Contacts of the helix formed by residues 45 - 74 (chain I) 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 I).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17I ARG* 5.3 2.6 + - - +
27I VAL* 5.6 0.3 - - - +
31I HIS* 4.9 6.0 - - - -
44I GLY* 1.3 71.2 - - - -
46I GLY* 1.3 63.3 + - - +
48I PRO* 3.5 16.0 - - - +
49I VAL* 4.1 5.0 - - - +
121J TYR* 4.2 26.3 + - + +
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Residues in contact with GLY 46 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44I GLY* 4.7 0.2 - - - -
45I ALA* 1.3 77.0 - - - +
47I ALA* 1.3 66.2 + - - +
49I VAL* 2.9 16.8 - - - +
50I TYR* 2.8 25.6 + - - +
91J SER* 3.8 13.9 - - - -
118J VAL* 3.8 10.4 - - - +
121J TYR* 5.2 2.9 - - - -
122J THR* 5.8 0.9 - - - -
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Residues in contact with ALA 47 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34I LEU* 5.3 3.8 - - + -
43I VAL* 4.7 5.6 - - + -
44I GLY* 3.9 9.3 + - - +
45I ALA 3.3 0.2 - - - -
46I GLY* 1.3 79.6 - - - +
48I PRO* 1.3 73.1 - - + +
50I TYR* 3.0 1.9 + - - +
51I LEU* 3.0 22.0 + - - +
89J ILE* 3.6 27.6 - - + +
90J THR 4.3 2.7 - - - -
91J SER* 4.0 7.6 - - - +
94J ILE* 4.0 26.4 - - + +
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Residues in contact with PRO 48 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17I ARG* 4.8 0.9 - - - +
27I VAL* 3.7 15.7 - - + +
30I VAL* 3.7 12.6 - - + +
31I HIS* 3.2 53.4 - - + +
34I LEU* 4.9 4.2 - - + -
43I VAL* 4.6 2.7 - - + -
44I GLY 3.5 9.2 - - - +
45I ALA 3.5 14.6 - - - +
47I ALA* 1.3 95.4 - - + +
49I VAL* 1.3 54.6 + - - +
51I LEU* 4.4 0.9 - - + -
52I ALA* 2.7 38.7 + - - +
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Residues in contact with VAL 49 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21I ALA* 3.3 34.5 - - + -
23I LEU* 3.7 6.8 - - + +
27I VAL* 4.0 18.2 - - + -
45I ALA 4.1 4.0 - - - +
46I GLY* 2.9 35.9 - - - +
48I PRO* 1.3 80.6 - - - +
50I TYR* 1.3 62.0 + - - +
52I ALA* 4.4 1.8 - - - -
53I ALA* 3.0 23.6 + - - +
117J ALA* 4.2 6.7 - - - +
118J VAL* 3.8 17.0 - - + -
121J TYR* 4.0 21.5 - - + -
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Residues in contact with TYR 50 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46I GLY 2.8 16.6 + - - +
47I ALA 3.5 3.1 - - - +
49I VAL* 1.3 76.7 - - - +
51I LEU* 1.3 63.0 + - - +
53I ALA* 2.9 17.7 + - - +
54I VAL* 2.9 33.3 + - + +
91J SER* 4.1 18.2 - - - -
94J ILE* 3.6 21.5 - - + -
95J GLN* 2.6 64.2 + - + +
98J VAL* 4.6 2.5 - - + -
110J ALA 4.1 2.7 - - - -
111J VAL* 3.2 21.8 + - - +
114J GLY* 3.8 16.4 - - - -
115J THR* 3.9 4.3 - - - -
118J VAL* 3.4 25.1 - - + -
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Residues in contact with LEU 51 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30I VAL* 4.0 4.9 - - + -
34I LEU* 3.6 33.9 - - + -
47I ALA 3.0 15.2 + - - +
48I PRO 3.9 2.5 - - - +
50I TYR* 1.3 72.6 - - - +
52I ALA* 1.3 67.4 + - - +
54I VAL* 3.2 4.9 + - + +
55I LEU* 2.9 49.6 + - + +
70J PHE* 3.8 20.4 - - + +
73J ILE* 4.3 21.1 - - + -
74J ALA* 4.7 9.0 - - + -
94J ILE* 3.9 25.9 - - + +
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Residues in contact with ALA 52 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23I LEU* 4.3 12.1 - - + -
