Contacts of the helix formed by residues 190 - 214 (chain A) in PDB entry 6N0M
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 190 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
182A LEU* 3.9 1.8 - - - -
188A THR 3.6 1.0 + - - -
189A TRP* 1.3 76.4 - - - +
191A LEU* 1.3 59.4 + - - +
192A ALA* 3.5 9.9 + - - +
193A GLU* 2.8 51.5 + - - +
194A LEU* 2.9 26.2 + - - +
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Residues in contact with LEU 191 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
182A LEU* 3.6 30.0 - - + +
190A SER* 1.3 71.3 - - - +
192A ALA* 1.3 59.4 + - - +
194A LEU* 4.2 10.5 - - + -
195A ILE* 2.8 41.2 + - + +
355A LEU* 4.0 34.5 - - + -
475A ILE* 3.9 24.0 - - + -
479A MET* 3.8 31.0 - - + -
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Residues in contact with ALA 192 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
106A PRO* 3.6 21.9 - - + +
190A SER* 3.3 9.8 - - - +
191A LEU* 1.3 80.1 - - - +
193A GLU* 1.3 61.1 + - - +
195A ILE* 3.9 2.6 - - - +
196A GLN* 3.1 17.2 + - - +
355A LEU* 3.5 23.7 + - - +
356A TYR* 4.7 2.4 - - - -
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Residues in contact with GLU 193 (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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106A PRO* 3.7 32.1 - - + +
107A LEU* 3.6 16.1 - - + +
155A LYS* 2.7 32.6 + - - -
188A THR 3.7 0.9 - - - +
189A TRP* 3.4 22.8 - - + -
190A SER* 2.8 39.0 + - - +
192A ALA* 1.3 70.2 - - - +
194A LEU* 1.3 65.7 + - - +
196A GLN* 3.2 4.2 + - - +
197A ALA 3.0 18.2 + - - -
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Residues in contact with LEU 194 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
159A LEU* 4.5 10.5 - - + -
178A ILE* 4.3 20.0 - - + -
181A LEU* 3.2 33.7 - - + -
182A LEU* 3.9 32.5 - - + -
189A TRP* 3.5 12.5 - - + -
190A SER 2.9 18.2 + - - +
191A LEU* 3.3 13.4 + - + +
193A GLU* 1.3 76.2 - - - +
195A ILE* 1.3 64.2 + - - +
197A ALA* 3.0 5.7 + - - +
198A LEU* 2.9 39.1 + - + +
475A ILE* 4.4 6.1 - - + -
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Residues in contact with ILE 195 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
191A LEU* 2.8 26.1 + - + +
192A ALA 3.9 3.1 - - - +
194A LEU* 1.3 72.1 - - - +
196A GLN* 1.3 63.5 + - - +
198A LEU* 3.0 9.3 + - + +
199A VAL* 3.0 25.2 + - + +
351A LEU* 4.9 0.4 - - + -
352A ILE* 4.0 22.0 - - + -
355A LEU* 3.6 30.1 - - + -
356A TYR* 3.4 28.5 - - + +
472A LEU* 3.8 20.0 - - + -
475A ILE* 3.6 29.8 - - + -
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Residues in contact with GLN 196 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
99A LEU 5.4 1.0 + - - -
100A LEU* 4.9 6.0 + - + +
103A THR 5.5 0.2 + - - -
104A ASP 4.7 2.0 + - - -
105A GLY* 4.0 8.1 - - - -
106A PRO* 3.4 28.2 - - + +
107A LEU* 3.0 41.4 + - + +
112A ARG* 3.4 23.3 - - - +
192A ALA 3.1 7.9 + - - +
193A GLU 3.2 7.6 + - - +
195A ILE* 1.3 75.8 - - - +
197A ALA* 1.3 51.6 + - - +
