Contacts of the helix formed by residues 37 - 65 (chain H) in PDB entry 3E1J
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 H).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32H PHE* 2.8 26.0 + - + +
35H TRP* 3.7 34.5 - - + +
36H GLY* 1.3 75.8 - - - +
38H LYS* 1.3 63.6 + - - +
39H ARG 2.8 5.2 + - - -
40H LEU* 3.0 18.0 + - + +
41H ASN* 3.2 8.1 + - - +
83H VAL* 3.9 27.8 - - + -
150H LEU* 4.0 33.0 - - + +
153H GLN* 3.2 21.3 - - + -
154H ILE* 5.1 6.7 - - + -
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Residues in contact with LYS 38 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33H LYS* 5.4 4.3 - - + +
36H GLY* 2.9 14.3 + - - +
37H LEU* 1.3 74.2 - - - +
39H ARG* 1.3 56.4 + - - +
41H ASN* 3.4 10.3 + - - +
42H ASP* 3.0 35.1 + - - +
153H GLN 3.0 2.2 + - - +
154H ILE* 3.3 30.4 + - - +
155H ARG* 4.5 6.5 - - - +
156H GLU* 3.9 33.7 - - - +
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Residues in contact with ARG 39 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38D LYS* 5.5 3.0 - - - +
154D ILE* 3.3 36.0 + - - +
155D ARG* 3.7 13.3 - - - +
37H LEU 2.8 2.8 + - - -
38H LYS* 1.3 73.1 - - - +
40H LEU* 1.3 61.7 + - - +
42H ASP* 3.4 9.1 + - + +
43H VAL* 3.1 34.3 + - - +
133H TRP* 4.2 14.3 - - - +
137H GLU* 3.3 34.4 + - - -
140H LEU* 5.6 1.4 - - - +
149H TYR* 6.2 0.2 - - - -
152H ALA 4.5 2.4 + - - -
153H GLN* 3.0 39.1 + - - +
155H ARG 3.6 18.4 - - - +
156H GLU* 4.6 0.7 - - - +
157H GLU* 4.1 29.9 + - + +
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Residues in contact with LEU 40 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32H PHE* 3.6 41.7 - - + -
37H LEU* 3.0 15.1 + - + +
39H ARG* 1.3 82.7 - - - +
41H ASN* 1.3 60.4 + - - +
43H VAL* 4.5 2.9 - - - +
44H GLU* 3.0 36.1 + - - +
83H VAL* 4.2 16.8 - - + -
87H LEU* 5.2 2.9 - - + -
133H TRP* 4.2 20.4 - - + -
149H TYR* 3.5 19.1 - - + +
153H GLN* 3.3 41.7 - - + +
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Residues in contact with ASN 41 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29H ALA* 3.0 33.9 - - - +
30H ARG* 3.4 30.7 + - - +
32H PHE* 3.8 1.2 - - - +
33H LYS* 3.5 35.1 - - + +
37H LEU 3.2 7.2 + - - +
38H LYS* 3.4 11.7 + - - +
39H ARG 3.2 0.2 - - - -
40H LEU* 1.3 74.5 - - - +
42H ASP* 1.3 80.2 + - - +
45H TYR* 3.0 28.1 + - - +
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Residues in contact with ASP 42 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38H LYS* 3.0 18.0 + - - +
39H ARG* 3.7 8.2 - - + +
40H LEU 3.3 0.2 - - - -
41H ASN* 1.3 87.4 + - - +
43H VAL* 1.3 65.1 + - + +
45H TYR* 3.7 3.3 - - - +
46H HIS* 2.8 42.2 + - + +
156H GLU* 3.0 43.4 - - - +
157H GLU 4.7 2.6 + - - +
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Residues in contact with VAL 43 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39H ARG* 3.1 26.3 + - - +
40H LEU 4.3 1.1 - - - +
41H ASN 3.3 0.2 - - - -
42H ASP* 1.3 76.4 - - + +
44H GLU* 1.3 59.4 + - - +
46H HIS* 3.0 10.1 + - - +
47H GLU* 2.9 37.5 + - + +
133H TRP* 3.5 54.7 - - + +
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Residues in contact with GLU 44 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25H TYR* 3.4 23.9 - - - +
28H HIS* 3.1 19.4 - - - +
29H ALA* 3.9 17.0 - - + -
32H PHE* 3.9 16.6 - - + -
40H LEU* 3.0 19.5 + - + +
43H VAL* 1.3 72.9 - - - +
