Contacts of the helix formed by residues 7 - 38 (chain A) in PDB entry 2C3E
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 PHE 7 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
5A LEU 5.3 0.4 - - - -
6A SER* 1.3 77.9 - - - +
8A LEU* 1.3 78.3 + - + +
9A LYS 4.4 0.2 - - - +
10A ASP* 3.1 32.0 + - - +
11A PHE* 3.8 5.4 + - - +
88A PHE* 3.5 37.5 - + - -
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Residues in contact with LEU 8 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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5A LEU* 4.1 10.2 + - + +
6A SER 3.7 0.4 - - - -
7A PHE* 1.3 97.9 - - + +
9A LYS* 1.3 66.1 + - - +
10A ASP 3.0 2.2 - - - -
11A PHE* 3.2 21.2 + - + +
12A LEU* 3.0 27.7 + - + +
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Residues in contact with LYS 9 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
5A LEU 4.4 10.4 + - - +
6A SER* 6.0 1.3 - - - -
7A PHE 4.4 1.4 - - - +
8A LEU* 1.3 77.6 - - - +
10A ASP* 1.3 60.4 + - - +
12A LEU* 3.5 28.3 + - + +
13A ALA* 3.0 28.2 + - - +
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Residues in contact with ASP 10 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
6A SER* 4.3 1.6 - - - -
7A PHE* 3.1 35.5 + - - +
9A LYS* 1.3 78.8 + - - +
11A PHE* 1.3 55.2 + - - +
13A ALA* 3.1 5.8 + - - +
14A GLY* 2.5 36.7 + - - -
80A TYR* 4.5 0.2 + - - -
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Residues in contact with PHE 11 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7A PHE 3.8 4.6 + - - +
8A LEU* 3.2 31.6 - - + +
10A ASP* 1.3 79.5 - - - +
12A LEU* 1.3 72.7 + - + +
15A GLY* 3.0 18.4 + - - -
80A TYR* 3.0 26.3 + + - -
81A PHE* 3.6 45.0 - + + -
84A GLN* 3.4 28.7 - - + -
85A ALA* 4.4 5.8 - - - -
800A CDL 4.2 23.6 - - + -
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Residues in contact with LEU 12 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8A LEU* 3.0 13.1 + - + +
9A LYS* 3.5 38.6 - - + +
11A PHE* 1.3 89.7 - - + +
13A ALA* 1.3 53.0 + - - +
15A GLY* 3.0 2.9 + - - -
16A VAL* 2.7 44.1 + - + +
81A PHE* 4.4 12.6 - - + -
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Residues in contact with ALA 13 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9A LYS 3.0 18.9 + - - +
10A ASP* 3.5 7.2 - - - +
12A LEU* 1.3 75.3 - - - +
14A GLY* 1.3 54.6 + - - +
16A VAL* 3.0 8.0 + - - +
17A ALA* 2.7 38.3 + - - +
290A TYR* 4.6 8.2 + - + +
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Residues in contact with GLY 14 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10A ASP 2.5 22.2 + - - -
13A ALA* 1.3 73.3 - - - +
15A GLY* 1.3 56.0 + - - +
17A ALA* 4.0 5.3 - - - +
18A ALA* 3.2 20.6 + - - +
80A TYR* 3.4 22.7 - - - -
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Residues in contact with GLY 15 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11A PHE 3.0 10.7 + - - -
12A LEU 3.5 0.4 - - - -
14A GLY* 1.3 75.0 - - - +
16A VAL* 1.3 64.9 + - - +
17A ALA 3.2 0.4 - - - -
18A ALA* 3.4 2.0 + - - +
19A ALA* 3.0 24.3 + - - +
77A VAL 5.2 0.3 - - - +
80A TYR* 3.2 32.2 - - - +
81A PHE* 3.5 18.7 - - - -
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Residues in contact with VAL 16 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12A LEU* 2.7 29.2 + - + +
13A ALA* 3.6 7.2 - - - +
