Contacts of the helix formed by residues 94 - 123 (chain Q) in PDB entry 2BKC
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 THR 94 (chain Q).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
93Q LYS* 1.3 77.1 - - - +
95Q MET* 1.3 70.4 + - + +
96Q ASP* 3.4 20.4 - - + +
97Q GLN* 3.2 26.0 + - - -
98Q LEU* 3.0 29.3 + - - +
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Residues in contact with MET 95 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37O HIS* 6.0 1.3 - - + +
34Q MET* 3.5 45.1 - - + -
35Q ARG 3.8 25.8 + - - +
36Q GLY* 5.9 1.1 - - - -
38Q ASN* 3.6 40.4 - - + +
39Q PHE* 3.7 11.7 - - - +
42Q LEU* 3.6 23.3 - - + -
94Q THR* 1.3 73.2 - - + +
96Q ASP* 1.3 68.6 + - - +
98Q LEU* 3.3 9.0 + - - +
99Q MET* 3.0 31.9 + - + +
149Q PHE* 4.5 8.3 - - + -
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Residues in contact with ASP 96 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37O HIS* 2.9 39.3 + - - -
94Q THR* 3.7 12.0 - - + +
95Q MET* 1.3 79.1 - - - +
97Q GLN* 1.3 57.3 + - - +
99Q MET* 3.2 5.0 + - - +
100Q GLU* 2.9 40.8 + - - +
149Q PHE* 3.9 10.6 - - - -
150Q LEU* 4.0 19.4 - - + +
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Residues in contact with GLN 97 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
92Q PRO 4.8 1.4 + - - +
93Q LYS* 3.8 36.9 - - + +
94Q THR* 3.2 40.4 + - - +
95Q MET 3.2 0.4 - - - -
96Q ASP* 1.3 78.4 - - + +
98Q LEU* 1.3 60.0 + - - +
100Q GLU* 3.4 22.3 + - - +
101Q ASP* 3.5 13.2 + - - +
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Residues in contact with LEU 98 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29Q GLN* 5.2 6.5 - - - +
30Q ILE* 3.7 43.9 - - + +
33Q TYR* 4.4 4.3 - - + +
34Q MET* 3.9 35.2 - - + +
35Q ARG 5.0 0.9 - - - +
89Q TYR* 4.0 26.5 - - + -
93Q LYS* 4.3 20.4 - - + +
94Q THR 3.0 25.8 + - - +
95Q MET* 3.3 8.0 + - - +
97Q GLN* 1.3 75.8 - - - +
99Q MET* 1.3 60.8 + - + +
101Q ASP* 3.6 7.8 + - - +
102Q LEU 3.2 18.7 + - - -
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Residues in contact with MET 99 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30Q ILE* 3.4 32.5 - - + -
34Q MET* 4.1 10.5 - - + -
42Q LEU* 4.0 14.8 - - + -
46Q MET* 4.1 12.1 - - + -
95Q MET* 3.0 25.4 + - + +
96Q ASP 3.5 4.7 - - - +
98Q LEU* 1.3 75.4 - - + +
100Q GLU* 1.3 60.2 + - - +
102Q LEU* 3.5 13.6 - - + +
103Q VAL* 3.0 33.7 + - + +
146Q PHE* 4.0 27.8 - - + -
149Q PHE* 3.9 22.4 - - + -
150Q LEU* 3.9 15.7 - - + -
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Residues in contact with GLU 100 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
96Q ASP* 2.9 29.1 + - - +
97Q GLN* 3.8 14.3 + - - +
98Q LEU 3.3 0.6 - - - -
99Q MET* 1.3 74.3 - - - +
101Q ASP* 1.3 61.0 + - - +
103Q VAL* 3.9 5.2 - - + +
104Q GLY* 3.0 26.2 + - - -
150Q LEU* 4.2 18.5 - - + +
152Q LYS* 4.6 16.3 + - - +
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Residues in contact with ASP 101 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26Q LYS* 2.7 41.6 + - - +
29Q GLN* 5.2 3.6 + - - -
30Q ILE* 5.0 2.6 - - + +
85Q GLU* 6.2 0.2 - - - +
93Q LYS* 6.3 2.9 - - + -
97Q GLN 3.5 9.8 + - - +
