Contacts of the helix formed by residues 90 - 114 (chain B) in PDB entry 2FRV
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 GLU 90 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
88B ILE 3.8 1.0 + - - -
89B PRO* 1.3 72.5 - - - +
91B ASN* 1.3 57.3 + - - +
93B THR* 3.0 11.3 + - - -
94B LEU* 2.9 41.5 + - + +
431B LYS* 5.2 14.3 - - - +
435B ASN* 2.9 29.6 + - - +
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Residues in contact with ASN 91 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
89B PRO* 3.2 1.0 - - - +
90B GLU* 1.3 76.3 - - - +
92B ALA* 1.3 62.5 + - - +
94B LEU* 3.9 2.4 - - - +
95B MET* 3.1 25.3 + - - +
234B LEU* 4.7 3.8 - - - +
432B LEU* 3.7 20.8 - - + +
435B ASN* 2.8 34.6 + - - +
436B VAL* 4.1 10.1 - - - +
440B LYS* 2.8 27.1 + - - -
441B ASP* 3.5 16.0 - - - +
442B ASP 3.1 19.6 + - - +
443B LEU* 3.8 10.9 - - + +
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Residues in contact with ALA 92 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
88B ILE* 4.2 8.3 - - + -
89B PRO* 2.6 17.3 + - + +
91B ASN* 1.3 73.1 - - - +
93B THR* 1.3 66.5 + - - +
96B ARG* 3.0 32.7 + - - -
227B GLY* 3.7 17.9 - - - -
228B CYS* 3.8 14.7 - - - -
443B LEU* 3.2 32.2 - - - +
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Residues in contact with THR 93 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
88B ILE* 3.3 17.3 + - - +
89B PRO 3.0 6.8 + - - -
90B GLU* 3.0 13.2 + - + +
92B ALA* 1.3 80.0 - - - +
94B LEU* 1.3 63.6 + - + +
96B ARG* 3.4 2.6 + - - +
97B ASN* 3.2 27.5 + - - +
287B PRO 3.2 28.3 - - - +
288B THR* 4.4 11.3 + - - +
290B GLU* 2.8 34.7 + - - +
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Residues in contact with LEU 94 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
90B GLU* 2.9 29.1 + - + +
91B ASN* 4.0 6.7 - - - +
93B THR* 1.3 77.6 - - + +
95B MET* 1.3 51.5 + - - +
97B ASN* 3.2 9.9 + - - +
98B LEU* 2.9 39.5 + - - +
428B TRP* 4.0 40.4 - - + +
431B LYS* 3.9 22.2 - - + -
432B LEU* 3.8 31.6 - - + +
435B ASN* 3.9 21.5 - - - +
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Residues in contact with MET 95 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
91B ASN 3.1 16.9 + - - +
92B ALA 4.3 2.0 - - - +
94B LEU* 1.3 73.9 - - - +
96B ARG* 1.3 61.8 + - - +
98B LEU* 3.5 11.8 + - + +
99B THR* 2.9 29.6 + - - -
213B PHE* 4.1 21.1 - - + +
222B PHE* 3.7 21.1 - - + -
228B CYS* 4.1 15.7 - - - -
230B ASN* 3.9 27.1 - - - +
233B SER* 3.7 15.9 - - - +
234B LEU* 3.5 32.8 - - + -
432B LEU* 4.4 6.1 - - + -
443B LEU* 4.2 7.6 - - + -
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Residues in contact with ARG 96 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70B TYR* 2.6 30.6 + - - +
74B LEU* 4.1 13.7 - - + +
77B VAL* 3.5 26.0 - - - +
78B ARG* 4.1 17.9 - - - +
81B ASP* 2.8 26.0 + - - -
88B ILE* 3.7 18.6 - - - +
92B ALA* 3.0 26.7 + - - +
93B THR* 3.7 4.9 - - - +
95B MET* 1.3 75.9 - - - +
97B ASN* 1.3 61.0 + - - +
99B THR 3.7 0.2 + - - -
100B MET* 3.3 19.2 + - - +
222B PHE* 4.6 1.8 - - + -
