Contacts of the helix formed by residues 70 - 96 (chain H) in PDB entry 6C3P
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 GLY 70 (chain H).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68H PHE 3.5 0.2 + - - -
69H PRO* 1.3 76.4 - - - +
71H HIS* 1.3 70.1 + - - +
72H ASN 3.5 1.8 - - - -
73H LEU* 4.3 9.0 - - - +
74H ARG* 3.3 24.0 + - - +
185H VAL* 4.5 6.3 - - - +
188H ASN* 6.5 1.3 - - - -
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Residues in contact with HIS 71 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68H PHE* 3.8 10.8 + - + +
69H PRO 3.5 2.0 - - - -
70H GLY* 1.3 77.8 - - - +
72H ASN* 1.3 68.9 + - + +
74H ARG* 3.4 2.3 - - - +
75H TRP* 2.8 61.7 + + - +
124H TYR* 5.8 3.6 - - - -
222H VAL 5.6 0.4 + - - -
223H ASN* 4.4 9.0 - - + -
224H LEU* 3.4 41.3 + - + +
227H LYS* 5.7 1.7 - - + +
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Residues in contact with ASN 72 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70H GLY 3.5 0.4 - - - -
71H HIS* 1.3 85.2 - - + +
73H LEU* 1.3 58.1 + - - +
75H TRP* 3.3 2.2 + - - +
76H ILE* 2.9 30.7 + - - +
224H LEU* 4.7 13.9 - - + +
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Residues in contact with LEU 73 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70H GLY* 3.9 11.0 + - - +
71H HIS 3.3 0.6 - - - -
72H ASN* 1.3 76.9 - - - +
74H ARG* 1.3 65.5 + - - +
76H ILE* 3.2 6.9 + - - +
77H LEU* 2.9 30.2 + - + +
185H VAL* 4.7 12.1 - - + -
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Residues in contact with ARG 74 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68H PHE* 5.8 0.4 - - - +
69H PRO 4.9 6.3 + - - -
70H GLY 3.3 16.3 + - - +
71H HIS* 3.1 5.5 + - - +
73H LEU* 1.3 78.5 - - - +
75H TRP* 1.3 69.5 + - + +
77H LEU* 3.3 5.8 + - - +
78H THR* 2.8 38.7 + - - +
124H TYR* 3.1 56.7 + - - -
182H LEU* 4.4 13.8 - - + +
185H VAL* 3.5 33.2 - - + +
186H GLU* 3.9 11.0 + - - -
189H VAL* 3.5 34.8 - - - +
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Residues in contact with TRP 75 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
71H HIS* 2.8 75.0 + + - +
72H ASN 3.9 2.9 - - - +
74H ARG* 1.3 86.0 - - + +
76H ILE* 1.3 67.0 + - - +
78H THR* 4.1 9.0 - - - -
79H PHE* 2.9 64.9 + + + -
121H VAL* 3.5 46.2 - - + -
124H TYR* 4.9 18.8 - + + -
125H HIS* 5.2 8.5 - + + -
223H ASN* 4.8 17.5 - - + -
224H LEU* 4.5 16.4 - - + -
225H LEU* 5.2 10.5 - - + -
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Residues in contact with ILE 76 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
72H ASN 2.9 16.9 + - - +
73H LEU* 3.7 6.5 - - - +
75H TRP* 1.3 76.2 - - - +
77H LEU* 1.3 64.4 + - + +
79H PHE* 3.9 4.0 - - - +
80H MET* 3.0 25.9 + - - +
224H LEU* 5.9 0.6 - - - +
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Residues in contact with LEU 77 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
73H LEU* 2.9 17.2 + - + +
74H ARG* 3.5 7.0 - - - +
76H ILE* 1.3 78.5 - - + +
78H THR* 1.3 57.6 + - - +
80H MET* 3.4 5.1 + - + +
81H LEU* 2.9 31.5 + - - +
178H LEU* 4.3 19.7 - - + +
181H MET* 3.5 53.2 - - + +
182H LEU* 3.6 16.6 - - + +
185H VAL* 3.7 19.1 - - + -
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Residues in contact with THR 78 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
74H ARG* 2.8 29.8 + - - +
75H TRP* 3.1 15.6 + - + -
77H LEU* 1.3 75.6 - - - +
79H PHE* 1.3 62.4 + - + +
81H LEU* 3.3 12.5 - - + +
82H LEU* 2.9 25.7 + - + +
117H ALA* 4.8 11.2 - - + +
120H SER* 5.1 2.9 - - - +
121H VAL* 3.5 32.5 - - + +
143H TRP* 6.0 4.0 - - + -
182H LEU* 4.7 7.1 - - - +
