Contacts of the helix formed by residues 48 - 80 (chain B) in PDB entry 2OX6
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 PRO 48 (chain B).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32B HIS* 3.7 28.9 - - + +
36B GLU* 4.4 6.1 - - - +
40B TRP* 3.6 22.7 - - + -
46B GLN* 3.7 7.4 - - + +
47B ALA* 1.3 84.9 - - + +
49B GLU* 1.3 67.0 + - - +
50B LEU* 4.4 7.9 - - + +
51B ALA* 3.0 17.6 + - + +
52B GLN* 3.1 10.9 + - - +
156C GLU* 5.6 0.4 - - - +
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Residues in contact with GLU 49 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
5B ILE* 5.6 5.5 - - - +
6B GLY* 5.1 6.2 - - - -
47B ALA 3.6 2.0 + - - -
48B PRO* 1.3 72.0 - - - +
50B LEU* 1.3 57.0 + - - +
52B GLN* 3.3 23.5 + - - +
53B LYS* 3.0 41.5 + - + +
56B LEU* 5.8 1.7 - - - +
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Residues in contact with LEU 50 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32B HIS* 6.1 1.8 - - - +
48B PRO* 3.2 5.5 + - + +
49B GLU* 1.3 78.7 - - - +
51B ALA* 1.3 58.2 + - - +
53B LYS* 3.9 11.3 - - + +
54B LYS* 3.1 27.2 + - - +
76C LEU* 5.8 8.3 - - + -
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Residues in contact with ALA 51 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12B MET* 4.6 3.4 - - + -
30B THR* 3.8 31.1 - - + +
32B HIS* 4.2 6.2 + - - +
40B TRP* 4.0 24.0 - - + -
47B ALA* 5.0 0.4 - - + -
48B PRO* 3.0 19.8 + - + +
50B LEU* 1.3 78.0 - - - +
52B GLN* 1.3 64.4 - - - +
54B LYS* 3.4 4.5 + - - +
55B LEU* 3.3 25.5 + - - +
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Residues in contact with GLN 52 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
5B ILE 4.5 7.9 + - - -
6B GLY* 3.5 6.8 - - - -
7B LEU* 2.7 47.3 + - + +
12B MET* 3.8 26.9 - - - -
15B LEU* 4.8 0.2 - - - +
46B GLN* 4.7 4.8 + - - +
47B ALA* 2.9 29.3 + - + +
48B PRO 3.1 11.4 + - - +
49B GLU* 3.3 23.0 + - - +
51B ALA* 1.3 75.5 - - - +
53B LYS* 1.3 58.2 + - - +
55B LEU* 3.3 4.2 + - - +
56B LEU* 2.9 39.7 + - + +
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Residues in contact with LYS 53 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49B GLU* 3.0 27.3 + - + +
50B LEU* 3.9 13.5 - - + +
51B ALA 3.2 0.2 - - - -
52B GLN* 1.3 77.3 - - - +
54B LYS* 1.3 53.1 + - - +
56B LEU* 4.5 10.8 - - + -
57B ASP* 2.8 72.7 + - - +
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Residues in contact with LYS 54 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29B LEU* 4.0 38.2 + - + +
30B THR* 4.1 14.1 - - + -
50B LEU 3.1 14.7 + - - +
51B ALA 3.5 9.2 - - - +
52B GLN 3.3 0.2 - - - -
53B LYS* 1.3 75.7 - - - +
55B LEU* 1.3 58.3 + - + +
57B ASP* 3.6 5.4 + - + +
58B ILE* 3.1 55.3 + - + +
105B SER 4.5 13.7 + - - -
106B SER 5.6 1.3 + - - -
108B PRO* 4.9 8.5 - - - +
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Residues in contact with LEU 55 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12B MET* 3.7 24.9 - - + +
15B LEU* 3.6 27.3 - - + +
16B ARG* 4.5 13.5 - - + +
19B LEU* 3.9 9.4 - - + +
21B LEU* 4.3 14.6 - - + -
26B VAL* 4.0 37.7 - - + -
29B LEU* 4.5 6.5 - - + -
30B THR* 4.7 6.7 - - + -
51B ALA 3.3 11.4 + - - +
52B GLN 3.3 6.3 + - - +
54B LYS* 1.3 78.9 - - + +
56B LEU* 1.3 61.0 + - - +
58B ILE* 3.3 13.5 + - + +
