Contacts of the helix formed by residues 37 - 65 (chain J) in PDB entry 3E1O
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 LEU 37 (chain J).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32J PHE* 2.9 24.1 + - + +
35J TRP* 3.7 27.1 - - + +
36J GLY* 1.3 73.7 - - - +
38J LYS* 1.3 65.7 + - - +
39J ARG 2.8 5.0 + - - -
40J LEU* 3.0 15.4 + - + +
41J ASN* 3.3 8.5 + - - +
83J VAL* 4.0 27.6 - - + -
150J LEU* 4.0 28.3 - - + +
153J GLN* 3.3 24.0 - - + -
154J ILE* 5.2 1.1 - - + -
140K LEU* 3.6 28.5 - - + -
143K LYS* 5.6 4.9 - - + +
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Residues in contact with LYS 38 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33J LYS* 5.3 7.2 - - + +
36J GLY* 2.9 17.8 + - - +
37J LEU* 1.3 70.6 - - - +
39J ARG* 1.3 56.5 + - - +
41J ASN* 3.4 10.6 + - - +
42J ASP* 3.0 36.3 + - - +
153J GLN 3.1 1.4 + - - -
154J ILE* 3.3 29.9 + - - +
155J ARG* 4.4 10.2 - - - +
156J GLU* 3.6 30.9 + - - +
39K ARG* 5.6 5.1 - - - +
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Residues in contact with ARG 39 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38B LYS* 5.7 4.9 - - - +
154B ILE* 3.2 34.4 + - - +
155B ARG* 3.3 31.2 - - - +
37J LEU 2.8 2.4 + - - -
38J LYS* 1.3 76.1 - - - +
40J LEU* 1.3 61.7 + - - +
42J ASP* 3.6 8.2 + - + +
43J VAL* 3.3 28.2 + - - +
133J TRP* 4.2 15.0 - - - +
137J GLU* 3.2 35.0 + - - -
140J LEU* 5.2 2.0 - - - +
152J ALA 4.5 1.8 + - - -
153J GLN* 2.9 46.7 + - - +
155J ARG 3.5 6.9 + - - +
156J GLU* 4.4 9.6 - - - +
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Residues in contact with LEU 40 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32J PHE* 3.6 34.1 - - + -
37J LEU* 3.0 13.8 + - + +
39J ARG* 1.3 79.1 - - - +
41J ASN* 1.3 65.2 + - - +
42J ASP 3.2 0.2 - - - -
43J VAL* 4.2 1.7 - - - +
44J GLU* 2.9 30.8 + - - +
83J VAL* 4.1 16.6 - - + -
87J LEU* 5.1 2.5 - - + -
133J TRP* 4.1 23.1 - - + -
137J GLU* 4.1 3.1 - - - +
149J TYR* 3.5 28.9 - - + +
153J GLN* 3.4 40.4 - - + +
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Residues in contact with ASN 41 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29J ALA* 3.1 33.7 - - - +
30J ARG* 3.4 31.3 + - - +
32J PHE* 3.7 1.6 - - - +
33J LYS* 3.4 34.2 - - + +
37J LEU 3.3 4.7 + - - +
38J LYS* 3.6 11.1 + - - +
40J LEU* 1.3 78.5 - - - +
42J ASP* 1.3 80.0 + - - +
45J TYR* 2.9 28.5 + - - +
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Residues in contact with ASP 42 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38J LYS* 3.0 19.4 + - - +
39J ARG* 3.7 7.9 - - + +
40J LEU 3.2 0.2 - - - -
41J ASN* 1.3 91.1 + - - +
43J VAL* 1.3 64.9 + - + +
45J TYR* 3.7 3.2 - - - +
46J HIS* 2.9 39.9 + - + -
156J GLU* 3.1 39.6 - - - +
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Residues in contact with VAL 43 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39J ARG* 3.3 24.5 + - - +
40J LEU 3.4 1.3 + - - +
41J ASN 3.4 0.2 - - - -
42J ASP* 1.3 78.8 - - + +
44J GLU* 1.3 58.5 + - - +
46J HIS* 3.0 9.6 + - + +
47J GLU* 2.9 37.1 + - - +
133J TRP* 3.4 55.6 - - + +
