Contacts of the helix formed by residues 45 - 74 (chain A) in PDB entry 2XQL
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 45 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17A ARG* 5.3 2.5 + - - +
27A VAL* 5.6 0.2 - - - +
31A HIS* 4.9 6.0 - - - -
44A GLY* 1.3 72.0 - - - -
46A GLY* 1.3 64.6 + - - +
48A PRO* 3.5 16.0 - - - +
49A VAL* 4.1 5.0 - - - +
121B TYR* 4.2 25.7 + - + +
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Residues in contact with GLY 46 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44A GLY 3.6 0.2 - - - -
45A ALA* 1.3 77.4 - - - +
47A ALA* 1.3 66.4 + - - +
49A VAL* 2.9 15.9 - - - +
50A TYR* 2.8 25.5 + - - +
91B SER* 3.8 14.3 - - - +
118B VAL* 3.8 10.2 - - - +
121B TYR* 5.2 2.9 - - - -
122B THR* 5.8 1.1 - - - -
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Residues in contact with ALA 47 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34A LEU* 5.3 4.7 - - + -
43A VAL* 4.7 5.2 - - + -
44A GLY* 3.9 9.5 + - - +
46A GLY* 1.3 79.5 - - - +
48A PRO* 1.3 73.0 - - + +
50A TYR* 3.0 2.6 + - - +
51A LEU* 3.0 21.6 + - - +
89B ILE* 3.6 27.4 - - + +
90B THR 4.3 2.9 - - - -
91B SER* 4.0 7.6 - - - +
94B ILE* 4.0 25.8 - - + +
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Residues in contact with PRO 48 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17A ARG* 4.8 0.9 - - - +
27A VAL* 3.7 15.0 - - + +
30A VAL* 3.7 12.6 - - + +
31A HIS* 3.2 53.8 - - + +
34A LEU* 4.9 4.2 - - + -
43A VAL* 4.6 3.1 - - + -
44A GLY 3.5 9.4 - - - +
45A ALA 3.5 12.8 - - - +
47A ALA* 1.3 95.4 - - + +
49A VAL* 1.3 54.4 + - - +
51A LEU* 4.4 0.7 - - + -
52A ALA* 2.7 38.0 + - - +
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Residues in contact with VAL 49 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21A ALA* 3.3 34.8 - - + -
23A LEU* 3.7 7.5 - - + +
27A VAL* 4.0 18.6 - - + -
45A ALA 4.1 3.8 - - - +
46A GLY* 2.9 36.6 - - - +
48A PRO* 1.3 80.6 - - - +
50A TYR* 1.3 62.1 + - - +
52A ALA* 4.4 1.8 - - - -
53A ALA* 3.0 23.7 + - - +
117B ALA* 4.2 6.6 - - - +
118B VAL* 3.8 17.7 - - + -
121B TYR* 4.0 20.0 - - + -
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Residues in contact with TYR 50 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46A GLY 2.8 17.2 + - - +
47A ALA 3.5 3.1 - - - +
49A VAL* 1.3 76.9 - - - +
51A LEU* 1.3 62.2 + - - +
53A ALA* 2.9 17.3 + - - +
54A VAL* 2.9 34.4 + - + +
91B SER* 4.1 19.7 - - - -
94B ILE* 3.6 20.6 - - + -
95B GLN* 2.6 62.9 + - + +
98B VAL* 4.6 2.2 - - + -
110B ALA 4.1 2.9 - - - -
111B VAL* 3.2 22.3 + - - +
114B GLY* 3.8 16.6 - - - -
115B THR* 3.9 3.8 - - - -
118B VAL* 3.4 24.2 - - + -
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Residues in contact with LEU 51 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30A VAL* 4.0 4.5 - - + -
34A LEU* 3.6 33.7 - - + -
47A ALA 3.0 15.5 + - - +
48A PRO* 3.9 2.7 - - + +
50A TYR* 1.3 73.0 - - - +
52A ALA* 1.3 67.1 + - - +
54A VAL* 3.2 4.0 + - + +
55A LEU* 2.9 50.3 + - + +
70B PHE* 3.8 20.4 - - + +
73B ILE* 4.3 21.3 - - + -
74B ALA* 4.7 8.5 - - + -
94B ILE* 3.9 26.6 - - + +
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Residues in contact with ALA 52 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23A LEU* 4.3 11.9 - - + -
25A PHE* 3.8 14.9 - - + +
27A VAL* 4.2 16.2 - - + -