15A GLY* 1.3 77.3 - - - +
17A ALA* 1.3 63.5 + - - +
19A ALA* 3.4 3.1 + - - +
20A ILE* 3.2 31.0 + - + +
81A PHE* 5.3 0.7 - - + -
290A TYR* 3.9 14.8 - - - +
800A CDL 3.8 36.6 - - + -
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Residues in contact with ALA 17 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13A ALA 2.7 17.4 + - - +
14A GLY* 4.0 6.1 - - - +
16A VAL* 1.3 77.4 - - - +
18A ALA* 1.3 63.1 + - - +
20A ILE* 3.1 13.6 + - - +
21A SER* 3.2 15.9 + - - -
287A LEU* 4.2 13.3 - - + +
290A TYR* 3.4 36.4 + - + -
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Residues in contact with ALA 18 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14A GLY 3.2 16.6 + - - +
15A GLY 3.6 6.1 - - - +
17A ALA* 1.3 79.7 - - - +
19A ALA* 1.3 62.6 + - - +
21A SER* 3.3 8.1 + - - -
22A LYS* 3.0 43.1 + - - +
76A ASN 5.8 1.3 - - - +
80A TYR* 3.8 25.6 - - + -
287A LEU* 5.3 1.8 - - - -
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Residues in contact with ALA 19 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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15A GLY 3.0 17.1 + - - +
16A VAL 3.5 6.1 - - - +
17A ALA 3.2 0.2 - - - -
18A ALA* 1.3 76.1 - - - +
20A ILE* 1.3 56.4 + - - +
22A LYS* 3.9 2.6 - - - +
23A THR* 2.6 38.3 + - - -
77A VAL* 4.1 28.4 + - + +
80A TYR* 5.9 0.2 - - - +
800A CDL 3.6 35.0 - - + -
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Residues in contact with ILE 20 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16A VAL* 3.2 22.4 - - + +
17A ALA* 3.1 8.4 + - - +
19A ALA* 1.3 74.3 - - - +
21A SER* 1.3 61.3 + - - +
23A THR* 3.5 4.3 + - - -
24A ALA* 3.0 29.6 + - + +
286A VAL* 4.3 14.1 - - + -
290A TYR* 3.5 38.4 - - + -
800A CDL 4.6 13.9 - - + -
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Residues in contact with SER 21 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17A ALA 3.2 3.1 + - - -
18A ALA* 3.3 11.3 + - - -
20A ILE* 1.3 78.1 - - - +
22A LYS* 1.3 69.8 + - - +
24A ALA* 3.4 1.7 + - - +
25A VAL* 3.0 29.4 + - - +
283A GLY* 3.8 27.7 - - - -
286A VAL* 3.6 18.4 - - - +
287A LEU* 3.6 22.4 - - - +
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Residues in contact with LYS 22 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18A ALA* 3.0 30.8 + - - +
19A ALA* 3.9 4.0 - - - +
21A SER* 1.3 83.2 + - - +
23A THR* 1.3 55.9 + - - +
25A VAL* 3.5 7.5 + - - +
26A ALA* 2.8 30.0 + - - +
29A GLU* 4.2 7.3 - - - +
73A ASN* 3.9 3.7 + - - +
76A ASN* 3.8 50.3 - - + +
77A VAL* 5.4 0.4 - - + +
79A ARG* 4.7 16.8 - - - +
80A TYR* 6.2 2.5 - - - +
401A CXT 5.0 7.7 + - - -
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Residues in contact with THR 23 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19A ALA 2.6 24.0 + - - -
20A ILE* 3.9 4.5 - - - -
22A LYS* 1.3 73.8 - - - +
24A ALA* 1.3 67.5 + - - +
26A ALA* 3.3 5.3 + - - -
70A TRP* 2.8 28.3 + - + +
73A ASN* 3.1 25.8 + - - +
77A VAL* 3.9 2.9 - - - +
800A CDL 3.6 62.6 - - + +
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Residues in contact with ALA 24 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
20A ILE* 3.0 20.9 + - + +
21A SER 3.6 5.2 - - - +
22A LYS 3.3 0.2 - - - -
23A THR* 1.3 76.4 - - - +
25A VAL* 1.3 58.7 + - + +
27A PRO* 3.1 17.2 - - - +
70A TRP* 5.3 1.7 - - - -
