Contacts of the helix formed by residues 46 - 73 (chain Q) in PDB entry 3LEL
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 GLY 46 (chain Q).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44Q GLY 3.1 1.0 - - - -
45Q ALA* 1.3 79.6 - - - +
47Q ALA* 1.3 62.9 + - - +
48Q PRO* 3.4 1.3 - - - -
49Q VAL* 3.0 24.3 + - - +
50Q TYR 3.3 5.2 + - - -
88R SER* 3.8 15.2 - - - -
115R VAL* 3.7 13.4 - - - +
118R TYR* 5.1 4.9 - - - -
38S A 4.9 1.6 + - - -
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Residues in contact with ALA 47 (chain Q).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34Q LEU* 4.7 2.7 - - + -
43Q VAL* 4.6 4.7 - - + -
44Q GLY 3.4 3.9 + - - +
46Q GLY* 1.3 76.5 - - - +
48Q PRO* 1.4 67.5 - - + +
50Q TYR* 3.3 4.2 + - - +
51Q LEU* 3.2 22.2 + - - +
86R ILE* 3.4 31.4 - - + +
88R SER* 3.6 24.7 - - - +
91R ILE* 3.7 19.4 - - + +
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Residues in contact with PRO 48 (chain Q).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17Q ARG* 4.9 1.1 - - - +
27Q VAL* 4.2 11.0 - - + +
30Q VAL* 3.4 28.2 - - + +
31Q HIS* 3.3 42.8 - - + +
34Q LEU* 4.2 5.4 - - + -
43Q VAL* 4.6 4.3 - - + -
44Q GLY 3.2 15.7 - - - +
45Q ALA 3.6 8.3 - - - +
46Q GLY 3.4 2.9 - - - -
47Q ALA* 1.4 91.9 - - + +
49Q VAL* 1.3 59.0 + - + +
51Q LEU* 3.9 0.9 - - + -
52Q ALA* 3.1 29.1 + - - +
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Residues in contact with VAL 49 (chain Q).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17Q ARG* 5.8 0.2 - - - -
21Q ALA* 3.7 18.4 - - + -
23Q LEU* 3.7 4.5 - - + +
27Q VAL* 4.0 17.5 - - + -
45Q ALA 3.6 21.5 - - - +
46Q GLY 3.0 8.2 + - - +
48Q PRO* 1.3 76.2 - - + +
50Q TYR* 1.3 65.7 + - - +
52Q ALA* 4.7 0.9 - - - -
53Q ALA* 3.3 22.0 + - - +
114R ALA* 3.7 10.1 - - + +
115R VAL* 3.7 30.1 - - + +
118R TYR* 3.8 30.1 - - + -
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Residues in contact with TYR 50 (chain Q).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46Q GLY 3.3 2.0 + - - +
47Q ALA 3.3 8.3 + - - +
49Q VAL* 1.3 79.5 - - - +
51Q LEU* 1.3 63.4 + - - +
53Q ALA* 3.2 6.1 + - - +
54Q VAL* 3.0 36.3 + - + +
88R SER* 4.1 28.3 - - - -
91R ILE* 3.5 25.4 - - + -
92R GLN* 2.3 55.1 + - + -
95R VAL* 4.7 2.5 - - + -
108R VAL* 3.4 23.2 + - + +
111R GLY* 3.3 43.2 - - - -
112R THR* 3.3 7.2 - - + -
115R VAL* 4.2 7.5 - - + +
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Residues in contact with LEU 51 (chain Q).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30Q VAL* 3.9 13.7 - - + -
34Q LEU* 4.6 12.1 - - + -
47Q ALA 3.2 13.8 + - - +
48Q PRO* 4.4 0.2 - - + -
50Q TYR* 1.3 75.5 - - - +
52Q ALA* 1.3 67.7 + - - +
54Q VAL* 2.8 16.6 + - + +
55Q LEU* 2.8 22.3 + - + +
67R PHE* 3.6 45.3 - - + +
70R ILE* 3.4 48.0 - - + -
71R ALA* 5.1 1.8 - - + -
91R ILE* 3.8 19.0 - - + +
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Residues in contact with ALA 52 (chain Q).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23Q LEU* 3.9 13.9 - - + -
25Q PHE* 4.0 23.1 - - + +
26Q PRO 4.5 2.0 - - - +
27Q VAL* 4.6 5.8 - - + -
30Q VAL* 4.0 21.1 - - + +
48Q PRO 3.1 17.5 + - - +
49Q VAL 3.9 4.0 - - - +
