Contacts of the helix formed by residues 26 - 57 (chain G) in PDB entry 6BAA
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 CYS 26 (chain G).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
95C PHE* 4.5 18.1 - - + -
6G CYS* 2.0 51.1 - - + -
12G SER* 5.7 3.4 - - - -
25G GLY* 1.3 74.0 - - - +
27G PHE* 1.3 63.8 + - - +
28G VAL 3.3 0.2 - - - -
29G ASP* 3.2 24.5 + - - +
30G ALA* 3.4 5.8 + - - +
105G HIS* 3.7 20.4 - - - +
106G LEU* 5.3 2.0 - - + -
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Residues in contact with PHE 27 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
92C LEU* 3.5 43.5 - - + -
95C PHE* 4.3 35.2 - + + -
96C ALA* 4.5 16.8 - - + -
15G TYR* 5.9 1.6 - - + -
24G ASN* 3.5 31.8 - - + +
25G GLY 3.2 0.8 - - - -
26G CYS* 1.3 79.3 - - - +
28G VAL* 1.3 58.9 + - + +
30G ALA* 3.0 10.8 + - + +
31G LEU* 2.9 57.6 + - + +
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Residues in contact with VAL 28 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23G ASN 4.3 8.7 - - - +
24G ASN* 3.2 17.7 + - + +
25G GLY* 3.3 21.3 - - - +
27G PHE* 1.3 73.4 - - - +
29G ASP* 1.3 67.7 + - - +
31G LEU* 3.2 18.5 + - + +
32G ASN* 2.8 32.7 + - - +
149G THR 5.3 1.5 - - - +
152G ILE* 4.1 23.8 - - + -
153G LYS* 4.4 25.8 - - + +
156G LYS* 4.8 10.1 - - + -
157G PHE* 5.6 5.8 - - + -
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Residues in contact with ASP 29 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25G GLY 4.0 10.1 - - - +
26G CYS* 3.2 15.0 + - - +
27G PHE 3.2 0.6 - - - -
28G VAL* 1.3 81.7 - - - +
30G ALA* 1.3 56.4 + - - +
32G ASN* 3.1 9.2 + - - +
33G VAL* 3.0 28.5 + - - +
105G HIS* 3.4 32.4 - - + +
106G LEU* 3.4 18.9 - - - +
109G PRO* 4.1 10.7 - - + +
153G LYS* 3.6 28.3 + - - +
157G PHE* 5.3 1.7 - - - -
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Residues in contact with ALA 30 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
88C MET* 5.2 1.7 - - - +
91C TRP* 3.9 29.8 - - + -
92C LEU* 4.1 13.7 - - + +
95C PHE* 5.1 6.3 - - + -
26G CYS 3.4 4.9 + - - +
27G PHE* 3.0 18.2 + - + +
29G ASP* 1.3 76.4 - - - +
31G LEU* 1.3 64.5 + - - +
33G VAL* 3.2 24.5 + - - +
34G VAL* 3.3 12.2 - - - +
105G HIS* 5.3 4.2 - - + -
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Residues in contact with LEU 31 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
92C LEU* 3.8 14.8 - - + -
27G PHE* 2.9 52.5 + - + +
28G VAL* 3.2 26.7 + - + +
30G ALA* 1.3 77.1 - - - +
32G ASN* 1.3 57.9 + - - +
34G VAL* 3.1 10.9 + - + +
35G PRO* 3.0 24.8 - - - +
149G THR* 3.7 22.1 - - + +
152G ILE* 4.8 13.2 - - + -
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Residues in contact with ASN 32 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28G VAL 2.8 23.1 + - - +
29G ASP* 3.1 10.7 + - - +
31G LEU* 1.3 73.0 - - - +
33G VAL* 1.3 67.6 - - - +
34G VAL 3.1 0.4 + - - -
35G PRO* 3.9 4.4 - - - +
36G HIS* 3.2 29.6 + - - +
109G PRO* 4.9 9.4 - - + -
149G THR* 3.1 26.9 + - - +
150G LYS* 3.2 29.9 - - + +
153G LYS* 3.2 34.3 - - - +
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Residues in contact with VAL 33 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
88C MET* 3.6 26.7 - - + -
91C TRP* 5.3 3.8 - - + -
29G ASP 3.0 15.7 + - - +
30G ALA* 3.2 18.6 - - + +
31G LEU 3.1 0.6 - - - -
32G ASN* 1.3 80.7 - - - +
34G VAL* 1.3 65.4 + - - +
36G HIS* 3.1 16.8 + - - +
37G VAL* 3.1 33.5 + - + -
105G HIS* 5.5 6.7 - - + -
109G PRO* 4.4 20.0 - - + -
112G MET* 4.1 15.9 - - + -
----------------------------------------------------------
