Contacts of the helix formed by residues 9 - 52 (chain A) in PDB entry 4DYL
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 9 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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6A GLU 5.5 0.2 + - - -
7A LEU* 2.9 6.6 + - - +
8A CYS* 1.3 76.8 + - - +
10A PRO* 1.3 74.7 - - - +
11A GLN* 3.5 9.8 + - - +
12A GLY* 3.0 20.1 + - - -
13A HIS* 3.0 22.0 + - - +
120A TRP* 4.4 7.6 + - - +
205A LEU* 5.5 1.8 - - - +
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Residues in contact with PRO 10 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9A SER* 1.3 86.6 - - - +
11A GLN* 1.3 61.7 - - - +
13A HIS* 3.2 5.0 + - - +
14A GLY* 3.0 19.1 + - - -
120A TRP* 4.0 26.5 - - + -
124A GLN* 5.7 4.9 - - - +
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Residues in contact with GLN 11 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9A SER* 3.2 7.9 + - - +
10A PRO* 1.3 80.2 - - - +
12A GLY* 1.3 57.7 + - - +
14A GLY* 3.1 4.3 + - - -
15A VAL* 3.0 35.2 + - + +
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Residues in contact with GLY 12 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7A LEU* 3.5 42.6 - - - +
9A SER* 3.0 13.2 + - - -
11A GLN* 1.3 74.3 + - - +
13A HIS* 1.3 60.4 + - - +
15A VAL* 3.3 3.6 + - - +
16A LEU* 2.9 34.4 + - - +
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Residues in contact with HIS 13 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7A LEU 4.0 0.8 + - - -
9A SER 3.0 12.5 + - - +
10A PRO 3.4 9.0 - - - +
11A GLN 3.1 0.2 - - - -
12A GLY* 1.3 76.9 - - - +
14A GLY* 1.3 57.8 + - - +
16A LEU* 3.1 3.3 + - - +
17A GLN* 2.9 65.0 + - - +
116A TYR* 2.9 47.6 + + - +
117A SER* 4.2 6.1 + - - -
120A TRP* 3.4 64.4 - + + +
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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
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10A PRO 3.0 13.7 + - - -
11A GLN* 3.1 4.0 + - - -
13A HIS* 1.3 76.9 - - - +
15A VAL* 1.3 61.9 + - - +
17A GLN* 3.2 14.3 + - - +
18A GLN* 3.0 30.7 + - - +
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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
----------------------------------------------------------
7A LEU* 4.0 24.5 - - + -
11A GLN* 3.0 26.5 + - + +
12A GLY* 3.5 9.6 - - - +
13A HIS 3.3 0.2 - - - -
14A GLY* 1.3 75.6 - - - +
16A LEU* 1.3 61.5 + - + +
18A GLN* 3.4 8.6 + - - +
19A MET* 2.9 28.2 + - + +
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Residues in contact with LEU 16 (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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3A PHE* 3.6 30.3 - - + -
7A LEU* 3.5 31.4 - - + -
12A GLY 2.9 21.6 + - - +
13A HIS 3.6 3.6 - - - +
15A VAL* 1.3 73.9 - - + +
17A GLN* 1.3 65.1 + - - +
19A MET* 3.4 17.9 - - + +
20A GLN* 3.0 30.4 + - - +
116A TYR* 3.4 26.7 - - + +
209A LEU* 3.4 22.4 - - + -
212A LEU* 3.9 14.4 - - + -
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Residues in contact with GLN 17 (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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13A HIS* 2.9 51.2 + - + +
14A GLY* 3.2 12.7 + - - +
16A LEU* 1.3 76.6 - - - +
18A GLN* 1.3 63.6 + - + +
20A GLN* 3.4 16.7 + - - +
21A GLU* 3.2 27.0 + - - +
113A ARG* 5.7 1.1 - - - +
116A TYR* 4.7 1.1 - - + -
117A SER* 3.6 22.4 - - - -
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Residues in contact with GLN 18 (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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14A GLY 3.0 18.1 + - - +