30A VAL* 4.1 22.8 - - + +
48A PRO 2.7 24.6 + - - +
49A VAL* 3.9 4.3 - - - +
51A LEU* 1.3 73.7 - - - +
53A ALA* 1.3 57.6 + - - +
55A LEU* 3.3 5.4 + - - +
56A GLU* 3.0 30.1 + - - +
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Residues in contact with ALA 53 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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23A LEU* 3.9 15.6 - - + +
49A VAL 3.0 15.6 + - - +
50A TYR 2.9 13.6 + - - +
52A ALA* 1.3 77.3 - - - +
54A VAL* 1.3 54.1 + - - +
56A GLU* 3.4 2.9 + - - +
57A TYR* 3.0 28.1 + - - +
113B GLU* 4.0 9.4 - - + +
114B GLY* 3.8 12.6 - - - -
117B ALA* 3.5 26.7 - - + -
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Residues in contact with VAL 54 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
50A TYR* 2.9 31.5 + - + +
51A LEU* 3.7 8.3 - - - +
53A ALA* 1.3 71.7 - - - +
55A LEU* 1.3 66.3 + - - +
57A TYR* 3.3 6.3 + - - +
58A LEU* 3.0 38.9 + - + +
73B ILE* 4.2 11.7 - - + -
98B VAL* 3.9 20.9 - - + -
102B LEU* 4.4 1.3 - - + -
110B ALA* 3.6 43.1 - - + +
114B GLY* 4.8 0.4 - - - -
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Residues in contact with LEU 55 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25A PHE* 3.9 14.4 - - + -
30A VAL* 4.3 14.4 - - + -
51A LEU* 2.9 44.6 + - + +
52A ALA* 3.5 4.7 - - - +
54A VAL* 1.3 78.5 - - - +
56A GLU* 1.3 56.8 + - - +
58A LEU* 3.5 4.0 + - - +
59A THR* 2.8 34.9 + - - -
37B TYR* 5.0 1.8 - - - +
65B PHE* 4.9 2.1 - - - -
66B VAL* 4.2 22.4 - - + +
69B ILE* 3.3 35.9 - - + -
70B PHE* 4.0 24.2 - - + -
73B ILE* 4.6 0.4 - - + -
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Residues in contact with GLU 56 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22A GLY 5.2 0.7 - - - +
23A LEU* 3.2 21.2 - - - +
24A GLN* 2.6 52.4 + - - +
25A PHE* 3.3 27.6 + - + +
52A ALA 3.0 15.8 + - - +
53A ALA 3.7 4.9 - - - +
55A LEU* 1.3 76.4 - - - +
57A TYR* 1.3 64.0 + - - +
59A THR* 3.3 1.9 + - - -
60A ALA* 2.9 23.6 + - + +
44B VAL* 4.1 12.0 - - + +
47B GLN* 3.9 13.0 + - - +
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Residues in contact with TYR 57 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53A ALA 3.0 14.3 + - - +
54A VAL* 3.4 8.5 - - - +
55A LEU 3.2 0.2 - - - -
56A GLU* 1.3 76.7 - - - +
58A LEU* 1.3 83.2 + - + +
60A ALA* 2.9 10.8 + - + +
61A GLU* 2.9 59.6 + - + +
106B LEU* 3.6 30.0 - - + +
109B HIS* 3.1 33.6 + + + +
110B ALA* 3.7 24.7 - - + -
113B GLU* 4.1 29.8 - - + +
103C ALA* 5.3 0.3 - - - +
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Residues in contact with LEU 58 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
54A VAL* 3.0 19.3 + - + +
55A LEU 3.9 2.0 - - - +
57A TYR* 1.3 89.1 - - + +
59A THR* 1.3 63.5 + - - +
61A GLU* 3.2 5.8 + - + +
62A ILE* 3.0 29.1 + - - +
93A LEU* 4.9 4.5 - - + -
96A LEU* 4.5 10.8 - - + -
65B PHE* 3.7 20.6 - - + -
69B ILE* 3.4 34.8 - - + -
102B LEU* 3.9 33.0 - - + -
106B LEU* 4.2 25.4 - - + -
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Residues in contact with THR 59 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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25A PHE* 3.1 31.8 - - + -
55A LEU 2.8 23.9 + - - -
56A GLU 3.4 5.4 - - - -
58A LEU* 1.3 75.5 - - - +
60A ALA* 1.3 57.3 + - - +
62A ILE* 3.7 2.3 - - - +