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Residues in contact with VAL 34 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
85C LEU* 6.3 1.1 - - + -
88C MET* 4.8 12.1 - - + -
89C VAL* 6.1 6.1 - - + -
92C LEU* 4.1 17.3 - - + -
30G ALA 3.3 16.6 - - - +
31G LEU* 3.1 13.3 + - + +
33G VAL* 1.3 76.4 - - - +
35G PRO* 1.3 68.8 - - + +
37G VAL* 3.1 10.2 - - + +
38G PHE* 2.8 39.1 + - + +
145G LEU* 4.7 10.5 - - + -
149G THR* 5.6 0.4 - - + -
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Residues in contact with PRO 35 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31G LEU 3.0 13.5 - - - +
32G ASN 3.9 4.3 - - - +
33G VAL 3.9 0.9 - - - -
34G VAL* 1.3 97.4 - - + +
36G HIS* 1.3 69.8 + - + +
38G PHE* 3.3 5.4 + - + +
39G LEU 2.9 19.9 + - - -
142G TYR* 3.2 20.9 - - + -
145G LEU* 3.7 21.8 - - + -
146G ALA* 3.7 26.5 - - + +
149G THR* 3.7 21.5 - - - +
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Residues in contact with HIS 36 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32G ASN* 3.2 29.3 + - - +
33G VAL* 3.1 4.2 + - - +
35G PRO* 1.3 85.9 - - + +
37G VAL* 1.3 64.3 + - - +
39G LEU* 3.2 4.9 + - - +
40G LEU* 3.2 24.1 - - - +
109G PRO 3.7 10.5 + - - -
112G MET* 3.7 14.6 - - + +
113G ALA* 3.2 40.0 - - + +
116G ALA* 3.5 17.7 - - + -
142G TYR* 3.2 22.2 + - - -
146G ALA* 4.6 7.6 - - + -
149G THR* 6.1 0.2 - - - -
150G LYS* 6.1 4.5 - - + +
179G TYR* 4.2 12.1 - + - -
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Residues in contact with VAL 37 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
85C LEU* 4.7 6.3 - - + -
88C MET* 4.0 26.7 - - + -
33G VAL* 3.1 33.0 + - + +
34G VAL* 3.1 22.2 - - + +
36G HIS* 1.3 75.5 - - - +
38G PHE* 1.3 64.2 + - - +
40G LEU* 3.6 5.9 + - + +
41G PHE* 3.2 48.6 + - + -
112G MET* 3.7 22.2 - - + -
----------------------------------------------------------
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Residues in contact with PHE 38 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
85C LEU* 3.4 33.8 - - + +
34G VAL* 2.8 25.5 + - + +
35G PRO* 3.6 7.0 - - + +
37G VAL* 1.3 77.4 - - - +
39G LEU* 1.3 68.3 + - + +
41G PHE* 3.2 3.1 + - - +
42G ILE* 2.9 63.2 + - + +
138G ALA* 5.0 2.2 - - + -
141G ILE* 4.0 28.5 - - + -
142G TYR* 4.8 12.3 - + + -
145G LEU* 6.5 1.8 - - + -
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Residues in contact with LEU 39 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35G PRO 2.9 17.2 + - - +
36G HIS* 3.2 4.7 + - - +
38G PHE* 1.3 84.4 - - - +
40G LEU* 1.3 65.9 + - + +
42G ILE* 3.2 4.3 - - + +
43G THR* 3.1 43.3 + - + +
116G ALA* 4.0 8.3 - - + +
119G THR* 4.2 12.8 - - - +
120G SER* 3.6 26.9 - - - +
123G TYR* 5.6 3.6 - - + -
139G LEU* 6.4 0.7 - - - -
142G TYR* 3.4 47.8 - - + +
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Residues in contact with LEU 40 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36G HIS* 3.2 18.1 + - + +
37G VAL* 3.9 9.6 - - + +
39G LEU* 1.3 78.8 - - + +
41G PHE* 1.3 74.0 + - + +
43G THR* 3.4 5.7 + - - -
44G PHE* 2.9 50.3 + - + -
112G MET* 5.1 7.6 - - + +
115G MET* 4.6 17.5 - - + -
116G ALA* 3.4 19.1 - - + +
119G THR* 3.4 34.1 - - + +
----------------------------------------------------------
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Residues in contact with PHE 41 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
81C CYS* 3.4 40.2 - - + +
84C LEU* 3.8 39.3 - - + -
85C LEU* 3.7 39.7 - - + -
88C MET* 6.4 0.9 - - + -
37G VAL* 3.2 35.0 + - + +
38G PHE 3.2 3.2 + - - +
39G LEU 3.2 0.4 - - - -