15A VAL* 3.8 7.1 - - - +
17A GLN* 1.3 74.3 - - + +
19A MET* 1.3 60.8 + - - +
21A GLU* 3.3 9.2 + - - +
22A ALA* 2.9 30.4 + - - +
25A ARG* 5.0 1.4 + - - +
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Residues in contact with MET 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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3A PHE* 4.0 15.9 - - + -
15A VAL* 2.9 19.1 + - + +
16A LEU* 3.4 39.7 - - + +
18A GLN* 1.3 76.8 - - - +
20A GLN* 1.3 61.3 + - + +
22A ALA* 3.0 7.1 + - - +
23A GLU* 2.8 65.9 + - + +
212A LEU* 4.7 2.2 - - + -
216A HIS* 3.5 31.0 - - + +
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Residues in contact with GLN 20 (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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16A LEU 3.0 17.9 + - - +
17A GLN* 3.6 16.6 - - - +
18A GLN 3.3 0.2 - - - -
19A MET* 1.3 89.2 - - + +
21A GLU* 1.3 55.7 + - - +
23A GLU* 3.6 4.5 + - - +
24A LEU* 3.1 33.4 + - + +
109A ARG* 4.7 3.1 + - - +
112A LEU* 4.4 1.6 + - - +
113A ARG* 3.7 43.1 - - + +
116A TYR* 3.6 26.6 - - - +
212A LEU* 3.8 24.1 - - - +
216A HIS* 4.0 20.5 - - - +
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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
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17A GLN* 3.2 17.0 + - + +
18A GLN* 3.6 9.0 - - - +
19A MET 3.2 0.6 - - - -
20A GLN* 1.3 76.3 - - - +
22A ALA* 1.3 59.6 + - - +
24A LEU* 3.1 15.2 + - - +
25A ARG* 2.9 49.0 + - - +
113A ARG* 4.0 20.7 - - - +
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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
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18A GLN 2.9 17.5 + - - +
19A MET* 3.5 7.2 - - - +
21A GLU* 1.3 76.2 - - - +
23A GLU* 1.3 63.7 + - + +
25A ARG* 3.4 23.8 + - - +
26A LEU* 3.1 23.9 + - - +
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Residues in contact with GLU 23 (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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19A MET* 2.8 41.3 + - + +
20A GLN 4.0 2.0 - - - +
22A ALA* 1.3 78.7 - - + +
24A LEU* 1.3 61.1 + - - +
26A LEU* 3.3 9.8 + - + +
27A LEU* 3.0 30.4 + - + +
109A ARG* 2.7 51.9 + - - +
216A HIS* 3.1 10.2 - - - +
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Residues in contact with LEU 24 (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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20A GLN* 3.1 23.3 + - + +
21A GLU* 3.1 20.1 + - - +
23A GLU* 1.3 72.5 - - - +
25A ARG* 1.3 61.1 + - - +
27A LEU* 3.3 5.4 + - - +
28A GLU* 2.9 30.4 + - - +
106A ILE* 3.5 43.7 - - + +
109A ARG* 3.8 28.9 - - + +
110A GLN* 3.7 25.1 - - + +
113A ARG* 4.8 9.6 - - + -
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Residues in contact with ARG 25 (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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18A GLN* 5.0 1.2 + - - +
21A GLU* 2.9 39.9 + - - +
22A ALA* 3.5 29.9 + - - +
24A LEU* 1.3 74.5 - - - +
26A LEU* 1.3 56.6 + - - +
28A GLU* 3.2 8.6 + - - +
29A GLY* 3.0 24.4 + - - -
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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
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22A ALA 3.1 14.3 + - - +
23A GLU* 3.7 8.5 - - + +
24A LEU 3.2 0.2 - - - -
25A ARG* 1.3 81.0 - - - +
27A LEU* 1.3 68.8 + - + +
29A GLY* 3.2 2.8 + - - -
30A MET* 2.9 45.4 + - + +
