Contacts of the helix formed by residues 90 - 114 (chain H) 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 H).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
88H ILE 3.8 0.8 + - - -
89H PRO* 1.3 71.8 - - - +
91H ASN* 1.3 57.2 + - - +
93H THR* 3.0 10.7 + - + -
94H LEU* 2.9 41.7 + - + +
431H LYS* 5.2 14.3 - - - +
435H ASN* 2.9 29.6 + - - +
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Residues in contact with ASN 91 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
89H PRO* 3.2 1.0 - - - +
90H GLU* 1.3 76.7 - - - +
92H ALA* 1.3 62.7 + - - +
94H LEU* 4.0 2.3 - - - +
95H MET* 3.1 25.5 + - - +
234H LEU* 4.7 3.8 - - - +
432H LEU* 3.7 21.5 - - + +
435H ASN* 2.8 34.3 + - - +
436H VAL* 4.1 10.3 - - - +
440H LYS* 2.8 27.7 + - - -
441H ASP* 3.5 15.2 - - - +
442H ASP 3.1 19.4 + - - +
443H LEU* 3.8 10.9 - - + +
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Residues in contact with ALA 92 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
88H ILE* 4.2 8.1 - - + -
89H PRO* 2.6 16.9 + - + +
91H ASN* 1.3 73.8 - - - +
93H THR* 1.3 66.0 + - - +
96H ARG* 3.0 33.6 + - - -
227H GLY* 3.7 18.2 - - - -
228H CYS* 3.8 15.7 - - - -
443H LEU* 3.2 31.3 - - - +
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Residues in contact with THR 93 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
88H ILE* 3.3 18.3 + - - +
89H PRO 3.0 7.3 + - - -
90H GLU* 3.0 12.5 + - + -
92H ALA* 1.3 80.4 - - - +
94H LEU* 1.3 64.7 + - + +
96H ARG* 3.4 2.0 + - - +
97H ASN* 3.2 27.2 + - - +
287H PRO 3.2 27.6 - - - +
288H THR* 4.4 11.1 + - - +
290H GLU* 2.8 34.9 + - - +
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Residues in contact with LEU 94 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
90H GLU* 2.9 29.8 + - + +
91H ASN* 4.0 6.7 - - - +
93H THR* 1.3 77.6 - - + +
95H MET* 1.3 51.7 + - - +
97H ASN* 3.2 9.3 + - - +
98H LEU* 2.9 39.7 + - - +
428H TRP* 4.0 39.6 - - + +
431H LYS* 3.9 20.9 - - + -
432H LEU* 3.8 31.6 - - + +
435H ASN* 3.9 21.3 - - - +
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Residues in contact with MET 95 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
91H ASN 3.1 17.0 + - - +
92H ALA 4.3 1.8 - - - +
94H LEU* 1.3 73.5 - - - +
96H ARG* 1.3 60.9 + - - +
98H LEU* 3.8 11.0 - - - +
99H THR* 2.9 30.0 + - - -
213H PHE* 4.1 20.9 - - + -
222H PHE* 3.7 22.2 - - + -
228H CYS* 4.1 14.8 - - - -
230H ASN* 3.9 26.5 - - - +
233H SER* 3.7 15.7 - - - +
234H LEU* 3.5 33.2 - - + -
432H LEU* 4.4 6.5 - - + +
443H LEU* 4.2 8.3 - - + -
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Residues in contact with ARG 96 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70H TYR* 2.6 30.7 + - - +
74H LEU* 4.1 12.9 - - + +
77H VAL* 3.5 24.8 - - - +
78H ARG* 4.1 19.1 + - - +
81H ASP* 2.8 26.6 + - - -
88H ILE* 3.7 18.2 - - - +
92H ALA* 3.0 26.3 + - - +
93H THR* 3.7 4.9 - - - +
94H LEU 3.3 0.2 - - - -
95H MET* 1.3 76.5 - - - +
97H ASN* 1.3 60.0 + - - +
99H THR 3.7 0.2 + - - -
100H MET* 3.3 18.4 + - - +
222H PHE* 4.6 2.5 - - + -