59B ASP* 3.0 28.6 + - - +
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Residues in contact with LEU 56 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
118A TRP* 4.8 8.1 - - + -
125A LYS* 5.5 11.4 - - - +
7B LEU* 4.0 31.9 - - + -
15B LEU* 3.9 18.4 - - + -
49B GLU* 5.8 2.0 - - - +
52B GLN* 2.9 28.4 + - + +
53B LYS* 3.9 10.8 - - + +
55B LEU* 1.3 77.0 - - - +
57B ASP* 1.3 59.3 + - - +
59B ASP* 3.3 7.3 + - + +
60B ASP* 3.0 34.8 + - - +
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Residues in contact with ASP 57 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53B LYS* 2.8 59.1 + - - +
54B LYS* 3.8 6.3 - - - +
56B LEU* 1.3 74.6 - - - +
58B ILE* 1.3 65.2 + - + +
60B ASP* 3.3 11.5 + - - +
61B ILE* 3.0 35.6 + - + +
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Residues in contact with ILE 58 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19B LEU* 4.0 8.3 - - + -
29B LEU* 4.1 22.2 - - + -
54B LYS* 3.1 42.2 + - + +
55B LEU* 3.3 12.5 + - + +
57B ASP* 1.3 75.8 - - + +
59B ASP* 1.3 63.0 + - - +
61B ILE* 3.1 10.1 + - + +
62B ILE* 3.0 32.8 + - + +
106B SER 3.8 17.0 - - - +
107B LEU* 4.0 3.8 - - + -
108B PRO* 4.6 1.1 - - + -
112B LEU* 3.7 44.0 - - + -
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Residues in contact with ASP 59 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
118A TRP* 4.4 5.5 + - - -
122A LYS* 2.6 34.4 + - - +
15B LEU* 3.8 24.0 - - + +
18B SER* 4.7 0.6 + - - -
19B LEU* 3.7 11.3 - - + +
55B LEU 3.0 14.1 + - - +
56B LEU* 3.3 11.4 + - + +
58B ILE* 1.3 75.4 - - - +
60B ASP* 1.3 59.0 + - - +
62B ILE* 3.5 2.3 + - - +
63B GLU* 2.9 29.2 + - - +
119B ARG* 2.9 36.5 + - - -
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Residues in contact with ASP 60 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
122A LYS* 4.8 8.5 + - - -
56B LEU* 3.0 19.7 + - - +
57B ASP* 3.6 15.0 - - - +
58B ILE 3.3 0.2 - - - -
59B ASP* 1.3 76.3 - - - +
61B ILE* 1.3 58.5 + - + +
63B GLU* 3.3 7.4 + - - +
64B MET* 3.0 29.8 + - - +
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Residues in contact with ILE 61 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57B ASP* 3.0 28.2 + - + +
58B ILE* 3.1 6.7 + - + +
60B ASP* 1.3 72.5 - - + +
62B ILE* 1.3 66.2 + - - +
64B MET* 3.4 17.6 + - + +
65B GLN* 3.0 24.1 + - + +
103B PHE* 6.3 0.4 - - + -
106B SER* 3.8 38.6 - - - +
107B LEU* 3.8 27.1 - - + -
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Residues in contact with ILE 62 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19B LEU* 3.6 30.5 - - + -
58B ILE* 3.0 20.0 + - + +
59B ASP 3.7 6.7 - - - +
61B ILE* 1.3 73.9 - - - +
63B GLU* 1.3 59.9 + - - +
65B GLN* 3.0 9.8 + - - +
66B VAL* 2.9 28.9 + - + +
107B LEU* 3.8 15.5 - - + -
112B LEU* 3.8 24.9 - - + +
115B THR* 4.5 7.0 - - + -
116B ALA* 3.8 27.4 - - + +
119B ARG* 3.6 27.6 - - - +
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Residues in contact with GLU 63 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
122A LYS* 4.4 20.5 - - - +
126A LEU* 5.1 13.0 - - + +
59B ASP 2.9 17.4 + - - +
60B ASP* 3.3 8.5 + - - +
62B ILE* 1.3 76.3 - - - +
64B MET* 1.3 60.9 + - - +
66B VAL* 3.2 11.8 + - - +
67B LEU* 3.1 37.6 + - + +
119B ARG* 3.5 27.0 + - - -
