Contacts of the helix formed by residues 9 - 39 (chain A) in PDB entry 3ZPL
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 THR 9 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
6A ARG* 4.4 0.7 - - - +
7A TRP 3.9 0.6 + - - -
8A LEU* 1.3 77.7 - - - +
10A ALA* 1.3 64.2 + - - +
11A GLU* 3.3 19.1 + - - +
12A GLU* 2.9 43.7 + - - +
13A GLN* 3.0 19.5 + - - +
17E ARG* 4.9 2.0 - - - +
53F GLU* 3.5 42.0 - - + +
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Residues in contact with ALA 10 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8A LEU 3.7 0.2 + - - -
9A THR* 1.3 72.0 - - - +
11A GLU* 1.3 64.9 + - - +
13A GLN* 3.5 14.3 + - - +
14A LEU* 3.1 22.3 + - - +
10E ALA* 3.8 16.7 - - + +
13E GLN* 4.0 18.8 + - + +
14E LEU* 3.0 32.3 - - + +
17E ARG* 4.3 8.1 - - - +
53F GLU* 4.1 5.8 + - - +
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Residues in contact with GLU 11 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9A THR* 3.1 15.2 + - - +
10A ALA* 1.3 78.2 - - - +
12A GLU* 1.3 58.5 + - + +
14A LEU* 3.0 26.1 + - - +
15A VAL* 3.0 18.8 + - + +
14E LEU* 4.1 16.1 - - + +
17E ARG* 2.8 45.0 + - - -
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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
----------------------------------------------------------
6A ARG* 2.5 36.8 + - - -
8A LEU* 3.6 12.2 - - + -
9A THR* 2.9 37.9 + - - +
11A GLU* 1.3 76.5 - - + +
13A GLN* 1.3 66.2 + - - +
15A VAL* 3.1 5.6 + - - +
16A TRP* 2.9 20.3 + - - +
128B PHE* 3.4 33.7 - - + +
136B GLN* 3.3 36.6 + - + +
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Residues in contact with GLN 13 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8A LEU* 3.1 41.2 + - + +
9A THR 3.0 12.6 + - - +
10A ALA* 3.5 10.1 - - - +
12A GLU* 1.3 77.0 - - - +
14A LEU* 1.3 56.1 + - - +
16A TRP* 3.4 8.4 + - - +
17A ARG* 3.0 30.7 + - - +
53B GLU* 5.1 4.2 - - - +
8E LEU 4.9 0.7 - - - +
10E ALA* 4.1 13.9 + - + +
13E GLN* 3.3 38.0 + - - +
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Residues in contact with LEU 14 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10A ALA 3.1 15.2 + - - +
11A GLU* 3.0 11.9 + - - +
13A GLN* 1.3 73.2 - - - +
15A VAL* 1.3 66.9 + - + +
17A ARG* 3.5 33.3 + - + +
18A SER* 3.1 24.9 + - - -
10E ALA* 3.8 17.9 - - + +
11E GLU* 4.0 16.4 - - - +
14E LEU* 4.6 20.9 - - + -
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Residues in contact with VAL 15 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11A GLU* 3.0 19.8 + - + +
12A GLU* 3.5 8.7 - - - +
14A LEU* 1.3 75.1 - - + +
16A TRP* 1.3 59.4 + - - +
18A SER* 2.9 10.1 + - - -
19A TYR* 2.9 27.3 + - + +
128B PHE* 4.0 15.5 - - + -
136B GLN* 3.4 26.7 - - + +
137B LYS* 5.2 2.5 - - - +
139B LEU* 3.8 35.6 - - + +
140B GLY* 4.0 14.3 - - - +
143B MET* 5.4 0.3 - - - +
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Residues in contact with TRP 16 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8A LEU* 5.3 5.6 - - + -
12A GLU 2.9 12.0 + - - +
13A GLN* 3.5 12.1 - - - +
15A VAL* 1.3 76.7 - - - +
17A ARG* 1.3 63.4 + - + +
19A TYR* 3.2 27.2 + + + +
20A ILE* 2.9 55.8 + - + +
26B LEU* 4.2 11.9 - - + -
30B LEU* 3.6 32.3 - - + -
42B HIS* 4.3 6.1 + + - -