199A VAL* 3.2 2.8 + - - +
200A LEU* 2.8 40.3 + - + +
356A TYR* 3.1 41.3 + - + +
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Residues in contact with ALA 197 (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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107A LEU* 4.1 4.4 - - + +
115A ILE* 4.1 11.2 - - + -
159A LEU* 4.2 15.5 - - + -
189A TRP* 3.8 24.5 - - + -
193A GLU 3.0 12.6 + - - +
194A LEU* 3.3 9.4 - - + +
196A GLN* 1.3 74.5 - - - +
198A LEU* 1.3 58.9 + - - +
200A LEU* 3.2 7.7 + - - +
201A LEU* 2.7 36.8 + - + +
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Residues in contact with LEU 198 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
159A LEU* 5.6 0.4 - - + -
162A ILE* 3.7 32.1 - - + -
166A LEU* 4.0 15.5 - - + -
178A ILE* 5.1 0.2 - - + -
194A LEU* 2.9 34.5 + - + +
195A ILE* 3.0 11.9 + - + +
197A ALA* 1.3 76.6 - - + +
199A VAL* 1.3 59.1 + - - +
201A LEU* 4.4 5.4 - - + +
202A THR* 2.7 36.9 + - + +
468A LEU* 4.2 16.4 - - + -
471A ALA* 3.8 21.1 - - + -
472A LEU* 5.0 2.0 - - + +
475A ILE* 3.7 29.6 - - + -
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Residues in contact with VAL 199 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
96A LEU* 4.5 3.4 - - + -
100A LEU* 3.8 30.1 - - + -
195A ILE* 3.0 18.8 + - + +
196A GLN* 3.5 7.2 - - - +
198A LEU* 1.3 75.9 - - - +
200A LEU* 1.3 63.2 + - - +
202A THR* 3.2 6.4 + - - -
203A HIS* 3.0 27.3 + - - +
352A ILE* 4.3 14.1 - - + -
356A TYR* 4.4 10.3 - - + -
363A LEU* 3.7 42.4 - - + -
464A MET* 4.5 2.5 - - + -
468A LEU* 4.5 4.9 - - + -
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Residues in contact with LEU 200 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
100A LEU* 3.8 33.2 - - + +
101A LEU* 3.9 23.1 - - + -
107A LEU* 4.6 0.4 - - + -
112A ARG* 3.5 48.0 - - + +
115A ILE* 3.7 22.7 - - + -
116A ALA* 4.9 0.8 - - + +
119A ALA* 4.6 0.3 - - - +
196A GLN* 2.8 25.2 + - + +
197A ALA* 3.5 8.5 - - - +
199A VAL* 1.3 74.2 - - - +
201A LEU* 1.3 60.9 + - - +
203A HIS* 3.7 2.8 - - - +
204A CYS* 3.2 36.4 + - - -
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Residues in contact with LEU 201 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
115A ILE* 3.6 25.6 - - + +
118A MET* 5.0 2.7 - - + -
119A ALA* 3.4 20.5 - - + +
159A LEU* 4.1 22.4 - - + -
162A ILE* 4.3 4.5 - - + -
163A ASN* 3.8 38.1 - - + +
166A LEU* 4.0 17.3 - - + -
197A ALA 2.7 30.2 + - - +
198A LEU* 3.9 5.2 - - + +
200A LEU* 1.3 71.7 - - - +
202A THR* 1.3 64.7 + - - +
203A HIS 3.3 0.2 + - - -
204A CYS 3.3 1.7 + - - -
205A HIS* 3.0 39.6 + - + -
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Residues in contact with THR 202 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
166A LEU* 3.9 32.5 - - + -
198A LEU* 2.7 25.2 + - - +
199A VAL* 3.2 10.9 + - - -
201A LEU* 1.3 76.9 - - - +
203A HIS* 1.3 56.3 + - - +
205A HIS* 3.5 8.7 + - - +
206A SER* 3.0 30.8 + - - -
463A ARG* 6.2 0.2 - - - +