223A LEU* 5.0 5.2 - - + -
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Residues in contact with LEU 27 (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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23A GLU* 3.0 19.7 + - + +
24A LEU* 3.8 3.8 - - - +
26A LEU* 1.3 82.9 - - + +
28A GLU* 1.3 56.2 + - - +
30A MET* 3.2 6.5 + - - +
31A ARG* 2.9 29.5 + - - +
102A LEU* 3.8 10.4 - - + +
105A LEU* 3.9 15.7 - - + -
106A ILE* 3.7 21.5 - - + +
109A ARG* 3.3 43.1 - - - +
223A LEU* 3.5 43.7 - - + -
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Residues in contact with GLU 28 (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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24A LEU 2.9 17.7 + - - +
25A ARG* 3.4 8.7 - - - +
26A LEU 3.2 0.2 - - - -
27A LEU* 1.3 78.7 - - - +
29A GLY* 1.3 61.2 + - - +
31A ARG* 3.0 36.8 + - - +
32A LYS* 3.0 43.5 + - - +
106A ILE* 4.0 16.8 - - + +
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Residues in contact with GLY 29 (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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25A ARG 3.0 13.9 + - - -
26A LEU 3.2 3.5 + - - -
28A GLU* 1.3 74.1 - - - +
30A MET* 1.3 65.5 + - - +
32A LYS* 3.3 11.4 + - - +
33A TRP* 2.9 25.1 + - - +
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Residues in contact with MET 30 (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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26A LEU* 2.9 31.7 + - + +
27A LEU* 3.2 10.3 + - + +
29A GLY* 1.3 75.0 - - - +
31A ARG* 1.3 57.9 + - - +
33A TRP* 3.2 13.4 + - + +
34A MET* 2.9 41.8 + - + +
102A LEU* 3.6 15.5 - - + -
223A LEU* 3.6 34.1 - - + -
226A ILE* 5.1 0.7 - - - -
227A LEU* 3.5 35.2 - - + -
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Residues in contact with ARG 31 (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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27A LEU 2.9 16.3 + - - +
28A GLU* 3.0 35.7 + - - +
29A GLY 3.3 0.2 - - - -
30A MET* 1.3 77.0 - - - +
32A LYS* 1.3 75.2 + - - +
34A MET* 3.5 3.3 + - - +
35A ALA* 2.8 42.4 + - - +
99A LEU* 4.5 18.3 - - + +
102A LEU* 3.3 20.8 - - + +
103A SER* 3.7 24.9 - - - +
106A ILE* 4.2 12.6 - - + -
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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
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28A GLU* 3.0 39.6 + - - +
29A GLY* 3.7 9.9 - - - +
31A ARG* 1.3 94.6 - - - +
33A TRP* 1.3 57.2 + - - +
35A ALA* 3.3 8.8 + - - +
36A GLN* 3.0 28.2 + - - +
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Residues in contact with TRP 33 (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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29A GLY 2.9 18.2 + - - +
30A MET* 3.5 11.4 - - + +
32A LYS* 1.3 75.5 - - - +
34A MET* 1.3 84.3 + - + +
36A GLN* 3.3 8.2 + - - +
37A ARG* 3.1 24.2 + - + +
227A LEU* 5.4 6.1 - - + -
230A TYR* 3.4 51.4 - + - -
231A LEU* 5.8 0.4 - - + -
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Residues in contact with MET 34 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30A MET* 2.9 34.5 + - + +
31A ARG* 3.7 5.8 - - - +
33A TRP* 1.3 83.9 - - + +
35A ALA* 1.3 65.4 + - - +
37A ARG* 3.0 8.0 + - - +
38A VAL* 3.0 25.8 + - - +
94A LEU* 4.2 13.6 - - + +
98A PRO* 4.3 11.4 - - - -
99A LEU* 4.3 16.8 - - + -
102A LEU* 4.2 12.6 - - - -
226A ILE* 4.0 18.4 - - + -
227A LEU* 4.1 12.1 - - + -
230A TYR* 3.6 43.1 - - + -