223B THR* 4.1 13.1 - - + +
224B VAL 3.3 12.5 + - - -
227B GLY* 2.9 32.9 + - - -
228B CYS* 3.6 18.2 - - - -
290B GLU* 4.3 7.0 + - - +
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Residues in contact with ASN 97 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78B ARG* 4.2 7.8 + - - -
93B THR* 3.2 19.5 + - - +
94B LEU* 3.4 11.8 - - - +
96B ARG* 1.3 77.3 - - - +
98B LEU* 1.3 65.3 + - - +
99B THR 3.2 0.2 - - - -
100B MET* 3.3 2.2 + - - +
101B GLY 2.9 18.4 + - - -
285B GLU* 4.8 0.3 - - - +
286B PHE* 3.6 28.2 + - + +
287B PRO* 3.4 40.5 + - - +
290B GLU* 4.9 0.3 - - - +
428B TRP* 3.3 40.2 - - + +
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Residues in contact with LEU 98 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
94B LEU 2.9 20.3 + - - +
95B MET* 3.8 12.6 - - - +
97B ASN* 1.3 80.0 - - - +
99B THR* 1.3 56.3 + - - +
101B GLY* 3.8 0.5 - - - -
102B ALA* 3.0 28.8 + - - +
213B PHE* 3.8 32.3 - - + -
242B PHE* 4.2 11.9 - - + -
425B VAL* 3.6 42.3 - - + +
428B TRP* 3.8 26.9 - - + +
429B LEU* 4.0 16.4 - - + +
432B LEU* 4.5 8.7 - - + -
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Residues in contact with THR 99 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70B TYR* 3.8 36.2 - - + -
95B MET 2.9 19.9 + - - -
96B ARG 4.0 0.4 - - - -
97B ASN 3.2 0.4 - - - -
98B LEU* 1.3 77.9 - - - +
100B MET* 1.3 58.2 + - - +
102B ALA* 3.7 6.6 + - - +
103B GLN* 3.2 23.0 + - - +
210B MET* 4.0 29.9 - - + +
213B PHE* 3.3 23.1 - - - +
214B GLY* 4.7 0.7 - - - -
220B THR* 4.3 3.8 - - + -
222B PHE* 3.5 14.2 - - + -
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Residues in contact with MET 100 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70B TYR* 3.8 8.1 - - + -
71B VAL* 3.6 31.4 - - + -
74B LEU* 3.6 17.5 - - + -
96B ARG 3.3 16.5 + - - +
97B ASN* 3.9 5.2 - - - +
98B LEU 3.2 0.4 - - - -
99B THR* 1.3 74.5 - - - +
101B GLY* 1.3 65.6 + - - +
103B GLN* 3.1 7.6 + - - +
104B TYR* 3.0 55.4 + - + -
285B GLU* 4.1 9.9 - - + +
286B PHE* 3.7 18.2 - - + -
459B VAL* 3.3 34.3 - - + -
460B ASN 4.5 2.9 - - - +
462B PRO* 4.8 0.2 - - - -
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Residues in contact with GLY 101 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
97B ASN 2.9 16.0 + - - -
98B LEU 3.8 1.8 - - - -
100B MET* 1.3 78.1 - - - +
102B ALA* 1.3 57.0 + - - +
104B TYR* 3.1 7.4 + - - +
105B MET* 3.0 30.9 + - - +
286B PHE* 3.9 14.1 - - - -
421B ALA* 4.7 4.1 - - - +
425B VAL* 3.8 20.6 - - - +
428B TRP* 4.4 0.9 - - - -
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Residues in contact with ALA 102 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
98B LEU 3.0 16.3 + - - +
99B THR* 3.9 6.1 - - - +
101B GLY* 1.3 77.5 - - - +
103B GLN* 1.3 58.4 + - - +
105B MET* 3.5 13.7 + - - +
106B HIS* 3.3 23.9 + - - +
206B ALA* 4.3 7.9 - - - +
209B ALA* 5.2 2.7 - - + -
210B MET* 4.0 31.4 - - + +
242B PHE* 4.8 12.8 - - + -
425B VAL* 4.4 2.2 - - - +
