Contacts of the helix formed by residues 95 - 124 (chain H) in PDB entry 5JKL
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 95 (chain H).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40H TYR* 3.8 3.7 + - - -
41H PHE* 3.6 12.3 - - - -
46H VAL* 6.3 0.4 - - - -
93H TRP 2.9 7.6 + - - +
94H GLU* 1.3 78.1 + - - +
96H GLY* 1.3 63.8 + - - +
97H LEU 3.5 2.1 + - - -
98H ASN* 3.0 24.1 + - - +
99H ALA 3.0 18.4 + - - -
161H PRO* 3.6 25.5 - - - +
167H GLU* 3.5 15.3 - - - -
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Residues in contact with GLY 96 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41H PHE* 3.6 15.4 - - - -
51H PHE* 3.5 26.9 - - - -
95H SER* 1.3 70.9 - - - +
97H LEU* 1.3 57.9 + - - +
99H ALA* 3.4 2.9 + - - +
100H MET* 3.0 33.4 + - - +
155H LEU* 4.2 2.2 - - - -
167H GLU* 2.9 20.4 + - - -
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Residues in contact with LEU 97 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
95H SER* 3.3 4.0 - - - +
96H GLY* 1.3 75.9 - - - +
98H ASN* 1.3 57.6 + - - +
100H MET* 3.2 1.6 + - - +
101H GLU* 2.9 49.6 + - - +
152H VAL* 3.9 32.1 - - + +
155H LEU* 4.0 17.0 - - + +
156H ARG* 3.9 20.2 - - + +
160H ALA* 3.6 34.3 - - + +
161H PRO* 3.9 11.2 - - + -
167H GLU* 2.9 15.3 + - - +
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Residues in contact with ASN 98 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
90H GLU* 5.9 2.6 - - - +
92H ASP 5.4 0.2 + - - -
93H TRP* 2.9 32.8 + - - +
94H GLU* 4.0 24.9 - - + +
95H SER* 3.0 16.7 + - - +
97H LEU* 1.3 77.0 - - - +
99H ALA* 1.3 57.0 + - - +
101H GLU* 3.2 16.4 + - - +
102H GLU* 2.9 54.2 + - - +
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Residues in contact with ALA 99 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37H MET* 3.6 19.6 - - - +
41H PHE* 3.6 28.0 - - + -
55H PHE* 4.1 11.4 - - + -
93H TRP* 3.8 13.5 + - + -
95H SER 3.0 16.8 + - - +
96H GLY 3.7 2.0 - - - +
97H LEU 3.3 0.2 - - - -
98H ASN* 1.3 77.4 - - - +
100H MET* 1.3 56.8 + - - +
102H GLU* 4.5 1.1 - - - -
103H ALA* 2.8 29.8 + - - +
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Residues in contact with MET 100 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51H PHE* 3.8 17.7 - - + -
54H TYR* 3.8 19.5 - - + -
55H PHE* 3.7 22.4 - - + -
96H GLY 3.0 21.5 + - - +
97H LEU 3.2 4.7 + - - +
99H ALA* 1.3 75.3 - - - +
101H GLU* 1.3 58.5 + - - +
103H ALA* 3.4 3.8 + - - +
104H LEU* 3.0 28.4 + - - +
148H LEU* 3.6 27.7 - - + +
151H HIS* 4.0 23.1 - - + -
152H VAL* 3.8 19.6 - - + +
155H LEU* 4.0 17.0 - - + -
170H PHE* 4.5 2.2 - - + -
175H LEU* 4.0 10.3 - - + -
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Residues in contact with GLU 101 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
97H LEU* 2.9 34.4 + - + +
98H ASN* 3.6 17.1 - - - +
99H ALA 3.2 0.2 - - - -
100H MET* 1.3 74.7 - - - +
102H GLU* 1.3 60.3 + - + +
104H LEU* 3.4 8.7 + - + +
105H GLU* 3.0 27.5 + - - +
152H VAL* 3.9 20.4 - - + -
156H ARG* 2.7 36.2 + - - +
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Residues in contact with GLU 102 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37H MET* 3.8 19.7 - - + -
89H ASP* 5.2 7.4 - - - +
90H GLU* 5.0 8.1 - - - +
93H TRP* 4.0 19.5 - - + -
