Contacts of the helix formed by residues 85 - 114 (chain B) in PDB entry 2HUE
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 GLN 85 (chain B).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84B PHE* 1.3 75.7 - - - +
86B SER* 1.3 67.2 + - - +
87B SER* 3.9 19.2 + - - +
88B ALA* 2.9 14.3 + - + +
89B VAL* 3.1 10.2 + - - +
80C THR* 3.4 24.6 - - + +
81C VAL 2.9 17.0 + - - +
82C THR* 3.9 24.8 - - - +
83C ALA 4.5 0.5 + - - -
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Residues in contact with SER 86 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64B LYS* 5.6 9.0 - - - +
68B GLN* 6.0 1.8 - - - +
84B PHE 3.6 2.7 + - - -
85B GLN* 1.3 71.7 - - - +
87B SER* 1.3 60.0 + - - +
89B VAL* 3.4 8.0 + - - +
90B MET* 3.0 29.4 + - - +
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Residues in contact with SER 87 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
85B GLN* 3.9 19.8 + - - +
86B SER* 1.3 82.1 + - - +
88B ALA* 1.3 58.1 + - - +
90B MET* 3.6 22.3 - - - +
91B ALA* 2.9 28.2 + - - +
83C ALA* 4.0 17.7 - - - +
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Residues in contact with ALA 88 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84B PHE* 4.3 8.1 - - + -
85B GLN* 2.9 11.0 + - + +
87B SER* 1.3 79.1 + - - +
89B VAL* 1.3 66.4 + - - +
91B ALA* 3.2 3.8 + - - +
92B LEU* 2.9 27.6 + - - +
81C VAL 3.5 23.1 - - - +
82C THR 3.6 18.8 - - - +
83C ALA* 3.7 10.1 - - - +
86C VAL* 4.1 10.1 - - + +
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Residues in contact with VAL 89 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64B LYS* 4.5 15.5 - - + -
67B PHE* 4.0 13.1 - - + -
68B GLN* 3.9 49.8 - - + +
71B VAL* 5.0 6.5 - - + -
72B ARG* 6.4 0.7 - - + -
84B PHE* 3.4 30.9 - - + +
85B GLN 3.1 8.1 + - - +
86B SER* 3.8 8.3 - - - +
88B ALA* 1.3 74.6 - - - +
90B MET* 1.3 52.8 + - - +
92B LEU* 3.2 10.6 + - - +
93B GLN* 2.8 32.8 + - - +
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Residues in contact with MET 90 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64B LYS* 6.0 3.1 - - + +
86B SER 3.0 16.9 + - - +
87B SER* 3.6 21.1 - - - +
89B VAL* 1.3 76.7 - - - +
91B ALA* 1.3 63.7 + - - +
93B GLN* 3.1 9.5 + - + +
94B GLU* 2.9 49.4 + - + +
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Residues in contact with ALA 91 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
87B SER 2.9 18.3 + - - +
88B ALA* 3.5 8.5 - - - +
90B MET* 1.3 77.0 - - - +
92B LEU* 1.3 57.3 + - - +
94B GLU* 3.8 10.5 - - - +
95B ALA* 2.9 30.8 + - - +
83C ALA* 4.7 9.0 - - + -
86C VAL* 4.0 17.7 - - + -
87C VAL* 4.9 10.8 - - + -
90C LEU* 4.4 3.6 - - + +
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Residues in contact with LEU 92 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67B PHE* 3.8 10.5 - - + -
71B VAL* 3.8 32.3 - - + -
84B PHE* 3.9 20.9 - - + -
88B ALA 2.9 14.8 + - - +
89B VAL* 3.6 8.1 - - - +
91B ALA* 1.3 76.2 - - - +
93B GLN* 1.3 57.7 + - - +
95B ALA* 3.4 3.2 + - - +
96B SER* 2.8 33.1 + - - -
61C PHE* 5.1 1.7 - - + -
62C LEU* 4.3 12.8 - - + -
65C VAL* 3.5 34.8 - - + -
66C ILE* 4.0 10.8 - - + -
86C VAL* 3.8 16.4 - - + -
