Contacts of the helix formed by residues 11 - 41 (chain A) in PDB entry 3AG2
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 ASN 11 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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9A SER* 3.0 6.9 + - - +
10A THR* 1.3 76.5 - - - +
12A HIS* 1.3 66.5 + - - +
13A LYS* 3.0 16.2 + - - +
14A ASP* 3.0 28.8 + - + +
15A ILE* 3.0 28.3 + - - +
91A ASP* 3.4 8.4 + - - -
502A TYR* 2.9 73.4 + - + +
503A HIS* 4.8 4.4 + - - -
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Residues in contact with HIS 12 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11A ASN* 1.3 74.9 - - - +
13A LYS* 1.3 96.3 + - + +
15A ILE* 4.6 0.2 - - - -
16A GLY* 3.0 21.5 + - - -
80A ASN* 2.7 37.4 + - - +
81A TRP 3.6 16.1 + - - -
84A PRO* 3.5 20.7 - - + +
85A LEU* 4.0 10.9 - - + +
89A ALA 5.1 0.8 + - - -
90A PRO 4.2 5.1 + - - -
91A ASP* 2.7 52.7 + - - +
92A MET* 4.0 16.4 - - + -
98A ASN* 4.3 9.6 - - - +
504A THR* 4.3 3.4 + - - -
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Residues in contact with LYS 13 (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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11A ASN* 3.0 6.4 + - - +
12A HIS* 1.3 102.8 + - + +
14A ASP* 1.3 64.0 + - - +
16A GLY 3.2 1.4 + - - -
17A THR* 2.9 31.4 + - - -
81A TRP* 3.3 37.0 + - + -
85A LEU* 4.1 4.5 - - - -
90A PRO 5.4 1.0 + - - -
500A PRO* 3.7 31.0 - - + +
501A PRO 3.2 20.0 + - - +
502A TYR* 2.9 27.0 + - - +
504A THR* 2.8 30.5 + - - +
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Residues in contact with ASP 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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5A ARG* 2.8 49.1 + - - +
6A TRP* 3.6 28.2 - - + -
9A SER* 3.8 16.2 - - - +
11A ASN* 3.0 11.0 + - - +
13A LYS* 1.3 78.1 - - - +
15A ILE* 1.3 58.7 + - - +
17A THR* 3.2 6.7 + - - -
18A LEU* 2.9 31.8 + - - +
502A TYR* 3.1 21.8 + - - -
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Residues in contact with ILE 15 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9A SER* 3.6 19.7 - - - +
11A ASN 3.0 22.1 + - - +
12A HIS 4.1 2.9 - - - +
14A ASP* 1.3 77.0 - - - +
16A GLY* 1.3 62.1 + - - +
18A LEU* 3.2 10.3 + - + +
19A TYR* 3.0 51.3 + - + -
80A ASN* 3.8 9.4 - - - +
95A PRO 3.9 11.4 - - - +
98A ASN* 3.7 26.0 - - - +
99A ASN* 3.7 36.1 - - - +
102A PHE* 4.2 7.2 - - + -
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Residues in contact with GLY 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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12A HIS 3.0 17.6 + - - -
13A LYS 3.5 3.8 - - - -
15A ILE* 1.3 74.4 - - - +
17A THR* 1.3 56.0 + - - +
19A TYR* 3.3 3.8 + - - +
20A LEU* 3.0 32.6 + - - +
76A GLY 3.5 18.8 - - - -
77A GLY* 3.6 1.9 - - - -
80A ASN* 3.8 4.4 - - - +
81A TRP* 3.7 15.9 - - - -
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Residues in contact with THR 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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6A TRP* 4.3 18.6 - - + -
13A LYS 2.9 10.3 + - - -
14A ASP* 3.4 12.7 + - - -
15A ILE 3.2 0.2 - - - -
16A GLY* 1.3 74.1 - - - +
18A LEU* 1.3 66.1 + - - +
20A LEU* 3.2 7.6 + - - +
21A LEU* 3.0 39.6 + - + +
81A TRP* 3.0 27.8 + - - +
400A PHE* 5.7 0.3 - - - +