98H ASN* 2.9 40.9 + - - +
101H GLU* 1.3 77.5 - - + +
103H ALA* 1.3 59.3 + - - +
105H GLU* 3.4 23.8 + - - +
106H LEU* 2.9 27.9 + - - +
----------------------------------------------------------
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Residues in contact with ALA 103 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34H TYR* 3.9 27.1 - - + +
37H MET* 3.9 6.8 - - - +
55H PHE* 4.3 6.7 - - + -
99H ALA 2.8 17.6 + - - +
100H MET 3.6 5.4 - - - +
102H GLU* 1.3 74.1 - - - +
104H LEU* 1.3 60.0 + - - +
106H LEU* 3.2 7.6 + - - +
107H GLU* 2.8 35.0 + - - +
148H LEU* 3.8 18.6 - - + -
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Residues in contact with LEU 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 18.2 + - - +
101H GLU* 3.5 9.2 - - + +
103H ALA* 1.3 75.5 - - - +
105H GLU* 1.3 64.5 + - - +
107H GLU* 3.3 2.0 + - - +
108H LYS* 3.0 40.4 + - + +
145H ILE* 3.8 40.4 - - + +
148H LEU* 3.8 16.3 - - + +
149H GLY* 4.4 10.3 - - - +
152H VAL* 4.4 21.3 - - + -
156H ARG* 6.1 0.9 - - - +
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Residues in contact with GLU 105 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
101H GLU 3.0 13.9 + - - +
102H GLU* 3.7 29.8 - - - +
104H LEU* 1.3 75.8 - - - +
106H LEU* 1.3 59.9 + - - +
108H LYS* 3.3 7.4 + - - +
109H ASN* 2.9 51.5 + - - +
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Residues in contact with LEU 106 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26H LEU* 5.5 2.2 - - + -
29H TYR* 4.1 26.7 - - + -
30H ALA* 4.0 30.3 - - + -
33H VAL* 4.0 28.3 - - + -
34H TYR* 4.2 25.1 - - + -
102H GLU 2.9 14.6 + - - +
103H ALA* 3.4 8.3 - - - +
105H GLU* 1.3 75.9 - - - +
107H GLU* 1.3 61.2 + - + +
109H ASN* 3.1 11.8 + - + +
110H VAL* 2.9 36.6 + - + +
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Residues in contact with GLU 107 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30H ALA* 6.1 0.4 - - - -
34H TYR* 2.4 43.9 + - - +
58H GLN* 5.4 1.9 - - - +
62H GLU* 3.4 14.6 - - - +
103H ALA 2.8 19.8 + - - +
104H LEU 3.9 2.5 - - - +
106H LEU* 1.3 78.6 - - + +
108H LYS* 1.3 58.0 + - - +
110H VAL* 3.4 6.1 + - - +
111H ASN* 2.8 26.9 + - - +
141H GLN* 2.7 44.7 + - - +
144H ALA* 4.2 15.9 - - + +
145H ILE* 3.9 19.7 - - + +
148H LEU* 3.7 13.5 - - + -
----------------------------------------------------------
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Residues in contact with LYS 108 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
104H LEU* 3.0 35.5 + - + +
105H GLU* 3.8 7.2 - - - +
107H GLU* 1.3 76.6 - - - +
109H ASN* 1.3 60.5 + - - +
111H ASN* 3.4 3.3 + - - +
112H GLN* 2.9 29.8 + - - +
145H ILE* 4.0 31.4 - - + -
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Residues in contact with ASN 109 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26H LEU* 4.5 6.1 - - + +
105H GLU* 2.9 38.6 + - - +
106H LEU* 3.4 10.4 - - + +
108H LYS* 1.3 76.5 - - - +
110H VAL* 1.3 65.6 + - + +
112H GLN* 3.3 7.9 + - - +
113H SER* 3.1 21.8 + - - -
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Residues in contact with VAL 110 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23H GLN* 3.7 7.4 - - - +
26H LEU* 4.0 26.2 - - + +
27H GLU* 3.5 29.2 - - - +