63A LEU* 2.9 48.4 + - + +
41B VAL* 4.2 8.7 - - + -
44B VAL* 4.3 5.2 - - + -
62B MET* 3.7 23.6 - - + -
65B PHE* 4.2 5.3 - - - -
66B VAL* 3.7 11.7 - - + +
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Residues in contact with ALA 60 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56A GLU* 2.9 12.7 + - + +
57A TYR* 2.9 13.9 + - + +
59A THR* 1.3 75.3 - - - +
61A GLU* 1.3 54.1 + - - +
63A LEU* 3.6 3.3 - - - +
64A GLU* 2.8 38.2 + - - +
44B VAL* 3.7 21.5 - - + +
47B GLN* 5.5 6.3 - - - +
48B VAL* 4.3 11.3 - - + +
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Residues in contact with GLU 61 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57A TYR* 2.9 56.2 + - + +
58A LEU* 3.4 11.0 - - + +
60A ALA* 1.3 74.3 - - - +
62A ILE* 1.3 66.9 + - + +
64A GLU* 3.0 14.7 + - - +
65A LEU* 2.9 41.9 + - + +
90A ASP* 5.3 1.7 - - - +
93A LEU* 5.1 4.5 - - + +
106B LEU* 4.5 15.7 - - + +
109B HIS* 5.2 0.2 - - - -
102C ILE 5.2 0.7 - - - +
103C ALA* 3.9 21.9 - - - +
104C GLN* 3.8 16.6 + - - +
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Residues in contact with ILE 62 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58A LEU* 3.0 12.8 + - - +
59A THR 3.7 7.2 - - - +
61A GLU* 1.3 73.9 - - - +
63A LEU* 1.3 60.7 + - - +
65A LEU* 3.6 3.6 + - - +
66A ALA* 2.9 32.0 + - - +
83A LEU* 4.6 6.9 - - + +
86A ALA* 4.5 3.4 - - + +
87A ILE* 4.9 16.2 - - + -
93A LEU* 3.6 39.9 - - + -
97A LEU* 5.1 2.2 - - + -
62B MET* 3.4 35.4 - - + -
65B PHE* 3.9 36.3 - - + -
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Residues in contact with LEU 63 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59A THR* 2.9 27.3 + - + +
60A ALA* 3.6 4.7 - - - +
62A ILE* 1.3 78.7 - - - +
64A GLU* 1.3 56.7 + - - +
66A ALA* 3.6 2.6 - - - +
67A GLY* 2.9 24.6 + - - -
78A ILE* 4.0 8.3 - - + +
83A LEU* 4.8 4.9 - - + -
41B VAL* 3.5 34.3 - - + +
44B VAL* 4.4 3.1 - - + -
45B LEU* 3.8 28.1 - - + +
48B VAL* 4.5 9.2 - - + +
54B ILE* 3.9 27.1 - - + -
62B MET* 4.1 22.7 - - + -
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Residues in contact with GLU 64 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60A ALA 2.8 18.8 + - - +
61A GLU* 3.2 8.8 - - - +
63A LEU* 1.3 73.3 - - - +
65A LEU* 1.3 68.6 + - + +
67A GLY* 2.9 12.6 + - - -
68A ASN* 2.9 21.8 + - - +
48B VAL* 3.5 29.5 - - + +
49B HIS* 3.6 15.5 + - + -
104C GLN* 1.6 63.2 + - + +
57D LYS* 4.3 1.7 + - - -
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Residues in contact with LEU 65 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61A GLU* 2.9 47.8 + - - +
62A ILE* 4.0 3.6 - - - +
64A GLU* 1.3 80.2 - - + +
66A ALA* 1.3 62.1 + - - +
68A ASN* 3.3 15.3 + - + +
69A ALA* 3.1 21.8 + - - +
86A ALA* 3.8 21.3 - - + +
90A ASP* 4.9 11.4 - - + +
93A LEU* 4.3 15.5 - - + -
81C ARG* 5.8 3.4 - - - +
104C GLN* 3.6 20.9 - - - +
105C GLY 3.6 32.1 - - - +
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Residues in contact with ALA 66 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62A ILE 2.9 20.2 + - - +
63A LEU* 3.6 6.3 - - - +
65A LEU* 1.3 74.5 - - - +
67A GLY* 1.3 65.9 + - - +
69A ALA* 3.2 5.2 + - - +
70A ALA* 3.0 19.1 + - - +
78A ILE* 4.1 15.3 - - + -
82A HIS* 3.7 8.9 - - - +
83A LEU* 3.7 30.3 - - + +
86A ALA* 3.7 13.6 - - + +