119B HIS* 4.5 7.9 + - - -
123B VAL* 3.7 36.3 - - + +
127B VAL* 4.2 18.4 - - + -
128B PHE* 3.9 16.8 - + + -
139B LEU* 6.4 1.1 - - + -
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Residues in contact with ARG 17 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13A GLN 3.0 16.3 + - - +
14A LEU* 3.7 23.4 - - + +
15A VAL 3.3 0.2 - - - -
16A TRP* 1.3 76.8 - - + +
18A SER* 1.3 64.4 + - - +
20A ILE* 3.0 10.4 + - + +
21A GLU* 3.0 42.3 + - + +
53B GLU* 4.8 14.3 + - - -
67B TYR* 6.0 6.4 - - - -
9E THR* 4.7 4.9 - - - +
10E ALA* 4.2 12.0 - - - +
11E GLU* 2.6 46.1 + - - -
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Residues in contact with SER 18 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14A LEU 3.1 11.7 + - - -
15A VAL* 2.9 19.8 + - - -
17A ARG* 1.3 80.4 - - - +
19A TYR* 1.3 61.5 + - - +
21A GLU* 4.0 13.0 - - - +
22A ALA* 3.1 25.6 + - - +
140B GLY* 3.9 15.6 + - - -
143B MET* 3.5 6.2 - - - +
144B ARG* 4.3 26.5 - - - -
147B ALA* 4.8 1.0 - - - +
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Residues in contact with TYR 19 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
15A VAL 2.9 13.5 + - - +
16A TRP* 3.2 31.6 + + + +
18A SER* 1.3 75.4 + - - +
20A ILE* 1.3 75.7 + - + +
22A ALA* 3.2 3.3 + - - +
23A ALA* 2.9 36.2 + - + +
143A MET* 3.9 22.6 - - + +
19B TYR* 4.3 6.5 - + - -
23B ALA* 3.4 33.6 + - - +
26B LEU* 3.9 27.7 - - + +
139B LEU* 4.6 13.9 - - + -
143B MET* 3.7 35.8 - - + +
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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 TRP* 2.9 62.2 + - + +
17A ARG* 3.5 8.7 - - - +
19A TYR* 1.3 84.4 - - + +
21A GLU* 1.3 62.3 + - + +
23A ALA* 3.9 2.8 - - - +
24A THR* 2.7 41.1 + - - +
42B HIS* 3.6 23.3 - - + +
68B ALA 5.8 2.5 - - - +
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Residues in contact with GLU 21 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17A ARG* 3.0 37.5 + - + +
18A SER* 4.0 11.7 - - - +
20A ILE* 1.3 76.8 - - + +
22A ALA* 1.3 55.4 + - - +
24A THR* 3.1 3.5 + - - -
25A LEU* 2.8 41.5 + - + +
67B TYR* 4.0 14.3 - - - +
68B ALA 5.7 0.2 - - - -
69B LYS* 3.6 43.9 + - + -
147B ALA* 4.6 10.8 - - + +
151B GLN* 4.4 8.3 + - - -
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Residues in contact with ALA 22 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18A SER 3.1 17.6 + - - +
19A TYR 3.6 3.4 - - - +
21A GLU* 1.3 77.4 - - - +
23A ALA* 1.3 54.9 + - - +
25A LEU* 3.1 4.2 + - - +
26A LEU* 2.7 38.1 + - - +
19B TYR* 4.7 1.3 - - - +
143B MET* 3.7 35.2 - - + +
146B VAL* 4.1 15.3 - - + -
147B ALA* 4.1 12.1 - - + +
150B LEU* 4.5 1.2 - - - +
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Residues in contact with ALA 23 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19A TYR* 2.9 36.4 + - + +
20A ILE* 3.9 3.6 - - - +
22A ALA* 1.3 77.2 - - - +
24A THR* 1.3 63.3 + - - +
26A LEU* 3.8 1.1 - - - +
27A GLU* 3.0 26.9 + - - +
19B TYR* 3.4 23.6 + - - +
23B ALA* 5.3 4.7 - - + -
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Residues in contact with THR 24 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
20A ILE* 2.7 33.7 + - - +
21A GLU* 3.1 3.6 + - - -
23A ALA* 1.3 76.7 - - - +
25A LEU* 1.3 61.7 + - - +
