Contacts of the helix formed by residues 13 - 41 (chain A) in PDB entry 2FG8
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 13 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9A ARG* 3.4 5.8 + - - -
11A ASN 3.9 3.6 + - - -
12A TYR* 1.3 72.0 - - - +
14A THR* 1.3 66.4 + - - +
15A ASP* 3.1 22.2 + - - +
16A VAL* 2.8 38.7 - - - +
17A GLU* 3.0 7.3 + - - +
124A ARG* 3.3 35.2 + - - -
126A ASP* 4.4 1.0 + - - -
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Residues in contact with THR 14 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9A ARG* 3.5 15.0 - - - +
12A TYR 3.7 0.8 + - - -
13A SER* 1.3 72.9 - - - +
15A ASP* 1.3 83.1 + - - +
17A GLU* 3.4 6.4 + - - +
18A ALA* 3.2 21.5 + - - +
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Residues in contact with ASP 15 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13A SER* 3.2 1.0 + - - +
14A THR* 1.3 89.4 - - - +
16A VAL* 1.3 54.9 + - - +
18A ALA* 3.0 9.4 + - - +
19A ALA* 2.7 32.9 + - - +
120A LEU* 4.0 16.8 - - + +
124A ARG* 2.6 48.1 + - - +
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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 TYR* 3.8 20.2 - - + -
13A SER* 2.8 51.5 + - - +
15A ASP* 1.3 76.0 - - - +
17A GLU* 1.3 56.0 + - - +
19A ALA* 3.0 8.9 + - - +
20A VAL* 2.8 37.2 + - + +
117A LEU* 4.1 2.9 - - + -
120A LEU* 3.9 12.4 - - + +
121A GLY* 5.3 2.5 - - - -
124A ARG* 5.4 1.3 - - + -
126A ASP* 4.1 6.3 - - - +
129A LEU* 3.1 34.5 - - + -
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Residues in contact with GLU 17 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9A ARG* 2.6 35.8 + - - +
12A TYR* 3.7 18.4 - - + -
13A SER 3.0 12.7 + - - +
14A THR* 3.5 10.9 + - - +
16A VAL* 1.3 76.2 - - - +
18A ALA* 1.3 62.9 + - - +
20A VAL* 3.2 20.6 - - - +
21A ASN* 3.2 14.8 + - - +
73A GLN* 3.7 18.6 - - - +
78A GLY* 3.6 1.3 - - - -
79A ARG* 2.7 36.5 + - - +
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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 THR 3.2 9.2 + - - +
15A ASP* 3.0 10.4 + - - +
17A GLU* 1.3 81.0 - - - +
19A ALA* 1.3 62.5 + - - +
21A ASN* 3.3 12.6 + - - +
22A SER* 3.1 22.6 + - - -
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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
----------------------------------------------------------
15A ASP 2.7 13.3 + - - +
16A VAL* 3.1 17.9 - - - +
18A ALA* 1.3 78.8 - - - +
20A VAL* 1.3 54.3 + - - +
22A SER* 3.2 9.6 - - - -
23A LEU* 3.0 24.1 + - - +
117A LEU* 4.3 18.9 - - + +
120A LEU* 3.9 15.7 - - + -
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Residues in contact with VAL 20 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12A TYR* 3.5 12.6 - - - +
16A VAL* 2.8 33.5 + - + +
17A GLU 3.2 4.5 - - - +
19A ALA* 1.3 68.6 - - - +
21A ASN* 1.3 60.8 + - - +
22A SER 3.0 1.6 - - - -
23A LEU* 2.8 10.5 + - - +
24A VAL* 2.7 42.6 + - + +
69A LEU* 5.2 7.2 - - + +
72A MET* 4.1 20.2 - - + -
73A GLN* 3.0 42.8 - - + +
117A LEU* 4.3 13.5 - - + -
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Residues in contact with ASN 21 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17A GLU* 3.2 21.0 + - - +