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Residues in contact with GLU 44 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25J TYR* 3.4 35.2 - - + +
28J HIS* 3.0 23.6 - - - +
29J ALA* 3.9 9.4 - - + -
32J PHE* 3.6 17.2 - - + -
40J LEU 2.9 19.3 + - - +
43J VAL* 1.3 71.8 - - - +
45J TYR* 1.3 67.5 + - - +
47J GLU* 3.1 8.1 + - - +
48J SER* 2.8 22.9 + - - -
87J LEU* 4.3 3.9 - - - +
90J ASP* 2.7 29.1 - - - +
133J TRP* 3.7 25.3 - - + -
134J LEU* 4.0 4.0 - - - +
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Residues in contact with TYR 45 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
200I HEM 3.3 40.5 + + + +
26J PHE* 3.6 31.2 - + - -
29J ALA* 3.6 10.4 - - + +
30J ARG* 3.2 29.8 - - - +
41J ASN* 2.9 21.5 + - - +
42J ASP* 3.7 3.6 - - - +
44J GLU* 1.3 79.0 - - - +
46J HIS* 1.3 81.3 + + - +
48J SER* 3.0 22.1 + - - -
49J ILE* 3.1 29.7 + - + +
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Residues in contact with HIS 46 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42J ASP* 2.9 34.0 + - + +
43J VAL* 3.0 11.2 + - - +
45J TYR* 1.3 99.6 - + - +
47J GLU* 1.3 58.5 + - + +
49J ILE* 3.6 11.1 + - - +
50J ASP* 3.1 28.8 + - - +
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Residues in contact with GLU 47 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25J TYR* 3.8 32.6 + - + -
43J VAL* 2.9 27.5 + - - +
44J GLU* 3.1 9.6 + - - +
46J HIS* 1.3 76.3 - - + +
48J SER* 1.3 59.8 + - - +
50J ASP* 3.2 5.9 - - + +
51J GLU* 2.9 31.7 + - - +
130J HIS* 3.3 45.4 - - + +
133J TRP* 4.0 25.8 - - - +
134J LEU* 5.0 0.7 - - - +
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Residues in contact with SER 48 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22J ILE* 2.8 28.1 + - - +
25J TYR* 4.0 8.4 - - - +
26J PHE* 3.5 30.5 - - - +
44J GLU 2.8 11.8 + - - -
45J TYR 3.2 10.8 - - - -
47J GLU* 1.3 76.8 - - - +
49J ILE* 1.3 63.0 + - - +
51J GLU* 3.2 4.6 + - - +
52J MET* 3.0 37.8 + - - +
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Residues in contact with ILE 49 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
200I HEM 3.7 57.2 - - + +
45J TYR* 3.1 35.8 + - + +
46J HIS* 3.8 12.3 - - - +
47J GLU 3.3 0.2 - - - -
48J SER* 1.3 75.8 - - - +
50J ASP* 1.3 63.9 + - - +
52J MET* 2.9 29.9 + - + +
53J LYS* 2.9 36.7 + - - +
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Residues in contact with ASP 50 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46J HIS 3.1 15.7 + - - +
47J GLU* 3.2 12.3 - - - +
49J ILE* 1.3 78.5 - - - +
51J GLU* 1.3 64.7 + - - +
53J LYS* 3.1 26.2 + - - +
54J HIS* 3.2 28.6 + - - -
126J ASP* 4.0 12.3 - - - +
130J HIS* 3.6 26.8 + - - +
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Residues in contact with GLU 51 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18J GLU* 2.3 13.7 - - - +
21J ALA* 3.7 18.1 - - + +
22J ILE* 3.5 24.4 - - + +
25J TYR* 3.7 11.1 - - + -
47J GLU 2.9 20.4 + - - +
48J SER 3.2 2.7 + - - +
50J ASP* 1.3 71.6 - - - +
52J MET* 1.3 57.6 + - - +
54J HIS* 2.7 13.5 + - - +
55J ALA* 3.0 26.7 + - - +
94J GLU* 2.8 5.2 - - - +
127J GLU* 3.0 0.2 - - - +
130J HIS* 3.2 5.5 + - - -
300J ZN 1.9 36.3 - - - -