40G LEU* 1.3 91.8 - - + +
42G ILE* 1.3 63.8 + - - +
44G PHE* 4.3 7.4 - + - -
45G PRO* 3.2 21.7 - - - +
----------------------------------------------------------
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Residues in contact with ILE 42 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
85C LEU* 5.4 3.2 - - + +
38G PHE* 2.9 56.7 + - + +
39G LEU* 3.2 14.1 - - + +
41G PHE* 1.3 73.9 - - - +
43G THR* 1.3 73.4 + - + +
45G PRO* 3.9 10.0 - - - +
46G ILE* 4.3 10.7 - - - +
138G ALA* 4.1 22.2 - - + -
141G ILE* 6.1 0.2 - - + -
----------------------------------------------------------
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Residues in contact with THR 43 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39G LEU* 3.1 38.7 + - + +
40G LEU* 3.4 5.4 + - - -
42G ILE* 1.3 86.2 - - + +
44G PHE* 1.3 60.3 + - - +
45G PRO 3.3 2.9 - - - -
46G ILE* 3.2 6.8 + - - +
47G LEU* 2.8 44.6 + - - +
119G THR* 5.0 2.1 - - - -
123G TYR* 3.7 40.7 - - + +
138G ALA* 5.6 2.5 - - + -
----------------------------------------------------------
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Residues in contact with PHE 44 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
77C MET* 4.0 22.0 - - + -
81C CYS* 4.0 15.7 - - - -
40G LEU* 2.9 46.7 + - + +
41G PHE* 4.3 5.6 - + - -
43G THR* 1.3 77.2 - - - +
45G PRO* 1.3 69.6 - - + +
47G LEU* 4.6 13.7 - - + -
48G PHE* 2.9 69.6 + + + -
119G THR* 5.4 9.0 - - + -
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Residues in contact with PRO 45 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
74C ILE* 5.0 10.8 - - + +
77C MET* 5.7 3.6 - - + -
78C SER* 4.3 27.1 - - - +
81C CYS* 4.8 4.7 - - + -
41G PHE 3.2 17.0 - - - +
42G ILE 3.9 7.6 - - - +
43G THR 3.7 0.9 - - - -
44G PHE* 1.3 100.2 - - + +
46G ILE* 1.3 66.7 + - + +
48G PHE* 4.0 4.3 - - + +
49G ILE* 3.4 29.9 + - + +
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Residues in contact with ILE 46 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56C LEU* 5.2 12.0 - - + +
59C VAL* 6.0 7.6 - - + -
42G ILE* 4.3 13.7 - - + +
43G THR* 3.2 9.1 + - - +
45G PRO* 1.3 79.3 - - + +
47G LEU* 1.3 67.9 + - + +
49G ILE* 3.2 19.6 + - + +
50G GLY* 3.4 8.7 + - - -
123G TYR* 4.7 15.5 - - + +
135G LEU* 4.2 26.7 - - + -
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Residues in contact with LEU 47 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43G THR* 2.8 40.4 + - - +
44G PHE* 4.0 15.7 - - + +
46G ILE* 1.3 74.4 - - + +
48G PHE* 1.3 58.6 + - + +
50G GLY* 3.2 4.8 + - - -
51G TRP* 3.0 27.0 + - - +
119G THR* 4.9 18.8 - - + +
122G VAL* 4.6 8.1 - - + -
123G TYR* 3.8 39.9 - - + +
126G ASN* 3.9 22.3 - - + +
----------------------------------------------------------
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Residues in contact with PHE 48 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
73C LEU* 5.2 17.9 - - + -
74C ILE* 4.4 20.6 - - + +
77C MET* 3.8 33.7 - - + -
44G PHE* 2.9 59.0 + + - +
45G PRO* 4.0 4.9 - - + +
47G LEU* 1.3 77.8 - - + +
49G ILE* 1.3 61.6 + - - +
51G TRP* 3.2 28.6 + + + +
52G GLY* 2.9 19.9 + - - -
----------------------------------------------------------
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Residues in contact with ILE 49 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56C LEU* 4.6 13.9 - - + -
59C VAL* 4.2 17.9 - - + +
62C THR* 3.5 30.7 - - + -
63C LEU* 3.3 28.0 - - + -
66C LEU* 4.7 7.3 - - + +
74C ILE* 3.4 27.6 - - + -
45G PRO* 3.4 13.6 + - + +
46G ILE* 3.2 13.8 + - + +