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Residues in contact with ALA 35 (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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31A ARG* 2.8 29.7 + - - +
32A LYS* 3.3 10.5 + - - +
34A MET* 1.3 75.7 - - - +
36A GLN* 1.3 59.5 + - - +
38A VAL* 3.4 6.7 + - - +
39A LYS* 3.2 20.6 + - - +
99A LEU* 3.8 18.3 - - + +
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Residues in contact with GLN 36 (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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32A LYS 3.0 15.7 + - - +
33A TRP* 3.7 7.4 - - - +
34A MET 3.2 0.4 - - - -
35A ALA* 1.3 74.5 - - - +
37A ARG* 1.3 55.9 + - - +
39A LYS* 3.4 32.2 + - - +
40A SER* 2.7 54.2 + - - +
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Residues in contact with ARG 37 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33A TRP* 3.1 11.3 + - + +
34A MET 3.0 9.8 + - - +
36A GLN* 1.3 75.2 - - - +
38A VAL* 1.3 63.4 + - - +
40A SER* 3.1 10.4 + - - -
41A ASP* 2.9 49.2 + - - +
94A LEU* 3.8 18.8 - - + -
230A TYR* 3.1 37.0 + - + +
234A SER* 3.3 32.6 + - - -
236A LEU* 4.0 22.8 - - - +
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Residues in contact with VAL 38 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34A MET 3.0 14.8 + - - +
35A ALA* 3.4 9.6 - - - +
37A ARG* 1.3 76.2 - - - +
39A LYS* 1.3 63.9 + - - +
41A ASP* 4.9 0.2 - - - -
42A ARG* 3.0 28.2 + - + +
91A ALA* 3.6 28.5 - - + +
94A LEU* 3.6 30.3 - - + +
95A ASN* 4.0 21.5 - - + +
99A LEU* 4.0 12.8 - - + -
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Residues in contact with LYS 39 (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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35A ALA 3.2 10.4 + - - +
36A GLN* 3.6 33.7 - - - +
37A ARG 3.3 0.2 - - - -
38A VAL* 1.3 81.3 - - - +
40A SER* 1.3 56.2 + - - +
42A ARG* 3.4 14.5 + - - +
43A GLU* 2.7 65.4 + - + +
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Residues in contact with SER 40 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36A GLN* 2.7 39.5 + - - +
37A ARG* 3.1 13.9 + - - -
39A LYS* 1.3 74.5 - - - +
41A ASP* 1.3 66.4 + - - +
43A GLU* 3.4 3.9 + - - +
44A TYR* 2.9 30.7 + - - +
----------------------------------------------------------
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Residues in contact with ASP 41 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37A ARG* 2.9 53.9 + - - +
38A VAL 4.0 2.5 - - - +
40A SER* 1.3 75.1 - - - +
42A ARG* 1.3 65.8 + - - +
44A TYR* 3.5 3.2 + - - +
45A ALA* 2.9 23.4 + - - +
87A LEU* 3.7 40.9 - - + +
90A HIS* 3.6 22.9 + - - +
91A ALA* 4.1 6.3 - - + -
94A LEU* 4.9 2.3 - - - +
234A SER* 4.5 4.7 - - - -
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Residues in contact with ARG 42 (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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38A VAL* 3.0 23.0 + - + +
39A LYS* 3.6 12.8 + - - +
41A ASP* 1.3 76.5 - - - +
43A GLU* 1.3 86.2 + - - +
45A ALA* 3.3 8.5 + - - +
46A GLY* 3.1 22.0 + - - -
87A LEU 5.1 0.4 - - - -
88A ARG* 5.1 12.1 - - + +
91A ALA* 3.8 14.3 - - + +
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Residues in contact with GLU 43 (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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39A LYS* 2.7 56.2 + - - +
40A SER* 4.1 3.7 - - - +
42A ARG* 1.3 98.2 + - - +
44A TYR* 1.3 55.5 + - - +
46A GLY* 3.2 3.4 + - - +
47A LEU* 2.8 47.4 + - + +