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Residues in contact with MET 64 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60B ASP 3.0 17.0 + - - +
61B ILE* 3.7 17.9 - - + +
63B GLU* 1.3 74.8 - - - +
65B GLN* 1.3 58.0 + - - +
67B LEU* 3.5 7.4 + - - +
68B ASN* 2.9 58.5 + - - +
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Residues in contact with GLN 65 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61B ILE* 3.0 16.3 + - + +
62B ILE* 3.0 9.1 + - - +
64B MET* 1.3 77.2 - - - +
66B VAL* 1.3 58.2 + - - +
68B ASN* 4.8 3.4 - - - +
69B THR* 2.7 45.3 + - - +
87B PHE* 4.6 4.0 - - - -
103B PHE* 3.7 15.7 - - - -
107B LEU* 3.5 25.6 - - - +
113B TYR* 3.5 31.5 + - - -
116B ALA* 4.0 17.7 - - + +
120B ILE* 4.4 11.5 - - + +
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Residues in contact with VAL 66 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62B ILE* 2.9 26.6 + - + +
63B GLU* 3.2 15.9 + - - +
65B GLN* 1.3 77.3 - - - +
67B LEU* 1.3 66.7 + - + +
69B THR* 4.1 0.7 - - - -
70B THR* 2.8 31.6 + - - +
116B ALA* 3.9 13.9 - - + +
119B ARG* 3.5 36.3 - - + +
120B ILE* 3.8 7.4 - - + +
123B GLU* 4.0 31.9 - - + -
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Residues in contact with LEU 67 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
126A LEU* 6.4 2.0 - - + -
63B GLU* 3.1 32.7 + - + +
64B MET* 4.0 6.1 - - - +
66B VAL* 1.3 82.8 - - + +
68B ASN* 1.3 63.0 + - - +
70B THR* 3.9 3.6 - - - -
71B ASP* 2.9 41.3 + - - +
123B GLU* 4.7 16.6 - - + +
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Residues in contact with ASN 68 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64B MET* 2.9 47.5 + - - +
65B GLN* 4.3 3.3 - - - +
67B LEU* 1.3 80.2 - - - +
69B THR* 1.3 57.3 + - - +
71B ASP* 3.8 6.7 - - - +
72B GLY* 2.9 25.6 + - - -
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Residues in contact with THR 69 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65B GLN* 2.7 35.8 + - - +
66B VAL 4.1 0.7 - - - -
68B ASN* 1.3 75.4 - - - +
70B THR* 1.3 59.1 + - - +
72B GLY* 3.2 2.2 + - - -
73B ILE* 2.9 45.9 + - + +
87B PHE* 4.0 16.7 - - + -
120B ILE* 3.8 23.7 - - + +
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Residues in contact with THR 70 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66B VAL* 2.8 23.3 + - - +
67B LEU* 4.0 3.8 - - - -
69B THR* 1.3 75.6 - - - +
71B ASP* 1.3 61.9 + - - +
73B ILE* 3.3 1.4 + - - +
74B GLU* 2.9 24.8 + - - +
120B ILE* 4.3 4.7 + - - +
123B GLU* 3.7 32.7 - - + +
124B CYS* 3.8 25.0 - - - -
127B VAL* 5.2 4.0 - - + -
128B LEU* 3.5 32.7 - - + +
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Residues in contact with ASP 71 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67B LEU* 2.9 27.4 + - - +
68B ASN* 4.0 6.4 - - - +
70B THR* 1.3 81.9 - - - +
72B GLY* 1.3 55.9 + - - +
74B GLU* 3.3 19.1 + - - +
75B ALA* 3.0 28.3 + - - +
128B LEU* 5.8 0.9 - - - +
167B MG 2.6 29.4 - - - -
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Residues in contact with GLY 72 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68B ASN 2.9 16.1 + - - -
69B THR* 3.2 4.5 + - - -
71B ASP* 1.3 75.4 - - - +
73B ILE* 1.3 57.8 + - - +
75B ALA* 3.3 7.9 + - - +
76B LEU* 3.0 27.8 + - - +
----------------------------------------------------------