25I PHE* 3.8 14.7 - - + +
27I VAL* 4.2 16.4 - - + -
30I VAL* 4.1 22.4 - - + +
48I PRO 2.7 24.2 + - - +
49I VAL* 3.9 4.0 - - - +
51I LEU* 1.3 74.1 - - - +
53I ALA* 1.3 56.5 + - - +
55I LEU* 3.3 6.0 + - - +
56I GLU* 3.0 30.0 + - - +
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Residues in contact with ALA 53 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23I LEU* 3.9 15.4 - - + +
49I VAL 3.0 15.6 + - - +
50I TYR 2.9 12.7 + - - +
52I ALA* 1.3 78.6 - - - +
54I VAL* 1.3 53.8 + - - +
56I GLU* 3.4 3.3 + - - +
57I TYR* 3.0 28.6 + - - +
113J GLU* 4.0 9.7 - - + +
114J GLY* 3.8 12.8 - - - +
117J ALA* 3.5 26.7 - - + -
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Residues in contact with VAL 54 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
50I TYR* 2.9 32.3 + - + +
51I LEU* 3.7 7.4 - - - +
53I ALA* 1.3 71.7 - - - +
55I LEU* 1.3 66.1 + - - +
57I TYR* 3.3 6.7 + - - +
58I LEU* 3.0 40.3 + - + +
73J ILE* 4.2 12.1 - - + -
98J VAL* 3.9 20.6 - - + -
102J LEU* 4.4 1.6 - - + -
110J ALA* 3.6 42.4 - - + +
114J GLY* 4.8 0.2 - - - -
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Residues in contact with LEU 55 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25I PHE* 3.9 15.0 - - + -
30I VAL* 4.3 13.9 - - + -
51I LEU* 2.9 45.0 + - + +
52I ALA* 3.5 4.9 - - - +
54I VAL* 1.3 78.6 - - - +
56I GLU* 1.3 56.9 + - - +
58I LEU* 3.5 4.0 + - - +
59I THR* 2.8 34.5 + - - -
37J TYR* 5.0 1.8 - - - +
65J PHE* 4.9 2.2 - - + -
66J VAL* 4.2 23.0 - - + +
69J ILE* 3.3 35.7 - - + -
70J PHE* 4.0 23.6 - - + -
73J ILE* 4.6 0.7 - - + -
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Residues in contact with GLU 56 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22I GLY 5.2 0.7 - - - +
23I LEU* 3.2 21.5 - - + +
24I GLN* 2.6 51.6 + - - +
25I PHE* 3.3 27.8 + - + +
52I ALA 3.0 16.3 + - - +
53I ALA* 3.7 4.9 - - - +
55I LEU* 1.3 76.2 - - - +
57I TYR* 1.3 64.9 + - - +
59I THR* 3.3 2.3 + - - -
60I ALA* 2.9 22.7 + - + +
44J VAL* 4.1 11.8 - - + +
47J GLN* 3.9 13.3 + - - +
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Residues in contact with TYR 57 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
103A ALA* 5.3 0.3 - - - +
53I ALA 3.0 14.7 + - - +
54I VAL* 3.4 8.3 - - - +
56I GLU* 1.3 75.8 - - - +
58I LEU* 1.3 82.5 + - + +
60I ALA* 2.9 11.3 + - + +
61I GLU* 2.9 58.6 + - + +
106J LEU* 3.6 29.6 + - + +
109J HIS* 3.1 33.5 + + + +
110J ALA* 3.7 24.7 - - + -
113J GLU* 4.1 29.2 - - + -
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Residues in contact with LEU 58 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
54I VAL* 3.0 19.7 + - + +
55I LEU* 3.9 2.0 - - - +
57I TYR* 1.3 88.4 - - + +
59I THR* 1.3 62.6 + - - +
61I GLU* 3.2 4.9 + - + +
62I ILE* 3.0 29.1 + - - +
93I LEU* 4.9 4.9 - - + -
96I LEU* 4.5 10.5 - - + -
65J PHE* 3.7 21.1 - - + -
69J ILE* 3.4 34.3 - - + -
102J LEU* 3.9 32.8 - - + -
106J LEU* 4.2 25.6 - - + -
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Residues in contact with THR 59 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25I PHE* 3.1 32.7 - - + -
55I LEU 2.8 24.2 + - - -
56I GLU 3.4 5.2 - - - -
58I LEU* 1.3 75.4 - - - +
60I ALA* 1.3 58.1 + - - +
