6 25.4 + - - +
26D ARG* 3.4 8.8 - - - +
28D GLU* 1.3 80.1 - - + +
30D CYS* 1.4 60.3 + - - +
32D ASP* 3.5 5.3 + - - +
33D ALA* 3.4 12.8 + - - +
139D LEU* 3.9 26.0 - - + +
143D LEU* 3.5 35.8 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with CYS 30 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22D MET* 6.0 1.6 - - - -
26D ARG 3.5 4.4 + - - -
27D ALA* 3.0 4.6 + - - +
29D GLN* 1.4 72.5 - - - +
31D VAL* 1.3 56.7 + - - +
33D ALA* 3.1 6.9 + - - +
34D LEU* 2.7 47.7 + - + +
88D LEU* 3.8 19.7 - - + -
139D LEU* 4.8 3.6 - - - -
140D ALA* 4.4 14.8 - - - -
143D LEU* 3.6 24.0 - - - -
145D ASP* 3.6 28.5 - - - +
148D THR* 4.5 3.1 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 31 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14D VAL* 3.7 35.4 - - + -
27D ALA 2.8 19.3 + - - +
28D GLU 3.8 3.1 - - - +
30D CYS* 1.3 75.0 - - - +
32D ASP* 1.3 71.5 + - - +
34D LEU* 4.3 5.8 - - - +
35D ASN* 2.8 33.4 + - - +
85D VAL* 4.0 35.0 - - + +
88D LEU* 4.0 20.6 - - + -
90D GLY* 4.3 3.6 - - - -
91D VAL 5.0 0.9 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 32 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12D GLY 5.4 1.2 - - - +
14D VAL* 4.6 3.1 - - - +
28D GLU* 2.7 55.2 + - - +
29D GLN* 4.1 4.9 - - - +
31D VAL* 1.3 82.0 - - - +
33D ALA* 1.3 61.6 + - - +
35D ASN* 4.3 4.0 - - - +
36D ALA* 3.3 20.8 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 33 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29D GLN 3.4 9.8 + - - +
30D CYS* 3.1 7.3 + - - +
31D VAL 3.0 0.6 - - - -
32D ASP* 1.3 77.6 - - - +
34D LEU* 1.3 66.8 + - + +
36D ALA* 3.1 4.6 + - - +
37D ASP* 2.9 23.9 + - - -
136D HIS* 3.3 44.9 - - + +
139D LEU* 4.1 12.6 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 34 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30D CYS* 2.7 28.8 + - + +
31D VAL 4.7 0.2 - - - +
33D ALA* 1.3 72.8 - - + +
35D ASN* 1.3 52.2 + - - +
37D ASP* 3.1 9.8 + - - +
38D LEU* 2.7 35.0 + - - +
81D LEU* 3.8 29.0 - - + +
84D ARG* 3.6 35.4 - - + -
85D VAL* 3.5 21.1 - - + +
88D LEU* 4.0 12.3 - - + -
136D HIS* 5.6 1.6 - - + -
148D THR* 3.9 22.7 - - + -
151D MET* 5.5 1.3 - - - -
152D LEU* 3.8 21.3 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ASN 35 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12D GLY* 6.1 1.4 - - - +
31D VAL* 2.8 22.9 + - + +
32D ASP* 4.3 4.3 - - - +
34D LEU* 1.3 77.7 - - - +
36D ALA* 1.3 63.1 + - - +
38D LEU* 3.4 8.8 - - - +
39D ALA* 3.1 17.7 + - - +
85D VAL* 3.9 12.2 - - - +
91D VAL 2.7 28.4 + - - +
92D PRO* 3.4 6.2 - - - +
93D HIS* 2.8 63.5 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 36 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32D ASP 3.3 12.7 + - - +
33D ALA* 3.1 8.7 + - - +
35D ASN* 1.3 76.4 - - - +
37D ASP* 1.3 68.5 + - - +
39D ALA* 3.4 6.7 + - - +
40D ASN* 3.4 30.0 + - - +
93D HIS* 4.7 2.7 + - - -
102D GLU* 4.9 7.9 - - - +