30H ALA* 4.5 13.2 - - + -
62H GLU* 5.8 0.4 - - - +
106H LEU* 2.9 35.5 + - + +
107H GLU* 3.8 7.9 - - - +
109H ASN* 1.3 72.1 - - + +
111H ASN* 1.3 66.4 + - - +
113H SER* 3.2 3.8 + - - -
114H LEU* 3.0 27.0 + - + +
141H GLN* 3.9 16.6 - - - +
201H FE 4.4 1.8 - - - -
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Residues in contact with ASN 111 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
107H GLU 2.8 17.9 + - - +
108H LYS* 3.5 6.3 - - - +
109H ASN 3.2 0.2 - - - -
110H VAL* 1.3 78.6 - - - +
112H GLN* 1.3 56.6 + - - +
114H LEU* 3.1 2.5 + - - +
115H LEU* 2.8 49.4 + - - +
138H LEU* 4.3 16.5 - - - +
141H GLN* 3.3 30.3 - - + +
142H VAL* 5.2 8.8 - - - +
145H ILE* 3.9 19.5 - - + +
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Residues in contact with GLN 112 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
108H LYS 2.9 17.5 + - - +
109H ASN* 3.3 9.4 + - - +
111H ASN* 1.3 74.9 - - - +
113H SER* 1.3 63.4 + - - +
115H LEU* 3.2 18.4 + - - +
116H GLU* 2.8 64.8 + - - +
----------------------------------------------------------
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Residues in contact with SER 113 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22H ARG* 5.8 0.9 - - - +
23H GLN* 2.7 25.3 + - - -
26H LEU* 3.5 23.9 - - - +
109H ASN 3.1 7.8 + - - -
110H VAL 3.2 8.0 + - - -
112H GLN* 1.3 77.6 - - - +
114H LEU* 1.3 56.1 + - - +
116H GLU* 3.4 12.5 + - - +
117H LEU* 2.9 27.4 + - - +
----------------------------------------------------------
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Residues in contact with LEU 114 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23H GLN* 3.6 28.5 - - + +
69H LEU* 5.8 1.8 - - + -
110H VAL* 3.0 25.8 + - + +
111H ASN* 3.5 6.1 - - - +
113H SER* 1.3 77.7 - - - +
115H LEU* 1.3 56.9 + - - +
117H LEU* 3.3 11.9 + - + +
118H HIS* 2.9 28.8 + - - +
133H ILE* 4.1 13.4 - - + +
137H TYR* 3.8 42.4 - - + +
138H LEU* 3.9 15.0 - - + -
141H GLN* 3.5 31.9 - - + -
----------------------------------------------------------
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Residues in contact with LEU 115 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
111H ASN* 2.8 42.3 + - - +
112H GLN* 3.2 21.3 + - - +
114H LEU* 1.3 71.0 - - - +
116H GLU* 1.3 59.1 + - - +
118H HIS* 3.3 6.6 + - + +
119H LYS* 3.0 28.8 + - - +
138H LEU* 4.0 28.0 - - + -
----------------------------------------------------------
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Residues in contact with GLU 116 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25B ARG* 5.8 1.6 + - - -
112H GLN* 2.8 52.9 + - - +
113H SER* 3.6 10.4 - - - +
115H LEU* 1.3 72.3 - - - +
117H LEU* 1.3 65.5 + - - +
119H LYS* 3.3 12.5 + - + +
120H LEU* 3.0 23.7 + - - +
----------------------------------------------------------
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Residues in contact with LEU 117 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16H SER 4.5 2.2 - - - +
19H ALA* 3.4 36.6 - - + +
20H ILE* 3.9 29.2 - - + +
23H GLN* 3.9 33.9 - - + +
69H LEU* 5.3 1.1 - - + -
113H SER 2.9 12.5 + - - +
114H LEU* 3.5 14.4 - - + +
115H LEU 3.3 0.2 - - - -
116H GLU* 1.3 79.0 - - - +
118H HIS* 1.4 56.2 + - - +
120H LEU* 3.3 10.9 + - + +