223H THR* 4.1 12.6 - - + +
224H VAL 3.3 13.3 + - - -
227H GLY* 2.9 32.7 + - - -
228H CYS* 3.6 18.4 - - - -
290H GLU* 4.3 6.8 + - - +
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Residues in contact with ASN 97 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78H ARG* 4.2 7.4 + - - -
93H THR* 3.2 19.1 + - - +
94H LEU* 3.4 11.7 - - - +
96H ARG* 1.3 77.7 - - - +
98H LEU* 1.3 66.9 + - - +
99H THR 3.2 0.2 - - - -
100H MET* 3.3 2.0 + - - +
101H GLY 2.9 18.0 + - - -
285H GLU* 4.8 0.3 - - - +
286H PHE* 3.6 29.7 + - + +
287H PRO* 3.4 40.0 + - - +
290H GLU* 4.9 0.3 - - - +
428H TRP* 3.3 36.9 - - + +
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Residues in contact with LEU 98 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
94H LEU 2.9 21.0 + - - +
95H MET* 3.8 12.6 - - - +
96H ARG 3.5 0.2 - - - -
97H ASN* 1.3 80.3 - - - +
99H THR* 1.3 55.6 + - - +
101H GLY* 3.3 0.9 + - - -
102H ALA* 3.0 27.9 + - - +
213H PHE* 3.8 31.4 - - + -
242H PHE* 4.2 13.1 - - + -
425H VAL* 3.6 41.8 - - + +
428H TRP* 3.8 26.5 - - + +
429H LEU* 4.0 16.2 - - + +
432H LEU* 4.5 10.1 - - + -
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Residues in contact with THR 99 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70H TYR* 3.8 36.7 - - + -
95H MET 2.9 20.0 + - - -
96H ARG 4.0 0.2 - - - -
97H ASN 3.2 0.2 - - - -
98H LEU* 1.3 77.4 - - - +
100H MET* 1.3 56.4 + - - +
102H ALA* 3.7 6.1 + - - +
103H GLN* 3.2 23.7 + - - +
210H MET* 4.0 30.4 - - + +
213H PHE* 3.3 23.5 - - - +
214H GLY* 4.7 0.2 - - - -
220H THR* 4.3 3.8 - - + -
222H PHE* 3.5 14.7 - - + -
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Residues in contact with MET 100 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70H TYR* 3.8 8.3 - - + -
71H VAL* 3.6 31.2 - - + -
74H LEU* 3.6 17.3 - - + -
96H ARG 3.3 17.6 + - - +
97H ASN* 3.3 4.5 + - - +
98H LEU 3.2 0.4 - - - -
99H THR* 1.3 74.4 - - - +
101H GLY* 1.3 65.6 + - - +
103H GLN* 3.1 7.3 + - - +
104H TYR* 3.0 54.5 + - + -
285H GLU* 4.1 9.9 - - + +
286H PHE* 3.7 19.3 - - + -
459H VAL* 3.3 34.1 - - + -
460H ASN 4.5 4.0 - - - +
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Residues in contact with GLY 101 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
97H ASN 2.9 17.0 + - - -
98H LEU 3.3 1.8 + - - -
99H THR 3.3 0.2 - - - -
100H MET* 1.3 77.1 - - - +
102H ALA* 1.3 55.7 + - - +
104H TYR* 3.1 7.4 + - - +
105H MET* 3.0 31.8 + - - +
286H PHE* 3.9 14.3 - - - -
421H ALA* 4.7 4.7 - - - +
425H VAL* 3.8 21.1 - - - -
428H TRP* 4.4 0.4 - - - -
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Residues in contact with ALA 102 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
98H LEU 3.0 16.1 + - - +
99H THR* 3.9 5.8 - - - +
101H GLY* 1.3 78.7 - - - +
103H GLN* 1.3 58.8 + - - +
105H MET* 3.5 13.8 + - - +
106H HIS* 3.3 23.6 + - - +
206H ALA* 4.3 8.4 - - - +
209H ALA* 5.0 2.9 - - + -
210H MET* 4.0 31.1 - - + +
242H PHE* 4.8 12.3 - - + -
425H VAL* 4.4 2.2 - - - +