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Residues in contact with ILE 73 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69B THR* 2.9 34.4 + - + +
70B THR* 3.3 6.9 + - - +
72B GLY* 1.3 74.1 - - - +
74B GLU* 1.3 66.2 + - - +
76B LEU* 3.2 12.1 + - + +
77B PHE* 3.1 35.6 + - + -
85B LEU* 3.7 34.1 - - + -
87B PHE* 5.5 5.4 - - + -
120B ILE* 4.5 4.7 - - + -
124B CYS* 3.7 21.5 - - - -
128B LEU* 4.1 10.3 - - + -
130B VAL* 4.1 11.7 - - + -
132B VAL* 4.7 4.0 - - + -
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Residues in contact with GLU 74 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70B THR 2.9 14.3 + - - +
71B ASP* 3.3 21.9 + - - +
73B ILE* 1.3 78.3 - - - +
75B ALA* 1.3 62.2 + - - +
77B PHE* 3.2 9.1 + - - +
78B LYS* 3.1 44.2 + - - +
128B LEU* 3.7 32.9 - - + +
----------------------------------------------------------
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Residues in contact with ALA 75 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
71B ASP 3.0 12.7 + - - +
72B GLY* 3.6 10.3 - - - +
74B GLU* 1.3 72.7 - - - +
76B LEU* 1.3 68.2 + - - +
78B LYS* 2.9 27.4 + - - +
79B LYS* 3.5 9.0 + - - +
----------------------------------------------------------
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Residues in contact with LEU 76 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
72B GLY 3.0 14.4 + - - +
73B ILE* 3.3 16.6 - - + +
75B ALA* 1.3 76.3 - - - +
77B PHE* 1.3 81.5 + - + +
79B LYS* 3.0 21.9 + - + +
80B GLU* 3.0 46.1 + - - +
83B ARG* 4.7 4.7 - - - +
85B LEU* 4.6 14.8 - - + -
----------------------------------------------------------
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Residues in contact with PHE 77 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
73B ILE* 3.1 25.7 + - + +
74B GLU* 3.2 7.4 + - - +
75B ALA 3.1 0.4 - - - -
76B LEU* 1.3 96.3 - - + +
78B LYS* 1.3 61.5 + - - +
79B LYS 3.2 1.1 - - - -
80B GLU* 3.2 16.3 - - + +
81B PRO 3.7 19.5 - - - -
82B LYS* 3.6 30.8 + - + +
83B ARG* 3.5 45.3 - - + -
85B LEU* 3.7 20.4 - - + -
130B VAL* 4.0 20.9 - - + -
----------------------------------------------------------
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Residues in contact with LYS 78 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
74B GLU* 3.4 39.0 + - - +
75B ALA* 2.9 17.2 + - - +
77B PHE* 1.3 80.8 - - - +
79B LYS* 1.3 62.1 - - + +
----------------------------------------------------------
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Residues in contact with LYS 79 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
75B ALA 3.5 7.2 + - - +
76B LEU* 3.0 11.1 + - + +
78B LYS* 1.3 85.3 - - + +
80B GLU* 1.3 65.2 + - + +
----------------------------------------------------------
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Residues in contact with GLU 80 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
76B LEU* 3.0 36.8 + - + +
77B PHE* 3.2 27.7 - - + +
78B LYS 3.8 0.2 - - - -
79B LYS* 1.3 79.7 - - - +
81B PRO* 1.3 78.9 - - + +
83B ARG* 2.8 33.1 + - - +
----------------------------------------------------------
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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