51Q LEU* 1.3 77.7 - - - +
53Q ALA* 1.3 57.0 + - - +
55Q LEU* 3.1 8.2 + - - +
56Q GLU* 2.8 28.2 + - - +
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Residues in contact with ALA 53 (chain Q).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23Q LEU* 3.7 19.2 - - + +
49Q VAL 3.3 11.5 + - - +
50Q TYR 3.2 10.0 + - - +
51Q LEU 3.0 0.6 - - - -
52Q ALA* 1.3 79.3 - - - +
54Q VAL* 1.3 57.9 + - - +
56Q GLU* 3.2 3.5 + - - +
57Q TYR* 2.9 29.3 + - - +
110R GLU* 3.5 30.2 - - + +
111R GLY* 4.3 0.2 - - - -
114R ALA* 3.6 13.9 - - + -
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Residues in contact with VAL 54 (chain Q).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
50Q TYR* 3.0 24.8 + - + +
51Q LEU* 2.8 17.1 + - - +
53Q ALA* 1.3 71.4 - - - +
55Q LEU* 1.3 58.2 + - + +
57Q TYR* 3.3 6.4 + - - +
58Q LEU* 3.0 47.3 + - + +
70R ILE* 3.7 23.8 - - + -
95R VAL* 3.9 23.1 - - + -
99R LEU* 4.8 0.9 - - + -
107R ALA* 3.7 32.8 - - + +
111R GLY* 4.8 1.3 - - - -
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Residues in contact with LEU 55 (chain Q).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25Q PHE* 4.1 13.7 - - + -
30Q VAL* 4.8 7.2 - - + -
51Q LEU* 2.8 28.9 + - + +
52Q ALA* 3.6 9.9 - - - +
54Q VAL* 1.3 74.3 - - + +
56Q GLU* 1.3 55.9 + - - +
58Q LEU* 3.9 4.5 - - + +
59Q THR* 2.3 38.8 + - - -
34R TYR* 5.0 3.6 - - + +
62R PHE* 5.6 1.5 - - + -
63R VAL* 3.7 36.5 - - + +
66R VAL* 3.8 26.9 - - + -
67R PHE* 3.9 32.1 - - + +
70R ILE* 4.9 4.7 - - + -
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Residues in contact with GLU 56 (chain Q).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22Q GLY 4.7 2.3 - - - +
23Q LEU* 3.4 21.2 - - + +
24Q GLN* 2.6 43.7 + - - +
25Q PHE* 3.1 29.0 + - + +
52Q ALA 2.8 13.0 + - - +
53Q ALA* 3.5 10.3 - - - +
55Q LEU* 1.3 75.1 - - - +
57Q TYR* 1.3 66.3 + - - +
59Q THR* 3.3 2.6 + - - -
60Q ALA* 2.9 26.9 + - + +
41R VAL* 3.9 13.4 - - + +
44R GLN* 5.0 5.5 - - - +
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Residues in contact with TYR 57 (chain Q).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53Q ALA 2.9 16.8 + - - +
54Q VAL* 3.7 4.9 - - - +
56Q GLU* 1.3 77.3 - - - +
58Q LEU* 1.3 70.2 + - + +
60Q ALA* 3.3 6.6 + - + +
61Q GLU* 2.9 55.5 + - - +
103R LEU* 3.5 41.4 + - + +
106R HIS* 3.4 32.4 - + + +
107R ALA* 3.9 18.4 - - + -
110R GLU* 4.1 31.9 - - + +
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Residues in contact with LEU 58 (chain Q).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
54Q VAL* 3.0 38.7 + - + +
55Q LEU* 4.0 5.2 - - + +
57Q TYR* 1.3 84.6 - - + +
59Q THR* 1.3 64.0 + - - +
61Q GLU* 3.3 3.7 + - + +
62Q ILE* 3.2 28.4 + - - +
93Q LEU* 4.8 5.6 - - + -
96Q LEU* 4.7 10.3 - - + -
62R PHE* 4.1 17.9 - - + -
66R VAL* 4.1 22.4 - - + -
99R LEU* 3.9 19.7 - - + -
103R LEU* 4.0 36.1 - - + -
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Residues in contact with THR 59 (chain Q).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25Q PHE* 3.0 32.4 - - + -
55Q LEU 2.3 27.5 + - - -
56Q GLU 3.6 4.0 - - - -
58Q LEU* 1.3 76.0 - - - +
60Q ALA* 1.3 58.2 + - - +
63Q LEU* 3.1 48.6 + - + +