464A MET* 3.4 29.3 - - - +
467A ALA* 4.0 15.0 - - + -
468A LEU* 3.9 15.8 - - + +
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Residues in contact with HIS 203 (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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93A PHE* 4.4 11.9 - + - -
96A LEU* 3.7 22.5 - - + +
97A HIS* 4.4 16.2 - - + +
100A LEU* 3.6 21.6 - - + +
101A LEU* 4.5 11.9 - - + +
199A VAL 3.0 19.9 + - - +
200A LEU* 3.7 3.6 - - + +
202A THR* 1.3 78.7 + - - +
204A CYS* 1.3 65.4 + - - +
206A SER* 2.7 19.5 + - - -
207A LEU* 2.7 55.5 + - + +
366A LYS* 3.9 12.6 + - - -
464A MET* 3.4 11.4 - - + -
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Residues in contact with CYS 204 (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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101A LEU* 5.3 1.1 - - - -
116A ALA* 3.5 37.0 - - - +
119A ALA* 3.8 16.2 - - + -
120A ALA* 4.4 3.4 - - + +
128A LEU* 3.5 9.5 - - + +
132A HIS* 4.1 11.2 - - + +
200A LEU* 3.2 23.4 + - - +
203A HIS* 1.3 85.1 - - - +
205A HIS* 1.3 62.5 + - - +
207A LEU* 3.8 8.5 - - - -
208A SER* 2.8 31.4 + - - -
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Residues in contact with HIS 205 (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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119A ALA* 3.2 26.7 + - + +
123A HIS* 4.3 5.6 - - - +
163A ASN* 3.0 30.1 + - - -
166A LEU* 3.8 13.1 + - + +
167A ALA* 3.4 42.6 + - + +
201A LEU* 3.0 23.4 + - + -
202A THR* 3.6 10.3 - - - +
204A CYS* 1.3 73.9 - - - +
206A SER* 1.3 58.9 + - - +
208A SER* 2.6 29.7 + - - -
209A SER 2.9 10.0 + - - -
463A ARG* 3.6 24.9 + - + +
467A ALA* 5.7 0.6 - - - +
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Residues in contact with SER 206 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
202A THR 3.0 12.6 + - - -
203A HIS* 2.7 23.0 + - - -
205A HIS* 1.3 77.9 - - - +
207A LEU* 1.3 60.8 + - - +
209A SER* 3.2 9.8 + - - -
210A PHE* 3.0 22.7 + - - +
366A LYS* 5.0 0.2 + - - -
460A LEU* 3.5 51.3 - - - +
463A ARG* 4.1 6.8 - - - +
464A MET* 4.1 12.5 - - - -
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Residues in contact with LEU 207 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
79A LEU* 3.9 26.0 - - + -
83A MET* 4.1 14.4 - - + -
93A PHE* 4.1 23.8 - - + -
97A HIS* 5.6 3.6 - - - +
101A LEU* 6.2 1.1 - - + -
128A LEU* 3.5 20.2 - - + -
132A HIS* 6.2 0.9 - - - +
203A HIS* 2.7 55.2 + - + +
204A CYS* 4.1 3.8 - - - +
205A HIS 3.1 0.2 - - - -
206A SER* 1.3 77.1 + - - +
208A SER* 1.3 59.1 + - - +
210A PHE* 3.5 3.8 + - + +
211A VAL* 2.9 32.2 + - - +
366A LYS* 5.6 0.4 - - - +
460A LEU* 4.8 9.2 - - + -
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Residues in contact with SER 208 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
120A ALA* 4.0 9.5 - - - -
123A HIS* 3.8 23.8 - - - -
125A CYS* 3.4 30.1 - - - +
128A LEU* 3.3 9.5 - - - +
204A CYS 2.8 21.5 + - - -
205A HIS 2.6 16.7 + - - -