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Residues in contact with LEU 18 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
6A TRP* 3.6 47.1 - - + +
9A SER* 5.1 2.5 - - - -
14A ASP 2.9 19.7 + - - +
15A ILE* 3.2 15.0 + - + +
17A THR* 1.3 75.1 - - - +
19A TYR* 1.3 58.1 + - - +
21A LEU* 3.4 14.2 + - + +
22A PHE* 2.9 24.6 + - - +
99A ASN* 4.7 6.7 - - - +
102A PHE* 3.4 47.0 - - + -
103A TRP* 4.5 8.5 - - + +
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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 ILE* 3.0 33.8 + - + -
16A GLY 3.5 6.7 - - - +
17A THR 3.2 0.2 - - - -
18A LEU* 1.3 77.9 - - - +
20A LEU* 1.3 56.1 + - - +
22A PHE* 3.4 2.0 + - - +
23A GLY* 2.9 27.0 + - - -
72A PRO* 3.6 30.6 - - + +
73A ILE* 4.5 0.2 - - - +
76A GLY* 3.1 40.2 - - - -
77A GLY 3.6 0.4 - - - +
80A ASN* 3.4 19.2 + - - -
98A ASN* 4.8 1.5 + - - -
101A SER* 3.2 17.8 + - - -
102A PHE* 3.2 39.5 + + + -
105A LEU* 3.6 24.9 - - + -
156A SER* 4.2 2.5 + - - -
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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 GLY 3.0 21.6 + - - +
17A THR* 3.2 6.9 + - - +
19A TYR* 1.3 74.2 - - - +
21A LEU* 1.3 60.6 + - + +
23A GLY* 3.9 0.2 - - - -
24A ALA* 2.9 30.7 + - - +
73A ILE* 4.1 30.2 - - + +
77A GLY* 3.9 19.3 - - - -
78A PHE* 4.3 12.8 - - + +
81A TRP* 4.0 13.0 - - + +
393A PHE* 5.4 16.2 - - + -
400A PHE* 3.8 33.2 - - + -
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Residues in contact with LEU 21 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
6A TRP* 6.1 0.9 - - + -
17A THR* 3.0 36.7 + - + +
18A LEU* 3.7 15.5 - - + +
20A LEU* 1.3 77.5 - - + +
22A PHE* 1.3 62.1 + - - +
24A ALA* 3.3 6.8 + - + +
25A TRP* 2.9 24.3 + - - +
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Residues in contact with PHE 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 LEU 2.9 18.3 + - - +
19A TYR 3.7 2.7 - - - +
20A LEU 3.4 0.2 - - - -
21A LEU* 1.3 77.4 - - - +
23A GLY* 1.3 60.1 + - - +
25A TRP* 3.2 10.2 + + - +
26A ALA* 2.8 25.8 + - - +
68A PHE* 3.5 36.8 - + + -
72A PRO* 4.1 12.8 - - + -
102A PHE* 3.8 15.7 - + + -
105A LEU* 3.7 28.0 - - + -
106A PRO* 3.7 38.4 - - + -
109A PHE* 3.7 26.9 - + - -
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Residues in contact with GLY 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 14.8 + - - -
22A PHE* 1.3 75.1 - - - +
24A ALA* 1.3 57.5 + - - +
26A ALA* 3.3 1.4 + - - +
27A GLY* 2.8 26.9 + - - -
68A PHE 3.5 18.4 - - - -
69A MET* 3.7 7.9 - - - +
72A PRO* 4.8 1.3 - - - -
73A ILE* 3.7 26.4 - - - +
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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
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20A LEU 2.9 19.1 + - - +
21A LEU* 3.6 9.4 - - + +
23A GLY* 1.3 77.0 - - - +
25A TRP* 1.3 62.9 + - - +
27A GLY* 3.3 9.5 + - - -
28A MET* 3.4 21.6 + - + +
73A ILE* 4.3 5.7 - - + +
468A MET* 6.1 5.4 - - + -
472A ILE* 6.4 2.2 - - + -
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Residues in contact with TRP 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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21A LEU 2.9 14.4 + - - +
22A PHE* 3.5 12.1 - + - +
24A ALA* 1.3 76.4 - - - +
26A ALA* 1.3 62.4 + - - +
28A MET* 3.0 29.1 + - + +
29A VAL* 3.4 23.2 + - + +
109A PHE* 3.6 35.7 - + - -
113A LEU* 4.5 15.9 - - + -