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Residues in contact with TYR 44 (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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40A SER 2.9 19.2 + - - +
41A ASP* 3.6 6.7 - - - +
43A GLU* 1.3 72.7 - - - +
45A ALA* 1.3 66.2 + - - +
47A LEU* 4.0 16.9 - - + +
48A LEU* 2.8 63.1 + - + +
83A LEU* 5.6 3.8 - - + +
87A LEU* 3.8 28.9 - - + -
236A LEU* 5.7 8.7 - - + -
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Residues in contact with ALA 45 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41A ASP 2.9 14.3 + - - +
42A ARG* 3.3 10.5 + - - +
44A TYR* 1.3 75.8 - - - +
46A GLY* 1.3 51.9 + - - +
48A LEU* 3.7 0.4 - - - -
49A HIS* 2.8 22.3 + - - +
84A SER* 2.8 50.0 + - - +
87A LEU* 4.1 4.2 - - + +
88A ARG* 3.7 29.6 - - + +
----------------------------------------------------------
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Residues in contact with GLY 46 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42A ARG 3.1 10.5 + - - -
43A GLU* 3.2 4.6 + - - -
45A ALA* 1.3 78.4 - - - +
47A LEU* 1.3 61.4 + - - +
49A HIS* 3.4 10.1 + - - +
50A HIS* 3.1 23.2 + - - +
----------------------------------------------------------
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Residues in contact with LEU 47 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43A GLU* 2.8 37.5 + - + +
44A TYR* 3.2 17.7 + - + +
46A GLY* 1.3 72.0 - - - +
48A LEU* 1.3 63.0 + - + +
50A HIS* 3.2 20.4 + - + +
51A MET* 3.7 8.0 + - - +
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Residues in contact with LEU 48 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44A TYR* 2.8 69.5 + - + +
45A ALA 3.8 2.2 - - - +
47A LEU* 1.3 71.6 - - - +
49A HIS* 1.3 64.5 + - - +
51A MET* 3.1 44.5 + - - +
52A SER 4.1 1.0 + - - -
80A THR* 4.8 13.4 - - + +
81A GLU* 4.3 2.8 - - - +
83A LEU* 4.4 26.7 - - + -
84A SER* 4.1 17.5 - - - +
87A LEU* 4.8 3.6 - - + -
----------------------------------------------------------
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Residues in contact with HIS 49 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45A ALA 2.8 21.6 + - - +
46A GLY* 3.5 11.0 - - - +
48A LEU* 1.3 72.4 - - - +
50A HIS* 1.3 63.6 + - - +
52A SER* 3.2 23.7 - - - -
81A GLU* 2.6 37.3 + - - -
84A SER* 3.3 9.2 + - - +
88A ARG* 5.5 5.6 + - - +
----------------------------------------------------------
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Residues in contact with HIS 50 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46A GLY 3.1 12.6 + - - +
47A LEU* 3.3 15.5 - - - +
48A LEU 3.2 0.6 - - - -
49A HIS* 1.3 76.7 - - - +
51A MET* 1.3 64.5 + - - +
52A SER 3.3 7.7 + - - -
----------------------------------------------------------
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Residues in contact with MET 51 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47A LEU 3.7 8.5 + - - +
48A LEU* 3.2 38.4 - - - +
50A HIS* 1.3 75.1 - - - +
52A SER* 1.3 65.5 + - - +
80A THR* 3.9 25.1 - - + +
----------------------------------------------------------
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Residues in contact with SER 52 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48A LEU 4.1 0.8 + - - -
49A HIS* 3.2 22.2 + - - -
50A HIS 3.6 9.0 - - - -
51A MET* 1.3 83.5 - - - +
77A THR* 6.1 5.8 - - - -
81A GLU* 3.7 20.4 + - - -
----------------------------------------------------------
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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