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Residues in contact with GLN 103 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67B VAL 3.2 18.4 + - - +
68B CYS* 3.7 4.4 - - - +
69B THR* 3.7 22.9 - - - +
70B TYR* 4.8 1.8 - - + -
71B VAL* 4.1 12.3 - - + -
99B THR 3.2 13.7 + - - +
100B MET* 3.1 15.6 + - - +
102B ALA* 1.3 72.1 - - - +
104B TYR* 1.3 62.3 + - - +
106B HIS* 4.7 7.3 + - - +
107B ASP* 2.8 67.2 + - - +
210B MET* 3.5 28.1 - - + +
217B ASN* 4.3 2.3 - - - +
462B PRO* 4.0 11.9 - - + -
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Residues in contact with TYR 104 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
100B MET* 3.0 46.6 + - + -
101B GLY 3.5 6.5 - - - +
103B GLN* 1.3 73.2 - - - +
105B MET* 1.3 70.5 + - - +
106B HIS 3.2 0.7 + - - -
107B ASP* 4.6 0.7 - - - -
108B HIS* 3.2 34.7 + + - +
285B GLU* 3.9 10.8 - - + +
286B PHE* 4.2 15.4 - + - -
298B THR* 5.4 1.2 + - + -
417B GLN* 3.7 40.0 + - + +
418B CYS* 4.1 1.7 - - - -
421B ALA* 3.7 24.7 - - + -
460B ASN* 2.6 41.0 + - - -
461B ALA 4.1 1.5 + - - -
462B PRO* 4.0 19.5 - - + -
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Residues in contact with MET 105 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
101B GLY 3.0 13.6 + - - +
102B ALA* 3.5 15.3 - - - +
103B GLN 3.3 0.2 - - - -
104B TYR* 1.3 83.4 - - + +
106B HIS* 1.3 59.6 + - - +
109B LEU* 3.4 24.7 + - - +
206B ALA* 5.0 3.1 - - + -
246B TYR* 4.0 30.1 - - + -
249B VAL* 3.4 23.6 - - + -
250B ARG* 3.7 18.6 - - - +
253B ILE* 3.4 27.2 - - + +
418B CYS* 4.0 15.7 - - - +
422B ALA* 4.1 26.2 - - + +
425B VAL* 4.5 6.1 - - - -
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Residues in contact with HIS 106 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22A GLU* 4.0 6.1 - - - -
26A ARG* 3.4 35.9 + - - -
67B VAL 5.6 2.6 + - - -
102B ALA 3.3 14.1 + - - +
103B GLN* 3.9 13.1 + - - +
104B TYR 3.3 0.2 - - - -
105B MET* 1.3 74.8 - - - +
107B ASP* 1.3 71.9 + - - +
109B LEU* 3.4 5.8 + - - +
110B VAL* 2.9 36.1 + - + +
203B GLN* 3.1 49.3 + - + +
206B ALA* 3.6 20.6 - - + +
207B ALA* 3.8 9.9 - - + -
210B MET* 5.8 1.6 - - - -
217B ASN* 5.1 3.9 + - - +
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Residues in contact with ASP 107 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67B VAL* 3.9 10.1 - - - +
68B CYS* 3.8 4.5 - - - -
103B GLN* 2.8 39.8 + - - +
104B TYR 4.2 0.7 - - - +
106B HIS* 1.3 85.4 + - - +
108B HIS* 1.3 52.6 + - - +
110B VAL* 3.2 4.7 + - - +
111B HIS* 2.8 32.4 + - - +
462B PRO* 3.4 20.4 - - + +
463B ARG* 2.8 46.2 + - - -
528B ASP* 4.5 2.3 - - - +
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Residues in contact with HIS 108 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
104B TYR* 3.2 24.7 + + + +
107B ASP* 1.3 74.5 - - - +
109B LEU* 1.3 59.6 + - - +
111B HIS* 3.7 4.4 - - - +
112B PHE* 3.0 31.0 + - - +
257B TYR* 3.7 9.2 + - + +
371B PRO* 4.1 1.4 - - - +
414B ARG* 3.5 33.2 - - + +
417B GLN* 2.8 47.0 + - + -
418B CYS* 3.1 36.9 - - + +
462B PRO* 3.6 20.3 + - + +
528B ASP* 4.8 4.3 - - - -