90C LEU* 5.0 4.5 - - + -
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Residues in contact with GLN 93 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60B ALA 3.8 7.1 - - - +
62B ILE* 2.6 46.9 + - + -
63B ARG 4.2 2.2 - - - -
64B LYS* 3.6 32.9 - - - +
67B PHE* 3.5 24.9 - - + -
89B VAL 2.8 19.8 + - - +
90B MET* 3.1 8.6 + - - +
92B LEU* 1.3 73.6 - - - +
94B GLU* 1.3 58.6 - - + +
96B SER* 3.2 3.3 + - - -
97B GLU* 2.9 49.8 + - - +
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Residues in contact with GLU 94 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60B ALA 6.4 0.2 - - - +
90B MET* 2.9 46.1 + - + +
91B ALA* 3.8 9.0 - - - +
93B GLN* 1.3 77.4 - - + +
95B ALA* 1.3 58.7 + - - +
97B GLU* 3.4 11.9 + - - +
98B ALA* 3.0 28.5 + - - +
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Residues in contact with ALA 95 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
91B ALA 2.9 18.1 + - - +
92B LEU* 3.8 4.7 - - - +
94B GLU* 1.3 79.5 - - - +
96B SER* 1.3 52.5 + - - +
98B ALA* 3.7 5.9 - - - +
99B TYR* 2.8 35.0 + - - +
61C PHE* 4.0 5.4 - - + -
90C LEU* 3.5 39.7 - - + -
93C GLN* 5.5 1.5 - - - +
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Residues in contact with SER 96 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62B ILE* 4.3 7.2 - - - -
67B PHE* 3.4 26.5 - - - -
92B LEU 2.8 22.3 + - - -
93B GLN 3.5 4.5 - - - -
95B ALA* 1.3 73.4 - - - +
97B GLU* 1.3 66.5 + - - +
99B TYR* 3.3 1.4 + - - +
100B LEU* 2.9 30.4 + - - +
58C LEU* 3.8 14.5 - - - +
61C PHE* 3.8 11.2 - - - -
62C LEU* 3.4 16.5 - - - +
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Residues in contact with GLU 97 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60B ALA* 3.0 25.7 + - - +
61B LEU* 3.2 37.7 + - + +
62B ILE* 3.2 29.8 + - + -
93B GLN* 2.9 29.6 + - - +
94B GLU* 3.6 11.9 - - - +
96B SER* 1.3 77.9 - - - +
98B ALA* 1.3 56.0 + - - +
101B VAL* 2.9 37.7 + - + +
37C LEU* 3.9 13.3 - - + +
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Residues in contact with ALA 98 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
94B GLU 3.0 17.4 + - - +
95B ALA* 3.7 7.2 - - - +
97B GLU* 1.3 75.1 - - - +
99B TYR* 1.3 62.2 - - - +
101B VAL* 3.9 5.2 - - - +
102B ALA* 3.0 24.9 + - - +
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Residues in contact with TYR 99 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
95B ALA 2.8 19.0 + - - +
96B SER 3.6 3.6 - - - +
98B ALA* 1.3 78.0 - - - +
100B LEU* 1.3 74.7 + - + +
102B ALA* 3.4 4.5 + - - +
103B LEU* 2.8 37.1 + - + +
128B ARG* 4.2 15.8 + - - +
131B ARG* 4.9 16.3 + - - +
57C VAL* 3.4 32.5 + - + +
58C LEU* 5.1 1.8 - - + -
61C PHE* 3.7 55.4 - + + +
93C GLN* 3.9 16.2 - - + +
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Residues in contact with LEU 100 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62B ILE* 4.9 0.9 - - + -
96B SER 2.9 21.4 + - - +
97B GLU 4.1 1.8 - - - +
99B TYR* 1.3 97.0 - - + +
101B VAL* 1.3 62.2 + - - +
103B LEU* 3.3 15.2 + - + +
104B PHE* 2.8 42.1 + - + -
29C ILE* 3.9 25.4 - - + -
37C LEU* 3.7 31.0 - - + -
54C THR* 4.1 25.4 - - + +
57C VAL* 4.9 0.4 - - + -
