Contacts of the helix formed by residues 13 - 40 (chain H) in PDB entry 2RCR
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 ALA 13 (chain H).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11H ASP* 3.1 9.7 + - - +
12H LEU* 1.3 78.7 - - - +
14H SER* 1.3 67.0 + - - +
16H ALA* 2.9 22.6 - - - +
17H ILE* 3.5 4.7 + - - +
199M PHE* 4.9 3.1 - - + -
284M LEU* 4.7 12.1 - - + -
288M VAL* 4.7 14.0 - - + +
289M VAL* 5.0 4.0 - - + -
292M TRP* 5.3 3.4 - - + -
295M TRP* 3.2 37.8 - - + +
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Residues in contact with SER 14 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10H PHE* 5.3 11.7 - - - -
11H ASP* 3.2 18.4 + - - +
13H ALA* 1.3 80.9 - - - +
15H LEU* 1.3 66.0 + - - +
17H ILE* 3.2 12.6 + - - +
18H TYR* 3.5 8.3 + - - +
295M TRP* 3.6 14.7 - - - -
299M HIS* 3.8 26.4 + - - -
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Residues in contact with LEU 15 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10H PHE* 5.1 7.9 - - + +
11H ASP 3.8 12.1 - - - +
12H LEU* 3.1 39.7 - - + +
14H SER* 1.3 72.9 - - - +
16H ALA* 1.3 59.1 + - - +
17H ILE 3.0 2.2 - - - -
18H TYR* 2.8 12.3 + - + +
19H SER* 2.5 46.6 + - - +
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Residues in contact with ALA 16 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12H LEU* 3.8 5.6 - - + +
13H ALA* 2.9 26.0 - - - +
15H LEU* 1.3 84.4 - - - +
17H ILE* 1.3 55.4 + - - +
19H SER* 3.3 9.7 - - - -
20H PHE* 3.1 25.1 + - - +
199M PHE* 4.4 9.2 - - + -
280M ILE* 5.8 2.0 - - + -
284M LEU* 4.4 15.9 - - + -
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Residues in contact with ILE 17 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13H ALA 4.4 4.5 - - - +
14H SER 3.2 9.0 + - - +
15H LEU 3.0 0.4 - - - -
16H ALA* 1.3 79.0 - - - +
18H TYR* 1.3 56.1 + - - +
19H SER 3.2 0.2 - - - -
20H PHE* 3.7 21.5 - - + -
21H TRP* 2.6 71.9 + - + +
198M PRO* 3.9 30.5 - - + +
199M PHE* 3.4 39.5 - - + -
295M TRP* 5.0 5.4 - - + -
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Residues in contact with TYR 18 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14H SER 3.5 4.0 + - - +
15H LEU* 2.8 21.0 + - + +
17H ILE* 1.3 72.8 - - - +
19H SER* 1.3 68.9 + - - +
21H TRP* 4.3 9.2 - + + -
22H ILE* 3.2 53.2 + - + +
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Residues in contact with SER 19 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
15H LEU* 2.5 37.0 + - - +
16H ALA* 3.3 12.0 + - - -
18H TYR* 1.3 76.2 - - - +
20H PHE* 1.3 62.5 + - - +
22H ILE* 4.9 1.8 - - - -
23H PHE* 3.0 45.3 + - - +
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Residues in contact with PHE 20 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16H ALA 3.1 13.6 + - - +
17H ILE* 3.5 16.8 - - + +
18H TYR 3.3 0.2 - - - -
19H SER* 1.3 80.6 - - - +
21H TRP* 1.3 78.4 + + - +
23H PHE* 3.7 2.2 - - - +
24H LEU* 2.8 48.8 + - + +
450L BCL 6.5 0.7 - - + -
199M PHE* 5.6 2.9 - + + -
202M LEU* 3.0 45.5 - - + -
206M PHE* 4.0 17.0 - + - -
273M LEU* 5.3 9.6 - - + -
277M THR* 4.1 21.5 - - + -
280M ILE* 6.3 1.8 - - + -
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Residues in contact with TRP 21 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17H ILE* 2.6 59.3 + - + +
18H TYR* 3.9 12.1 - + + +
20H PHE* 1.3 102.5 - + - +
22H ILE* 1.3 58.8 + - - +
24H LEU* 2.8 25.8 - - - +
25H ALA* 2.9 9.4 + - - +
450L BCL 4.0 49.0 - - + +
198M PRO* 5.8 2.3 + - + +
202M LEU* 4.1 7.8 - - + +
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Residues in contact with ILE 22 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18H TYR* 3.2 42.1 + - + +
19H SER* 4.6 0.7 - - - -
21H TRP* 1.3 73.7 - - - +
23H PHE* 1.3 90.5 + - + +
24H LEU 2.8 4.7 - - - -
25H ALA* 2.7 33.7 + - + +
26H GLY* 2.7 14.6 + - - -
