Contacts of the helix formed by residues 72 - 104 (chain A) in PDB entry 5WXN
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 ALA 72 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69A THR* 3.1 23.8 + - + +
70A GLU 3.5 1.4 + - - +
71A GLY* 1.3 74.6 - - - +
73A GLU* 1.3 65.1 + - - +
74A LYS 3.1 2.9 + - - -
75A LYS* 4.3 18.4 - - + +
76A GLN* 3.1 20.5 + - - +
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Residues in contact with GLU 73 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
71A GLY 3.7 5.3 + - - +
72A ALA* 1.3 72.2 - - - +
74A LYS* 1.3 62.8 + - + +
76A GLN* 4.1 7.5 + - - +
77A GLN* 3.1 29.1 + - - +
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Residues in contact with LYS 74 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
72A ALA 3.2 0.6 - - - -
73A GLU* 1.3 80.6 - - + +
75A LYS* 1.3 67.0 + - + +
77A GLN* 3.7 4.9 + - + +
78A MET* 3.3 22.7 + - - +
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Residues in contact with LYS 75 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65A ILE* 5.7 1.4 - - + +
69A THR* 3.4 20.3 + - + +
72A ALA* 3.3 16.8 + - + +
74A LYS* 1.3 79.2 - - + +
76A GLN* 1.3 58.0 + - - +
78A MET* 3.4 18.8 + - + +
79A ALA* 3.0 28.4 + - - +
8B GLN* 5.4 9.2 - - + +
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Residues in contact with GLN 76 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66A GLU* 3.0 34.4 - - + +
67A GLN* 5.0 0.5 - - - -
69A THR* 3.2 24.6 + - + +
70A GLU* 3.9 24.6 + - - +
71A GLY 4.9 3.0 - - - +
72A ALA 3.1 12.7 + - - +
73A GLU* 4.2 6.7 + - - +
75A LYS* 1.3 75.4 - - - +
77A GLN* 1.3 61.1 + - - +
78A MET 3.1 1.3 - - - -
79A ALA* 3.9 2.6 - - - +
80A ARG* 2.8 40.3 + - - +
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Residues in contact with GLN 77 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
73A GLU 3.1 18.5 + - - +
74A LYS* 4.2 5.8 - - + +
75A LYS 3.5 0.2 - - - -
76A GLN* 1.3 77.1 - - - +
78A MET* 1.3 56.5 + - - +
80A ARG* 3.8 30.4 + - - +
81A GLU* 3.2 25.6 + - - +
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Residues in contact with MET 78 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
74A LYS 3.3 16.4 + - - +
75A LYS* 3.8 21.1 - - + +
76A GLN 3.1 0.8 - - - -
77A GLN* 1.3 76.1 - - - +
79A ALA* 1.3 60.7 + - - +
81A GLU* 3.3 5.2 + - - +
82A TYR* 3.0 28.8 + - + +
5B GLU* 4.6 4.0 - - - +
8B GLN* 3.7 46.0 - - + +
9B LYS* 3.8 20.6 - - + -
12B LEU* 3.9 23.1 - - + -
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Residues in contact with ALA 79 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62A VAL* 3.4 9.9 - - + +
65A ILE* 4.4 12.1 - - + -
66A GLU* 3.6 35.5 - - + +
75A LYS 3.0 17.4 + - - +
76A GLN 3.9 1.1 - - - +
78A MET* 1.3 73.6 - - - +
80A ARG* 1.3 60.7 + - - +
83A ARG* 3.0 30.5 + - - +
12B LEU* 4.0 16.3 - - + +
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Residues in contact with ARG 80 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66A GLU* 2.9 22.3 + - - +
76A GLN* 2.8 30.2 + - + +
77A GLN* 3.8 31.4 + - - +
78A MET 3.2 0.2 - - - -
79A ALA* 1.3 76.9 - - - +
81A GLU* 1.3 57.5 + - - +
83A ARG* 3.3 15.6 + - - +
84A GLU* 2.8 54.5 + - - +
