Contacts of the helix formed by residues 4 - 36 (chain G) in PDB entry 2FL0
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 ASP 4 (chain G).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3G GLY* 1.3 71.3 - - - -
5G LYS* 1.3 60.0 - - - +
6G ILE* 2.9 12.3 + - - +
7G VAL* 2.9 45.7 + - + +
8G ILE* 2.9 32.7 + - - +
65G LEU* 5.1 0.2 - - - +
107G TYR* 3.3 22.8 + - - -
111G VAL* 4.1 14.4 - - + +
113G ASP* 5.3 3.1 + - + +
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Residues in contact with LYS 5 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3G GLY 3.6 3.2 + - - -
4G ASP* 1.3 73.3 + - - +
6G ILE* 1.3 74.1 + - + +
8G ILE* 3.2 11.1 + - + +
9G GLN* 3.0 48.4 + - + +
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Residues in contact with ILE 6 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
4G ASP* 2.9 12.0 + - - +
5G LYS* 1.3 88.8 - - + +
7G VAL* 1.3 66.1 + - - +
9G GLN* 3.2 17.3 + - + +
10G HIS* 3.1 34.6 + - + +
107G TYR* 3.1 37.9 - - + +
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Residues in contact with VAL 7 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
4G ASP* 2.9 35.4 + - + +
6G ILE* 1.3 77.3 - - - +
8G ILE* 1.3 61.8 + - - +
10G HIS* 3.3 7.6 + - - +
11G LEU* 3.0 36.8 + - + +
65G LEU* 4.6 4.5 - - + -
107G TYR* 3.5 15.0 - - + -
108G CYS* 4.2 14.8 - - - -
111G VAL* 3.5 26.0 - - + -
113G ASP* 3.6 25.8 - - + +
116G SER* 4.2 3.1 - - - +
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Residues in contact with ILE 8 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3G GLY* 4.7 4.0 - - - -
4G ASP 2.9 30.0 + - - +
5G LYS* 3.4 9.6 - - - +
7G VAL* 1.3 75.8 - - - +
9G GLN* 1.3 59.4 + - + +
11G LEU* 3.5 6.7 + - - +
12G ASN* 3.0 35.8 + - - +
62G ILE* 3.9 23.8 - - + +
65G LEU* 3.2 51.1 - - + +
67G GLY* 4.2 15.9 - - - -
68G LEU 4.6 1.6 - - - +
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Residues in contact with GLN 9 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
5G LYS* 3.0 42.9 + - + +
6G ILE* 3.2 19.2 + - + +
8G ILE* 1.3 76.7 - - + +
10G HIS* 1.3 62.4 + - + +
12G ASN* 3.2 9.8 + - - +
13G LYS* 2.8 28.8 + - - +
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Residues in contact with HIS 10 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
6G ILE* 3.1 39.1 + - + +
7G VAL* 3.3 7.8 + - + +
9G GLN* 1.3 77.4 - - + +
11G LEU* 1.3 59.8 + - + +
13G LYS* 2.9 12.2 + - - +
14G ILE* 2.8 33.9 + - - +
100G ASP 4.8 2.4 + - - -
103G ALA* 3.9 23.1 - - + +
104G ALA* 3.9 27.1 + - + +
107G TYR* 3.6 32.9 - + + +
108G CYS* 6.0 1.8 - - - -
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Residues in contact with LEU 11 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7G VAL* 3.0 28.3 + - + +
8G ILE* 3.6 10.8 - - - +
10G HIS* 1.3 77.9 - - + +
12G ASN* 1.3 57.1 + - - +
14G ILE* 3.3 6.1 + - + +
15G LEU* 2.8 29.6 + - - +
58G LEU* 4.4 13.8 - - + +
61G ARG* 4.0 14.1 - - + -
62G ILE* 3.6 24.1 - - + +
65G LEU* 3.6 30.5 - - + -
108G CYS* 5.3 0.4 - - - -
116G SER* 4.3 7.6 - - - +
119G LEU* 5.5 0.9 - - + -
120G LEU* 3.7 36.6 - - + -
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Residues in contact with ASN 12 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8G ILE* 3.0 32.1 + - - +
9G GLN* 3.2 10.5 + - - +
11G LEU* 1.3 72.9 - - - +
13G LYS* 1.3 61.1 + - - +
15G LEU* 3.5 6.5 - - - +
16G GLY* 2.8 27.4 + - - -
62G ILE* 3.5 13.6 - - - +
68G LEU 3.5 16.5 + - - +
70G ASN* 3.1 37.5 + - + +
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Residues in contact with LYS 13 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9G GLN 2.8 14.7 + - - +