62I ILE* 3.7 2.1 - - - +
63I LEU* 2.9 47.9 + - + +
41J VAL* 4.2 9.0 - - + -
44J VAL* 4.3 5.4 - - + -
62J MET* 3.7 23.5 - - + +
65J PHE* 4.2 4.5 - - - -
66J VAL* 3.7 11.3 - - + +
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Residues in contact with ALA 60 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56I GLU* 2.9 13.4 + - + +
57I TYR* 3.3 11.9 - - + +
59I THR* 1.3 76.3 - - - +
61I GLU* 1.3 55.3 + - - +
63I LEU* 3.6 3.3 - - - +
64I GLU* 2.8 37.3 + - - +
44J VAL* 3.7 21.1 - - + -
47J GLN* 5.5 6.5 - - - +
48J VAL* 4.3 11.3 - - + +
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Residues in contact with GLU 61 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
101A THR* 5.9 0.7 - - - +
102A ILE 5.2 0.3 - - - +
103A ALA* 3.9 21.7 - - - +
104A GLN* 3.8 17.2 + - - +
57I TYR* 2.9 55.6 + - + +
58I LEU* 3.2 12.5 + - + +
60I ALA* 1.3 75.5 - - - +
62I ILE* 1.3 65.4 + - + +
64I GLU* 3.0 14.8 + - - +
65I LEU* 2.9 41.9 + - + +
90I ASP* 5.3 1.9 - - - +
93I LEU* 5.1 4.3 - - + +
106J LEU* 4.5 15.3 - - + +
109J HIS* 5.2 0.2 - - - -
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Residues in contact with ILE 62 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58I LEU* 3.0 12.1 + - - +
59I THR 3.7 7.2 - - - +
61I GLU* 1.3 74.5 - - + +
63I LEU* 1.3 60.5 + - - +
65I LEU* 3.9 3.3 - - - +
66I ALA* 2.9 32.4 + - - +
83I LEU* 4.7 6.5 - - + -
86I ALA* 4.5 3.4 - - + +
87I ILE* 4.9 15.7 - - + -
93I LEU* 3.6 39.7 - - + -
97I LEU* 5.1 2.2 - - + -
62J MET* 3.4 36.6 - - + -
65J PHE* 3.9 37.0 - - + -
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Residues in contact with LEU 63 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59I THR* 2.9 28.1 + - + +
60I ALA* 3.6 5.4 - - - +
62I ILE* 1.3 78.4 - - - +
64I GLU* 1.3 56.4 + - - +
66I ALA* 3.6 2.6 - - - +
67I GLY* 2.9 24.1 + - - -
78I ILE* 4.0 8.6 - - + +
83I LEU* 4.8 4.5 - - + -
41J VAL* 3.5 35.0 - - + +
44J VAL* 4.4 3.8 - - + -
45J LEU* 3.8 27.8 - - + +
48J VAL* 4.5 8.8 - - + +
54J ILE* 3.9 27.4 - - + -
62J MET* 4.1 22.7 - - + -
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Residues in contact with GLU 64 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
104A GLN* 1.6 63.2 + - + +
57B LYS* 4.3 1.7 + - - -
60I ALA 2.8 17.9 + - - +
61I GLU* 3.2 8.7 - - - +
63I LEU* 1.3 73.6 - - - +
65I LEU* 1.3 68.3 + - + +
67I GLY* 2.9 13.3 + - - -
68I ASN* 2.9 20.7 + - - +
48J VAL* 3.5 30.7 - - + +
49J HIS* 3.6 14.5 + - + -
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Residues in contact with LEU 65 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
81A ARG* 5.8 3.6 - - - +
104A GLN* 3.6 20.6 - - - +
105A GLY 3.6 31.4 - - - +
61I GLU* 2.9 47.0 + - - +
62I ILE* 4.0 3.4 - - - +
64I GLU* 1.3 80.6 - - + +
66I ALA* 1.3 61.7 + - - +
68I ASN* 3.3 15.2 + - + +
69I ALA* 3.1 21.7 + - - +
86I ALA* 3.8 21.4 - - + +
90I ASP* 4.9 11.0 - - + +
93I LEU* 4.3 16.4 - - + -
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Residues in contact with ALA 66 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62I ILE 2.9 21.0 + - - +
63I LEU* 3.6 6.3 - - - +
65I LEU* 1.3 74.7 - - - +
67I GLY* 1.3 65.5 + - - +
69I ALA* 3.2 5.2 + - - +
70I ALA* 3.0 19.2 + - - +
78I ILE* 4.1 15.3 - - + -
