Contacts of the helix formed by residues 10 - 39 (chain A) in PDB entry 2ZA6
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 SER 10 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
6A ARG* 3.3 4.5 + - - -
8A ASN 3.9 2.8 + - - -
9A TYR* 1.3 79.2 - - - +
11A THR* 1.3 58.1 + - - +
12A GLU* 3.4 16.6 + - - -
13A VAL* 3.0 32.2 + - - +
14A GLU* 3.0 24.1 + - - +
121A GLN* 3.4 25.0 - - - +
123A ASP* 4.7 1.4 + - - -
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Residues in contact with THR 11 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
6A ARG* 3.7 16.6 - - - +
9A TYR 3.8 0.2 + - - -
10A SER* 1.3 73.3 - - - +
12A GLU* 1.3 73.2 + - - +
14A GLU* 3.6 8.4 - - - +
15A ALA* 3.0 30.3 + - - +
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Residues in contact with GLU 12 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10A SER* 3.4 11.4 - - - -
11A THR* 1.3 89.7 + - - +
13A VAL* 1.3 58.3 + - - +
15A ALA* 3.5 5.1 + - - +
16A ALA* 3.0 28.2 + - - +
19A ARG* 4.6 2.6 + - - -
117A LEU* 3.7 16.5 - - + +
121A GLN* 3.2 31.4 + - - +
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Residues in contact with VAL 13 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9A TYR* 3.4 29.6 - - + -
10A SER* 3.0 24.5 + - - +
12A GLU* 1.3 74.2 - - - +
14A GLU* 1.3 65.2 + - - +
16A ALA* 3.1 2.7 + - - +
17A VAL* 2.8 30.6 + - + +
114A LEU* 4.5 1.1 - - + -
117A LEU* 3.9 24.9 - - + -
118A GLY* 4.4 7.4 - - - -
121A GLN* 4.9 4.5 - - + -
123A ASP* 4.3 8.7 - - - +
126A LEU* 3.5 34.8 - - + -
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Residues in contact with GLU 14 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
6A ARG* 2.9 34.5 + - - +
9A TYR* 3.8 16.8 - - + -
10A SER 3.0 16.1 + - - +
11A THR* 3.6 12.1 - - - +
12A GLU 3.4 0.2 - - - -
13A VAL* 1.3 78.5 - - - +
15A ALA* 1.3 63.1 + - - +
17A VAL 3.3 0.5 + - - -
18A ASN* 3.2 11.8 + - - +
70A GLN* 3.1 37.1 + - - +
75A GLY* 3.4 2.7 - - - -
76A ARG* 2.7 36.2 + - - +
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Residues in contact with ALA 15 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11A THR 3.0 17.8 + - - +
12A GLU* 3.9 4.7 - - - +
14A GLU* 1.3 77.4 - - - +
16A ALA* 1.3 64.6 + - - +
18A ASN* 3.1 12.2 + - - +
19A ARG* 3.0 41.7 + - - +
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Residues in contact with ALA 16 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12A GLU 3.0 18.6 + - - +
13A VAL 3.6 1.6 - - - +
15A ALA* 1.3 76.3 - - - +
17A VAL* 1.3 58.1 + - - +
19A ARG* 3.3 28.0 + - - +
20A LEU* 2.9 29.2 + - - +
114A LEU* 3.6 29.2 - - + +
117A LEU* 4.0 7.4 - - + -
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Residues in contact with VAL 17 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9A TYR* 3.4 16.2 - - - +
13A VAL* 2.8 29.1 + - + +
14A GLU 3.6 4.7 - - - +
16A ALA* 1.3 73.4 - - - +
18A ASN* 1.3 60.9 + - - +
20A LEU* 3.2 7.9 + - - +
21A VAL* 2.9 31.2 + - + +
66A LEU* 4.0 30.5 - - + +
69A MET* 3.8 22.0 - - + -
70A GLN* 3.7 17.7 - - + +
114A LEU* 4.2 15.3 - - + -
126A LEU* 4.4 0.4 - - + -