286A VAL* 3.8 27.1 - - + -
800A CDL 5.9 4.9 - - - -
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Residues in contact with VAL 25 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21A SER 3.0 17.9 - - - +
22A LYS* 3.7 7.6 - - - +
24A ALA* 1.3 79.3 - - + +
26A ALA* 1.3 64.2 + - - +
27A PRO* 3.1 4.0 - - - -
28A ILE* 3.1 20.5 - - + +
29A GLU* 2.9 23.5 + - - +
278A LEU 5.2 0.2 - - - +
279A ARG* 3.8 28.3 - - + +
282A GLY* 3.7 11.9 - - - +
283A GLY* 3.7 27.6 - - - +
286A VAL* 5.1 2.0 - - + -
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Residues in contact with ALA 26 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22A LYS 2.8 17.1 + - - +
23A THR 3.4 12.1 - - - +
24A ALA 3.3 0.4 - - - -
25A VAL* 1.3 76.2 - - - +
27A PRO* 1.3 61.8 - - + +
29A GLU* 3.5 10.9 - - - +
30A ARG* 2.9 24.8 + - - +
69A PHE 3.4 11.7 - - - +
70A TRP* 3.5 18.6 - - + -
73A ASN* 3.5 19.5 - - + +
137A ARG* 4.2 6.5 + - - +
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Residues in contact with PRO 27 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23A THR 3.7 2.9 - - - +
24A ALA 3.1 15.0 - - - +
25A VAL* 3.1 5.8 - - - -
26A ALA* 1.3 95.5 - - + +
28A ILE* 1.3 59.3 + - - +
30A ARG* 3.5 4.5 + - - +
31A VAL* 3.4 25.1 + - - +
69A PHE* 3.8 34.6 - - + +
70A TRP* 3.5 30.3 - - + -
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Residues in contact with ILE 28 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25A VAL* 3.1 25.8 + - + +
27A PRO* 1.3 75.9 - - - +
29A GLU* 1.3 60.6 + - - +
30A ARG 3.1 2.0 - - - -
31A VAL* 3.2 9.0 + - + -
32A LYS* 2.9 27.5 + - - +
53A ILE* 3.8 28.3 - - + -
275A SER* 3.8 29.2 - - - +
278A LEU* 4.4 17.3 - - + -
279A ARG* 3.7 23.3 - - - +
801A CDL 5.9 1.1 - - + -
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Residues in contact with GLU 29 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22A LYS* 4.2 14.7 - - - +
25A VAL* 2.9 17.3 + - - +
26A ALA* 3.5 6.0 - - - +
28A ILE* 1.3 77.5 - - - +
30A ARG* 1.3 58.0 + - - +
32A LYS* 3.7 9.4 + - + +
33A LEU* 3.2 32.7 + - + +
76A ASN* 3.2 26.2 + - - +
137A ARG* 2.8 31.0 + - - +
279A ARG* 3.7 31.5 - - + +
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Residues in contact with ARG 30 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26A ALA 2.9 16.2 + - - +
27A PRO 3.7 4.7 - - - +
28A ILE 3.1 0.2 - - - -
29A GLU* 1.3 76.9 - - - +
31A VAL* 1.3 60.1 + - - +
33A LEU* 3.4 9.5 + - - +
34A LEU* 2.9 41.5 + - + +
60A ILE* 3.9 17.2 - - + +
64A GLN* 2.8 33.3 - - - +
68A SER* 2.8 45.3 + - - -
69A PHE* 3.6 12.8 - - - +
71A ARG* 3.5 21.9 - - - +
137A ARG* 4.9 4.0 - - - +
141A ALA* 2.9 27.4 + - + +
143A ASP 3.0 19.8 + - - -
144A VAL* 4.2 1.8 - - - +
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Residues in contact with VAL 31 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27A PRO 3.4 14.5 + - - +
28A ILE* 3.2 14.7 + - + +
30A ARG* 1.3 74.4 - - - +
32A LYS* 1.3 67.0 + - - +
34A LEU* 3.7 1.3 - - - +
35A LEU* 3.0 31.9 + - + +
53A ILE* 3.7 37.2 - - + -
56A CYS* 3.7 24.7 - - + -
57A VAL* 3.6 26.5 - - + -
60A ILE* 4.4 9.9 - - + -
69A PHE* 4.7 1.6 - - + -
275A SER* 4.3 1.3 - - - +
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Residues in contact with LYS 32 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28A ILE 2.9 14.2 + - - +