27A GLU* 4.2 4.1 - - - +
28A ASP* 3.3 21.9 + - + +
43B VAL* 6.2 3.6 - - + -
68B ALA 4.0 12.3 + - - +
69B LYS* 3.8 25.6 - - - +
70B ILE* 4.6 8.1 - - + -
74B ARG* 4.9 9.2 - - - +
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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 GLU* 2.8 20.6 + - + +
22A ALA 3.6 3.1 - - - +
24A THR* 1.3 75.0 - - - +
26A LEU* 1.3 58.6 - - - +
28A ASP* 3.3 5.4 + - + +
29A HIS* 2.8 30.8 + - - +
69B LYS* 3.9 30.1 - - + -
147B ALA* 4.0 34.5 - - + +
150B LEU* 4.0 24.9 - - + +
151B GLN* 4.1 17.3 - - + +
159B LEU* 5.9 0.2 - - + -
160B PRO* 4.5 15.5 - - + -
161B TRP* 4.3 15.0 - - + -
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Residues in contact with LEU 26 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22A ALA 2.7 18.2 + - - +
23A ALA* 3.8 4.7 - - - +
25A LEU* 1.3 70.3 - - - +
27A GLU* 1.3 68.2 + - - +
29A HIS* 3.0 1.9 + - + -
30A LEU* 2.8 54.5 + - + +
123A VAL* 5.9 0.9 - - - -
126A ALA* 3.9 27.8 - - + -
127A VAL* 4.0 21.5 - - + -
16B TRP* 4.2 7.6 - - + -
19B TYR* 3.9 31.6 - - + +
146B VAL* 4.2 11.0 - - + -
150B LEU* 3.8 15.6 - - + +
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Residues in contact with GLU 27 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23A ALA 3.0 17.6 + - - +
24A THR* 4.3 4.5 - - - +
26A LEU* 1.3 74.7 - - - +
28A ASP* 1.3 57.2 + - - +
30A LEU* 4.9 3.8 - - - -
31A ASP* 2.9 43.9 + - - +
42A HIS* 5.8 5.8 - - + +
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Residues in contact with ASP 28 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24A THR* 3.3 18.2 + - + +
25A LEU* 3.5 8.2 - - - +
26A LEU 3.1 0.2 - - - -
27A GLU* 1.3 77.9 - - - +
29A HIS* 1.3 68.1 + - - +
31A ASP* 3.9 3.4 - - - +
32A ARG* 3.1 33.8 + - - +
69B LYS 5.2 2.9 - - - +
70B ILE* 6.1 0.2 - - - -
71B THR* 5.0 3.1 - - - +
158B ASP 4.9 0.7 - - - +
160B PRO* 3.9 20.2 - - + +
163B ARG* 2.8 38.9 + - - -
14C T 4.7 11.9 + - - +
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Residues in contact with HIS 29 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25A LEU 2.8 18.2 + - - +
26A LEU* 3.0 4.2 + - + +
28A ASP* 1.3 80.7 - - - +
30A LEU* 1.3 74.7 + - + +
32A ARG* 3.8 4.3 - - - +
33A GLN* 3.0 32.1 + - + +
122A ALA* 4.3 18.7 + - + +
125A GLN* 6.1 1.8 - - - +
126A ALA* 4.3 11.3 + - + +
150B LEU* 3.4 30.5 - - + +
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Residues in contact with LEU 30 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26A LEU* 2.8 33.5 + - + +
27A GLU* 4.3 2.5 - - - +
29A HIS* 1.3 92.1 - - + +
31A ASP* 1.3 66.1 + - - +
32A ARG 3.1 1.1 - - - -
33A GLN* 3.2 4.4 + - - +
34A LEU* 2.8 29.9 + - - +
42A HIS* 4.2 25.6 - - + +
119A HIS* 4.2 9.6 - - + +
122A ALA* 4.1 22.2 - - + -
123A VAL* 4.0 14.8 - - + -
16B TRP* 3.8 34.1 - - + -
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Residues in contact with ASP 31 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27A GLU* 2.9 30.4 + - - +
28A ASP* 3.9 5.1 - - - +
30A LEU* 1.3 76.1 - - - +
32A ARG* 1.3 59.2 + - + +
34A LEU* 3.7 1.3 - - - +
35A GLN* 2.8 31.8 + - - +
40A MET 4.4 1.6 - - - +
41A PRO* 4.1 10.7 - - + +
42A HIS* 2.9 38.1 + - - +
43A VAL* 4.7 2.3 + - - +
14C T 5.0 11.0 + - - +