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Residues in contact with ASN 18 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14A GLU* 3.2 12.5 + - - +
15A ALA* 3.1 12.8 + - - +
17A VAL* 1.3 76.2 - - - +
19A ARG* 1.3 62.9 + - + +
21A VAL* 3.3 8.4 + - - +
22A ASN* 3.2 20.1 + - - +
67A LEU* 5.0 4.9 - - - +
70A GLN* 3.0 19.8 + - - +
76A ARG 3.1 21.4 + - - -
77A ALA* 3.4 5.4 - - - +
78A LEU* 3.1 49.7 + - + +
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Residues in contact with ARG 19 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12A GLU 4.6 3.0 + - - -
15A ALA* 3.0 34.6 + - - +
16A ALA* 3.5 32.1 - - - +
17A VAL 3.3 0.2 - - - -
18A ASN* 1.3 75.0 - - + +
20A LEU* 1.3 58.2 - - - +
22A ASN* 3.2 9.5 + - - +
23A LEU* 3.0 34.5 + - + +
117A LEU* 5.5 2.4 - - - +
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Residues in contact with LEU 20 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16A ALA 2.9 16.6 + - - +
17A VAL* 3.2 6.5 + - - +
19A ARG* 1.3 73.9 - - - +
21A VAL* 1.3 67.3 + - - +
23A LEU* 3.1 9.7 + - + +
24A TYR* 2.9 40.3 + - + -
66A LEU* 3.8 27.6 - - + -
107A LEU* 4.8 0.9 - - + +
110A ALA* 3.9 32.3 - - + +
111A LEU* 3.7 24.9 - - + +
114A LEU* 3.7 28.0 - - + -
130A LEU* 4.6 0.7 - - + -
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Residues in contact with VAL 21 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17A VAL* 2.9 21.9 + - + +
18A ASN* 3.5 11.7 - - - +
19A ARG 3.3 0.2 - - - -
20A LEU* 1.3 75.0 - - - +
22A ASN* 1.3 57.5 + - - +
24A TYR* 3.2 5.1 + - - +
25A LEU* 2.9 47.2 + - + +
63A ALA* 4.1 6.5 - - + +
66A LEU* 3.5 32.1 - - + -
67A LEU* 3.9 39.7 - - + +
78A LEU 5.8 1.6 - - - +
79A PHE* 4.3 8.7 - - + -
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Residues in contact with ASN 22 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18A ASN 3.2 11.9 + - - +
19A ARG* 3.2 11.6 + - - +
21A VAL* 1.3 78.8 - - - +
23A LEU* 1.3 59.1 + - + +
25A LEU* 3.3 3.0 + - - +
26A ARG* 2.8 55.4 + - - +
80A GLN* 3.5 30.5 + - + +
81A ASP 3.0 26.1 + - - +
82A LEU* 3.6 13.6 - - - +
83A GLN* 5.4 0.7 - - - +
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Residues in contact with LEU 23 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19A ARG* 3.0 21.8 + - + +
20A LEU* 3.1 13.9 + - + +
22A ASN* 1.3 78.4 - - - +
24A TYR* 1.3 57.3 + - - +
26A ARG* 3.4 34.1 + - - +
27A ALA* 2.9 28.4 + - - +
103A LEU* 5.6 0.5 - - - +
106A SER 5.2 2.0 - - - +
107A LEU* 3.6 18.0 - - + +
110A ALA* 3.6 31.2 - - + -
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Residues in contact with TYR 24 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
20A LEU* 2.9 46.5 + - + +
21A VAL* 3.8 4.3 - - - +
23A LEU* 1.3 77.2 - - - +
25A LEU* 1.3 57.7 + - - +
27A ALA* 3.2 7.0 + - - +
28A SER* 2.9 28.1 + - - -
59A LYS* 3.5 53.8 - - + +
62A GLY* 4.0 11.0 - - - -
63A ALA* 3.9 12.3 - - + +
66A LEU* 4.1 4.5 - - + -
107A LEU* 4.1 19.2 - - + +
111A LEU* 3.4 23.1 - - + +
134A PHE* 3.2 35.2 - + - -
137A GLU* 5.1 4.8 + - - -
138A GLU* 3.9 10.2 + - - +
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Residues in contact with LEU 25 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21A VAL* 2.9 35.9 + - + +