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Residues in contact with GLN 103 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67H VAL 3.2 18.0 + - - +
68H CYS* 3.7 4.4 - - - +
69H THR* 3.7 24.3 - - - +
70H TYR* 4.8 1.8 - - + -
71H VAL* 4.1 11.7 - - + -
99H THR 3.2 14.1 + - - +
100H MET* 3.1 15.0 + - - +
102H ALA* 1.3 72.3 - - - +
104H TYR* 1.3 61.2 + - - +
106H HIS* 4.7 8.4 + - - +
107H ASP* 2.8 68.0 + - - +
210H MET* 3.5 27.8 - - + +
217H ASN* 4.3 2.1 - - - +
462H PRO* 4.0 13.0 - - + -
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Residues in contact with TYR 104 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
100H MET* 3.0 46.2 + - + -
101H GLY 3.1 6.7 + - - +
103H GLN* 1.3 74.7 - - - +
105H MET* 1.3 70.9 + - - +
106H HIS 3.2 0.5 + - - -
107H ASP* 4.6 0.4 - - - -
108H HIS* 3.2 36.0 + + - +
285H GLU* 3.9 10.6 - - - +
286H PHE* 4.2 15.2 - + - -
298H THR* 5.4 1.2 + - + -
417H GLN* 3.7 40.1 + - + +
418H CYS* 4.7 1.6 - - - -
421H ALA* 3.7 25.6 - - + -
460H ASN* 2.6 40.7 + - - -
461H ALA 4.1 1.9 + - - -
462H PRO* 4.0 19.1 - - + -
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Residues in contact with MET 105 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
101H GLY 3.0 14.4 + - - +
102H ALA* 3.5 15.7 - - - +
104H TYR* 1.3 81.9 - - + +
106H HIS* 1.3 57.6 + - - +
109H LEU* 3.4 25.6 + - - +
206H ALA* 5.0 2.9 - - + -
246H TYR* 4.0 29.2 - - + -
249H VAL* 3.4 32.8 - - + -
250H ARG* 3.7 19.1 - - - +
253H ILE* 3.4 17.1 - - + +
418H CYS* 4.0 15.7 - - - +
422H ALA* 4.1 27.6 - - + +
425H VAL* 4.5 6.1 - - - -
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Residues in contact with HIS 106 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22G GLU* 4.0 6.5 - - - -
26G ARG* 3.4 36.1 + - - -
67H VAL 5.6 2.6 + - - -
102H ALA 3.3 13.6 + - - +
103H GLN* 3.9 12.2 + - - +
105H MET* 1.3 73.8 - - - +
107H ASP* 1.3 72.8 + - - +
109H LEU* 3.4 5.8 + - - +
110H VAL* 2.9 36.7 + - + +
203H GLN* 3.1 47.7 + - + +
206H ALA* 3.6 21.9 - - + +
207H ALA* 3.8 8.9 - - + +
210H MET* 5.8 1.8 - - - -
217H ASN* 5.1 4.6 + - - +
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Residues in contact with ASP 107 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67H VAL* 3.9 9.1 - - - +
68H CYS* 3.8 4.5 - - - -
103H GLN* 2.8 39.7 + - - +
104H TYR 4.2 0.7 - - - +
106H HIS* 1.3 85.9 + - - +
108H HIS* 1.3 53.5 + - - +
110H VAL* 3.2 4.1 + - - +
111H HIS* 2.8 32.8 + - - +
462H PRO* 3.4 19.8 - - + +
463H ARG* 2.8 46.0 + - - -
528H ASP* 4.5 2.4 - - - +
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Residues in contact with HIS 108 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
104H TYR* 3.2 25.8 + + + +
107H ASP* 1.3 72.7 - - + +
109H LEU* 1.3 60.1 + - - +
111H HIS* 3.4 3.9 + - - +
112H PHE* 3.0 30.5 + - - +
257H TYR* 3.7 9.5 + - + +
371H PRO* 4.1 1.2 - - - +
414H ARG* 3.5 34.5 - - + +
417H GLN* 2.8 47.7 + - + -
418H CYS* 3.1 36.8 - - + +
462H PRO* 3.6 20.5 + - + +
528H ASP* 4.8 4.3 - - - -
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Residues in contact with LEU 109 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