301J ZN 1.8 36.9 - - - -
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Residues in contact with MET 52 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
200I HEM 2.1 107.4 - - + +
22J ILE* 3.6 20.0 - - + -
26J PHE* 4.7 0.2 - - + -
48J SER* 3.0 32.1 + - - +
49J ILE* 2.9 25.1 + - + +
51J GLU* 1.3 74.5 - - - +
53J LYS* 1.3 65.8 + - - +
55J ALA* 3.1 4.0 + - - +
56J ASP* 3.0 23.8 + - - +
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Residues in contact with LYS 53 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
200I HEM 5.0 19.0 - - + +
49J ILE* 2.9 38.6 + - + +
50J ASP* 3.5 15.3 - - - +
52J MET* 1.3 76.4 - - - +
54J HIS* 1.3 67.4 + - + +
56J ASP* 3.4 8.5 + - - +
57J ARG* 3.0 30.5 + - - +
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Residues in contact with HIS 54 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18J GLU* 3.2 15.5 + - + +
50J ASP* 3.2 19.2 + - - -
51J GLU* 2.7 13.9 + - - +
52J MET 3.2 0.4 - - - -
53J LYS* 1.3 81.4 - - + +
55J ALA* 1.3 62.8 + - - +
57J ARG* 2.9 23.4 + - - +
58J TYR* 3.0 22.7 + - + -
123J ILE* 3.9 24.3 - - + +
126J ASP* 3.1 42.0 + - + +
127J GLU* 3.1 9.4 + - - -
130J HIS* 4.3 1.6 - + - -
300J ZN 2.0 33.0 - - - -
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Residues in contact with ALA 55 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
200I HEM 4.1 11.4 - - + -
15J LEU* 3.7 23.5 - - + +
18J GLU* 4.3 6.0 - - + +
19J LEU* 4.5 3.6 - - + -
22J ILE* 4.0 17.5 - - + -
51J GLU 3.0 13.1 + - - +
52J MET 3.5 7.6 - - - +
54J HIS* 1.3 74.4 - - - +
56J ASP* 1.3 59.2 + - - +
58J TYR* 3.2 8.8 + - - +
59J ILE* 2.9 34.9 + - + +
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Residues in contact with ASP 56 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26I PHE* 3.5 21.8 - - + -
30I ARG* 2.7 42.4 + - - +
200I HEM 4.2 10.3 - - + +
52J MET 3.0 11.7 + - - +
53J LYS* 3.4 13.7 - - - +
55J ALA* 1.3 76.2 - - - +
57J ARG* 1.3 62.8 + - + +
59J ILE* 3.2 2.8 + - - +
60J GLU* 2.9 37.9 + - - +
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Residues in contact with ARG 57 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53J LYS* 3.0 22.9 + - - +
54J HIS* 2.9 17.9 + - - +
56J ASP* 1.3 76.4 - - + +
58J TYR* 1.3 63.9 + - - +
60J GLU* 3.4 7.5 + - - +
61J ARG* 3.1 23.7 + - - +
119J MET* 3.5 58.0 + - + +
122J GLU* 4.2 19.4 - - - +
123J ILE* 3.8 21.8 - - + +
126J ASP* 5.0 4.8 + - - -
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Residues in contact with TYR 58 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11J LEU* 4.1 31.2 - - + +
14J LEU* 3.7 30.0 - - + +
15J LEU* 3.9 27.8 - - + -
18J GLU* 3.7 26.5 + - + -
54J HIS 3.0 25.7 + - - -
55J ALA* 3.5 5.4 - - - +
57J ARG* 1.3 76.5 - - - +
59J ILE* 1.3 53.0 + - - +
61J ARG* 3.1 5.4 + - - +
62J ILE* 2.7 42.8 + - + +
101J LEU* 3.6 18.2 - - - +
119J MET* 4.5 7.0 - - - -
120J MET* 4.4 7.4 - - + -
123J ILE* 3.5 37.0 - - + +
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Residues in contact with ILE 59 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26I PHE* 4.0 19.3 - - + -
27I LEU* 4.3 9.9 - - + +