48G PHE* 1.3 77.3 - - - +
50G GLY* 1.3 57.9 + - - +
52G GLY* 3.2 1.8 + - - +
53G SER* 2.8 27.5 + - - -
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Residues in contact with GLY 50 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56C LEU* 5.1 11.1 - - - +
46G ILE 3.4 6.8 + - - -
47G LEU* 3.2 8.2 + - - -
49G ILE* 1.3 77.6 - - - +
51G TRP* 1.3 57.0 + - - +
53G SER* 2.6 23.7 + - - -
54G GLN* 2.9 26.0 + - - +
126G ASN* 5.8 6.5 - - - -
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Residues in contact with TRP 51 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70C HIS* 4.0 27.4 - + - -
73C LEU* 5.2 7.6 - - + -
47G LEU 3.0 13.4 + - - +
48G PHE* 3.5 32.5 - + + +
50G GLY* 1.3 78.2 - - - +
52G GLY* 1.3 66.5 + - - +
54G GLN* 3.5 15.3 + - + +
55G SER* 3.2 25.2 + - - -
----------------------------------------------------------
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Residues in contact with GLY 52 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66C LEU* 4.3 13.1 - - - +
70C HIS* 3.9 20.7 + - - -
48G PHE 2.9 13.6 + - - -
49G ILE* 3.2 4.2 + - - -
51G TRP* 1.3 78.7 - - - +
53G SER* 1.3 58.1 + - - +
55G SER* 2.5 23.3 + - - -
56G SER* 3.0 16.0 + - - -
----------------------------------------------------------
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Residues in contact with SER 53 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55C PHE* 3.8 33.8 - - - -
56C LEU* 5.2 0.6 - - - +
62C THR* 5.4 5.8 - - - -
66C LEU* 4.6 3.1 - - - +
49G ILE* 2.8 15.3 + - - -
50G GLY* 2.6 28.5 + - - -
52G GLY* 1.3 76.9 - - - +
54G GLN* 1.3 59.5 + - - +
56G SER* 3.0 8.9 + - - -
57G LYS 2.8 38.4 + - - +
----------------------------------------------------------
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Residues in contact with GLN 54 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
50G GLY 2.9 22.0 + - - +
51G TRP* 3.8 14.9 - - + +
53G SER* 1.3 78.9 + - - +
55G SER* 1.3 60.2 + - - +
57G LYS 4.5 0.4 - - - -
58G VAL* 3.3 31.7 + - + +
61G HIS* 5.4 8.1 - - + -
125G HIS* 6.3 0.8 - - - -
126G ASN* 4.0 20.8 - - - +
129G THR* 5.3 9.3 - - - +
----------------------------------------------------------
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Residues in contact with SER 55 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67C LYS* 5.1 10.7 + - - -
70C HIS* 3.3 24.2 - - - -
51G TRP* 3.2 18.2 + - - -
52G GLY 2.5 24.3 + - - -
54G GLN* 1.3 80.1 - - - +
56G SER* 1.3 60.4 + - - +
----------------------------------------------------------
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Residues in contact with SER 56 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55C PHE* 6.0 0.3 - - - -
65C ASP 6.0 1.8 - - - -
66C LEU* 5.1 8.6 - - - +
67C LYS* 5.3 14.8 - - - +
207D LYS* 4.0 15.0 + - - -
52G GLY 3.0 12.2 + - - -
53G SER* 3.0 18.0 + - - -
55G SER* 1.3 81.7 - - - +
57G LYS* 1.3 71.1 + - - +
58G VAL 4.1 0.6 + - - -
----------------------------------------------------------
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Residues in contact with LYS 57 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55C PHE* 5.0 15.9 - - + -
207D LYS* 4.0 29.8 - - + +
53G SER 2.8 19.1 + - - +
54G GLN* 4.5 0.3 - - - -
56G SER* 1.3 84.8 + - - +
58G VAL* 1.3 58.0 + - - +
59G HIS 3.7 2.5 - - - +
60G ILE* 4.9 8.7 + - + +
61G HIS* 5.0 2.9 + - - +
----------------------------------------------------------
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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