82I HIS* 3.7 9.6 - - - +
83I LEU* 3.7 29.6 - - + +
86I ALA* 3.7 12.8 - - + +
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Residues in contact with GLY 67 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63I LEU 2.9 14.5 + - - -
64I GLU 2.9 3.8 + - - -
66I ALA* 1.3 76.5 - - - +
68I ASN* 1.3 64.2 + - - +
70I ALA* 3.2 4.0 + - - +
71I ARG* 3.2 24.6 + - - +
78I ILE* 3.7 17.2 - - - +
49J HIS* 3.5 23.0 - - - -
52J THR* 4.4 2.1 - - - +
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Residues in contact with ASN 68 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
79A ILE* 5.7 4.2 - - - +
81A ARG* 5.6 11.5 - - - +
104A GLN* 4.4 12.1 - - - +
64I GLU* 2.9 13.1 + - - +
65I LEU* 3.4 20.0 - - + +
67I GLY* 1.3 75.7 - - - +
69I ALA* 1.3 63.5 + - - +
71I ARG* 2.9 19.9 + - - +
72I ASP* 2.9 24.7 + - - +
49J HIS* 2.8 32.1 + - - -
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Residues in contact with ALA 69 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65I LEU 3.1 10.2 + - - +
66I ALA 3.2 7.4 + - - +
68I ASN* 1.3 77.9 - - - +
70I ALA* 1.3 62.1 + - - +
72I ASP* 3.5 9.8 + - - +
73I ASN* 3.3 27.9 + - - +
82I HIS* 3.9 26.2 + - + +
85I LEU* 4.6 15.9 - - + -
86I ALA* 5.0 3.1 - - + +
----------------------------------------------------------
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Residues in contact with ALA 70 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66I ALA 3.0 10.8 + - - +
67I GLY 3.4 11.0 - - - +
68I ASN 3.0 0.4 + - - -
69I ALA* 1.3 77.8 - - - +
71I ARG* 1.3 62.2 + - - +
73I ASN* 3.7 1.7 + - - +
74I LYS 3.5 3.5 + - - -
75I LYS* 3.0 34.1 + - - +
77I ARG 4.2 7.2 - - - +
78I ILE* 4.1 14.1 - - + -
82I HIS* 3.7 29.6 + - + +
52J THR* 4.3 6.5 - - + -
----------------------------------------------------------
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Residues in contact with ARG 71 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67I GLY 3.2 13.2 - - - +
68I ASN* 2.9 9.2 + - - +
70I ALA* 1.3 74.1 - - + +
72I ASP* 1.3 66.8 + - - +
73I ASN 3.0 3.3 + - - +
74I LYS* 3.3 14.6 + - - -
75I LYS 3.8 10.3 - - - +
48J VAL 5.2 0.2 + - - -
49J HIS* 3.4 35.2 + - - +
50J PRO* 4.7 1.8 - - - +
51J ASP* 2.7 43.9 + - - -
52J THR* 3.3 15.5 + - + +
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Residues in contact with ASP 72 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
73A ASN* 4.3 15.8 + - - -
81A ARG* 5.6 6.1 + - - -
68I ASN* 2.9 31.5 + - - +
69I ALA* 3.8 10.2 + - - +
71I ARG* 1.3 76.9 - - - +
73I ASN* 1.3 66.3 + - - +
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Residues in contact with ASN 73 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
72G ASP* 4.3 15.8 + - - -
69I ALA* 3.3 18.1 + - - +
70I ALA 3.9 4.0 - - - +
71I ARG 3.0 2.1 + - - +
72I ASP* 1.3 85.7 - - - +
74I LYS* 1.4 68.1 + - + +
75I LYS* 4.5 6.9 - - + +
81I ARG* 5.7 3.2 - - - +
82I HIS* 4.2 17.6 - - + -
85I LEU* 4.6 13.7 - - - +
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Residues in contact with LYS 74 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70I ALA 3.9 0.4 - - - -
71I ARG 3.3 7.5 + - - -
73I ASN* 1.4 83.2 - - + +
75I LYS* 1.3 70.1 + - + +
76I 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