45H TYR* 1.3 66.9 + - - +
47H GLU* 3.1 9.5 + - - +
48H SER* 2.9 21.5 + - - -
87H LEU* 3.8 6.6 - - - +
90H ASP* 2.9 27.6 - - - +
133H TRP* 3.7 25.8 - - + -
134H LEU* 4.0 1.7 - - - +
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Residues in contact with TYR 45 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26H PHE* 3.6 32.3 - + - -
29H ALA* 3.6 11.2 - - + +
30H ARG* 3.3 28.5 - - - +
41H ASN* 3.0 21.5 + - - +
42H ASP* 3.7 3.8 - - - +
44H GLU* 1.3 76.7 - - - +
46H HIS* 1.3 85.1 + + - +
48H SER* 3.0 17.5 + - - -
49H ILE* 3.1 32.2 + - + +
200H HEM 3.4 37.7 + - + +
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Residues in contact with HIS 46 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42H ASP* 2.8 34.8 + - + +
43H VAL* 3.0 11.1 + - - +
45H TYR* 1.3 98.0 - + - +
47H GLU* 1.3 58.5 + - + +
49H ILE* 3.6 10.9 + - - +
50H ASP* 3.1 26.2 + - - +
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Residues in contact with GLU 47 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25H TYR* 3.6 33.3 - - + -
43H VAL* 2.9 30.0 + - + +
44H GLU* 3.6 16.4 - - - +
45H TYR 3.1 0.6 - - - -
46H HIS* 1.3 77.0 - - + +
48H SER* 1.3 64.1 + - - +
50H ASP* 3.2 5.7 + - - +
51H GLU* 3.0 26.2 + - - +
130H HIS* 3.2 49.0 - - + +
133H TRP* 4.1 18.3 - - - +
134H LEU* 5.0 0.9 - - - +
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Residues in contact with SER 48 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22H ILE* 2.8 29.3 + - - +
25H TYR* 3.8 13.5 - - - +
26H PHE* 3.6 22.3 - - - +
44H GLU 2.9 11.8 + - - -
45H TYR* 3.3 9.6 - - - -
47H GLU* 1.3 73.4 - - - +
49H ILE* 1.3 65.6 + - - +
51H GLU* 3.2 4.0 + - - +
52H MET* 3.0 40.1 + - - +
----------------------------------------------------------
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Residues in contact with ILE 49 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45H TYR* 3.1 44.8 + - + +
46H HIS* 3.8 13.0 - - - +
48H SER* 1.3 74.8 - - - +
50H ASP* 1.3 62.2 + - - +
52H MET* 3.2 27.4 + - + +
53H LYS* 3.1 36.1 + - - +
200H HEM 3.7 56.8 - - + +
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Residues in contact with ASP 50 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46H HIS 3.1 15.2 + - - +
47H GLU* 3.2 10.8 - - + +
49H ILE* 1.3 79.0 - - - +
51H GLU* 1.3 63.6 + - - +
53H LYS* 3.1 30.0 + - - +
54H HIS* 3.1 34.2 + - - -
126H ASP* 3.8 10.8 - - - +
130H HIS* 3.3 31.6 + - + +
----------------------------------------------------------
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Residues in contact with GLU 51 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18H GLU* 2.9 23.4 - - - +
21H ALA* 3.8 20.8 - - + +
22H ILE* 3.6 21.9 - - + +
25H TYR* 3.9 9.9 - - + -
47H GLU 3.0 15.4 + - - +
48H SER 3.2 1.3 + - - +
50H ASP* 1.3 76.0 - - - +
52H MET* 1.3 57.2 + - - +
54H HIS* 2.8 28.7 + - - +
55H ALA* 2.9 27.2 + - - +
94H GLU* 3.6 9.4 - - - +
127H GLU* 2.7 27.7 - - - +
130H HIS* 3.5 11.5 - - - -
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Residues in contact with MET 52 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22H ILE* 3.6 17.9 - - + +
26H PHE* 4.6 0.2 - - + -
48H SER* 3.0 37.1 + - - +
49H ILE* 3.4 20.4 - - + +
50H ASP 3.2 0.2 - - - -
51H GLU* 1.3 73.9 - - - +
53H LYS* 1.3 63.3 + - - +
55H ALA* 3.2 3.6 + - - +