136D HIS* 5.2 4.5 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 37 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33D ALA 2.9 12.2 + - - +
34D LEU* 3.4 9.3 - - - +
36D ALA* 1.3 75.9 - - - +
38D LEU* 1.3 51.7 + - - +
40D ASN* 3.0 8.4 + - - +
41D VAL* 2.8 40.2 + - + +
81D LEU* 3.8 20.9 - - + -
129D ILE* 5.2 5.1 - - + +
132D ALA* 3.8 12.1 - - - +
133D THR* 4.3 12.8 + - - +
136D HIS* 2.6 44.6 + - - +
152D LEU* 4.1 14.1 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 38 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53C TRP* 4.6 0.7 - - + -
34D LEU 2.7 16.5 + - - +
35D ASN* 3.4 28.0 - - - +
36D ALA 3.2 0.4 - - - -
37D ASP* 1.3 70.8 - - - +
39D ALA* 1.3 66.6 + - - +
41D VAL* 3.1 1.9 + - - -
42D TYR* 2.8 38.1 + - + +
78D ALA* 3.3 40.6 - - + +
81D LEU* 4.2 11.0 - - + +
82D ALA* 3.8 13.7 - - + +
85D VAL* 5.2 0.9 - - + -
92D PRO* 3.7 15.3 - - + -
93D HIS* 3.5 22.7 - - + +
99D LEU* 4.1 8.7 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 39 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35D ASN 3.1 9.0 + - - +
36D ALA 3.8 6.3 - - - +
37D ASP 3.2 0.4 - - - -
38D LEU* 1.3 81.1 - - - +
40D ASN* 1.3 59.9 + - - +
42D TYR* 3.4 1.4 + - - +
43D VAL* 2.9 32.7 + - - +
93D HIS* 4.3 3.6 - - + -
99D LEU* 3.3 32.0 - - - +
102D GLU* 3.7 19.1 - - + +
103D ALA* 3.6 14.4 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ASN 40 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36D ALA* 3.4 19.8 + - - +
37D ASP* 3.0 11.2 + - - +
39D ALA* 1.3 80.0 - - - +
41D VAL* 1.3 58.9 + - - +
43D VAL* 3.4 8.7 + - - +
44D LEU* 2.9 27.5 + - - +
102D GLU 5.4 0.4 + - - -
103D ALA* 3.3 3.6 - - - +
104D SER* 2.8 45.2 + - - +
105D VAL* 3.0 22.5 + - + +
125D ILE* 4.5 0.5 - - - +
128D ASP* 5.9 1.4 + - - +
129D ILE* 3.7 24.1 - - + +
132D ALA* 5.5 6.5 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 41 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37D ASP* 2.8 21.1 + - + +
38D LEU 3.8 3.1 - - - +
40D ASN* 1.3 76.8 - - - +
42D TYR* 1.3 57.2 + - - +
44D LEU* 3.1 9.3 + - + +
45D TYR* 2.8 26.7 + - - +
74D ALA* 3.2 34.9 - - + +
77D VAL* 4.2 10.5 - - + -
78D ALA* 3.8 16.6 - - + +
81D LEU* 4.4 13.0 - - + -
129D ILE* 3.9 29.2 - - + -
159D LEU* 4.9 4.3 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 42 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45C TYR* 2.5 29.9 + - - -
46C HIS* 3.5 26.5 - + - -
49C LYS* 3.7 15.4 - - - +
53C TRP* 3.8 24.5 - + - -
96C PRO* 5.1 0.9 - - - -
38D LEU* 2.8 24.3 + - + +
39D ALA 4.0 0.9 - - - +
41D VAL* 1.3 75.8 - - - +
43D VAL* 1.4 64.7 + - - +
45D TYR* 3.4 29.7 + + + +
46D HIS* 3.0 30.2 + + + -
75D GLU* 4.1 5.7 + - + +
78D ALA* 3.8 26.9 - - + +
79D ASP 5.6 0.2 + - - -
99D LEU* 3.6 32.5 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 43 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
96C PRO* 4.3 19.0 - - + +
39D ALA 2.9 17.3 + - - +
40D ASN 3.4 8.5 - - - +
42D TYR* 1.4 77.0 - - - +