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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
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22A PHE* 2.8 16.3 + - + +
23A GLY 3.6 2.0 - - - +
25A TRP* 1.3 73.0 - - - +
27A GLY* 1.3 52.9 + - - +
29A VAL* 3.1 2.0 + - - -
30A GLY 2.8 31.5 + - - -
64A VAL* 3.2 11.8 - - + +
68A PHE* 3.1 48.9 - - + +
69A MET* 3.9 2.1 - - - +
109A PHE* 3.8 19.7 - - + -
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Residues in contact with GLY 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 GLY 2.8 16.0 + - - -
24A ALA* 3.7 3.8 - - - -
25A TRP 3.2 0.4 - - - -
26A ALA* 1.3 77.8 - - - +
28A MET* 1.3 59.2 + - - +
30A GLY 4.5 0.4 - - - -
31A THR* 2.7 38.7 + - - -
65A MET* 4.5 5.1 - - - +
69A MET* 3.8 18.1 - - - +
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Residues in contact with MET 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 ALA* 3.4 17.6 + - + +
25A TRP* 3.0 19.0 + - + +
27A GLY* 1.3 79.5 - - - +
29A VAL* 1.3 67.3 + - + +
31A THR* 3.4 4.6 + - - +
32A ALA* 3.0 24.6 + - - +
465A VAL* 3.5 33.0 - - + -
468A MET* 4.1 19.1 - - + -
469A VAL* 4.5 15.9 - - + -
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Residues in contact with VAL 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 TRP* 3.6 45.3 - - + +
26A ALA 3.1 6.0 + - - +
28A MET* 1.3 76.9 - - + +
30A GLY* 1.3 63.8 + - - +
32A ALA* 3.3 6.8 + - - +
33A LEU* 3.0 43.2 + - + +
64A VAL* 4.0 6.3 - - + -
109A PHE* 3.8 22.9 - - + -
113A LEU* 4.6 11.9 - - + -
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Residues in contact with GLY 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 ALA 2.8 18.1 + - - -
29A VAL* 1.3 73.7 - - - +
31A THR* 1.3 56.7 + - - +
33A LEU* 3.5 5.1 + - - +
34A SER* 3.0 23.2 + - - -
61A HIS* 3.2 13.0 + - - -
64A VAL* 3.6 16.5 - - - +
65A MET* 3.5 23.3 - - - +
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Residues in contact with THR 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 GLY 2.7 23.1 + - - -
28A MET* 3.7 6.2 - - - +
30A GLY* 1.3 76.0 - - - +
32A ALA* 1.3 60.3 + - - +
34A SER* 2.7 26.3 + - - +
35A LEU* 2.9 29.6 + - + +
65A MET* 3.6 11.1 - - - +
461A SER 6.0 0.2 - - - -
462A LEU* 4.8 9.0 - - + +
465A VAL* 4.4 33.0 - - + +
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Residues in contact with ALA 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 MET 3.0 17.2 + - - +
29A VAL* 3.8 6.1 - - - +
31A THR* 1.3 76.9 - - - +
33A LEU* 1.4 63.2 + - - +
35A LEU* 3.1 13.7 + - - +
36A LEU* 3.0 32.1 + - + +
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Residues in contact with LEU 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 VAL* 3.0 41.5 + - + +
30A GLY* 3.8 2.5 - - - +
32A ALA* 1.4 76.2 - - + +
34A SER* 1.4 61.9 + - - +
36A LEU* 3.2 9.9 + - + -
37A ILE* 3.0 20.2 + - - +
57A VAL* 3.4 45.3 - - + +
60A ALA* 3.8 18.4 - - + +
61A HIS* 3.7 35.0 - - + +
64A VAL* 4.2 3.8 - - + -
113A LEU* 6.4 0.4 - - + -
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Residues in contact with SER 34 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30A GLY 3.0 8.8 + - - -
31A THR* 2.7 25.2 + - - +
33A LEU* 1.4 76.1 - - - +
35A LEU* 1.3 65.9 + - - +
37A ILE* 3.3 11.9 + - - +
38A ARG* 3.1 27.6 + - - +
61A HIS* 3.5 30.2 + - - -
65A MET* 5.1 2.1 - - - +
458A SER* 5.8 2.2 - - - -