38R VAL* 3.9 14.8 - - + +
41R VAL* 4.7 2.9 - - + -
59R MET* 3.5 28.0 - - + +
62R PHE* 4.4 4.4 - - - -
63R VAL* 4.0 8.1 - - + +
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Residues in contact with ALA 60 (chain Q).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56Q GLU* 2.9 19.5 + - + +
57Q TYR* 3.6 8.7 - - + +
59Q THR* 1.3 74.6 - - - +
61Q GLU* 1.3 61.0 + - - +
63Q LEU* 3.6 1.6 + - - -
64Q GLU* 3.1 27.0 + - - +
41R VAL* 3.4 25.1 - - + -
45R VAL* 3.4 17.5 - - + +
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Residues in contact with GLU 61 (chain Q).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57Q TYR* 2.9 51.4 + - + +
58Q LEU* 3.3 8.7 + - + +
60Q ALA* 1.3 74.3 - - - +
62Q ILE* 1.3 65.4 + - + +
64Q GLU* 3.2 21.7 + - - +
65Q LEU* 3.3 30.0 + - + +
90Q ASP* 6.1 0.9 - - - -
93Q LEU* 4.6 9.0 - - + -
103R LEU* 4.1 17.2 - - + +
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Residues in contact with ILE 62 (chain Q).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58Q LEU 3.2 16.0 + - - +
59Q THR 4.0 3.1 - - - +
61Q GLU* 1.3 75.4 - - - +
63Q LEU* 1.3 57.1 + - - +
65Q LEU* 3.4 2.8 + - - +
66Q ALA* 3.0 28.1 + - - +
83Q LEU* 4.0 23.1 - - + -
86Q ALA* 4.3 4.8 - - + +
87Q VAL* 4.1 27.8 - - + -
93Q LEU* 4.0 27.1 - - + -
97Q LEU* 4.3 1.1 - - + -
59R MET* 4.2 12.1 - - + -
62R PHE* 3.5 41.1 - - + -
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Residues in contact with LEU 63 (chain Q).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59Q THR* 3.1 34.1 + - + +
60Q ALA 3.9 0.9 - - - +
62Q ILE* 1.3 74.8 - - - +
64Q GLU* 1.3 60.2 + - - +
66Q ALA* 4.8 1.3 - - - -
67Q GLY* 3.1 20.6 + - - -
78Q ILE* 4.3 22.1 - - + +
83Q LEU* 5.0 4.9 - - + -
38R VAL* 3.4 30.1 - - + +
41R VAL* 4.4 2.9 - - + -
42R LEU* 3.9 21.8 - - + +
45R VAL* 3.9 15.0 - - + +
46R HIS* 3.4 10.7 - - - -
51R ILE* 4.3 16.4 - - + -
59R MET* 4.0 21.3 - - + -
----------------------------------------------------------
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Residues in contact with GLU 64 (chain Q).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60Q ALA 3.1 14.5 + - - +
61Q GLU* 3.2 15.3 - - + +
62Q ILE 3.2 0.2 - - - -
63Q LEU* 1.3 78.0 - - - +
65Q LEU* 1.3 67.6 - - + +
67Q GLY 3.2 0.3 + - - -
68Q ASN* 2.9 47.9 + - - +
45R VAL* 3.9 21.5 - - + +
46R HIS* 3.0 29.5 + - - -
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Residues in contact with LEU 65 (chain Q).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61Q GLU* 3.3 29.6 + - + +
62Q ILE* 3.4 1.5 + - - +
64Q GLU* 1.3 80.2 - - + +
66Q ALA* 1.3 60.8 + - - +
68Q ASN* 3.5 18.0 + - - +
69Q ALA* 3.0 24.1 + - - +
86Q ALA* 3.6 24.4 - - + +
90Q ASP* 4.4 15.3 - - + +
93Q LEU* 3.7 29.8 - - + -
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Residues in contact with ALA 66 (chain Q).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62Q ILE 3.0 17.2 + - - +
63Q LEU* 4.5 1.3 - - - +
65Q LEU* 1.3 74.5 - - - +
67Q GLY* 1.3 57.6 + - - +
68Q ASN 3.1 0.2 - - - -
69Q ALA* 2.9 6.5 + - - +
70Q ALA* 2.7 35.9 + - - +
78Q ILE* 4.2 12.3 - - + -
82Q HIS* 3.7 15.9 - - - +
83Q LEU* 3.6 27.8 - - + -
86Q ALA* 3.4 8.9 - - + +