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Residues in contact with LEU 109 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
105B MET 3.4 18.9 + - - +
106B HIS* 3.4 6.3 + - - +
108B HIS* 1.3 75.3 - - - +
110B VAL* 1.3 67.5 + - + +
112B PHE* 3.4 1.8 + - - -
113B TYR* 3.3 46.2 + - + +
114B HIS* 4.8 1.8 + - - -
199B ALA* 4.6 4.3 - - + +
202B VAL* 3.8 32.5 - - + -
203B GLN* 4.4 15.5 - - + +
206B ALA* 5.3 0.9 - - + -
249B VAL* 4.8 8.5 - - + -
252B PHE* 3.4 30.5 - - + -
253B ILE* 4.3 11.4 - - + -
257B TYR* 4.2 15.9 - - + -
418B CYS* 4.8 0.2 - - - -
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Residues in contact with VAL 110 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22A GLU* 4.6 16.6 - - - +
25A LEU* 5.4 9.4 - - + -
67B VAL* 6.4 0.9 - - + -
106B HIS* 2.9 34.4 + - + +
107B ASP* 3.8 3.1 - - - +
109B LEU* 1.3 76.6 - - - +
111B HIS* 1.3 63.1 + - - +
114B HIS* 3.1 42.8 + - + +
115B LEU* 3.5 17.4 + - + -
203B GLN* 3.5 38.4 - - + +
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Residues in contact with HIS 111 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16B ARG 5.4 0.7 - - - -
107B ASP* 2.8 20.9 + - - +
108B HIS* 3.7 6.1 - - - +
109B LEU 3.3 0.2 - - - -
110B VAL* 1.3 76.2 - - - +
112B PHE* 1.3 66.3 + - - +
115B LEU* 3.2 26.1 + - + +
116B HIS* 2.9 51.1 + + - +
414B ARG* 3.5 34.3 - - - -
463B ARG* 5.5 0.2 - - - +
525B HIS* 2.9 35.8 + - - +
528B ASP* 3.3 37.7 - - - +
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Residues in contact with PHE 112 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
108B HIS 3.0 13.7 + - - +
109B LEU 3.4 2.4 + - - +
110B VAL 3.3 0.2 - - - -
111B HIS* 1.3 80.5 - - - +
113B TYR* 1.3 89.0 + + - +
116B HIS* 3.4 12.7 - + + +
117B ALA* 2.8 44.5 + - + +
120B TRP* 6.1 4.3 - + - -
257B TYR* 3.1 44.4 - + + +
260B ASP* 4.2 12.1 - - + -
261B LEU* 3.9 36.8 - - + -
264B VAL* 5.3 12.6 - - + -
411B THR* 5.0 10.3 - - + -
414B ARG* 6.0 0.4 - - - -
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Residues in contact with TYR 113 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
109B LEU* 3.3 35.3 + - + +
112B PHE* 1.3 106.1 - + + +
114B HIS* 1.3 78.0 + - + +
115B LEU 3.5 0.2 - - - -
117B ALA* 3.5 18.8 + - + +
118B LEU 4.8 1.2 + - - -
192B ALA* 4.7 6.3 - - + -
195B HIS* 3.6 21.1 - - + -
196B TYR* 2.9 39.1 - - + -
199B ALA* 3.5 16.4 - - + -
252B PHE* 3.9 9.0 - + - -
256B VAL* 3.4 11.0 + - + +
257B TYR* 3.4 22.0 - - + -
260B ASP* 2.9 22.4 + - + +
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Residues in contact with HIS 114 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25A LEU* 6.3 1.0 - - + +
47A THR 4.6 1.0 - - - +
48A LEU* 4.5 22.0 - - + +
16B ARG* 3.6 18.4 - - - +
110B VAL* 3.1 41.3 + - + +
113B TYR* 1.3 82.2 - - + +
115B LEU* 1.3 64.8 + - + +
118B LEU* 4.9 2.0 - - - +
196B TYR* 3.2 56.0 + + + +
199B ALA* 3.7 33.8 - - + +
200B LEU* 3.5 25.6 - - + +
203B GLN* 4.5 1.5 - - + +
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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