18A ALA* 3.6 11.3 - - - +
20A VAL* 1.3 81.4 - - - +
22A SER* 1.3 61.9 + - - +
24A VAL* 3.3 15.4 - - - +
25A ASN* 3.2 21.1 + - - +
70A LEU* 5.3 1.6 - - - +
73A GLN* 2.9 19.1 + - - +
79A ARG 3.4 16.0 + - - -
80A ALA* 3.3 6.2 - - - +
81A LEU* 3.3 48.8 + - + +
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Residues in contact with SER 22 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18A ALA 3.1 13.2 + - - -
19A ALA* 3.2 13.5 - - - -
20A VAL 3.0 0.2 - - - -
21A ASN* 1.3 74.9 - - - +
23A LEU* 1.3 65.4 + - - +
25A ASN* 3.1 9.9 + - - +
26A LEU* 3.0 19.8 + - - +
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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 ALA 3.0 12.9 + - - +
20A VAL* 2.8 10.8 + - - +
22A SER* 1.3 76.8 - - - +
24A VAL* 1.3 57.3 + - - +
26A LEU* 3.0 14.7 + - + +
27A TYR* 2.9 40.5 + - + -
69A LEU* 3.6 28.9 - - + -
113A ALA* 3.7 37.7 - - + +
114A LEU* 3.8 24.7 - - + -
117A LEU* 3.8 23.8 - - + -
133A LEU* 5.7 0.4 - - + -
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Residues in contact with VAL 24 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
20A VAL* 2.7 32.6 + - + +
21A ASN* 3.3 14.6 - - - +
23A LEU* 1.3 73.2 - - - +
25A ASN* 1.3 64.7 + - + +
27A TYR* 3.4 1.0 + - - +
28A LEU* 2.8 42.2 + - + +
66A TYR* 3.9 13.8 - - + +
69A LEU* 4.0 23.8 - - + -
70A LEU* 3.6 35.9 - - + +
81A LEU 5.3 3.6 - - - +
82A PHE* 4.6 10.1 - - + -
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Residues in contact with ASN 25 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21A ASN 3.2 8.5 + - - +
22A SER* 3.1 11.5 + - - +
24A VAL* 1.3 82.4 - - + +
26A LEU* 1.3 58.1 + - - +
28A LEU* 3.6 8.4 - - + +
29A GLN* 3.0 41.9 + - - +
83A GLN* 3.5 26.9 + - + +
84A ASP 2.8 29.3 + - - +
85A ILE* 4.6 4.9 - - - +
86A LYS* 5.5 0.3 + - - +
32D TYR* 4.5 3.6 + - - -
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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 SER 3.0 11.2 + - - +
23A LEU* 3.0 15.7 + - + +
25A ASN* 1.3 77.9 - - - +
27A TYR* 1.3 53.0 + - - +
29A GLN* 3.3 13.9 + - - +
30A ALA* 2.7 34.0 + - - +
106A LEU* 5.8 0.2 - - - +
109A LYS* 3.6 32.5 + - + +
110A LEU* 3.5 28.0 - - + -
113A ALA* 3.4 32.8 - - + -
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Residues in contact with TYR 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 39.4 + - + +
24A VAL* 4.5 0.4 - - - -
26A LEU* 1.3 74.1 - - - +
28A LEU* 1.3 64.1 - - - +
30A ALA* 3.1 5.5 + - - +
31A SER* 2.8 26.2 + - - -
61A GLU 5.4 0.4 - - - -
62A LYS* 3.6 45.4 - - + +
65A GLY* 4.1 10.5 - - - -
66A TYR* 3.8 22.9 - - + +
69A LEU* 4.4 3.8 - - + -
110A LEU* 3.6 25.9 - - + +
114A LEU* 3.6 16.3 - - + +
137A PHE* 3.5 32.6 - + - -
140A GLU* 5.7 4.1 + - - -
141A GLU* 3.2 19.4 + - - +
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Residues in contact with LEU 28 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24A VAL* 2.8 28.7 + - + +
25A ASN* 3.6 13.9 - - + +
27A TYR* 1.3 76.6 - - - +
29A GLN* 1.3 65.7 + - - +
31A SER* 3.1 4.0 + - - -
32A TYR* 2.9 21.1 + - - +
66A TYR* 3.4 44.4 - - + +
82A PHE* 4.3 9.9 - - + -
85A ILE* 4.0 26.3 - - + +
