Contacts of the helix formed by residues 92 - 115 (chain C) in PDB entry 1ORR
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 ASN 92 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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88C THR* 2.7 18.0 + - + +
89C SER 3.5 3.1 - - - -
91C ASP* 1.3 77.1 - - - +
93C PRO* 1.3 64.6 - - - +
94C CYS* 3.9 2.9 + - - +
95C MET* 3.2 42.4 + - + +
96C ASP* 3.1 19.4 + - - +
63D ASN* 3.0 22.2 + - - +
64D ASP* 5.5 1.2 + - - -
67D ARG* 3.3 39.2 + - - +
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Residues in contact with PRO 93 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
105A LEU* 6.0 0.8 - - + +
109A GLU* 3.6 19.7 - - - +
112A ARG* 3.6 21.3 - - - +
175A TYR* 4.9 3.0 + - + -
179A TYR* 3.4 18.6 - - + +
183A PHE* 4.0 8.5 - - + -
89C SER 3.0 17.2 - - - +
90C ILE 3.6 5.4 - - - +
91C ASP 3.5 6.5 - - - +
92C ASN* 1.3 89.8 - - - +
94C CYS* 1.3 57.0 + - - +
96C ASP* 3.3 6.3 + - + +
97C PHE* 2.9 30.9 + - - +
164C PRO* 4.1 16.3 - - + +
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Residues in contact with CYS 94 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62A LYS* 4.5 19.3 - - - +
109A GLU* 4.0 22.3 + - + +
92C ASN* 3.1 2.4 - - - +
93C PRO* 1.3 80.3 - - - +
95C MET* 1.3 67.1 + - - +
97C PHE* 3.2 7.3 + - - +
98C GLU* 2.9 53.3 + - - +
63D ASN* 3.7 30.3 - - - +
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Residues in contact with MET 95 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60C ARG* 4.1 12.1 - - - +
83C GLN* 4.0 13.0 - - + -
88C THR* 3.6 30.3 - - + -
92C ASN* 3.2 37.4 + - + +
94C CYS* 1.3 78.7 - - - +
96C ASP* 1.3 64.1 + - - +
98C GLU* 3.2 8.3 + - - +
99C ILE* 2.9 44.9 + - + +
63D ASN* 3.6 9.3 - - - +
64D ASP* 4.6 10.5 - - - +
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Residues in contact with ASP 96 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
175A TYR* 4.1 1.6 + - - -
83C GLN* 2.7 36.1 + - + +
89C SER* 3.6 22.6 - - - -
92C ASN 3.1 13.1 + - - +
93C PRO* 3.5 8.7 - - + +
95C MET* 1.3 79.4 - - - +
97C PHE* 1.3 55.8 + - - +
100C ASN* 3.0 47.6 + - - +
164C PRO* 3.0 16.8 - - - +
165C TYR* 3.8 3.5 - - - -
168C SER* 2.6 26.1 + - - -
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Residues in contact with PHE 97 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
97A PHE* 3.8 20.0 - + - -
101A VAL* 3.3 35.0 - - + -
102A GLY* 4.5 10.5 - - - -
105A LEU* 4.0 26.2 - - + -
175A TYR* 3.5 27.6 - + + +
93C PRO 2.9 17.3 + - - +
94C CYS* 3.6 5.8 - - - +
96C ASP* 1.3 76.6 + - - +
98C GLU* 1.3 74.3 + - + +
101C VAL* 2.8 56.0 + - + +
102C GLY* 3.0 8.4 + - - -
168C SER* 4.1 2.5 - - - -
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Residues in contact with GLU 98 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60C ARG* 3.7 28.8 + - + +
94C CYS* 2.9 42.3 + - - +
95C MET* 3.9 4.4 - - - +
97C PHE* 1.3 88.8 - - + +
99C ILE* 1.3 58.5 + - - +
102C GLY* 3.1 8.6 - - - +
103C GLY 2.9 22.5 + - - -
61D ASN* 2.8 35.3 + - - +
63D ASN* 4.3 4.9 + - - +
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Residues in contact with ILE 99 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59C ILE* 3.8 18.1 - - + +
60C ARG* 3.6 26.5 - - + +
79C HIS* 5.4 0.5 + - - -
81C ALA 4.5 2.3 - - - +
82C GLY* 3.6 13.7 - - - +
83C GLN* 3.6 33.9 - - + +
95C MET* 2.9 42.6 + - + +
96C ASP 4.2 1.3 - - - +
98C GLU* 1.3 76.1 - - - +
100C ASN* 1.3 64.1 + - - +
103C GLY* 3.1 24.1 + - - +
104C THR* 3.9 1.4 + - - -
1400C NAD 3.8 25.1 - - - +