207A LEU* 1.3 67.9 - - - +
209A SER* 1.3 65.3 + - - +
211A VAL* 3.2 0.3 + - - +
212A PHE* 3.1 29.0 + - - -
432A PRO* 4.5 0.7 - - - -
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Residues in contact with SER 209 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
205A HIS 2.9 6.6 + - - -
206A SER* 3.4 10.8 - - - -
208A SER* 1.3 76.7 - - - +
210A PHE* 1.3 54.6 + - - +
212A PHE* 3.3 1.2 + - - +
213A GLY* 2.7 34.8 + - - -
428A VAL* 2.8 36.9 + - - +
432A PRO* 3.8 11.4 - - - +
459A LEU* 4.5 8.1 - - - -
460A LEU* 4.8 4.0 - - - -
463A ARG* 3.0 30.2 + - - -
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Residues in contact with PHE 210 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
79A LEU* 3.8 31.9 - - + -
82A VAL* 3.7 22.9 - - + -
83A MET* 3.7 27.1 - - + -
206A SER 3.0 10.0 + - - +
207A LEU* 3.6 10.5 - - - +
208A SER 3.3 0.2 - - - -
209A SER* 1.3 80.3 - - - +
211A VAL* 1.3 58.2 + - - +
214A CYS* 3.0 42.2 + - - +
216A ILE* 4.2 15.3 - - + -
453A VAL* 4.3 4.9 - - + -
456A ASN* 4.0 14.4 - - + -
457A LEU* 3.6 22.9 - - + -
460A LEU* 3.7 27.5 - - + +
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Residues in contact with VAL 211 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
79A LEU* 3.5 31.0 - - + -
125A CYS* 3.6 22.2 - - - -
127A TYR* 3.7 29.4 - - + -
128A LEU* 4.3 4.7 - - + -
207A LEU 2.9 24.2 + - - +
208A SER 3.7 3.8 - - - +
209A SER 3.1 0.4 + - - -
210A PHE* 1.3 77.7 - - - +
212A PHE* 1.3 65.5 + - + +
215A GLY 3.3 1.6 + - - -
216A ILE* 2.8 48.6 + - + +
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Residues in contact with PHE 212 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
123A HIS* 3.3 32.1 - - + -
124A GLN 3.9 5.4 - - - -
125A CYS* 3.7 29.8 - - + -
126A SER 5.2 0.4 - - - -
208A SER 3.1 23.3 + - - +
209A SER 4.0 1.3 - - - +
211A VAL* 1.3 76.7 - - + +
213A GLY* 1.3 67.1 + - - +
215A GLY* 3.1 13.8 + - - +
237A GLN* 3.7 3.8 + - - +
432A PRO* 3.2 35.7 - - + +
433A GLU* 3.8 23.8 - - + -
435A THR* 3.7 20.2 - - - +
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Residues in contact with GLY 213 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
209A SER 2.7 17.9 + - - -
212A PHE* 1.3 74.4 - - - +
214A CYS* 1.3 56.2 + - - +
237A GLN* 3.2 11.6 - - - +
424A TYR* 2.5 29.0 + - - -
428A VAL* 3.7 15.0 - - - +
435A THR* 4.3 1.1 - - - +
440A TYR* 3.8 2.1 - - - -
456A ASN* 3.3 21.8 - - - -
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Residues in contact with CYS 214 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82A VAL* 4.2 8.0 - - + +
210A PHE* 3.0 33.4 + - - +
213A GLY* 1.3 76.0 - - - +
215A GLY* 1.3 52.0 + - - +
216A ILE* 3.3 16.6 + - + -
235A SER* 2.6 30.8 + - - -
237A GLN* 3.6 5.7 - - - +
238A SER* 4.0 8.2 + - - +
440A TYR* 5.1 3.8 - - - -
453A VAL* 3.9 21.5 - - + -
456A ASN* 3.5 33.9 - - - -
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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