58C LEU* 4.4 20.2 - - + +
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Residues in contact with VAL 101 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61B LEU* 5.5 3.4 - - + -
97B GLU* 2.9 22.9 + - + +
98B ALA* 3.9 5.4 - - - +
100B LEU* 1.3 76.7 - - - +
102B ALA* 1.3 56.9 + - - +
104B PHE* 3.1 4.3 + - - +
105B GLU* 2.9 44.3 + - - +
37C LEU* 3.8 26.2 - - + +
40C ARG* 3.7 37.7 - - + +
41C GLY* 3.8 7.7 - - - -
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Residues in contact with ALA 102 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
98B ALA 3.0 18.3 + - - +
99B TYR* 3.7 3.4 - - - +
101B VAL* 1.3 76.0 - - - +
103B LEU* 1.3 62.7 - - - +
105B GLU* 3.1 19.6 + - - +
106B ASP* 3.1 18.4 + - - -
131B ARG* 3.6 38.7 + - - +
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Residues in contact with LEU 103 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
99B TYR* 2.8 26.2 + - + +
100B LEU* 3.3 18.8 + - + +
102B ALA* 1.3 76.5 - - - +
104B PHE* 1.3 60.9 + - + +
106B ASP* 3.2 4.2 + - - +
107B THR* 2.8 36.8 + - - +
124B ILE* 4.0 17.3 - - + +
127B ALA* 3.6 25.1 - - + -
128B ARG* 3.9 17.3 - - + +
131B ARG* 3.9 20.3 - - - +
54C THR* 6.2 1.8 - - + -
57C VAL* 3.7 30.5 - - + -
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Residues in contact with PHE 104 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
100B LEU* 2.8 31.5 + - + +
101B VAL 3.6 4.7 - - - +
103B LEU* 1.3 82.4 - - + +
105B GLU* 1.3 56.1 + - - +
107B THR* 3.5 7.1 - - - -
108B ASN* 2.9 30.7 + - - +
119B ILE* 3.8 31.0 - - + -
124B ILE* 4.3 8.5 - - + -
34C ILE* 4.2 11.0 - - + -
37C LEU* 3.8 15.0 - - + +
38C ALA* 3.6 36.8 - - + -
41C GLY* 3.9 7.4 - - - -
43C VAL* 3.7 15.8 - - + +
50C ILE* 4.2 5.6 - - + -
54C THR* 3.4 38.8 - - + -
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Residues in contact with GLU 105 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
145A ARG* 4.9 6.8 + - - +
101B VAL* 2.9 31.9 + - - +
102B ALA* 3.1 18.5 + - - +
104B PHE* 1.3 74.8 - - - +
106B ASP* 1.3 65.7 + - - +
108B ASN* 3.3 4.3 + - - +
109B LEU* 3.1 26.7 + - - +
40C ARG 4.4 3.3 - - - +
41C GLY* 3.3 25.4 - - - +
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Residues in contact with ASP 106 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
112A TYR* 2.7 25.5 + - - +
145A ARG* 2.6 45.4 + - - -
102B ALA 3.1 6.9 + - - +
103B LEU 3.7 3.6 - - - +
105B GLU* 1.3 74.6 - - - +
107B THR* 1.3 65.4 + - - +
109B LEU* 3.3 6.8 + - - +
110B CYS 3.0 12.8 + - - -
127B ALA* 3.6 17.9 - - + -
130B ILE* 4.1 4.5 - - + -
131B ARG* 2.5 52.4 + - - +
96C THR* 5.1 0.9 - - - +
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Residues in contact with THR 107 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
103B LEU* 2.8 25.4 + - - +
104B PHE* 3.5 10.5 - - - -
105B GLU 3.3 0.2 - - - -
106B ASP* 1.3 78.2 - - - +
108B ASN* 1.3 63.2 + - - +
110B CYS* 3.2 4.7 + - - +
111B ALA* 3.1 19.2 + - - +
119B ILE* 3.7 31.4 - - + -
123B ASP* 3.5 31.5 - - + +
124B ILE* 3.6 23.5 - - + +
127B ALA* 3.5 11.5 - - - +
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Residues in contact with ASN 108 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
