Contacts of the helix formed by residues 49 - 76 (chain H) in PDB entry 2W5J
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 ILE 49 (chain H).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35H ALA* 4.9 2.5 - - + -
39H ILE* 2.9 40.6 - - + -
45H ALA 3.3 5.0 + - - +
47H GLY 2.8 3.3 - - - +
48H LYS* 1.3 76.1 - - - +
50H ARG* 1.3 68.8 + - + +
52H THR* 2.7 19.6 + - - -
53H LEU* 3.3 6.3 + - - -
36I VAL* 3.8 29.6 - - + +
39I ILE* 5.0 3.3 - - + +
40I ALA* 6.2 1.3 - - - +
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Residues in contact with ARG 50 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47G GLY 3.9 1.0 + - - -
48G LYS* 2.9 23.4 + - - +
51G GLY* 3.3 15.9 + - - -
52G THR* 2.6 57.7 + - + +
55G LEU* 4.6 9.0 - - + -
39H ILE* 6.0 1.6 - - + -
46H GLU* 3.4 24.0 + - + +
47H GLY* 2.9 23.8 + - - +
49H ILE* 1.3 77.5 - - + +
51H GLY* 1.3 63.6 + - - +
52H THR 2.8 0.7 + - - -
53H LEU* 2.9 8.9 + - - -
54H LEU* 2.8 40.5 + - + +
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Residues in contact with GLY 51 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47H GLY 2.7 16.9 + - - -
49H ILE 2.9 0.2 + - - -
50H ARG* 1.3 71.6 - - - +
52H THR* 1.3 55.7 + - - +
54H LEU* 4.5 6.6 - - - +
55H LEU* 3.2 22.2 + - - +
50I ARG* 3.3 21.3 + - - -
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Residues in contact with THR 52 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48H LYS 3.8 2.9 + - - -
49H ILE* 2.7 13.4 + - - -
51H GLY* 1.3 71.4 - - - +
53H LEU* 1.3 57.6 + - - +
54H LEU 3.2 1.1 - - - -
55H LEU* 2.8 16.2 + - + +
56H SER* 2.4 40.2 + - - +
32I ALA 5.6 1.1 - - - +
35I ALA* 5.4 3.6 - - + -
36I VAL* 5.4 9.7 - - + +
39I ILE* 5.4 6.1 - - + +
50I ARG* 2.5 36.4 + - + +
53I LEU* 3.0 38.6 - - + -
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Residues in contact with LEU 53 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52G THR* 3.0 28.0 - - + -
55G LEU* 3.1 27.4 - - + -
56G SER* 3.5 11.0 - - - +
31H ALA* 5.6 3.6 - - - +
32H ALA* 3.8 20.0 - - - +
35H ALA* 3.9 19.3 - - + -
49H ILE 3.3 3.7 + - - +
50H ARG* 2.9 13.0 + - - +
52H THR* 1.3 78.5 - - - +
54H LEU* 1.3 68.5 + - + +
56H SER* 3.3 4.4 - - - -
57H LEU* 2.4 69.7 + - + +
32I ALA* 6.0 0.2 - - - -
36I VAL* 5.0 5.8 - - + +
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Residues in contact with LEU 54 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55G LEU* 3.0 47.6 - - + -
59G PHE* 4.6 8.5 - - + -
50H ARG* 2.8 33.2 + - + +
51H GLY* 4.5 4.7 - - - +
53H LEU* 1.3 81.6 - - + +
55H LEU* 1.3 53.9 + - - +
57H LEU* 3.4 2.9 - - - -
58H ALA* 2.6 36.4 + - - +
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Residues in contact with LEU 55 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51H GLY 3.2 16.4 + - - +
52H THR* 2.8 20.5 + - + +
54H LEU* 1.3 76.7 - - - +
56H SER* 1.3 59.2 + - - +
58H ALA* 3.0 24.5 - - - +
59H PHE* 3.3 22.9 - - + -
50I ARG* 4.6 8.5 - - - -
53I LEU* 3.2 20.2 - - + -
54I LEU* 3.1 45.3 - - + -
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Residues in contact with SER 56 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31H ALA* 5.1 0.2 - - - -
52H THR* 2.4 28.5 + - - +
53H LEU* 3.4 4.0 - - - -
55H LEU* 1.3 68.0 - - - +
57H LEU* 1.3 56.5 + - - +
58H ALA 2.7 15.6 + - - -