32D TYR* 3.4 34.1 - - + +
35D LEU* 4.1 9.9 - - + -
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Residues in contact with GLN 29 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25A ASN* 3.0 28.9 + - - +
26A LEU* 3.3 14.4 - - + +
28A LEU* 1.3 80.2 - - - +
30A ALA* 1.3 62.6 + - - +
32A TYR* 3.0 12.0 + - - +
33A THR* 2.9 21.8 + - + +
85A ILE* 4.0 12.7 - - + +
86A LYS* 3.4 46.4 - - + +
87A LYS 5.0 3.3 - - - +
88A PRO* 6.3 0.7 - - + -
109A LYS* 4.8 14.8 + - - +
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Residues in contact with ALA 30 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26A LEU 2.7 18.2 + - - +
27A TYR* 3.1 9.2 + - - +
29A GLN* 1.3 72.1 - - - +
31A SER* 1.3 63.8 + - - +
33A THR* 3.1 24.1 + - - +
34A TYR* 3.1 17.5 + - - -
62A LYS* 4.1 9.0 - - + -
106A LEU* 4.1 17.3 - - + -
109A LYS* 6.1 0.4 - - - +
110A LEU* 3.7 28.0 - - + -
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Residues in contact with SER 31 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27A TYR 2.8 15.9 + - - -
28A LEU 3.2 10.5 - - - -
30A ALA* 1.3 72.5 - - - +
32A TYR* 1.3 63.1 + - - +
34A TYR* 3.2 3.8 + - - +
35A LEU* 2.9 23.3 + - - +
59A ALA* 3.2 23.7 + - - +
62A LYS* 3.7 18.7 - - - +
63A ARG* 4.1 8.5 + - - +
66A TYR* 4.3 13.4 + - - -
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Residues in contact with TYR 32 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28A LEU 2.9 11.9 + - - +
29A GLN* 3.0 11.9 + - - +
31A SER* 1.3 77.2 - - - +
33A THR* 1.3 62.1 + - - +
35A LEU* 3.3 16.2 + - + +
36A SER 3.1 17.5 + - - -
85A ILE* 3.7 13.0 - - + -
86A LYS 3.4 19.3 - - - +
87A LYS* 3.8 11.9 - - - -
88A PRO* 3.7 11.2 - - + +
25D ASN* 4.5 0.7 + - - -
28D LEU* 3.4 26.6 - - + +
82D PHE* 3.4 37.6 - + + +
83D GLN 2.6 30.8 + - - -
85D ILE* 3.6 25.0 - - + +
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Residues in contact with THR 33 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29A GLN* 2.9 23.7 + - + +
30A ALA* 3.1 17.0 - - - +
32A TYR* 1.3 74.9 - - - +
34A TYR* 1.3 51.3 + - - +
36A SER* 3.1 4.0 + - - -
37A LEU* 2.7 50.6 + - - +
88A PRO* 3.6 29.6 - - + +
89A ALA 5.3 0.9 - - - -
93A TRP* 4.2 6.6 - - - -
106A LEU* 3.9 18.5 - - + +
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Residues in contact with TYR 34 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30A ALA 3.1 20.5 + - - -
31A SER 3.2 2.2 + - - +
33A THR* 1.3 74.3 + - - +
35A LEU* 1.3 57.0 + - - +
37A LEU* 3.4 9.5 - - + +
38A GLY* 2.7 32.2 + - - -
55A PHE* 3.7 34.9 - + - +
56A ARG 4.8 0.2 + - - -
58A LEU* 3.9 22.2 - - + -
59A ALA* 3.7 21.8 - - + -
62A LYS* 3.8 23.1 - - + -
103A ALA* 3.3 38.9 + - + -
106A LEU* 3.7 18.5 - - + +
107A GLU* 2.9 32.6 + - - +
148A MET* 3.5 5.7 - - - +
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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 SER 2.9 12.5 + - - +
32A TYR* 3.4 24.5 - - + +
33A THR 3.2 0.2 - - - -
34A TYR* 1.3 75.9 - - - +
36A SER* 1.3 62.9 + - - +
38A GLY* 3.2 2.6 + - - -
39A PHE* 3.2 56.9 + - + -
56A ARG* 5.5 2.7 - - - +
59A ALA* 3.9 11.6 - - + +
28D LEU* 4.3 6.1 - - + -
66D TYR* 4.0 23.8 - - + +