44D LEU* 1.3 68.2 + - - +
46D HIS* 3.2 2.4 + - - +
47D GLN* 3.0 24.1 + - - +
99D LEU* 3.8 2.9 - - + +
100D GLN* 3.8 21.8 - - + +
103D ALA* 3.5 19.1 - - + -
105D VAL* 3.5 27.4 - - + -
107D VAL* 4.9 14.9 - - + +
125D ILE* 4.7 4.9 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 44 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40D ASN 2.9 14.7 + - - +
41D VAL* 3.1 9.8 + - + +
43D VAL* 1.3 78.0 - - - +
45D TYR* 1.3 54.0 + - - +
47D GLN* 3.0 2.6 + - + +
48D LEU* 2.7 59.5 + - + +
74D ALA* 4.0 18.6 - - + -
122D ASP* 4.6 5.8 - - + +
125D ILE* 3.6 33.0 - - + -
126D TYR* 3.8 41.5 - - + -
129D ILE* 3.8 17.0 - - + -
159D LEU* 4.7 7.6 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 45 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42C TYR* 2.8 31.6 + + - -
45C TYR* 4.3 7.3 + + - -
75C GLU* 2.6 35.1 + - - +
41D VAL 2.8 16.4 + - - +
42D TYR* 3.4 30.7 - + + +
44D LEU* 1.3 75.0 - - - +
46D HIS* 1.3 79.7 + + - +
48D LEU* 3.3 4.4 + - - +
49D LYS* 2.8 48.5 + - + +
71D ALA* 3.1 25.7 - - + +
72D GLU* 5.4 0.4 - - - -
74D ALA* 3.9 15.0 - - + -
75D GLU* 3.5 20.6 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with HIS 46 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42C TYR* 3.4 41.9 + + - -
46C HIS* 2.8 31.6 + + - -
94C ALA* 3.6 19.8 + - - +
95C SER* 5.8 0.2 - - - -
96C PRO* 3.7 27.9 - - + +
99C LEU* 3.6 23.1 - - + +
42D TYR* 3.0 28.0 + - + +
43D VAL 3.2 4.2 + - - +
45D TYR* 1.3 89.5 - + - +
47D GLN* 1.3 58.2 + - - +
49D LYS* 3.3 6.7 - - - +
50D LYS* 3.0 25.1 + - - +
53D TRP* 5.1 1.3 - - - -
96D PRO* 5.7 0.2 - - - +
99D LEU* 5.8 0.2 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 47 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
94C ALA* 6.0 0.2 - - - -
43D VAL 3.0 15.6 + - - +
44D LEU* 3.0 6.8 + - + +
46D HIS* 1.3 75.7 - - - +
48D LEU* 1.3 61.6 + - - +
50D LYS* 3.1 11.6 + - + +
51D HIS* 3.0 36.4 + - + +
106D ASP 4.7 1.6 + - - -
107D VAL* 3.8 10.3 - - + +
108D GLU* 2.9 40.1 + - - +
121D ASN* 3.8 21.6 - - - +
122D ASP* 2.9 24.1 + - - +
125D ILE* 3.6 21.5 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 48 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44D LEU* 2.7 39.6 + - + +
45D TYR 3.6 3.6 - - - +
47D GLN* 1.3 69.7 - - - +
49D LYS* 1.3 66.3 + - - +
51D HIS* 3.1 3.4 + - - +
52D HIS* 2.8 26.7 + - - +
67D LEU* 3.7 23.4 - - + +
70D ALA* 3.7 8.7 - - + +
71D ALA* 3.7 33.2 - - + +
74D ALA* 4.1 4.0 - - + -
122D ASP* 3.6 29.8 - - + +
126D TYR* 3.3 28.3 - - + +
166D ILE* 4.9 1.8 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 49 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42C TYR* 3.5 24.5 - - - +
75C GLU* 4.3 13.5 + - - +
79C ASP* 3.2 35.2 + - - +
45D TYR* 2.8 34.3 + - + +
46D HIS* 3.3 12.3 - - - +
48D LEU* 1.3 73.8 - - - +
50D LYS* 1.3 64.0 + - - +
52D HIS* 3.1 11.9 + - + +
53D TRP* 2.8 48.4 + - + +
68D GLY* 5.7 2.6 + - - -
71D ALA* 3.7 19.9 - - + +