98Q LEU* 3.7 10.1 - - - +
100Q GLU* 1.3 77.3 - - - +
102Q LEU* 1.3 58.7 + - - +
104Q GLY* 4.0 1.2 - - - -
105Q THR* 2.7 36.4 + - - -
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Residues in contact with LEU 102 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23Q PHE* 3.7 29.6 - - + -
26Q LYS* 5.3 1.3 - - - -
27Q ILE* 5.2 2.5 - - + -
30Q ILE* 4.2 17.8 - - + +
46Q MET* 3.9 18.4 - - + -
49Q LEU* 3.9 25.4 - - + -
98Q LEU 3.2 14.9 + - - +
99Q MET* 3.5 16.8 - - + +
100Q GLU 3.3 0.4 - - - -
101Q ASP* 1.3 77.7 - - - +
103Q VAL* 1.3 57.6 + - - +
105Q THR* 3.2 4.9 + - - -
106Q LEU* 2.9 35.5 + - + +
146Q PHE* 4.0 25.1 - - + -
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Residues in contact with VAL 103 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
99Q MET 3.0 21.4 + - - +
100Q GLU* 3.9 4.9 - - - +
101Q ASP 3.4 0.2 - - - -
102Q LEU* 1.3 75.1 - - - +
104Q GLY* 1.3 54.5 + - - +
106Q LEU* 3.2 11.4 + - + +
107Q GLU* 2.8 42.9 + - + +
143Q ILE* 4.7 8.3 - - + +
146Q PHE* 3.5 34.8 - - + -
147Q LYS* 3.9 33.7 - - + +
150Q LEU* 4.1 16.6 - - + -
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Residues in contact with GLY 104 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
100Q GLU 3.0 16.7 + - - -
101Q ASP* 4.0 2.0 - - - -
103Q VAL* 1.3 76.8 - - - +
105Q THR* 1.3 56.1 + - - +
107Q GLU* 3.6 16.6 - - - +
108Q LEU* 3.1 24.6 + - - +
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Residues in contact with THR 105 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23Q PHE* 3.4 34.8 - - + -
26Q LYS* 3.7 16.5 - - - -
84Q VAL* 4.0 28.1 - - + +
85Q GLU 5.8 0.2 + - - -
101Q ASP* 2.7 26.2 + - - -
102Q LEU* 3.5 4.9 - - - -
104Q GLY* 1.3 76.0 - - - +
106Q LEU* 1.3 64.6 + - - +
108Q LEU* 3.1 10.1 + - + +
109Q LEU* 3.1 24.3 + - + +
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Residues in contact with LEU 106 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23Q PHE* 3.6 23.1 - - + -
49Q LEU* 5.3 1.3 - - + -
53Q PHE* 3.7 25.8 - - + -
102Q LEU* 2.9 32.5 + - + +
103Q VAL* 3.5 12.1 - - - +
105Q THR* 1.3 74.9 - - - +
107Q GLU* 1.3 63.6 + - - +
109Q LEU* 3.3 5.6 + - + +
110Q ARG* 3.1 19.6 + - - +
139Q ILE* 3.6 18.7 - - + +
142Q HIS* 3.7 29.6 - - + +
143Q ILE* 3.8 21.5 - - + -
146Q PHE* 4.1 13.5 - - + -
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Residues in contact with GLU 107 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
103Q VAL* 2.8 26.2 + - - +
104Q GLY* 3.6 18.9 + - - +
106Q LEU* 1.3 73.8 - - - +
108Q LEU* 1.3 60.8 + - - +
110Q ARG* 3.5 27.1 + - - +
111Q ASP* 3.2 32.1 + - - +
143Q ILE* 4.2 15.2 - - + +
147Q LYS* 3.4 28.4 + - - -
154Q PRO 4.4 4.3 - - - +
155Q LEU* 5.7 0.3 - - - -
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Residues in contact with LEU 108 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19Q ASN* 4.3 2.7 - - - +
83Q SER* 3.8 26.9 - - - +
84Q VAL* 4.1 25.4 - - + -
85Q GLU 5.3 1.3 - - - +
104Q GLY 3.1 14.0 + - - +
105Q THR* 3.1 11.8 + - + +
107Q GLU* 1.3 76.4 - - - +
109Q LEU* 1.3 62.3 + - + +
111Q ASP* 3.6 5.4 + - - +
112Q GLU* 3.0 54.1 + - + +