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Residues in contact with PHE 23 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19H SER* 3.0 30.9 + - - +
20H PHE* 4.0 2.9 - - - +
22H ILE* 1.3 106.8 - - + +
24H LEU* 1.3 59.4 + - - +
26H GLY* 3.2 16.5 + - - +
27H LEU* 3.5 6.8 + - - +
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Residues in contact with LEU 24 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
20H PHE* 2.8 32.5 + - + +
21H TRP* 2.8 18.4 - - - +
23H PHE* 1.3 75.1 - - - +
25H ALA* 1.3 60.5 + - - +
26H GLY 2.7 5.9 + - - -
27H LEU* 3.1 24.6 + - + +
28H ILE* 3.5 12.4 + - - +
450L BCL 5.4 12.8 - - + -
273M LEU* 6.3 3.1 - - + -
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Residues in contact with ALA 25 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21H TRP 2.9 11.7 + - - +
22H ILE* 2.7 22.7 + - + +
24H LEU* 1.3 72.6 - - - +
26H GLY* 1.3 63.7 + - - +
28H ILE* 3.5 26.9 - - + +
29H TYR* 4.0 6.1 + - - +
30H TYR* 4.7 2.6 - - - -
450L BCL 6.0 2.1 - - - +
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Residues in contact with GLY 26 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22H ILE 2.7 10.0 + - - -
23H PHE* 3.2 11.4 - - - -
24H LEU 2.7 2.2 - - - -
25H ALA* 1.3 80.1 - - - +
27H LEU* 1.3 69.4 + - - +
30H TYR* 3.1 28.5 + - - +
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Residues in contact with LEU 27 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23H PHE 3.5 6.4 + - - +
24H LEU* 3.1 17.6 + - + +
26H GLY* 1.3 73.5 - - - +
28H ILE* 1.3 94.1 + - + +
30H TYR 2.9 0.2 + - - -
31H LEU* 2.9 29.8 + - + +
32H GLN* 3.0 51.5 + - + +
269M TRP* 3.8 37.0 - - + -
273M LEU* 4.7 15.3 - - + -
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Residues in contact with ILE 28 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24H LEU 3.6 11.2 - - - +
25H ALA* 3.5 22.2 - - + +
27H LEU* 1.3 101.3 - - + +
29H TYR* 1.3 76.0 + - + +
30H TYR 2.6 9.2 + - - -
32H GLN* 3.6 14.8 - - - +
33H THR* 3.0 20.9 + - - -
450L BCL 4.4 25.8 - - + -
266M TRP* 4.9 17.3 - - + -
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Residues in contact with TYR 29 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25H ALA 4.0 3.8 + - - +
26H GLY 3.9 1.4 + - - -
27H LEU 3.7 0.4 - - - -
28H ILE* 1.3 87.7 - - + +
30H TYR* 1.3 79.4 + + + +
33H THR* 2.7 27.7 + - - +
36H MET* 4.7 10.8 - - + +
57H PRO* 4.1 34.1 - - + +
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Residues in contact with TYR 30 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25H ALA 4.9 2.5 - - - -
26H GLY* 3.1 26.7 - - - +
27H LEU 2.9 3.0 + - - +
28H ILE 2.6 4.8 + - - -
29H TYR* 1.3 95.3 - + + +
31H LEU* 1.3 72.1 + - - +
32H GLN 3.5 0.2 - - - -
33H THR* 3.0 17.0 - - - +
34H GLU* 3.6 5.7 + - - +
57H PRO* 5.5 15.0 - - + -
59H PRO* 6.1 0.5 - - - +
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Residues in contact with LEU 31 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27H LEU* 2.9 19.3 + - + +
30H TYR* 1.3 79.0 - - - +
32H GLN* 1.3 55.4 + - - +
33H THR 2.6 13.0 + - - +
34H GLU* 3.1 32.8 - - + +
265M ARG* 5.1 6.0 - - - +
269M TRP* 4.1 27.8 - - + +
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Residues in contact with GLN 32 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27H LEU* 3.0 52.1 + - + +
28H ILE* 3.4 12.4 - - - +
31H LEU* 1.3 78.2 - - - +
33H THR* 1.3 64.9 + - - +
262M GLY 5.0 0.3 - - - +
265M ARG* 5.1 5.1 - - - +
266M TRP* 3.0 64.1 + - + -
269M TRP* 3.1 45.8 - - - +
270M MET* 5.7 3.4 - - - +
273M LEU* 5.2 4.0 - - - +
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Residues in contact with THR 33 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28H ILE* 3.0 6.2 + - - +
29H TYR* 2.7 39.2 + - - +
30H TYR 3.0 5.6 - - - +