302D FE 4.4 3.0 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 50 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
91C VAL* 6.0 0.7 - - - -
94C ALA* 3.3 28.4 - - + +
46D HIS 3.0 14.9 + - - +
47D GLN* 3.1 15.9 + - + +
49D LYS* 1.3 75.9 - - - +
51D HIS* 1.3 67.2 + - + +
53D TRP* 3.2 13.9 + - + +
54D ASN* 3.0 51.3 + - - +
108D GLU* 2.9 32.0 + - + +
109D ASP 2.8 18.4 + - - -
110D GLU* 4.1 6.1 + - - +
111D ASP 2.7 32.9 + - - -
112D VAL* 4.4 4.7 - - - +
113D TYR 5.5 0.2 - - - +
----------------------------------------------------------
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
----------------------------------------------------------
47D GLN* 3.0 23.1 + - + +
48D LEU 3.8 2.5 - - - +
50D LYS* 1.3 82.2 - - + +
52D HIS* 1.3 58.9 + - - +
54D ASN* 4.9 3.6 - - + -
55D VAL* 2.8 38.0 + - - +
67D LEU* 3.6 20.0 - - + -
108D GLU* 3.0 29.3 + - - -
112D VAL* 6.6 0.4 - - + -
115D ILE* 5.1 3.0 - - + +
118D SER* 3.3 38.4 - - - -
119D LEU* 5.2 0.4 - - + -
122D ASP* 2.5 46.8 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with HIS 52 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
79C ASP* 3.7 3.6 - - - -
83C GLU* 2.7 3.2 + - - -
48D LEU 2.8 18.4 + - - +
49D LYS* 3.1 16.2 + - + +
51D HIS* 1.3 77.2 - - - +
53D TRP* 1.3 84.4 + + - +
55D VAL* 3.9 7.3 - - - +
64D HIS* 2.7 73.1 + + - -
65D LEU* 5.5 0.4 - - + -
67D LEU* 3.7 18.4 - - + +
68D GLY* 3.3 18.1 + - - +
302D FE 2.2 31.4 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with TRP 53 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
168A HIS* 4.2 1.4 - - - -
310A FE 3.0 25.2 - - - -
38C LEU* 4.7 1.3 - - + -
42C TYR* 3.7 30.7 - + - -
78C ALA 4.7 0.2 - - - -
79C ASP* 2.9 24.7 + - - -
82C ALA* 3.4 30.0 - - + +
83C GLU* 3.4 21.8 - - + -
86C GLN* 3.5 8.7 - - + +
92C PRO* 3.8 26.9 - - + -
93C HIS 3.6 23.3 - - - -
94C ALA* 4.3 8.3 - - - -
46D HIS* 5.1 2.2 - - - -
49D LYS* 2.8 37.6 + - + +
50D LYS* 3.5 27.4 - - + +
52D HIS* 1.3 90.7 - + - +
54D ASN* 1.3 60.6 + - - +
55D VAL 4.7 0.2 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ASN 54 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8C ARG* 5.7 1.0 + - - -
86C GLN* 3.1 28.0 - - - +
90C GLY 4.7 1.4 - - - +
91C VAL* 5.1 1.0 - - - +
92C PRO* 3.5 22.5 + - - +
50D LYS* 3.0 38.3 + - - +
51D HIS* 4.5 3.8 - - + +
53D TRP* 1.3 76.3 - - - +
55D VAL* 1.3 69.2 + - - +
56D GLU* 3.2 19.1 + - - +
112D VAL* 3.3 46.6 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 55 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
168A HIS* 3.1 19.2 + - - -
51D HIS* 2.8 24.1 + - - +
52D HIS 3.9 4.0 - - - +
53D TRP 3.7 0.7 - - - +
54D ASN* 1.3 72.8 - - - +
56D GLU* 1.3 68.2 + - - +
60D PHE* 3.6 27.4 - - + +
63D LEU* 3.8 20.0 - - + -
64D HIS* 3.7 24.9 - - + +
67D LEU* 4.3 1.6 - - + -
115D ILE* 3.3 39.3 - - + -
----------------------------------------------------------
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