56H ASP* 2.9 24.5 + - - +
200H HEM 2.1 115.5 - - + +
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Residues in contact with LYS 53 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49H ILE* 3.1 32.6 + - + +
50H ASP* 3.3 19.3 - - - +
52H MET* 1.3 75.2 - - - +
54H HIS* 1.3 67.5 + - + +
56H ASP* 3.4 8.7 - - - +
57H ARG* 3.1 29.6 + - - +
200H HEM 4.9 17.9 + - + +
----------------------------------------------------------
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Residues in contact with HIS 54 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18H GLU* 3.3 19.6 + - + +
50H ASP* 3.1 23.9 + - - -
51H GLU* 2.8 32.3 + - - +
52H MET 3.2 0.2 - - - -
53H LYS* 1.3 78.4 - - + +
55H ALA* 1.3 65.9 + - - +
57H ARG* 3.0 13.0 + - - +
58H TYR* 3.0 27.7 + - - -
123H ILE* 3.7 34.0 - - + +
126H ASP* 2.9 36.7 + - + +
127H GLU* 3.4 13.5 + - - -
130H HIS* 4.7 0.2 - + - -
----------------------------------------------------------
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Residues in contact with ALA 55 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
15H LEU* 3.6 23.8 - - + -
18H GLU* 4.3 6.0 - - + +
19H LEU* 4.7 2.5 - - + -
22H ILE* 4.1 16.4 - - + -
51H GLU 2.9 12.9 + - - +
52H MET 3.2 8.0 + - - +
54H HIS* 1.3 74.9 - - - +
56H ASP* 1.3 58.1 + - - +
58H TYR* 3.2 7.0 + - - +
59H ILE* 2.8 36.5 + - + +
200H HEM 4.1 12.3 - - + -
----------------------------------------------------------
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Residues in contact with ASP 56 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26G PHE* 3.3 21.6 - - + -
30G ARG* 2.6 50.8 + - - -
52H MET 2.9 13.7 + - - +
53H LYS* 3.4 13.6 - - - +
54H HIS 3.2 0.2 - - - -
55H ALA* 1.3 76.3 - - - +
57H ARG* 1.3 64.2 + - + +
59H ILE* 3.2 2.8 + - - +
60H GLU* 2.9 30.3 + - - +
200H HEM 4.1 10.0 - - + +
----------------------------------------------------------
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Residues in contact with ARG 57 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
125B ARG* 5.1 14.3 - - - +
53H LYS* 3.1 20.7 + - - +
54H HIS* 3.0 17.2 + - - +
56H ASP* 1.3 76.9 - - + +
58H TYR* 1.3 63.1 + - - +
60H GLU* 3.4 9.8 + - - +
61H ARG* 3.0 24.9 + - - +
119H MET* 3.6 57.3 + - + +
122H GLU* 4.2 19.2 - - - +
123H ILE* 3.8 21.1 - - + +
126H ASP* 5.0 4.8 + - - -
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Residues in contact with TYR 58 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11H LEU* 4.1 28.7 - - + +
14H LEU* 3.5 29.4 - - + +
15H LEU* 3.8 29.4 - - + -
18H GLU* 3.7 25.5 + - + -
54H HIS 3.0 24.3 + - - -
55H ALA* 3.6 5.8 - - - +
57H ARG* 1.3 74.3 - - - +
59H ILE* 1.3 56.6 + - - +
61H ARG* 3.1 4.1 + - - +
62H ILE* 2.7 42.8 + - + +
101H LEU* 3.5 27.0 - - - +
119H MET* 4.4 7.9 - - - -
120H MET* 4.4 7.6 - - + +
123H ILE* 3.6 29.2 - - + +
----------------------------------------------------------
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Residues in contact with ILE 59 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26G PHE* 3.9 23.8 - - + -
27G LEU* 4.4 9.0 - - + +
30G ARG* 4.1 17.0 - - + -
15H LEU* 3.9 24.2 - - + -
55H ALA 2.8 30.6 + - - +
56H ASP* 3.6 4.5 - - - +
58H TYR* 1.3 71.6 - - - +
60H GLU* 1.3 63.9 + - - +
62H ILE* 3.4 3.0 + - - +
63H LEU* 3.0 41.6 + - + +