30I ARG* 4.1 17.5 - - + -
200I HEM 4.4 4.9 - - + -
15J LEU* 3.9 22.4 - - + -
55J ALA* 2.9 27.2 + - + +
56J ASP* 3.2 5.8 + - - +
58J TYR* 1.3 73.8 - - - +
60J GLU* 1.3 57.7 + - - +
62J ILE* 3.9 2.0 - - - +
63J LEU* 3.0 46.9 + - + +
69J PRO* 4.0 14.7 - - + +
71J LEU* 3.9 31.4 - - + -
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Residues in contact with GLU 60 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30I ARG* 3.0 44.3 + - + +
33I LYS* 3.3 24.5 + - + -
34I ASN* 5.0 1.6 + - - -
56J ASP* 2.9 28.1 + - - +
57J ARG* 4.0 5.9 - - - +
59J ILE* 1.3 78.9 - - - +
61J ARG* 1.3 58.6 + - - +
63J LEU* 3.8 6.2 + - - +
64J PHE* 3.0 27.4 + - - +
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Residues in contact with ARG 61 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1J MET* 5.2 4.6 - - - +
11J LEU* 3.8 20.2 - - + -
57J ARG 3.1 17.5 + - - +
58J TYR* 3.1 5.6 + - - +
60J GLU* 1.3 75.1 - - - +
62J ILE* 1.3 54.5 + - - +
64J PHE* 2.9 31.6 + - - +
65J LEU* 2.8 57.8 + - + +
113J ASP* 2.9 30.1 + - - -
115J VAL* 3.3 30.4 - - - +
116J SER* 2.9 20.5 + - - +
119J MET* 3.7 27.3 - - + +
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Residues in contact with ILE 62 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8J ILE* 3.8 12.6 - - + +
11J LEU* 3.6 24.7 - - + +
12J ASN* 3.5 45.8 - - - +
15J LEU* 4.5 6.5 - - + -
58J TYR 2.7 25.9 + - - +
59J ILE 3.9 3.1 - - - +
61J ARG* 1.3 70.9 - - - +
63J LEU* 1.3 61.8 + - - +
65J LEU* 3.1 7.5 + - - +
66J GLU 3.0 5.7 + - - -
67J GLY* 2.8 52.1 + - - +
68J LEU 3.8 1.8 - - - +
69J PRO* 3.7 18.8 - - + -
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Residues in contact with LEU 63 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27I LEU* 4.4 1.3 - - + -
30I ARG* 3.6 34.5 - - + +
31I MET* 3.9 23.1 - - + +
34I ASN* 4.1 23.6 + - + +
59J ILE* 3.0 35.7 + - + +
60J GLU* 3.9 5.8 - - - +
62J ILE* 1.3 75.8 - - - +
64J PHE* 1.3 63.5 + - - +
66J GLU* 3.0 15.4 + - - +
67J GLY 3.9 8.1 - - - +
68J LEU* 6.0 1.8 - - + -
69J PRO* 3.3 29.8 - - + -
----------------------------------------------------------
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Residues in contact with PHE 64 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34I ASN* 4.0 16.4 - - - +
1J MET* 3.3 63.7 + - + +
60J GLU 3.0 17.7 + - - +
61J ARG* 2.9 37.6 + - - +
63J LEU* 1.3 76.4 - - - +
65J LEU* 1.3 64.6 + - + +
66J GLU* 3.0 6.6 + - - +
----------------------------------------------------------
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Residues in contact with LEU 65 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1J MET* 3.3 17.7 - - + +
2J LYS* 3.9 0.3 - - - +
3J GLY* 3.0 37.2 + - - -
7J VAL* 4.5 5.4 - - + -
8J ILE* 3.6 19.7 - - + +
11J LEU* 3.9 22.2 - - + -
61J ARG* 2.8 41.5 + - - +
62J ILE 3.1 4.2 + - - +
64J PHE* 1.3 84.3 - - + +
66J GLU* 1.3 70.0 + - - +
67J GLY 3.4 1.0 + - - -
113J ASP* 3.8 10.5 - - - +
116J SER* 3.8 19.5 - - - +
----------------------------------------------------------
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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