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Residues in contact with ASN 100 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
81C ALA 4.5 0.3 - - - +
82C GLY* 3.2 10.6 - - - -
83C GLN* 2.9 37.8 + - - +
96C ASP* 3.0 29.7 + - - +
99C ILE* 1.3 79.9 - - - +
101C VAL* 1.3 58.3 + - - +
104C THR* 2.8 30.0 + - - -
122C TYR* 4.3 2.5 + - - +
165C TYR* 4.2 0.6 - - - -
168C SER* 3.0 34.9 + - - +
169C LYS* 3.8 25.4 + - + +
172C ALA* 3.5 5.4 - - - +
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Residues in contact with VAL 101 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
97A PHE* 3.5 28.7 - - + -
101A VAL* 4.9 1.3 - - + -
175A TYR* 4.1 1.1 - - + +
97C PHE* 2.8 41.9 + - + +
100C ASN* 1.3 71.4 - - - +
102C GLY* 1.3 66.1 + - - +
104C THR 3.3 1.4 + - - -
105C LEU* 2.9 36.7 + - + +
168C SER* 3.4 37.9 - - - +
171C ALA* 4.2 20.9 - - + -
172C ALA* 4.7 3.6 - - - +
175C TYR* 5.1 1.8 - - + -
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Residues in contact with GLY 102 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
97A PHE* 4.6 13.8 - - - -
60C ARG* 5.2 1.3 - - - -
97C PHE* 3.0 13.1 + - - -
98C GLU* 3.1 12.5 - - - +
101C VAL* 1.3 79.3 - - - +
103C GLY* 1.3 56.2 + - - +
105C LEU* 3.3 2.8 + - - +
106C ASN* 2.9 39.2 + - - +
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Residues in contact with GLY 103 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59C ILE* 3.2 40.9 - - - +
60C ARG* 4.7 0.2 - - - +
79C HIS* 4.3 0.7 - - - -
98C GLU 2.9 10.1 + - - -
99C ILE 3.1 13.7 + - - -
102C GLY* 1.3 74.2 - - - +
104C THR* 1.3 61.9 + - - +
106C ASN* 3.3 3.6 + - - +
107C LEU* 3.0 23.0 + - - +
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Residues in contact with THR 104 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
79C HIS* 3.0 24.5 + - + -
99C ILE 3.9 0.4 + - - -
100C ASN* 2.8 26.0 + - - -
101C VAL 3.3 2.6 + - - -
102C GLY 3.3 0.6 - - - -
103C GLY* 1.3 75.4 - - - +
105C LEU* 1.3 60.2 + - + +
107C LEU* 3.2 3.4 + - - +
108C LEU* 2.8 38.5 + - + +
122C TYR* 3.7 5.9 + - + -
172C ALA* 3.7 27.5 - - + +
176C MET* 3.6 27.4 - - + -
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Residues in contact with LEU 105 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
93A PRO 5.8 1.3 - - - +
94A CYS* 6.4 1.1 - - - -
97A PHE* 4.1 30.7 - - + -
62C LYS* 5.5 0.2 - - - -
101C VAL* 2.9 27.5 + - + +
102C GLY* 3.8 4.9 - - - +
104C THR* 1.3 83.1 - - + +
106C ASN* 1.3 67.0 + - - +
108C LEU* 4.3 3.4 - - + +
109C GLU* 2.9 35.4 + - + +
172C ALA* 5.1 1.3 - - - -
175C TYR* 3.7 51.6 - - + -
179C TYR* 3.9 24.2 - - + +
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Residues in contact with ASN 106 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59C ILE 3.0 21.2 + - - +
60C ARG 3.0 22.6 + - - -
62C LYS* 3.4 43.9 + - + +
65C VAL* 3.7 20.1 - - + +
66C THR* 4.9 3.5 + - - -
102C GLY 2.9 19.2 + - - +
103C GLY 3.3 7.6 + - - +
105C LEU* 1.3 75.9 - - - +
107C LEU* 1.3 62.9 + - - +
109C GLU* 4.1 1.2 - - - +
110C ALA* 3.2 22.9 + - - +
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Residues in contact with LEU 107 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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5C LEU* 4.8 3.1 - - + -
7C THR* 5.0 4.9 - - + -
59C ILE* 5.1 1.6 - - + -
65C VAL* 3.8 13.4 - - + +
68C LEU* 5.7 1.1 - - + -
69C ILE* 3.7 31.0 - - + -
77C CYS* 4.0 19.5 - - - -
79C HIS* 3.6 43.1 - - + +
103C GLY 3.0 12.9 + - - +
104C THR* 3.5 8.1 - - - +
105C LEU 3.1 0.2 - - - -
106C ASN* 1.3 76.8 - - - +
108C LEU* 1.3 64.1 + - - +