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Residues in contact with LEU 109 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16Q GLN* 4.0 7.9 - - - +
19Q ASN* 3.9 36.3 - - + +
20Q LEU* 3.9 18.4 - - + -
23Q PHE* 3.7 36.8 - - + -
53Q PHE* 4.3 9.2 - - + -
84Q VAL* 4.2 9.6 - - + -
105Q THR 3.1 17.5 + - - +
106Q LEU* 3.8 8.5 - - + +
108Q LEU* 1.3 79.8 - - + +
110Q ARG* 1.3 54.7 + - - +
112Q GLU* 3.4 2.6 + - - -
113Q TYR* 2.8 46.9 + - + +
139Q ILE* 4.3 13.0 - - + -
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Residues in contact with ARG 110 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
106Q LEU 3.1 16.5 + - - +
107Q GLU* 3.7 27.2 + - - +
108Q LEU 3.4 0.2 - - - -
109Q LEU* 1.3 72.7 - - - +
111Q ASP* 1.3 90.0 + - - +
113Q TYR* 3.1 8.0 + - - +
114Q LYS* 2.9 28.9 + - + +
136Q LYS* 4.0 22.1 - - + +
139Q ILE* 3.9 16.5 - - + +
140Q ASP* 3.3 25.1 + - - +
143Q ILE* 4.2 16.9 - - + +
154Q PRO 5.2 0.6 + - - -
155Q LEU* 3.7 28.3 - - - +
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Residues in contact with ASP 111 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
107Q GLU* 3.2 19.2 + - - +
108Q LEU* 3.9 5.6 - - - +
110Q ARG* 1.3 111.6 + - - +
112Q GLU* 1.3 62.9 + - + +
114Q LYS* 3.2 17.3 + - - +
115Q GLN* 3.3 16.3 + - - +
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Residues in contact with GLU 112 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12Q PHE* 3.1 23.8 - - + -
15Q HIS* 3.3 8.6 + - - -
16Q GLN* 3.1 19.5 + - - +
19Q ASN* 3.0 19.6 + - - -
83Q SER* 2.5 27.6 + - - -
108Q LEU* 3.0 36.3 + - + +
109Q LEU* 3.8 5.6 - - - +
111Q ASP* 1.3 77.8 - - + +
113Q TYR* 1.3 61.6 + - - +
115Q GLN* 3.2 19.0 + - - +
116Q GLY 3.1 6.8 + - - -
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Residues in contact with TYR 113 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12Q PHE* 4.1 8.1 - + - -
16Q GLN* 3.7 32.6 - - + +
20Q LEU* 3.4 24.9 - - + +
56Q GLN* 2.8 19.1 + - - -
60Q VAL* 4.7 2.2 - - + +
109Q LEU* 2.8 40.6 + - + +
110Q ARG* 3.1 7.2 + - - +
112Q GLU* 1.3 76.4 - - - +
114Q LYS* 1.3 57.1 + - - +
116Q GLY* 3.1 2.3 + - - -
117Q ILE* 2.9 34.4 + - - +
132Q LEU* 4.0 20.7 - - + +
135Q PHE* 3.4 42.7 - + + -
136Q LYS* 4.3 11.9 - - + -
139Q ILE* 3.8 17.3 - - + -
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Residues in contact with LYS 114 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
124M GLY* 3.5 15.1 + - - -
126M ASP* 3.2 24.1 + - - +
110Q ARG* 2.9 12.4 + - + +
111Q ASP* 3.5 13.2 - - - +
112Q GLU 3.2 0.2 - - - -
113Q TYR* 1.3 76.3 - - - +
115Q GLN* 1.3 62.1 + - - +
117Q ILE* 3.2 13.7 + - + +
118Q GLU* 3.1 58.4 + - - +
136Q LYS* 4.5 20.8 - - + +
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Residues in contact with GLN 115 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7B VAL 5.9 3.4 - - - +
7Q VAL* 6.1 3.2 - - - +
12Q PHE* 4.6 4.7 - - + -
111Q ASP 3.3 12.1 + - - +
112Q GLU* 3.2 21.1 + - - +
114Q LYS* 1.3 79.6 - - + +
116Q GLY* 1.3 55.3 + - - +
118Q GLU* 3.6 14.1 + - - +
119Q LEU* 3.0 29.6 + - - +
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Residues in contact with GLY 116 (chain Q).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12Q PHE* 3.6 33.8 - - - -