69H PRO* 4.0 15.3 - - + +
71H LEU* 4.1 25.4 - - + -
200H HEM 4.2 4.9 - - + -
----------------------------------------------------------
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Residues in contact with GLU 60 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30G ARG* 3.0 49.1 + - + +
33G LYS* 3.4 23.2 - - + -
34G ASN* 5.2 1.7 + - - -
56H ASP* 2.9 26.2 + - - +
57H ARG* 3.9 8.3 - - - +
59H ILE* 1.3 76.0 - - - +
61H ARG* 1.3 58.3 + - - +
63H LEU* 3.5 6.7 + - - +
64H PHE* 2.9 27.0 + - - +
----------------------------------------------------------
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Residues in contact with ARG 61 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
128B GLU* 2.7 28.3 + - - +
1H MET* 5.0 0.2 - - - +
11H LEU* 3.8 20.0 - - + -
57H ARG 3.0 18.1 + - - +
58H TYR* 3.6 3.8 - - - +
60H GLU* 1.3 76.4 - - - +
62H ILE* 1.3 59.4 + - - +
64H PHE* 3.0 30.0 + - - +
65H LEU* 2.8 47.7 + - + +
113H ASP* 2.8 27.5 + - - -
115H VAL* 3.2 24.3 - - - +
116H SER* 2.9 18.5 + - - +
119H MET* 3.5 28.9 - - + -
----------------------------------------------------------
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Residues in contact with ILE 62 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8H ILE* 4.0 12.6 - - + +
11H LEU* 3.6 26.0 - - + +
12H ASN* 3.3 43.1 - - - +
15H LEU* 4.3 8.7 - - + -
58H TYR 2.7 25.5 + - - +
59H ILE 3.8 3.8 - - - +
61H ARG* 1.3 71.0 - - - +
63H LEU* 1.3 60.1 + - - +
65H LEU* 3.2 7.8 + - - +
66H GLU 3.1 4.7 + - - -
67H GLY* 2.8 52.7 + - - +
68H LEU 3.8 2.2 - - - +
69H PRO* 3.7 19.3 - - + -
----------------------------------------------------------
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Residues in contact with LEU 63 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27G LEU* 4.3 3.4 - - + -
30G ARG* 3.7 33.0 - - + +
31G MET* 4.0 18.6 - - + +
34G ASN* 4.1 25.1 + - + +
59H ILE* 3.0 38.7 + - + +
60H GLU* 3.7 6.3 - - - +
62H ILE* 1.3 72.5 - - - +
64H PHE* 1.3 66.4 + - - +
66H GLU* 3.0 16.8 + - - +
67H GLY 3.8 7.6 - - - +
68H LEU* 6.0 1.1 - - + -
69H PRO* 3.4 29.4 - - + -
----------------------------------------------------------
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Residues in contact with PHE 64 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
128B GLU* 3.4 43.3 - - + -
131B ILE* 4.4 1.6 - - + -
132B ASP* 3.6 46.9 - - + +
135B GLU* 3.9 13.5 - - - -
34G ASN* 4.0 11.2 - - - +
1H MET* 3.3 49.8 + - + -
60H GLU 2.9 18.8 + - - +
61H ARG* 3.0 25.8 + - - +
63H LEU* 1.3 78.3 - - - +
65H LEU* 1.3 62.3 + - + +
66H GLU* 3.1 6.6 + - - +
----------------------------------------------------------
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Residues in contact with LEU 65 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1H MET* 3.3 18.4 - - + +
2H LYS* 3.8 0.5 - - - +
3H GLY* 3.0 39.5 + - - -
7H VAL* 4.3 6.7 - - + -
8H ILE* 3.7 18.4 - - + +
11H LEU* 3.9 21.3 - - + -
61H ARG* 2.8 32.6 + - - +
62H ILE 3.8 4.5 - - - +
63H LEU 3.2 0.2 - - - -
64H PHE* 1.3 92.3 - - + +
66H GLU* 1.3 67.4 + - - +
67H GLY 3.5 1.0 + - - -
113H ASP* 3.8 22.0 - - - +
116H SER* 3.8 9.9 - - - +
----------------------------------------------------------
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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