104B PHE 2.9 16.5 + - - +
105B GLU 3.6 4.9 - - - +
107B THR* 1.3 75.6 - - - +
109B LEU* 1.3 58.3 + - - +
111B ALA* 3.2 4.3 + - - +
112B ILE* 2.9 57.3 + - - +
117B VAL 5.1 5.5 - - - +
119B ILE* 4.0 14.1 - - - +
41C GLY 4.4 4.7 + - - +
42C GLY* 3.2 27.6 + - - +
43C VAL* 4.0 15.3 - - + -
44C LYS* 4.3 10.0 + - - +
----------------------------------------------------------
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Residues in contact with LEU 109 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
112A TYR* 3.9 12.9 - - + -
140A LEU* 4.9 5.9 - - + +
143A LYS* 3.7 38.8 - - + +
145A ARG* 3.2 50.0 - - - +
105B GLU 3.1 14.9 + - - +
106B ASP* 3.5 9.4 - - - +
107B THR 3.3 0.2 - - - -
108B ASN* 1.3 78.1 - - - +
110B CYS* 1.3 55.5 - - - +
112B ILE* 3.3 16.8 + - + +
113B HIS* 2.9 31.4 + - - +
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Residues in contact with CYS 110 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
92A VAL* 3.9 10.7 - - - +
112A TYR* 3.4 42.8 - - + +
106B ASP 3.0 7.8 + - - +
107B THR 3.4 10.5 - - - +
109B LEU* 1.3 75.2 - - - +
111B ALA* 1.3 63.1 + - - +
113B HIS* 3.1 5.4 + - - +
114B ALA* 3.0 21.7 + - - +
123B ASP* 3.4 24.9 - - + +
126B LEU* 3.7 28.0 - - - -
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Residues in contact with ALA 111 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
107B THR 3.1 8.9 + - - +
108B ASN* 3.2 9.8 + - - +
110B CYS* 1.3 80.8 - - - +
112B ILE* 1.3 61.3 + - - +
114B ALA* 3.1 9.7 + - - +
115B LYS 3.1 0.2 + - - -
116B ARG* 2.9 61.0 + - - +
117B VAL 5.2 0.7 - - - -
118B THR 4.0 5.6 - - - +
119B ILE* 4.0 15.0 - - + -
123B ASP* 3.8 7.7 + - - +
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Residues in contact with ILE 112 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
108B ASN* 2.9 46.9 + - - +
109B LEU* 3.6 18.4 - - + +
111B ALA* 1.3 75.1 - - - +
113B HIS* 1.3 61.0 + - - +
115B LYS* 2.9 22.3 + - - +
116B ARG 3.8 11.2 - - - +
117B VAL* 6.2 0.4 - - - -
----------------------------------------------------------
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Residues in contact with HIS 113 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
92A VAL* 4.5 2.5 - - + -
112A TYR* 3.9 22.2 - - + -
113A VAL 4.1 0.4 - - - -
114A ASN* 3.4 41.5 + - + +
138A ASN* 2.8 39.8 + - + -
140A LEU* 3.6 47.6 + - + +
109B LEU 2.9 16.7 + - - +
110B CYS 3.1 4.7 + - - +
112B ILE* 1.3 82.3 - - - +
114B ALA* 1.3 54.3 + - - +
115B LYS* 3.1 8.1 + - - +
----------------------------------------------------------
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Residues in contact with ALA 114 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
92A VAL* 3.8 8.7 - - + +
114A ASN* 3.7 4.9 - - - -
501A GOL 2.9 30.1 + - - -
110B CYS 3.0 10.0 + - - +
111B ALA 3.1 9.6 + - - +
113B HIS* 1.3 73.8 - - - +
115B LYS* 1.3 64.7 + - - +
116B ARG* 3.5 33.4 - - - +
402B SO4 3.8 16.6 + - - +
----------------------------------------------------------
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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