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Residues in contact with LEU 35 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31A THR* 2.9 28.8 + - + +
32A ALA* 3.1 11.0 + - - +
34A SER* 1.3 77.6 + - - +
36A LEU* 1.3 62.5 + - + +
38A ARG* 3.3 2.9 + - - +
39A ALA* 2.8 29.9 + - - +
458A SER* 3.4 42.0 - - - +
459A PHE* 4.2 19.5 - - + -
462A LEU* 3.8 37.9 - - + -
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Residues in contact with LEU 36 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32A ALA* 3.0 24.9 + - + +
33A LEU* 3.4 16.6 - - + +
35A LEU* 1.3 75.0 - - + +
37A ILE* 1.3 65.7 + - - +
39A ALA* 3.2 9.3 + - + +
40A GLU* 3.0 23.4 + - - +
47A LEU* 5.2 2.7 - - + +
48A LEU* 4.8 23.5 - - + +
54A TYR* 5.2 0.8 - - - -
57A VAL* 4.0 22.0 - - + -
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Residues in contact with ILE 37 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33A LEU 3.0 16.1 + - - +
34A SER* 3.4 10.1 - - - +
36A LEU* 1.3 78.1 - - - +
38A ARG* 1.3 70.4 + - + +
40A GLU* 3.3 5.4 + - - +
41A LEU* 3.3 28.4 + - + +
54A TYR* 3.5 26.9 - - + +
57A VAL* 3.7 13.2 - - + +
58A VAL* 3.9 28.7 - - + -
61A HIS* 3.6 37.7 - - + +
371A TYR* 5.0 3.8 - - - +
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Residues in contact with ARG 38 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34A SER* 3.1 17.2 + - - +
35A LEU 4.0 2.2 - - - +
37A ILE* 1.3 83.3 - - + +
39A ALA* 1.3 61.1 + - - +
41A LEU* 3.4 30.0 + - - +
42A GLY 2.9 12.8 + - - -
371A TYR* 4.2 8.7 + - - -
424A THR* 4.2 8.1 - - + -
425A PHE* 6.1 0.7 - - - -
428A GLN* 3.3 22.6 - - - +
431A LEU* 5.9 0.2 - - - +
451A ASN* 3.0 47.9 + - - +
454A SER* 3.2 30.8 + - - -
455A SER* 2.5 46.3 + - - +
458A SER* 3.4 28.3 - - - +
459A PHE* 6.3 1.1 - - - -
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Residues in contact with ALA 39 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35A LEU 2.8 17.6 + - - +
36A LEU* 3.2 10.3 + - + +
38A ARG* 1.3 76.7 - - - +
40A GLU* 1.3 65.4 + - - +
41A LEU 3.3 0.5 + - - -
42A GLY 3.3 0.5 + - - -
47A LEU* 3.6 19.4 - - + +
459A PHE* 5.6 4.0 - - + -
99D GLU* 3.9 18.2 - - - +
103D VAL* 6.1 0.7 - - + -
104D TYR* 2.7 35.2 + - - +
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Residues in contact with GLU 40 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36A LEU 3.0 11.7 + - - +
37A ILE 3.5 9.6 - - - +
39A ALA* 1.3 76.5 - - - +
41A LEU* 1.3 59.4 + - + +
43A GLN 3.7 11.4 - - - +
45A GLY 3.3 2.1 - - - +
46A THR* 3.2 16.3 + - - -
47A LEU* 3.0 30.3 + - + +
48A LEU* 3.0 40.4 + - + +
50A ASP 5.7 0.2 + - - -
51A ASP* 5.2 2.0 - - - +
54A TYR* 3.6 29.9 - - + +
441A SER* 3.1 34.2 - - - +
104D TYR* 5.5 0.5 - - - -
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Residues in contact with LEU 41 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37A ILE* 3.3 17.7 + - + +
38A ARG* 3.6 28.7 - - - +
39A ALA 3.1 0.6 - - - -
40A GLU* 1.3 75.9 - - - +
42A GLY* 1.3 59.6 + - - +
43A GLN 3.2 4.0 - - - -
54A TYR* 3.5 17.5 - - + +
371A TYR* 3.3 28.0 - - + +
436A MET* 4.5 4.3 - - + -
440A TYR 3.3 21.1 - - - +
441A SER* 3.7 20.4 - - - +
442A ASP 4.0 0.4 - - - +
443A TYR* 2.8 46.5 + - + -
451A ASN* 3.5 13.6 - - - +
455A SER* 3.7 0.8 + - - -
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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