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Residues in contact with GLU 81 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
77A GLN 3.2 16.8 + - - +
78A MET* 3.3 5.8 + - - +
80A ARG* 1.3 79.1 - - - +
82A TYR* 1.3 57.6 + - - +
84A GLU* 3.6 13.3 + - - +
85A LYS* 3.1 26.0 + - - +
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Residues in contact with TYR 82 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62A VAL* 3.8 24.5 - - + -
78A MET* 3.0 16.8 + - + +
81A GLU* 1.3 74.3 - - - +
83A ARG* 1.3 59.6 + - - +
85A LYS* 3.1 16.4 + - + +
86A ILE* 2.8 47.7 + - + +
9B LYS* 5.5 1.6 - - + -
12B LEU* 4.1 19.7 - - + -
13B ALA* 3.4 41.6 - - + +
16B ALA* 4.0 8.7 - - + -
18B ARG* 3.4 16.2 + - - +
21B ASP* 2.7 31.9 + - + +
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Residues in contact with ARG 83 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59A TRP* 3.6 25.4 - - + +
62A VAL* 3.7 13.1 - - + +
63A SER* 4.3 21.5 - - - +
66A GLU* 2.8 45.6 + - - +
79A ALA 3.0 19.7 + - - +
80A ARG* 3.6 14.1 - - - +
82A TYR* 1.3 74.4 - - - +
84A GLU* 1.3 93.0 + - - +
86A ILE* 3.3 6.5 + - - +
87A GLU* 2.9 52.5 + - - +
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Residues in contact with GLU 84 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
80A ARG* 2.8 40.8 + - + +
81A GLU* 3.8 11.8 - - - +
83A ARG* 1.3 96.3 + - - +
85A LYS* 1.3 62.3 + - - +
87A GLU* 3.1 20.1 + - - +
88A THR* 3.2 18.7 + - - +
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Residues in contact with LYS 85 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
81A GLU 3.1 15.5 + - - +
82A TYR* 3.1 23.7 + - + +
84A GLU* 1.3 75.7 - - - +
86A ILE* 1.3 62.0 + - - +
88A THR* 2.8 22.4 + - - -
89A GLU* 3.5 12.1 + - - +
18B ARG* 4.6 15.7 - - - +
21B ASP* 5.6 0.4 - - - +
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Residues in contact with ILE 86 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55A ARG* 3.7 28.2 - - + +
58A SER* 4.0 20.0 - - - +
59A TRP* 4.0 15.7 - - + +
62A VAL* 3.7 32.1 - - + -
82A TYR* 2.8 39.2 + - + +
83A ARG* 3.8 5.2 - - - +
85A LYS* 1.3 71.9 - - - +
87A GLU* 1.3 57.3 + - - +
89A GLU* 3.1 10.2 + - - +
90A LEU* 2.9 24.5 + - + +
16B ALA* 4.6 0.2 - - + -
18B ARG* 4.0 28.7 - - - +
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Residues in contact with GLU 87 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59A TRP* 2.9 43.0 + - + +
83A ARG* 2.9 41.9 + - - +
84A GLU* 3.1 8.8 + - - +
86A ILE* 1.3 74.4 - - - +
88A THR* 1.3 54.8 + - + +
90A LEU* 3.2 8.5 + - - +
91A ARG* 2.6 58.5 + - - +
132A VAL* 3.4 31.2 - - + +
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Residues in contact with THR 88 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84A GLU 3.2 10.5 + - - +
85A LYS* 2.8 19.9 + - - -
87A GLU* 1.3 78.2 - - + +
89A GLU* 1.3 55.8 + - - +
91A ARG* 4.1 14.8 - - + +
92A ASP* 2.8 45.1 + - - +
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Residues in contact with GLU 89 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55A ARG* 2.9 34.9 + - + +
85A LYS* 3.5 13.0 + - + +
86A ILE 3.1 10.0 + - - +
88A THR* 1.3 81.7 + - - +
90A LEU* 1.3 63.1 + - - +
92A ASP* 3.3 5.7 + - - +
93A ILE* 3.0 30.9 + - - +
18B ARG* 2.7 45.9 + - - -