22A ASN* 5.0 1.3 - - - +
24A TYR* 1.3 73.5 - - - +
26A ARG* 1.3 59.0 + - - +
28A SER* 3.3 6.8 + - - -
29A TYR* 2.9 28.6 + - - +
60A ARG* 4.5 21.3 - - + -
63A ALA* 3.6 22.2 - - + -
64A GLU* 6.3 0.7 - - + -
67A LEU* 5.6 2.0 - - + -
79A PHE* 4.7 16.2 - - + -
82A LEU* 3.4 35.0 - - + +
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Residues in contact with ARG 26 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22A ASN* 2.8 44.5 + - - +
23A LEU* 3.6 29.2 - - - +
25A LEU* 1.3 72.2 - - - +
27A ALA* 1.3 57.9 + - - +
29A TYR* 3.3 8.2 + - - +
30A THR* 2.9 33.1 + - - +
82A LEU* 3.9 11.0 - - + +
83A GLN* 3.1 63.6 + - + +
103A LEU* 5.6 0.7 - - + -
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Residues in contact with ALA 27 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23A LEU 2.9 17.2 + - - +
24A TYR 3.5 5.4 - - - +
25A LEU 3.2 0.4 - - - -
26A ARG* 1.3 73.3 - - - +
28A SER* 1.3 67.0 + - - +
30A THR* 3.2 3.1 + - - -
31A TYR* 2.9 29.5 + - + -
59A LYS* 3.9 9.6 - - + -
103A LEU* 4.1 27.1 - - + +
107A LEU* 3.8 26.5 - - + -
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Residues in contact with SER 28 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24A TYR 2.9 17.2 + - - -
25A LEU* 3.5 10.3 - - - -
27A ALA* 1.3 76.4 - - - +
29A TYR* 1.3 57.0 + - - +
31A TYR 3.1 1.6 + - - -
32A LEU* 2.9 26.6 + - - +
56A ALA* 2.7 38.4 + - - +
59A LYS* 3.7 11.1 - - - +
60A ARG* 3.7 18.1 + - - +
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Residues in contact with TYR 29 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25A LEU 2.9 13.2 + - - +
26A ARG* 3.5 10.3 - - - +
27A ALA 3.2 0.2 - - - -
28A SER* 1.3 73.1 - - - +
30A THR* 1.3 66.2 + - - +
32A LEU* 3.3 27.8 + - + +
33A SER* 3.0 19.1 + - - -
82A LEU* 4.4 26.2 - - + -
83A GLN 3.8 17.5 - - - +
84A LYS* 3.9 20.8 - - + +
85A PRO* 3.7 17.4 - - + +
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Residues in contact with THR 30 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26A ARG* 2.9 15.0 + - - +
27A ALA* 3.4 9.4 - - - -
29A TYR* 1.3 76.0 - - - +
31A TYR* 1.3 58.0 + - - +
33A SER* 3.2 3.6 + - - -
34A LEU* 2.9 35.9 + - + +
85A PRO* 3.7 23.6 - - + +
86A SER* 4.9 1.6 + - - +
90A TRP* 3.8 26.7 - - + -
103A LEU* 3.8 25.0 - - + +
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Residues in contact with TYR 31 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27A ALA* 2.9 20.5 + - + -
28A SER 3.6 3.8 - - - +
30A THR* 1.3 74.3 - - - +
32A LEU* 1.3 61.1 + - - +
34A LEU* 3.6 16.7 - - + +
35A GLY* 2.8 27.9 + - - -
52A PHE* 3.4 52.3 - + - +
55A LEU* 3.7 25.8 - - + -
56A ALA* 3.5 8.1 - - - +
59A LYS* 3.8 20.6 - - + -
100A ALA* 3.7 14.9 + - + -
103A LEU* 3.7 19.0 - - + +
104A GLU* 2.6 37.8 + - - +
145A MET* 3.4 12.1 - - - +
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Residues in contact with LEU 32 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28A SER 2.9 12.4 + - - +
29A TYR* 3.4 32.8 - - + +
31A TYR* 1.3 77.2 - - - +
33A SER* 1.3 56.6 + - - +
35A GLY* 3.4 1.5 + - - -
36A PHE* 3.0 54.0 + - + -