67D GLU* 4.0 25.6 - - + +
70D LEU* 4.8 1.6 - - + -
82D PHE* 4.1 23.6 - - + -
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Residues in contact with SER 36 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32A TYR 3.1 9.4 + - - -
33A THR 3.1 8.0 + - - -
35A LEU* 1.3 81.7 - - - +
37A LEU* 1.3 63.7 + - - +
38A GLY 3.2 0.3 + - - -
39A PHE* 3.2 1.6 + - - +
40A TYR* 3.0 23.4 + - - +
88A PRO* 3.8 16.8 - - - +
90A GLU 4.2 5.7 + - - -
91A ASP* 4.7 6.2 + - - -
93A TRP* 3.3 18.1 + - - -
82D PHE* 3.7 32.4 - - - -
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Residues in contact with LEU 37 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33A THR* 2.7 41.6 + - - +
34A TYR* 3.4 19.3 - - + +
36A SER* 1.3 74.2 + - - +
38A GLY* 1.3 62.6 + - - +
40A TYR* 3.3 8.1 + - - +
41A PHE* 3.3 22.4 - - + -
55A PHE* 3.6 40.4 - - + -
93A TRP* 3.3 54.7 - - + +
99A ALA* 4.0 13.9 - - + +
102A ALA* 5.6 2.9 - - + -
103A ALA* 5.6 3.1 - - + +
106A LEU* 6.0 0.2 - - + -
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Residues in contact with GLY 38 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34A TYR 2.7 18.5 + - - -
35A LEU 3.6 3.8 - - - -
36A SER 3.1 0.2 - - - -
37A LEU* 1.3 75.4 - - - +
39A PHE* 1.3 62.7 + - - +
40A TYR 3.4 0.5 + - - -
41A PHE 3.4 6.6 + - - -
42A ASP* 3.5 2.6 + - - +
52A SER* 2.9 41.4 + - - -
55A PHE* 3.8 4.9 - - - +
56A ARG* 4.2 10.8 - - - -
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Residues in contact with PHE 39 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35A LEU* 3.2 51.4 + - + +
36A SER 4.2 2.9 - - - +
38A GLY* 1.3 74.1 - - - +
40A TYR* 1.3 64.8 + - - +
42A ASP* 3.2 12.8 + - + -
43A ARG* 3.4 6.2 + - - +
56A ARG* 3.4 39.5 - - - -
67D GLU* 3.7 14.1 - - + -
70D LEU* 3.4 43.3 - - + -
71D LYS* 3.6 18.4 - - + -
74D ASN* 3.1 34.5 + - - +
80D ALA* 5.1 11.9 - - + -
82D PHE* 5.1 4.0 - + + -
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Residues in contact with TYR 40 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36A SER 3.0 12.4 + - - +
37A LEU 3.4 8.5 - - - +
38A GLY 3.2 0.2 - - - -
39A PHE* 1.3 78.4 - - - +
41A PHE* 1.3 85.9 + + - +
42A ASP 3.1 0.2 - - - -
43A ARG* 3.2 57.7 + - - +
46A VAL* 3.4 28.3 - - + +
91A ASP 4.3 4.5 - - - +
92A GLU* 3.8 14.2 - - + +
93A TRP* 3.4 39.3 - + + +
94A GLY* 2.8 41.3 + - - -
----------------------------------------------------------
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Residues in contact with PHE 41 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37A LEU* 3.3 22.4 + - + -
38A GLY 3.4 2.3 + - - +
39A PHE 3.3 0.4 - - - -
40A TYR* 1.3 100.5 - + - +
42A ASP* 1.3 57.9 + - - +
43A ARG 3.3 2.0 - - - -
46A VAL* 3.3 24.0 - - + -
47A ALA* 3.6 4.5 + - - -
48A LEU* 3.1 46.6 + - + +
49A GLU 4.5 0.5 + - - -
51A VAL* 3.3 30.5 - - + -
52A SER* 3.8 25.9 - - - +
55A PHE* 3.6 10.5 - + - -
94A GLY 4.1 4.5 - - - -
96A THR* 4.1 18.2 - - - -
99A ALA* 3.5 33.9 - - + -
167A GLU* 4.8 0.7 - - - -
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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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