----------------------------------------------------------
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Residues in contact with GLY 67 (chain Q).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63Q LEU 3.1 20.4 + - - -
64Q GLU 3.2 0.4 + - - -
66Q ALA* 1.3 77.3 - - - +
68Q ASN* 1.3 59.0 + - - +
70Q ALA* 3.5 3.6 + - - +
71Q ARG* 3.1 22.9 + - - +
78Q ILE* 4.0 14.6 - - - +
46R HIS* 3.5 21.8 - - - -
49R THR* 4.7 8.7 + - - +
----------------------------------------------------------
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Residues in contact with ASN 68 (chain Q).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64Q GLU* 2.9 40.9 + - - +
65Q LEU* 3.5 22.2 - - - +
66Q ALA 3.1 0.2 - - - -
67Q GLY* 1.3 75.5 - - - +
69Q ALA* 1.3 53.1 + - - +
71Q ARG* 2.8 40.3 + - - +
72Q ASP* 2.8 43.9 + - - +
46R HIS* 3.5 4.5 - - - -
----------------------------------------------------------
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Residues in contact with ALA 69 (chain Q).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65Q LEU 3.0 14.5 + - - +
66Q ALA* 2.9 13.4 + - - +
68Q ASN* 1.3 76.6 - - - +
70Q ALA* 1.3 58.1 + - - +
72Q ASP* 3.6 9.4 + - - +
73Q ASN* 2.7 34.5 + - - +
82Q HIS* 3.9 19.7 - - + +
85Q LEU* 4.3 18.6 - - + -
86Q ALA* 4.6 2.0 - - - +
----------------------------------------------------------
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Residues in contact with ALA 70 (chain Q).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66Q ALA 2.7 17.7 + - - +
67Q GLY* 3.8 5.4 - - - +
69Q ALA* 1.3 71.6 - - - +
71Q ARG* 1.3 61.1 + - - +
73Q ASN* 3.2 5.9 + - - +
75Q LYS* 2.8 40.8 + - + +
77Q ARG 4.5 1.1 - - - +
78Q ILE* 4.4 14.1 - - + +
82Q HIS* 3.3 36.9 - - + +
49R THR* 5.2 2.7 - - + -
----------------------------------------------------------
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Residues in contact with ARG 71 (chain Q).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67Q GLY 3.1 13.6 + - - +
68Q ASN* 2.8 48.9 + - - +
70Q ALA* 1.3 72.7 - - - +
72Q ASP* 1.3 79.6 + - - +
73Q ASN 3.1 1.6 - - - -
74Q LYS* 3.2 14.0 + - - +
75Q LYS 3.8 8.0 + - - +
46R HIS* 4.4 9.3 - - - -
----------------------------------------------------------
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Residues in contact with ASP 72 (chain Q).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68Q ASN* 2.8 25.4 + - - +
69Q ALA* 3.6 10.5 - - - +
71Q ARG* 1.3 89.3 + - - +
73Q ASN* 1.3 65.0 + - - +
74Q LYS* 3.4 6.4 + - - +
----------------------------------------------------------
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Residues in contact with ASN 73 (chain Q).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69Q ALA* 2.7 23.0 + - - +
70Q ALA 3.2 10.5 + - - +
71Q ARG 3.1 1.0 - - - -
72Q ASP* 1.3 82.7 - - - +
74Q LYS* 1.3 71.3 + - - +
75Q LYS* 3.8 25.8 + - + +
81Q ARG* 5.5 2.6 - - - +
82Q HIS* 4.1 15.7 + - - +
85Q LEU* 4.1 18.7 - - - +
----------------------------------------------------------
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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