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Residues in contact with LEU 90 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52A VAL* 4.3 11.4 - - + -
55A ARG* 3.9 19.4 - - + +
56A ARG* 3.8 37.2 - - + +
59A TRP* 4.6 5.6 - - + -
86A ILE* 2.9 12.8 + - + +
87A GLU* 3.5 9.0 - - - +
89A GLU* 1.3 75.4 - - - +
91A ARG* 1.3 66.2 + - - +
93A ILE* 3.4 6.8 + - - +
94A CYS* 3.1 35.0 + - - -
128A TYR* 3.8 24.5 - - + +
129A LEU* 4.6 3.8 - - + -
131A GLU* 6.1 0.2 - - - +
132A VAL* 4.1 23.3 - - + -
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Residues in contact with ARG 91 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
87A GLU* 2.6 50.1 + - - +
88A THR* 3.7 15.4 - - - +
90A LEU* 1.3 74.7 - - - +
92A ASP* 1.3 61.8 + - - +
94A CYS* 3.3 1.6 + - - +
95A ASN* 3.0 45.2 + - - +
129A LEU* 3.5 27.8 + - + +
132A VAL* 3.5 25.5 + - + +
133A ALA* 4.5 13.7 - - - +
141A ILE* 5.4 4.8 - - - +
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Residues in contact with ASP 92 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
88A THR* 2.8 34.6 + - - +
89A GLU* 3.3 5.8 + - - +
91A ARG* 1.3 76.3 - - - +
93A ILE* 1.3 65.5 + - - +
95A ASN* 4.0 9.8 + - - +
96A ASP* 3.0 23.4 + - - +
----------------------------------------------------------
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Residues in contact with ILE 93 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48A TYR* 4.0 24.2 - - + -
51A VAL* 3.6 29.4 - - + +
52A VAL* 4.0 24.7 - - + -
55A ARG* 3.7 33.4 - - + +
89A GLU* 3.0 18.6 + - + +
90A LEU* 3.7 6.1 - - - +
92A ASP* 1.3 77.7 - - + +
94A CYS* 1.3 56.6 + - - +
96A ASP* 3.1 9.3 - - - +
97A VAL* 3.1 28.2 + - + +
125A TYR* 5.2 0.2 - - + -
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Residues in contact with CYS 94 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52A VAL* 3.9 16.2 - - - -
90A LEU* 3.1 26.9 + - - +
91A ARG 3.3 4.0 + - - +
93A ILE* 1.3 74.5 - - - +
95A ASN* 1.3 61.0 + - - +
97A VAL* 3.3 2.0 + - - +
98A LEU* 2.9 34.9 + - - +
125A TYR* 3.8 22.9 - - + +
128A TYR* 3.8 30.3 - - - -
129A LEU* 3.8 21.5 - - + -
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Residues in contact with ASN 95 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
91A ARG* 3.0 34.4 + - - +
92A ASP* 4.2 10.2 + - - +
94A CYS* 1.3 74.1 - - - +
96A ASP* 1.3 63.7 + - - +
98A LEU* 4.5 7.3 - - - +
99A SER* 3.2 24.6 + - - -
129A LEU* 3.6 22.0 - - - +
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Residues in contact with ASP 96 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27A LYS* 3.1 30.4 + - - +
48A TYR* 2.7 31.0 + - + +
92A ASP 3.0 16.3 + - - +
93A ILE* 3.1 16.7 - - - +
95A ASN* 1.3 77.1 - - - +
97A VAL* 1.3 60.2 + - - +
99A SER* 3.3 7.4 + - - -
100A LEU* 3.3 23.7 + - - +
----------------------------------------------------------
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Residues in contact with VAL 97 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48A TYR* 3.4 44.2 - - + -
93A ILE* 3.1 10.5 + - + +
94A CYS 3.3 5.6 + - - +
96A ASP* 1.3 75.1 - - - +
98A LEU* 1.3 59.0 + - - +
100A LEU* 3.0 26.6 + - + +
101A LEU* 3.0 29.0 + - + +
121A MET* 3.6 21.8 - - + -
125A TYR* 3.9 30.3 - - + -
----------------------------------------------------------