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Residues in contact with GLY 67 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63A LEU 2.9 15.3 + - - -
64A GLU 2.9 4.0 + - - -
66A ALA* 1.3 76.2 - - - +
68A ASN* 1.3 63.5 + - - +
70A ALA* 3.2 3.9 + - - +
71A ARG* 3.2 24.6 + - - +
78A ILE* 3.7 18.1 - - - +
49B HIS* 3.5 22.1 - - - -
52B THR* 4.4 2.7 - - - +
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Residues in contact with ASN 68 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64A GLU* 2.9 12.8 + - - +
65A LEU* 3.4 19.3 - - + +
66A ALA 3.1 0.2 - - - -
67A GLY* 1.3 76.4 - - - +
69A ALA* 1.3 63.2 + - - +
71A ARG* 2.9 20.8 + - - +
72A ASP* 2.9 24.2 + - - +
49B HIS* 2.8 31.7 + - - -
79C ILE* 5.7 4.5 - - - +
81C ARG* 5.6 10.8 - - - +
104C GLN* 4.4 13.2 + - - +
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Residues in contact with ALA 69 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65A LEU 3.1 9.8 + - - +
66A ALA 3.2 7.8 + - - +
68A ASN* 1.3 78.7 - - - +
70A ALA* 1.3 62.2 + - - +
72A ASP* 3.8 9.4 - - - +
73A ASN* 3.3 27.6 + - - +
82A HIS* 3.9 26.2 + - + +
85A LEU* 4.6 15.7 - - + -
86A ALA* 5.0 2.9 - - - +
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Residues in contact with ALA 70 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66A ALA 3.0 10.7 + - - +
67A GLY* 3.4 11.7 - - - +
68A ASN 3.0 0.4 + - - -
69A ALA* 1.3 77.2 - - - +
71A ARG* 1.3 61.7 + - - +
73A ASN* 3.7 1.9 + - - +
74A LYS 3.5 3.5 + - - -
75A LYS* 3.0 33.9 + - - +
77A ARG 4.2 6.7 - - - +
78A ILE* 4.1 13.7 - - + -
82A HIS* 3.7 30.4 + - + +
52B THR* 4.3 7.2 - - + -
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Residues in contact with ARG 71 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67A GLY 3.2 12.3 - - - +
68A ASN* 2.9 9.4 + - - +
70A ALA* 1.3 74.4 - - + +
72A ASP* 1.3 66.5 + - - +
73A ASN 3.0 3.5 + - - +
74A LYS* 3.3 14.7 + - - -
75A LYS 3.8 10.3 - - - +
48B VAL 5.2 0.2 + - - -
49B HIS* 3.4 33.7 + - - +
50B PRO* 4.7 1.6 - - - +
51B ASP* 2.7 42.8 + - - -
52B THR* 3.3 14.6 + - + +
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Residues in contact with ASP 72 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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68A ASN* 2.9 31.3 + - - +
69A ALA* 3.8 9.9 + - - +
70A ALA 3.5 0.2 - - - -
71A ARG* 1.3 77.7 - - - +
73A ASN* 1.3 64.5 + - - +
73C ASN* 4.3 16.3 + - - -
81C ARG* 5.6 5.2 + - - -
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Residues in contact with ASN 73 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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69A ALA* 3.3 17.6 + - - +
70A ALA 3.9 3.6 - - - +
71A ARG 3.0 2.8 + - - +
72A ASP* 1.3 85.1 - - - +
74A LYS* 1.4 68.2 + - + +
75A LYS* 4.5 7.1 - - + +
81A ARG* 5.7 3.4 - - - +
82A HIS* 4.2 17.7 - - + -
85A LEU* 4.6 14.9 - - - +
72I ASP* 4.3 15.8 + - - -
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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
----------------------------------------------------------
70A ALA 3.9 0.2 - - - -
71A ARG* 3.3 7.9 + - - -
73A ASN* 1.4 83.7 - - + +
75A LYS* 1.3 68.7 + - + +
76A THR* 5.6 0.9 - - - +
----------------------------------------------------------
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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