105H MET 3.4 19.3 + - - +
106H HIS* 3.4 6.9 + - - +
108H HIS* 1.3 75.5 - - - +
110H VAL* 1.3 67.3 + - - +
112H PHE* 3.4 1.4 + - - -
113H TYR* 3.3 46.0 + - + +
114H HIS* 4.8 1.4 + - - -
199H ALA* 4.6 5.2 - - + +
202H VAL* 3.8 32.1 - - + -
203H GLN* 4.4 15.9 - - + +
206H ALA* 5.2 0.7 - - + -
249H VAL* 4.8 7.6 - - + -
252H PHE* 3.4 31.2 - - + -
253H ILE* 4.3 11.2 - - + -
257H TYR* 4.2 16.3 - - + -
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Residues in contact with VAL 110 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22G GLU* 4.6 16.6 - - - +
25G LEU* 5.4 8.7 - - + -
67H VAL* 6.4 0.4 - - + -
106H HIS* 2.9 32.1 + - + +
107H ASP* 3.8 4.3 - - - +
109H LEU* 1.3 76.5 - - - +
111H HIS* 1.3 63.9 + - - +
114H HIS* 3.1 44.4 + - + +
115H LEU* 3.5 16.9 + - + -
203H GLN* 3.5 38.4 - - + +
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Residues in contact with HIS 111 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16H ARG 5.4 0.9 - - - -
107H ASP* 2.8 20.1 + - - +
108H HIS* 3.7 6.1 - - - +
109H LEU 3.3 0.2 - - - -
110H VAL* 1.3 75.7 - - - +
112H PHE* 1.3 67.0 + - - +
115H LEU* 3.2 26.7 + - + +
116H HIS* 2.9 50.5 + + - +
414H ARG* 3.5 34.9 - - - -
463H ARG* 5.5 0.2 - - - +
525H HIS* 2.9 34.5 + - - +
528H ASP* 3.3 36.6 - - - +
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Residues in contact with PHE 112 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
108H HIS 3.0 13.5 + - - +
109H LEU 4.1 1.8 - - - +
110H VAL 3.3 0.2 - - - -
111H HIS* 1.3 80.8 - - - +
113H TYR* 1.3 90.4 + + - +
116H HIS* 3.4 11.7 - - + +
117H ALA* 2.8 43.8 + - + +
120H TRP* 6.1 3.6 - + - -
257H TYR* 3.1 45.1 - + + +
260H ASP* 4.2 12.3 - - + -
261H LEU* 3.9 36.8 - - + -
264H VAL* 5.3 12.3 - - + -
411H THR* 5.0 9.9 - - + -
414H ARG* 6.0 0.4 - - - -
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Residues in contact with TYR 113 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
109H LEU* 3.3 33.5 + - + +
112H PHE* 1.3 105.2 - + - +
114H HIS* 1.3 78.9 + - + +
115H LEU 3.5 0.2 - - - -
117H ALA* 3.5 18.5 + - + +
118H LEU 4.8 0.7 + - - -
192H ALA* 4.7 6.3 - - + -
195H HIS* 3.6 20.6 - - + -
196H TYR* 2.9 39.4 - - + -
199H ALA* 3.5 16.8 - - + -
252H PHE* 3.9 9.6 - + - -
256H VAL* 3.4 9.7 + - + +
257H TYR* 3.4 21.8 - - + -
260H ASP* 2.9 22.7 + - + +
----------------------------------------------------------
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Residues in contact with HIS 114 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25G LEU* 6.3 1.0 - - + +
47G THR 4.6 0.9 - - - +
48G LEU* 4.5 21.6 - - + +
16H ARG* 3.6 18.2 - - - +
110H VAL* 3.1 41.1 + - + +
113H TYR* 1.3 83.1 - - + +
115H LEU* 1.3 65.8 + - + +
118H LEU* 4.9 2.5 - - - +
196H TYR* 3.2 54.0 + + + +
199H ALA* 3.7 32.7 - - + +
200H LEU* 3.5 25.9 - - + +
203H GLN* 4.5 1.3 - - + +
----------------------------------------------------------
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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