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Residues in contact with PHE 79 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
75H TRP* 2.9 65.6 + + + +
76H ILE* 4.2 3.6 - - - +
78H THR* 1.3 78.4 - - + +
80H MET* 1.3 65.6 + - - +
82H LEU* 3.1 24.7 + - + +
83H PHE* 2.9 23.0 + - - +
121H VAL* 6.2 1.6 - - + -
224H LEU* 4.5 15.7 - - + -
225H LEU* 3.8 33.9 - - + -
368H LEU* 6.2 5.8 - - + -
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Residues in contact with MET 80 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
76H ILE 3.0 18.9 + - - +
77H LEU* 3.7 6.7 - - + +
79H PHE* 1.3 74.1 - - - +
81H LEU* 1.3 62.7 + - - +
83H PHE* 3.2 7.4 + - - +
84H VAL* 3.0 30.4 + - + +
178H LEU* 3.9 14.1 - - + -
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Residues in contact with LEU 81 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
77H LEU 2.9 18.8 + - - +
78H THR* 3.3 11.0 - - + +
80H MET* 1.3 73.8 - - - +
82H LEU* 1.3 68.8 + - - +
84H VAL* 3.2 1.9 - - - +
85H LEU* 2.9 51.5 + - + +
113H ALA* 5.1 1.6 - - + +
117H ALA* 3.6 30.1 - - + -
143H TRP* 4.0 17.7 - - + -
175H LEU* 4.4 4.9 - - + -
178H LEU* 3.5 19.9 - - + +
179H TYR* 3.5 32.8 - - + +
182H LEU* 6.0 2.7 - - + -
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Residues in contact with LEU 82 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78H THR* 2.9 14.5 + - + +
79H PHE* 3.1 31.6 + - + +
81H LEU* 1.3 81.6 - - - +
83H PHE* 1.3 62.7 - - - +
85H LEU* 3.7 3.5 - - + +
86H VAL* 3.0 23.0 + - + +
114H PHE* 3.4 40.5 - - + +
117H ALA* 5.7 5.4 - - + -
118H VAL* 4.9 11.7 - - + -
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Residues in contact with PHE 83 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
79H PHE 2.9 11.8 + - - +
80H MET* 3.2 9.8 + - - +
82H LEU* 1.3 75.9 - - - +
84H VAL* 1.3 74.1 + - + +
86H VAL* 3.1 8.9 + - + +
87H CYS* 3.0 44.2 + - - -
361H LEU* 4.3 23.8 - - + -
364H LEU* 5.3 16.2 - - + -
365H ALA* 6.1 2.2 - - - -
368H LEU* 4.7 21.8 - - + -
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Residues in contact with VAL 84 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
80H MET* 3.0 19.8 + - + +
81H LEU* 3.2 20.6 - - - +
83H PHE* 1.3 87.4 - - + +
85H LEU* 1.3 59.9 + - + +
87H CYS* 3.2 12.9 + - + +
88H GLU* 2.9 27.4 + - - +
171H LEU* 4.1 9.0 - - + +
174H LEU* 3.6 28.0 - - + -
175H LEU* 3.6 27.4 - - + +
178H LEU* 4.0 1.8 - - + -
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Residues in contact with LEU 85 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
81H LEU* 2.9 42.5 + - + +
82H LEU* 3.7 5.4 - - + +
84H VAL* 1.3 77.7 - - + +
86H VAL* 1.3 65.9 + - - +
88H GLU* 3.1 24.4 + - - +
89H ILE* 2.9 29.7 + - - +
110H ALA* 3.8 15.5 - - + +
113H ALA* 3.5 33.0 - - + -
114H PHE* 4.5 13.7 - - + +
175H LEU* 3.5 31.4 - - + -
179H TYR* 4.8 2.0 - - - +
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Residues in contact with VAL 86 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82H LEU* 3.0 14.0 + - + +
83H PHE* 3.1 11.6 + - + +
85H LEU* 1.3 76.8 - - - +
87H CYS* 1.3 62.8 + - - +
89H ILE* 3.2 13.5 + - - +
90H ALA* 3.0 22.6 + - - +
114H PHE* 5.5 7.7 - - + -
364H LEU* 4.1 27.1 - - + -
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Residues in contact with CYS 87 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
83H PHE* 3.0 49.9 + - - -
84H VAL* 3.3 12.1 - - + +
85H LEU 3.2 0.2 - - - -
86H VAL* 1.3 77.7 - - - +
88H GLU* 1.3 57.6 + - - +
90H ALA* 3.2 8.6 + - - +
91H GLU* 2.9 27.0 + - - +
171H LEU* 4.1 15.8 - - + +
361H LEU* 5.4 6.5 - - - -
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Residues in contact with GLU 88 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84H VAL 2.9 14.5 + - - +