53A ARG* 3.5 27.8 - - - +
56A ALA* 3.7 11.3 - - + +
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Residues in contact with SER 33 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29A TYR* 3.0 13.8 + - - -
30A THR 3.2 8.0 + - - -
32A LEU* 1.3 73.6 - - - +
34A LEU* 1.3 65.7 - - - +
36A PHE* 3.4 3.7 + - - +
37A TYR* 3.0 24.6 + - - +
85A PRO* 3.8 17.0 - - - +
87A GLN 4.1 6.1 + - - -
88A ASP* 4.7 4.9 + - - -
90A TRP* 3.0 20.2 + - - -
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Residues in contact with LEU 34 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30A THR* 2.9 28.0 + - + +
31A TYR* 3.6 33.0 - - + +
33A SER* 1.3 76.2 - - - +
35A GLY* 1.3 62.6 + - - +
37A TYR* 3.2 2.4 + - - +
38A PHE* 3.2 31.5 + - + -
52A PHE* 3.7 24.7 - - + -
90A TRP* 3.4 48.9 - - + -
96A ALA* 3.7 28.5 - - + +
99A ALA* 5.5 1.1 - - + -
100A ALA* 5.0 4.9 - - + +
103A LEU* 5.5 0.2 - - + -
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Residues in contact with GLY 35 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31A TYR 2.8 19.9 + - - -
32A LEU 3.8 1.6 - - - -
34A LEU* 1.3 71.0 - - - +
36A PHE* 1.3 64.2 + - - +
38A PHE 3.2 2.9 + - - -
39A ASP 3.2 16.5 + - - -
49A CYS* 3.4 39.3 - - - +
52A PHE* 3.7 5.8 - - - +
53A ARG* 4.0 7.6 - - - -
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Residues in contact with PHE 36 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32A LEU* 3.0 53.3 + - + +
33A SER* 4.3 3.4 - - - +
35A GLY* 1.3 75.3 - - - +
37A TYR* 1.3 65.5 + - - +
39A ASP* 3.4 34.0 + - + +
40A ARG* 3.4 13.9 + - - +
53A ARG* 3.6 32.1 - - - -
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Residues in contact with TYR 37 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33A SER 3.0 17.5 + - - +
34A LEU 3.5 3.8 - - - +
36A PHE* 1.3 78.1 - - - +
38A PHE* 1.3 85.2 + + - +
39A ASP 3.1 0.2 - - - -
40A ARG* 3.1 42.7 + - - +
43A VAL* 3.5 32.3 - - + +
88A ASP 4.6 4.7 - - - +
89A GLU* 3.9 22.5 - - + +
90A TRP* 3.6 38.4 - + + -
91A GLY* 2.7 36.7 + - - -
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Residues in contact with PHE 38 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34A LEU* 3.2 25.9 + - + -
35A GLY 3.2 3.5 + - - +
37A TYR* 1.3 96.5 - + - +
39A ASP* 1.3 56.4 + - - +
40A ARG 3.4 0.2 - - - -
43A VAL* 3.4 22.9 - - + -
44A ALA* 3.3 7.6 + - - -
45A LEU* 3.0 41.6 + - + +
46A GLU* 4.4 0.5 - - - +
48A VAL* 3.5 31.0 - - + -
49A CYS* 3.7 23.8 - - - +
52A PHE* 3.8 7.0 - + - -
90A TRP* 4.6 0.4 - - + -
91A GLY 4.5 0.9 - - - -
92A THR* 4.0 10.3 - - - -
93A THR* 4.0 19.5 - - - -
96A ALA* 3.5 34.1 - - + -
164A GLU* 5.0 0.4 - - - -
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Residues in contact with ASP 39 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35A GLY 3.2 11.5 + - - +
36A PHE* 3.5 33.6 - - + +
37A TYR 3.1 0.6 - - - -
38A PHE* 1.3 76.6 - - - +
40A ARG* 1.3 63.6 + - - +
41A ASP* 3.6 1.9 + - - -
44A ALA* 5.1 1.4 - - - -
46A GLU* 3.1 11.8 - - - +
49A CYS* 3.9 2.4 - - - +
201A CD 2.4 30.0 - - - -
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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