10G HIS* 3.1 16.2 - - - +
12G ASN* 1.3 76.8 - - - +
14G ILE* 1.3 64.4 + - + +
16G GLY* 3.1 11.1 + - - -
17G ASN* 3.2 29.5 + - - +
100G ASP* 3.2 41.9 + - + +
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Residues in contact with ILE 14 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10G HIS* 2.8 25.1 + - + +
11G LEU* 3.6 8.1 - - - +
13G LYS* 1.3 72.9 - - + +
15G LEU* 1.3 63.5 + - - +
17G ASN* 3.1 19.2 + - + +
18G GLU* 3.1 27.3 + - - +
58G LEU* 3.8 22.9 - - + -
97G GLY 5.1 0.4 - - - +
100G ASP* 3.6 43.5 - - + +
101G LEU* 3.7 31.6 - - + +
104G ALA* 4.2 9.6 - - + -
120G LEU* 4.5 5.6 - - + -
123G ILE* 5.3 2.0 - - + -
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Residues in contact with LEU 15 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11G LEU 2.8 21.7 + - - +
12G ASN* 3.5 11.0 - - - +
14G ILE* 1.3 74.4 - - - +
16G GLY* 1.3 61.6 + - - +
18G GLU* 3.1 1.6 + - - +
19G LEU* 3.1 35.5 + - + +
55G ALA* 3.8 39.9 - - + +
58G LEU* 3.5 15.0 - - + +
59G ILE* 3.8 15.7 - - + +
62G ILE* 4.5 5.6 - - + -
69G PRO* 4.3 5.2 - - + -
70G ASN 4.1 18.8 - - - +
71G LEU* 3.5 23.8 - - + -
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Residues in contact with GLY 16 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12G ASN 2.8 14.5 + - - -
13G LYS* 3.1 5.1 + - - -
15G LEU* 1.3 79.6 - - - +
17G ASN* 1.3 61.3 + - - +
18G GLU 3.4 0.2 + - - -
19G LEU* 3.5 11.9 + - - +
20G ILE* 3.4 25.5 + - - +
70G ASN 5.3 3.1 + - - -
73G GLU 4.8 10.8 - - - +
75G GLY 5.3 0.2 + - - -
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Residues in contact with ASN 17 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13G LYS* 3.2 26.6 + - - +
14G ILE* 3.1 12.6 + - + +
16G GLY* 1.3 76.6 - - - +
18G GLU* 1.3 65.3 + - + +
20G ILE* 3.3 18.0 + - - +
21G ALA* 3.1 21.2 + - - +
93G LEU* 5.2 8.3 - - + +
97G GLY* 4.3 14.0 - - - +
100G ASP* 3.0 31.3 + - - +
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Residues in contact with GLU 18 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14G ILE* 3.1 20.9 + - - +
15G LEU* 3.1 7.6 + - - +
17G ASN* 1.3 74.8 - - - +
19G LEU* 1.3 67.5 + - - +
21G ALA* 3.0 6.6 + - - +
22G ILE* 2.9 27.2 + - - +
51G GLU* 2.4 23.0 - - - +
54G HIS* 3.5 11.9 - - + +
55G ALA* 4.4 9.2 - - + -
58G LEU* 3.7 18.3 - - + +
101G LEU* 5.6 0.9 - - - +
123G ILE* 3.5 14.6 - - - +
127G GLU* 3.1 6.8 - - - +
1618G FE2 2.3 31.7 - - - -
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Residues in contact with LEU 19 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
15G LEU* 3.1 28.4 + - + +
16G GLY* 3.8 8.5 - - - +
17G ASN 3.4 0.2 - - - -
18G GLU* 1.3 75.3 - - - +
20G ILE* 1.3 62.1 + - - +
22G ILE* 3.2 25.4 - - + +
23G ASN* 3.4 14.7 + - - +
55G ALA* 4.4 3.8 - - + -
70G ASN 4.0 7.0 - - - +
71G LEU* 3.7 44.0 - - + +
73G GLU 4.7 6.7 - - - +
74G LEU* 4.1 12.6 - - + -
3004G HEM 3.6 37.5 - - + -
23H ASN* 4.9 4.0 - - - +
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Residues in contact with ILE 20 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16G GLY 3.4 17.0 - - - +
17G ASN* 3.3 19.0 + - - +
18G GLU 3.1 0.4 - - - -
19G LEU* 1.3 75.0 - - - +
21G ALA* 1.3 66.6 + - - +
22G ILE 3.1 0.3 + - - -
23G ASN 3.2 1.9 + - - -
24G GLN* 3.1 22.3 + - - +
74G LEU* 3.8 5.4 - - + -
75G GLY* 3.4 40.4 - - - +
76G LYS 3.9 15.0 - - - +
77G LEU* 3.3 26.9 - - + +
93G LEU* 4.2 22.4 - - + -
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Residues in contact with ALA 21 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17G ASN 3.1 9.4 + - - +