29A GLU* 3.8 12.3 - - + +
31A VAL* 1.3 78.7 - - - +
33A LEU* 1.3 73.5 - - + +
35A LEU* 3.6 2.6 + - - +
36A GLN* 3.0 39.3 + - - +
228A TYR* 3.3 26.9 - - - +
231A ASP* 2.9 24.0 + - - -
235A ARG* 4.5 5.5 - - - +
272A GLY* 3.2 25.0 - - - +
275A SER* 3.5 22.4 - - - +
276A ASN* 3.6 27.5 + - + +
279A ARG* 5.6 0.4 - - + -
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Residues in contact with LEU 33 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29A GLU* 3.2 26.2 + - + +
30A ARG 3.7 4.0 - - - +
32A LYS* 1.3 85.4 - - + +
34A LEU* 1.3 57.7 + - + +
36A GLN* 2.8 23.1 + - - +
37A VAL* 2.8 42.4 + - + +
137A ARG* 3.9 27.1 - - - +
138A THR* 3.9 14.1 - - + +
141A ALA* 3.5 30.3 - - + -
142A ALA 5.6 0.2 - - - +
235A ARG* 3.4 27.6 - - - +
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Residues in contact with LEU 34 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30A ARG* 2.9 33.5 + - + +
31A VAL* 3.7 4.7 - - - +
33A LEU* 1.3 73.9 - - - +
35A LEU* 1.3 57.4 + - - +
37A VAL* 4.6 2.0 - - + +
38A GLN* 2.7 40.6 + - + +
44A ILE* 5.1 7.9 - - + -
50A TYR* 4.3 21.5 - - + +
56A CYS* 4.0 13.5 - - - -
60A ILE* 3.5 33.7 - - + -
64A GLN* 5.9 0.2 - - - +
141A ALA 3.2 25.6 - - - +
142A ALA* 3.7 18.6 - - + +
144A VAL* 5.5 5.2 - - + -
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Residues in contact with LEU 35 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31A VAL* 3.0 25.7 + - + +
32A LYS 3.8 4.0 - - - +
34A LEU* 1.3 79.9 - - + +
36A GLN* 1.3 59.6 + - - +
38A GLN* 4.0 17.9 + - - +
50A TYR* 4.2 17.7 - - + +
52A GLY* 3.8 30.7 - - - +
53A ILE 4.2 7.6 - - - +
56A CYS* 5.0 2.5 - - + -
236A ARG* 5.0 0.2 + - - -
271A LYS* 3.3 23.7 - - + +
272A GLY* 4.2 8.7 - - - +
275A SER* 3.5 17.5 - - - +
801A CDL 3.3 31.9 - - - +
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Residues in contact with GLN 36 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32A LYS* 3.0 33.7 + - - +
33A LEU* 2.8 21.0 + - - +
35A LEU* 1.3 77.6 - - - +
37A VAL* 1.3 58.3 + - + +
38A GLN 3.7 0.2 - - - -
228A TYR* 3.5 11.9 + - + +
231A ASP* 2.7 26.9 - - - +
232A THR* 3.7 24.3 + - + +
235A ARG* 3.0 32.6 - - - +
236A ARG* 3.0 27.0 + - - -
271A LYS* 3.1 21.5 + - - +
----------------------------------------------------------
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Residues in contact with VAL 37 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33A LEU* 2.8 25.4 + - + +
34A LEU* 4.5 2.0 - - + +
36A GLN* 1.3 88.7 - - + +
38A GLN* 1.3 64.6 + - - +
39A HIS 3.3 2.9 - - - -
40A ALA* 3.2 20.0 + - - +
138A THR* 5.0 6.5 - - + +
142A ALA* 3.8 28.9 - - + -
235A ARG* 3.4 39.5 - - + +
236A ARG* 3.6 8.3 - - + +
239A MET* 3.9 22.3 - - + +
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Residues in contact with GLN 38 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34A LEU* 2.7 25.7 + - - +
35A LEU* 4.0 19.7 - - - +
36A GLN 3.7 0.6 - - - -
37A VAL* 1.3 68.2 - - - +
39A HIS* 1.3 62.8 + - + +
40A ALA 2.8 12.0 + - - -
41A SER* 3.1 19.7 + - - -
44A ILE* 3.3 23.9 - - + +
49A GLN* 3.0 35.1 + - + +
50A TYR* 3.0 59.3 + - - +
271A LYS* 6.1 0.9 - - + +
----------------------------------------------------------
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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