112Q GLU 3.1 10.3 + - - -
113Q TYR 3.1 1.7 + - - -
115Q GLN* 1.3 74.3 - - - +
117Q ILE* 1.3 53.6 + - - +
119Q LEU* 3.9 6.1 - - - +
120Q THR* 2.7 40.5 + - - -
132Q LEU* 3.6 7.4 - - - +
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Residues in contact with ILE 117 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
126M ASP* 3.9 27.8 - - + +
113Q TYR 2.9 21.3 + - - +
114Q LYS* 3.2 12.1 + - + +
116Q GLY* 1.3 74.3 - - - +
118Q GLU* 1.3 61.3 + - + +
120Q THR* 4.0 6.3 - - - -
121Q ASP* 2.8 26.6 + - + +
129Q ASN* 3.0 23.0 + - - +
132Q LEU* 3.6 23.3 - - + +
133Q ILE* 3.8 32.5 - - + -
136Q LYS* 4.0 27.4 - - + -
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Residues in contact with GLU 118 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
114Q LYS* 3.1 47.7 + - - +
115Q GLN* 3.7 16.9 - - - +
117Q ILE* 1.3 73.7 - - + +
119Q LEU* 1.3 66.4 + - - +
121Q ASP* 3.4 6.1 + - - +
122Q LYS* 3.0 41.8 + - + +
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Residues in contact with LEU 119 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
123B GLU* 5.8 3.4 - - - +
7Q VAL* 3.4 21.5 - - + +
8Q ASP 3.8 12.1 - - - +
9Q THR* 4.1 5.4 - - - +
12Q PHE* 3.7 36.3 - - + -
115Q GLN 3.0 18.6 + - - +
116Q GLY* 3.9 6.3 - - - +
118Q GLU* 1.3 75.9 - - - +
120Q THR* 1.3 60.3 + - - +
122Q LYS* 3.2 9.6 + - - +
123Q GLU* 3.1 58.7 + - + +
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Residues in contact with THR 120 (chain Q).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9Q THR* 3.4 32.6 + - - +
116Q GLY 2.7 21.3 + - - +
117Q ILE* 3.5 5.6 - - - +
119Q LEU* 1.3 79.0 - - - +
121Q ASP* 1.3 62.4 + - - +
122Q LYS 3.3 0.2 - - - -
123Q GLU* 3.7 2.1 + - - +
124Q GLY* 3.3 2.1 + - - -
125Q ASP* 3.2 31.4 + - - +
128Q THR* 3.7 12.2 - - - +
129Q ASN* 3.0 42.0 - - + +
132Q LEU* 4.3 2.8 - - + +
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Residues in contact with ASP 121 (chain Q).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
117Q ILE* 2.8 20.9 + - + +
118Q GLU* 3.6 7.4 - - - +
120Q THR* 1.3 79.1 - - - +
122Q LYS* 1.3 65.5 + - - +
124Q GLY* 3.4 11.7 + - - -
126Q ASP* 5.6 1.7 - - - +
129Q ASN* 3.7 15.7 + - - +
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Residues in contact with LYS 122 (chain Q).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8B ASP* 3.3 38.1 + - + +
10B LYS* 6.0 4.1 - - - +
123B GLU* 3.3 48.9 - - + +
118Q GLU* 3.0 32.5 + - + +
119Q LEU* 3.2 7.1 + - - +
121Q ASP* 1.3 83.2 - - - +
123Q GLU* 1.3 60.7 + - - +
124Q GLY* 3.5 0.5 + - - -
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Residues in contact with GLU 123 (chain Q).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
122B LYS* 3.3 43.9 - - + +
123B GLU* 5.1 4.0 - - + -
8Q ASP* 3.2 32.1 - - - +
9Q THR* 2.9 36.8 + - - +
119Q LEU* 3.1 26.1 + - + +
120Q THR 3.7 3.6 + - - +
121Q ASP 3.4 0.2 - - - -
122Q LYS* 1.3 75.9 - - - +
124Q GLY* 1.3 61.0 + - - +
125Q ASP* 3.3 5.0 + - + +
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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