18G GLU* 3.0 10.2 + - - +
20G ILE* 1.3 79.1 - - - +
22G ILE* 1.3 57.4 + - - +
25G TYR* 2.9 52.9 + - + +
51G GLU* 3.7 26.0 - - + +
93G LEU* 3.6 18.8 - - + +
94G GLU* 5.1 2.7 - - - +
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Residues in contact with ILE 22 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18G GLU 2.9 18.8 + - - +
19G LEU* 3.2 22.0 - - + +
21G ALA* 1.3 77.3 - - - +
23G ASN* 1.3 65.1 + - - +
26G PHE* 2.9 26.5 + - - +
48G SER* 3.3 12.2 + - - +
51G GLU* 3.7 26.0 - - + +
52G MET* 3.8 33.0 - - + +
55G ALA* 4.0 4.9 - - + -
3004G HEM 3.8 52.5 - - + -
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Residues in contact with ASN 23 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19G LEU 3.4 10.9 + - - +
20G ILE 3.2 6.0 + - - +
22G ILE* 1.3 75.3 - - - +
24G GLN* 1.3 61.1 + - - +
26G PHE* 3.8 4.4 - - - +
27G LEU* 2.9 34.0 + - - +
74G LEU* 4.0 20.6 - - - +
77G LEU* 4.2 9.0 - - + -
79G ILE* 5.6 0.2 - - - -
3004G HEM 3.4 27.1 - - - +
19H LEU* 5.2 4.0 - - - +
71H LEU* 3.3 45.3 + - + +
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Residues in contact with GLN 24 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
20G ILE* 3.1 17.1 + - - +
21G ALA 4.0 3.4 - - - +
23G ASN* 1.3 78.3 - - - +
25G TYR* 1.3 59.8 + - + +
27G LEU* 3.8 0.9 - - - +
28G HIS* 2.9 51.6 + - + +
77G LEU* 3.7 9.6 - - + +
78G LEU* 2.7 45.7 - - - +
79G ILE* 4.3 13.0 - - + -
89G CYS 3.4 17.5 - - - +
90G ASP* 3.1 20.1 + - - +
93G LEU* 3.5 23.0 - - + +
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Residues in contact with TYR 25 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21G ALA* 2.9 26.6 + - + +
24G GLN* 1.3 74.7 - - + +
26G PHE* 1.3 55.9 + - - +
29G ALA* 2.7 37.4 + - - +
44G GLU* 3.4 24.5 - - - +
47G GLU* 3.8 20.6 - - + -
48G SER* 3.9 8.3 - - - -
51G GLU* 3.2 37.9 - - + -
90G ASP* 3.3 45.8 + - + -
93G LEU* 3.9 17.6 - - + +
94G GLU* 2.9 37.7 + - + +
130G HIS* 5.6 0.2 - + - -
134G LEU* 6.0 0.2 - - + -
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Residues in contact with PHE 26 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22G ILE 2.9 20.0 + - - +
23G ASN* 3.8 3.8 - - - +
25G TYR* 1.3 77.4 - - - +
27G LEU* 1.3 65.1 + - - +
29G ALA* 3.2 6.0 + - - +
30G ARG* 2.9 37.6 + - + +
45G TYR* 3.7 26.5 - + - -
48G SER* 3.5 18.1 + - - -
52G MET* 4.0 6.3 - - + -
3004G HEM 3.2 62.1 - + + -
56H ASP* 3.2 41.5 - - + -
59H ILE* 4.7 7.9 - - + -
71H LEU* 5.6 0.9 - - + -
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Residues in contact with LEU 27 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23G ASN 2.9 17.7 + - - +
24G GLN 3.8 2.7 - - - +
26G PHE* 1.3 78.0 - - - +
28G HIS* 1.3 65.6 + - - +
30G ARG* 3.0 6.7 + - - +
31G MET* 2.9 40.0 + - + +
79G ILE* 3.4 40.8 - - + -
59H ILE* 4.3 9.6 - - + -
63H LEU* 4.6 0.4 - - + -
69H PRO* 3.7 45.1 - - + +
71H LEU* 4.0 24.0 - - + +
----------------------------------------------------------
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Residues in contact with HIS 28 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24G GLN* 2.9 34.2 + - + +
27G LEU* 1.3 74.7 - - - +
29G ALA* 1.3 63.6 + - - +
31G MET* 2.9 10.6 + - - +
32G TYR* 2.9 29.7 + - + -
44G GLU* 3.2 17.9 - - - +
78G LEU 3.5 6.3 + - - -
79G ILE* 3.7 13.8 - - + +
80G GLY 3.2 30.7 - - - -
86G MET* 3.5 39.7 + - + +
90G ASP* 2.8 34.4 + - - -
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Residues in contact with ALA 29 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25G TYR 2.7 22.6 + - - +
26G PHE* 3.3 8.1 - - - +
28G HIS* 1.3 74.5 - - - +