110C ALA* 3.3 1.6 + - - +
111C VAL* 3.0 32.4 + - + +
120C ILE* 4.3 14.1 - - + -
176C MET* 4.7 4.0 - - + -
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Residues in contact with LEU 108 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
104C THR* 2.8 37.8 + - + +
105C LEU* 3.9 7.9 - - + +
107C LEU* 1.3 74.2 - - + +
109C GLU* 1.3 55.9 + - - +
111C VAL* 3.4 3.4 + - - +
112C ARG* 2.8 30.8 + - - +
120C ILE* 4.3 11.7 - - + -
175C TYR* 3.9 35.9 - - + +
176C MET* 4.0 27.4 - - + +
179C TYR* 3.7 28.2 - - + -
185C LEU* 3.9 21.9 - - + +
187C THR* 4.3 2.9 - - + -
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Residues in contact with GLU 109 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
93A PRO* 3.6 6.2 - - - +
94A CYS* 4.0 23.2 - - + +
62C LYS* 3.7 23.7 + - - +
105C LEU* 2.9 28.3 + - + +
106C ASN 4.1 0.4 - - - +
108C LEU* 1.3 68.7 - - - +
110C ALA* 1.3 67.1 + - - +
112C ARG* 2.9 40.7 + - - -
113C GLN* 2.9 42.4 + - - +
179C TYR* 2.6 28.5 + - - +
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Residues in contact with ALA 110 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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62C LYS* 5.4 0.4 - - - +
65C VAL 4.5 0.7 - - - +
66C THR* 4.0 22.2 - - - +
69C ILE* 3.8 29.1 - - + +
106C ASN 3.2 16.4 + - - +
107C LEU* 3.3 3.8 + - - +
109C GLU* 1.3 79.7 - - - +
111C VAL* 1.3 58.8 + - - +
113C GLN* 5.1 0.4 - - - +
114C TYR* 2.8 46.1 + - + +
115C ASN 3.7 0.5 + - - -
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Residues in contact with VAL 111 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69C ILE* 4.3 15.5 - - + -
107C LEU* 3.0 34.0 + - + +
108C LEU 3.8 3.1 - - - +
110C ALA* 1.3 73.6 - - - +
112C ARG* 1.3 65.0 + - - +
115C ASN* 2.8 24.3 + - - +
116C SER* 2.8 31.5 + - - -
118C CYS* 4.0 21.1 - - + +
120C ILE* 3.9 31.4 - - + -
185C LEU* 4.0 13.7 - - + -
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Residues in contact with ARG 112 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
90A ILE 5.4 0.8 + - - -
91A ASP 5.4 3.4 + - - -
93A PRO* 3.9 20.0 - - - +
67B ARG* 5.9 2.0 - - - +
108C LEU 2.8 18.5 + - - +
109C GLU* 2.9 42.4 + - - +
111C VAL* 1.3 80.4 - - - +
113C GLN* 1.3 87.9 + - - +
116C SER* 3.9 12.0 - - - -
179C TYR* 3.9 5.2 - - + -
183C PHE* 3.7 52.1 - - + -
185C LEU* 4.1 15.5 - - + +
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Residues in contact with GLN 113 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62C LYS* 5.2 4.6 - - - +
109C GLU* 2.9 33.3 + - - +
110C ALA* 5.1 0.4 - - - +
112C ARG* 1.3 111.9 + - - +
114C TYR* 1.3 92.4 + - + +
115C ASN 3.9 0.2 - - - -
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Residues in contact with TYR 114 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
114B TYR* 3.5 23.3 + + - -
66C THR* 3.6 23.3 - - + +
69C ILE* 4.6 4.7 - - + -
70C THR* 3.5 33.4 - - + -
73C MET* 3.2 23.0 - - - +
110C ALA* 2.8 34.3 + - + +
113C GLN* 1.3 106.3 + - + +
115C ASN* 1.3 56.6 + - - +
116C SER 4.0 0.4 - - - -
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Residues in contact with ASN 115 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69C ILE* 3.7 20.2 - - + +
73C MET* 3.3 26.3 - - - +
74C PRO* 2.9 47.0 + - - +
110C ALA 3.7 0.6 + - - -
111C VAL* 2.8 19.1 + - - +
113C GLN 3.9 0.2 - - - -
114C TYR* 1.3 77.3 - - - +
116C SER* 1.3 57.7 + - - +
117C ASN* 3.0 13.6 + - - +
118C CYS* 3.1 27.6 + - - +
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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