31H LEU 2.6 5.9 + - - +
32H GLN* 1.3 82.9 - - - +
34H GLU* 1.3 87.3 + - - +
35H ASN* 2.8 38.9 + - + +
36H MET* 4.3 24.9 - - + +
57H PRO* 6.5 0.2 - - + -
59H PRO* 6.0 3.8 - - + -
262M GLY* 4.7 3.6 - - - -
265M ARG* 5.1 1.6 - - - -
266M TRP* 4.9 3.7 - - - -
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Residues in contact with GLU 34 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30H TYR 3.6 3.9 + - - +
31H LEU* 3.1 33.4 - - + +
33H THR* 1.3 87.3 - - - +
35H ASN* 1.3 53.3 - - - -
36H MET* 2.9 12.4 + - - +
37H ARG* 2.9 66.1 + - + +
59H PRO* 4.1 22.7 - - + +
60H LYS* 5.6 3.8 - - - -
62H LYS* 4.2 10.0 - - - +
259M THR* 4.1 5.4 + - - +
261M GLU* 5.3 6.6 - - - +
262M GLY* 5.7 2.2 - - - -
265M ARG* 4.7 21.4 + - - +
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Residues in contact with ASN 35 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33H THR* 2.8 28.5 + - + +
34H GLU* 1.3 75.8 - - - +
36H MET* 1.3 58.1 + - + +
37H ARG 3.4 3.1 - - - -
38H GLU 3.9 4.9 - - - +
40H TYR* 4.0 4.9 - - - -
256M PHE* 4.9 6.2 - - + -
257M ASN* 3.7 16.1 - - - +
258M ALA* 3.3 33.1 - - - +
259M THR* 3.7 17.7 - - - +
262M GLY* 3.5 13.3 - - - -
266M TRP* 2.9 43.3 + - - +
750M UQ 4.6 1.2 - - - +
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Residues in contact with MET 36 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29H TYR* 4.7 13.7 - - + +
33H THR* 4.3 21.5 - - + -
34H GLU 2.9 2.3 - - - -
35H ASN* 1.3 79.6 - - - +
37H ARG* 1.3 61.3 + - - +
38H GLU 2.9 7.4 - - - -
40H TYR* 2.9 77.7 - - + +
55H PRO* 5.3 2.7 - - + -
57H PRO* 4.1 26.0 - - + -
58H LEU* 4.5 26.9 - - + +
59H PRO* 5.0 12.3 - - + -
76H PRO* 6.0 0.3 - - - +
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Residues in contact with ARG 37 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34H GLU* 2.9 51.4 + - + +
35H ASN 3.4 0.6 - - - -
36H MET* 1.3 80.2 - - - +
38H GLU* 1.3 58.8 + - - +
40H TYR 5.0 4.2 - - - +
59H PRO* 3.1 33.3 - - - +
60H LYS* 3.0 27.5 + - - +
62H LYS* 2.9 38.5 - - - +
64H PHE* 6.0 0.2 - - - -
75H VAL* 3.1 62.3 - - + +
76H PRO* 4.2 15.7 - - - +
259M THR* 4.3 7.2 - - + -
261M GLU* 4.5 13.8 + - - +
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Residues in contact with GLU 38 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35H ASN 3.9 5.5 - - - +
36H MET 3.7 1.2 - - - -
37H ARG* 1.3 85.0 - - - +
39H GLY* 1.3 60.4 + - - +
40H TYR* 3.1 21.2 - - - -
73H LEU* 5.9 1.9 - - - +
75H VAL* 3.7 18.7 - - + +
79H GLU* 3.4 10.0 - - - +
5L PHE* 4.3 8.6 - - + -
235M GLN 5.2 0.9 - - - +
236M ILE 4.9 7.1 - - - +
237M ALA 5.6 2.1 - - - +
239M ARG* 2.8 54.9 + - + +
257M ASN* 5.1 2.8 + - - +
258M ALA 4.7 5.5 - - - +
259M THR* 3.7 25.0 - - + +
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Residues in contact with GLY 39 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38H GLU* 1.3 74.1 - - - +
40H TYR* 1.3 73.7 + - - +
41H PRO 3.7 4.3 - - - -
42H LEU* 3.0 3.8 - - - +
3L LEU* 2.8 26.0 - - - +
4L SER* 4.0 13.7 - - - -
5L PHE* 3.5 22.9 - - - -
239M ARG* 3.7 9.7 - - - +
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Residues in contact with TYR 40 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35H ASN 4.0 5.2 - - - -
36H MET* 2.9 70.4 - - + +
37H ARG 5.0 4.0 - - - +
38H GLU 3.1 13.2 - - - -
39H GLY* 1.3 92.0 - - - +
41H PRO* 1.4 72.3 + - + +
42H LEU* 3.2 33.2 - - + +
55H PRO* 4.5 10.3 - - + -
58H LEU* 4.3 16.4 - - + +
76H PRO* 5.3 3.3 - - - +
77H GLY 4.0 13.2 - - - +
78H PRO 4.9 2.3 - - - +
79H GLU* 5.8 1.0 - - - +
3L LEU* 4.6 6.1 - - + -
4L SER* 4.1 1.8 + - - -
251M ARG* 4.5 12.0 + - - -
257M ASN* 4.6 10.9 + - - -
----------------------------------------------------------
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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