30G ARG* 1.3 69.7 + - - +
32G TYR* 3.4 4.0 + - - +
33G GLU* 3.1 23.4 + - - +
41G GLY* 3.9 8.5 - - - +
44G GLU* 3.7 11.2 - - + +
45G TYR* 3.6 36.6 - - + +
----------------------------------------------------------
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Residues in contact with ARG 30 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26G PHE* 2.9 28.7 + - + +
27G LEU 3.7 2.9 - - - +
29G ALA* 1.3 81.7 - - - +
31G MET* 1.3 57.4 + - - +
33G GLU* 3.0 29.4 + - - +
34G ASP* 3.0 27.2 + - - +
41G GLY 5.5 0.2 + - - -
45G TYR* 3.4 43.7 + - - +
3004G HEM 4.9 0.8 - - - +
56H ASP* 2.7 41.6 + - - +
59H ILE* 3.8 22.2 - - + -
60H LYS* 3.0 32.1 - - + +
63H LEU* 4.3 7.3 - - + +
----------------------------------------------------------
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Residues in contact with MET 31 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27G LEU* 2.9 33.6 + - + +
28G HIS* 2.9 13.7 + - - +
30G ARG* 1.3 76.5 - - - +
32G TYR* 1.3 66.5 + - - +
34G ASP* 3.0 8.9 + - - +
35G TRP* 2.9 59.4 + - + -
79G ILE* 4.4 5.8 - - + -
80G GLY 3.5 24.9 - - - +
81G GLU* 4.6 2.5 - - - -
86G MET* 3.8 14.6 - - + -
63H LEU* 4.3 22.2 - - + -
69H PRO* 6.4 0.2 - - - -
----------------------------------------------------------
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Residues in contact with TYR 32 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28G HIS* 2.9 19.8 + - + -
29G ALA 3.7 0.4 - - - +
31G MET* 1.3 73.4 - - - +
33G GLU* 1.3 65.5 + - - +
35G TRP* 2.9 22.9 + + - +
37G LEU* 2.9 30.8 + - + +
40G LEU* 3.7 40.8 - - + -
41G GLY* 3.6 16.8 - - - +
44G GLU* 3.2 38.7 - - + +
83G THR* 3.7 20.7 + - - -
86G MET* 3.3 42.1 - - + +
87G LEU* 3.5 21.2 + - + +
----------------------------------------------------------
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Residues in contact with GLU 33 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29G ALA 3.1 12.4 + - - +
30G ARG* 3.0 36.6 + - - +
32G TYR* 1.3 80.8 - - - +
34G ASP* 1.3 60.7 + - - +
36G GLY* 3.1 14.0 + - - -
37G LEU 4.7 7.2 - - - +
38G GLU* 5.0 10.9 - - + +
41G GLY* 4.4 9.2 - - - -
45G TYR* 5.8 0.3 - - - +
60H LYS* 3.5 29.1 + - - +
----------------------------------------------------------
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Residues in contact with ASP 34 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30G ARG 3.0 20.1 + - - +
31G MET* 3.0 7.9 + - - +
33G GLU* 1.3 75.8 - - - +
35G TRP* 1.3 70.6 + - - +
36G GLY 3.3 0.4 + - - -
1709G MG 3.8 16.1 - - - -
60H LYS 5.5 0.2 - - - +
63H LEU* 3.8 39.7 - - + +
64H PHE* 4.4 7.4 + - - +
----------------------------------------------------------
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Residues in contact with TRP 35 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31G MET* 2.9 41.8 + - + -
32G TYR* 2.9 18.8 + + - +
34G ASP* 1.3 88.7 + - - +
36G GLY* 1.3 59.5 + - - +
37G LEU* 3.3 30.6 - - + +
81G GLU 3.3 28.7 - - - -
82G HIS* 3.9 3.1 - - - -
83G THR* 4.1 10.5 - - - -
86G MET* 3.4 28.9 - - + -
----------------------------------------------------------
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Residues in contact with GLY 36 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32G TYR 3.0 2.0 + - - -
33G GLU 3.1 10.6 + - - -
34G ASP 3.3 1.0 + - - -
35G TRP* 1.3 80.7 - - - +
37G LEU* 1.3 60.5 + - - +
38G GLU* 2.4 28.4 + - - +
154G MET* 3.6 19.6 - - - +
----------------------------------------------------------
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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