121H ALA* 2.9 28.8 + - - +
129H LEU* 4.8 7.2 - - + -
133H ILE* 3.7 17.7 - - + -
----------------------------------------------------------
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Residues in contact with HIS 118 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
114H LEU 2.9 14.8 + - - +
115H LEU* 3.3 11.9 + - + +
117H LEU* 1.4 72.8 - - - +
119H LYS* 1.3 61.7 + - - +
121H ALA* 3.3 2.7 + - - +
122H THR* 2.8 50.6 + - - -
130H CYS* 3.4 32.3 - - + +
133H ILE* 3.9 21.5 - - + +
134H GLU* 2.7 35.9 + - + -
138H LEU* 4.4 9.4 - - + -
----------------------------------------------------------
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Residues in contact with LYS 119 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
115H LEU 3.0 16.5 + - - +
116H GLU* 3.6 11.4 - - + +
117H LEU 3.3 0.2 - - - -
118H HIS* 1.3 77.4 - - - +
120H LEU* 1.3 57.0 + - - +
122H THR* 3.3 8.1 + - + -
123H ASP* 2.9 58.6 + - - +
----------------------------------------------------------
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Residues in contact with LEU 120 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
15H ASP* 3.5 44.2 - - + +
16H SER* 4.0 9.9 - - - +
19H ALA* 3.7 18.4 - - + -
116H GLU 3.0 13.8 + - - +
117H LEU* 3.5 10.8 - - + +
118H HIS 3.3 0.2 - - - -
119H LYS* 1.3 73.8 - - - +
121H ALA* 1.3 60.5 + - - +
123H ASP* 3.2 9.5 + - + +
124H LYS* 2.9 49.7 + - + +
----------------------------------------------------------
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Residues in contact with ALA 121 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16H SER* 4.7 2.2 - - - -
117H LEU 2.9 16.0 + - - +
118H HIS* 3.3 4.7 + - - +
120H LEU* 1.3 75.1 - - - +
122H THR* 1.3 61.4 + - - +
124H LYS* 3.4 3.1 + - - +
125H ASN 3.1 4.2 + - - -
126H ASP* 3.0 36.7 + - + +
129H LEU* 3.7 35.0 - - + +
130H CYS* 3.7 19.9 - - - +
133H ILE* 4.8 0.2 - - + -
----------------------------------------------------------
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Residues in contact with THR 122 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
118H HIS* 2.8 42.9 + - - -
119H LYS* 3.4 8.2 - - + -
121H ALA* 1.3 77.4 - - - +
123H ASP* 1.3 65.0 + - - +
125H ASN* 3.1 26.8 + - - +
130H CYS* 3.6 8.3 - - - -
----------------------------------------------------------
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Residues in contact with ASP 123 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
119H LYS* 2.9 50.2 + - - +
120H LEU* 3.7 9.9 - - + +
122H THR* 1.3 83.0 - - - +
124H LYS* 1.3 68.4 + - + +
125H ASN* 3.6 10.2 + - - -
----------------------------------------------------------
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Residues in contact with LYS 124 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11H ASN* 4.2 9.0 - - - +
13H HIS* 3.6 49.5 + - + +
15H ASP* 3.5 24.6 + - - -
16H SER* 4.2 9.2 - - - +
120H LEU* 2.9 34.5 + - + +
121H ALA* 3.6 3.4 - - - +
122H THR 3.2 0.2 - - - -
123H ASP* 1.3 83.6 - - + +
125H ASN* 1.3 70.3 + - - +
126H ASP* 3.3 6.4 + - + +
----------------------------------------------------------
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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