15C C 5.6 0.4 - - - -
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Residues in contact with ARG 32 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28A ASP* 3.1 22.7 + - - +
29A HIS* 3.8 4.9 - - - +
31A ASP* 1.3 78.8 - - + +
33A GLN* 1.3 67.6 + - - +
35A GLN* 3.9 5.4 - - - +
36A ARG* 3.1 26.0 + - - +
158B ASP* 3.2 36.2 + - - +
163B ARG* 3.3 43.6 - - - +
15C C 3.2 42.4 + - - +
16C A 4.8 9.3 + - - -
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Residues in contact with GLN 33 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29A HIS* 3.0 23.8 + - + +
30A LEU* 3.6 6.3 - - - +
32A ARG* 1.3 75.7 - - - +
34A LEU* 1.3 68.2 + - - +
36A ARG* 4.2 1.1 - - - -
37A ASP* 3.1 65.8 + - - +
115A THR* 4.9 2.0 + - - -
118A GLY* 3.7 5.6 - - - +
119A HIS* 3.2 53.6 + - - +
122A ALA* 3.9 21.9 - - + +
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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 LEU 2.8 17.4 + - - +
31A ASP 4.0 2.2 - - - +
33A GLN* 1.3 93.2 - - - +
35A GLN* 1.3 58.0 + - - +
38A ALA* 3.0 35.4 + - + +
39A GLY 3.0 7.4 + - - -
40A MET 3.1 19.8 + - - +
41A PRO 4.6 1.6 - - - +
42A HIS* 3.6 34.8 - - + -
45A TYR* 3.6 38.1 - - + -
115A THR* 5.1 2.0 - - - +
119A HIS* 3.4 27.8 - - + +
----------------------------------------------------------
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Residues in contact with GLN 35 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31A ASP 2.8 22.8 + - - +
32A ARG* 3.3 4.0 + - - +
34A LEU* 1.3 75.2 - - - +
36A ARG* 1.3 57.2 + - - +
39A GLY* 3.3 20.3 + - - -
40A MET* 3.4 16.3 + - - +
41A PRO* 5.3 1.1 - - + -
15C C 4.0 20.6 - - - +
----------------------------------------------------------
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Residues in contact with ARG 36 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32A ARG 3.1 15.4 + - - +
33A GLN* 4.3 0.7 - - - +
35A GLN* 1.3 80.0 - - - +
37A ASP* 1.3 70.1 + - - +
38A ALA 3.5 0.5 + - - -
39A GLY 4.4 1.2 + - - -
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Residues in contact with ASP 37 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33A GLN* 3.1 45.0 + - - +
36A ARG* 1.3 83.5 - - - +
38A ALA* 1.3 58.5 + - + +
115A THR* 3.5 19.3 - - + +
118A GLY* 5.3 3.7 - - - -
----------------------------------------------------------
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Residues in contact with ALA 38 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34A LEU* 3.0 25.2 + - + +
36A ARG 3.3 0.2 - - - -
37A ASP* 1.3 80.9 - - + +
39A GLY* 1.3 63.8 + - - +
40A MET* 3.4 19.0 + - + +
87A TRP* 4.8 10.9 + - - -
111A VAL* 4.5 12.2 - - + +
115A THR* 3.4 28.7 - - + +
----------------------------------------------------------
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Residues in contact with GLY 39 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34A LEU 3.0 3.6 + - - -
35A GLN* 3.3 18.1 + - - -
36A ARG 4.4 1.6 + - - -
38A ALA* 1.3 77.9 - - - +
40A MET* 1.3 59.7 + - - +
81A ARG* 3.1 22.2 + - - -
87A TRP* 5.6 1.7 + - - -
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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).
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