85H LEU* 3.1 23.6 + - - +
87H CYS* 1.3 73.4 - - - +
89H ILE* 1.3 61.1 + - - +
91H GLU* 3.2 5.3 + - + +
92H GLY* 2.9 26.9 + - - -
106H LEU 4.9 9.5 - - - +
109H PRO* 5.4 3.8 - - - +
110H ALA* 3.8 21.2 + - + +
150H LYS* 4.1 17.5 + - - -
153H LYS* 5.6 3.8 - - - -
171H LEU* 3.9 18.8 - - + -
175H LEU* 4.5 15.6 - - - +
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Residues in contact with ILE 89 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
85H LEU 2.9 21.0 + - - +
86H VAL* 3.2 10.3 + - - +
88H GLU* 1.3 75.2 - - - +
90H ALA* 1.3 64.2 + - - +
92H GLY* 3.3 1.4 + - - -
93H ILE* 3.0 44.3 + - + +
107H TYR* 4.2 12.2 - - + +
110H ALA* 3.5 36.1 - - + +
111H GLY* 4.1 9.4 - - - +
114H PHE* 4.2 19.3 - - + -
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Residues in contact with ALA 90 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
86H VAL 3.0 13.8 + - - +
87H CYS* 3.3 12.1 - - - +
89H ILE* 1.3 79.5 - - - +
91H GLU* 1.3 63.5 + - - +
93H ILE* 3.3 4.1 + - - +
94H LEU* 2.9 32.1 + - + +
357H VAL* 4.2 29.7 - - + +
360H VAL* 6.2 1.3 - - + -
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Residues in contact with GLU 91 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
87H CYS 2.9 14.6 + - - +
88H GLU* 3.6 11.4 - - + +
90H ALA* 1.3 75.8 - - - +
92H GLY* 1.3 58.1 + - - +
94H LEU* 3.4 9.7 + - - +
95H SER* 2.9 36.3 + - - +
167H LEU* 6.3 2.9 - - + -
168H ARG* 5.8 5.6 - - - +
171H LEU* 5.2 7.2 - - + -
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Residues in contact with GLY 92 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
88H GLU 2.9 14.3 + - - -
89H ILE 3.8 2.5 - - - -
91H GLU* 1.3 76.5 - - - +
93H ILE* 1.3 62.4 + - - +
95H SER* 3.1 2.0 + - - -
96H ASP* 3.0 24.1 + - - +
106H LEU* 3.6 37.2 - - - +
107H TYR* 4.3 4.7 - - - -
168H ARG* 5.8 1.8 - - - -
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Residues in contact with ILE 93 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
89H ILE* 3.0 34.4 + - + +
90H ALA* 4.0 4.9 - - - +
92H GLY* 1.3 74.9 - - - +
94H LEU* 1.3 65.0 + - + +
96H ASP* 3.5 14.6 + - + +
97H GLY* 3.8 4.2 + - - -
107H TYR* 4.1 27.6 - - + -
357H VAL* 5.7 7.0 - - + -
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Residues in contact with LEU 94 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
90H ALA* 2.9 29.5 + - + +
91H GLU* 3.6 8.1 - - - +
93H ILE* 1.3 77.6 - - + +
95H SER* 1.3 59.0 + - - +
96H ASP 3.0 0.2 - - - -
97H GLY* 2.9 23.2 + - - -
98H VAL 4.6 0.3 + - - -
353H ALA 3.3 32.5 + - - +
354H ASN* 3.8 20.2 - - + -
357H VAL* 3.7 28.9 - - + -
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Residues in contact with SER 95 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
91H GLU* 2.9 22.1 + - - +
92H GLY* 3.7 0.4 - - - -
94H LEU* 1.3 73.6 - - - +
96H ASP* 1.3 58.0 - - - +
97H GLY 3.3 0.4 + - - -
98H VAL* 4.0 12.8 + - - +
99H THR 5.0 0.2 + - - -
103H HIS* 4.5 5.2 + - - -
106H LEU* 3.7 19.5 - - - +
165H SER* 4.8 7.8 + - - -
168H ARG* 4.0 19.0 + - - -
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Residues in contact with ASP 96 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
92H GLY 3.0 15.6 + - - +
93H ILE* 3.8 10.3 - - + +
94H LEU 3.0 0.8 + - - -
95H SER* 1.3 74.4 - - - +
97H GLY* 1.3 62.9 + - - +
98H VAL 3.2 3.3 + - - -
99H THR 3.7 14.7 + - - +
102H HIS* 3.5 29.0 - - - +
103H HIS* 2.7 49.8 + - - +
106H LEU* 3.9 8.1 - - + -
107H TYR* 5.1 11.0 - - + -
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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