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Residues in contact with LEU 98 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
94A CYS 2.9 22.5 + - - +
95A ASN* 4.5 7.9 - - - +
97A VAL* 1.3 74.8 - - - +
99A SER* 1.3 59.6 + - - +
101A LEU* 3.7 11.6 - - + +
102A GLU* 3.3 30.3 + - + +
122A LYS* 3.7 34.8 - - + +
125A TYR* 3.7 20.4 - - + +
126A TYR* 3.8 42.8 - - + +
129A LEU* 3.9 18.6 - - + -
----------------------------------------------------------
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Residues in contact with SER 99 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
95A ASN 3.2 19.4 + - - -
96A ASP* 3.5 7.3 + - - -
97A VAL 3.0 0.6 - - - -
98A LEU* 1.3 76.5 - - - +
100A LEU* 1.3 69.5 + - - +
101A LEU 3.3 0.4 - - - -
102A GLU* 4.3 2.8 - - - +
103A LYS* 3.2 27.9 + - - +
104A PHE* 4.6 1.0 - - - -
----------------------------------------------------------
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Residues in contact with LEU 100 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27A LYS* 3.7 53.6 - - + -
30A THR* 4.3 16.2 - - + +
31A GLU* 4.7 7.6 - - + -
44A LEU* 4.7 8.3 - - + -
48A TYR* 4.4 15.7 - - + +
96A ASP 3.3 12.7 + - - +
97A VAL* 3.0 11.8 + - + +
99A SER* 1.3 83.6 - - - +
101A LEU* 1.3 57.7 + - - +
104A PHE* 3.0 44.0 + - + +
105A LEU* 3.0 19.5 + - + +
121A MET* 6.3 0.2 - - + -
----------------------------------------------------------
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Residues in contact with LEU 101 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
97A VAL* 3.0 37.3 + - + +
98A LEU* 3.7 26.5 - - + +
99A SER 3.3 0.4 - - - -
100A LEU* 1.3 78.2 - - - +
102A GLU* 1.3 59.9 - - + +
105A LEU* 3.8 7.9 - - + -
106A ILE* 2.9 44.4 + - + +
118A TYR* 3.4 52.0 - - + +
121A MET* 3.8 22.7 - - + +
122A LYS* 4.2 12.8 - - + +
----------------------------------------------------------
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Residues in contact with GLU 102 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
98A LEU* 3.3 19.4 + - + +
99A SER* 4.5 2.7 - - - +
100A LEU 3.3 0.2 - - - -
101A LEU* 1.3 81.4 - - + +
103A LYS* 1.3 58.3 + - + +
106A ILE* 4.0 14.4 - - - +
107A PRO* 2.8 22.3 - - - +
122A LYS* 3.5 34.7 + - + -
----------------------------------------------------------
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Residues in contact with LYS 103 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
99A SER* 3.2 20.3 + - - +
102A GLU* 1.3 78.1 - - + +
104A PHE* 1.3 87.7 + - + +
107A PRO* 4.1 8.9 - - - +
108A ASN* 5.1 0.9 - - - +
----------------------------------------------------------
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Residues in contact with PHE 104 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30A THR* 3.7 34.1 - - + +
31A GLU* 3.6 38.6 - - + -
33A GLY* 4.3 15.5 - - - +
99A SER* 5.0 1.6 - - - -
100A LEU* 3.0 23.9 + - + +
102A GLU 3.5 0.8 - - - -
103A LYS* 1.3 101.8 - - + +
105A LEU* 1.3 65.4 + - + +
106A ILE 3.6 1.1 - - - -
107A PRO 4.2 2.2 - - - -
108A ASN* 3.0 38.2 + - - +
----------------------------------------------------------
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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