59H PHE* 2.7 19.2 + - - -
60H MET* 3.2 10.2 + - - -
29I GLY* 6.2 0.2 - - - -
32I ALA* 3.2 35.2 - - - +
53I LEU* 3.6 9.7 - - - +
57I LEU* 3.6 24.3 - - - +
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Residues in contact with LEU 57 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56G SER* 3.4 24.2 - - - +
59G PHE* 3.1 49.3 - - + -
28H GLN* 4.0 29.8 - - + +
31H ALA* 4.0 13.9 - - + -
32H ALA 4.3 2.0 - - - +
53H LEU* 2.4 72.3 + - + +
54H LEU* 3.6 3.8 - - - +
56H SER* 1.3 65.8 - - - +
58H ALA* 1.3 65.6 + - - +
60H MET* 4.1 9.3 - - - +
61H GLU* 3.6 10.7 + - - +
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Residues in contact with ALA 58 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59G PHE* 4.9 0.6 - - - -
54H LEU 2.6 16.6 + - - +
55H LEU* 3.0 17.7 - - - +
56H SER 2.7 2.4 + - - -
57H LEU* 1.3 76.9 - - - +
59H PHE* 1.3 65.5 + - + +
60H MET 3.2 0.2 - - - -
61H GLU* 2.9 21.9 + - - +
62H ALA* 3.2 4.0 + - - -
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Residues in contact with PHE 59 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55H LEU* 3.3 32.5 - - + -
56H SER 2.7 10.6 + - - -
58H ALA* 1.3 77.0 - - + +
60H MET* 1.3 58.9 + - - +
62H ALA* 3.4 14.6 - - + -
63H LEU* 3.9 3.5 - - - +
28I GLN* 5.6 3.6 - - + -
54I LEU* 4.5 8.3 - - + -
57I LEU* 3.2 63.0 - - + -
58I ALA* 5.0 0.9 - - - -
61I GLU* 2.9 45.8 - - + +
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Residues in contact with MET 60 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63G LEU* 6.2 0.2 - - + -
24H PRO* 4.3 13.9 - - + -
28H GLN* 3.6 36.3 - - + +
56H SER 3.2 8.9 + - - +
57H LEU* 4.3 5.2 - - - +
58H ALA 3.0 1.2 + - - -
59H PHE* 1.3 73.4 - - - +
61H GLU* 1.3 60.2 + - + +
62H ALA 2.9 10.0 + - - -
63H LEU* 2.9 30.9 - - - +
64H THR* 3.7 3.1 + - - +
25I GLY* 5.6 4.0 - - - +
28I GLN* 6.6 0.2 - - - -
29I GLY* 6.0 3.4 - - - +
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Residues in contact with GLU 61 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59G PHE* 2.9 50.1 - - + +
62G ALA* 3.0 22.2 - - - +
63G LEU* 3.3 16.9 + - + +
66G TYR* 2.6 24.5 + - - +
24H PRO* 5.0 0.2 - - - +
57H LEU 3.6 3.5 + - - +
58H ALA* 2.9 12.7 + - - +
60H MET* 1.3 79.8 - - - +
62H ALA* 1.3 58.8 + - - +
64H THR* 2.8 29.7 + - - -
65H ILE* 3.3 10.3 - - + +
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Residues in contact with ALA 62 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58H ALA 3.2 4.9 + - - +
59H PHE* 3.4 19.5 - - + -
60H MET 2.9 0.8 + - - -
61H GLU* 1.3 76.7 - - - +
63H LEU* 1.3 59.5 + - - +
65H ILE* 2.7 38.7 + - + +
66H TYR* 2.8 20.6 - - + +
61I GLU* 3.0 18.2 - - - +
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Residues in contact with LEU 63 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
20H ALA* 4.1 1.9 - - - +
24H PRO* 3.1 26.2 - - + -
59H PHE 3.9 3.4 - - - +
60H MET* 2.9 26.7 - - - +
62H ALA* 1.3 77.6 - - - +
64H THR* 1.3 58.0 + - - +
66H TYR* 3.6 21.1 - - + +
67H GLY 4.7 0.3 + - - -
20I ALA 4.4 1.1 - - - +
21I SER* 3.7 19.3 + - - -
24I PRO* 3.9 14.4 - - + -
25I GLY* 4.3 5.8 - - - +
60I MET* 6.2 0.2 - - + -
61I GLU* 3.3 24.9 - - + +
64I THR* 3.1 45.5 - - + +
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Residues in contact with THR 64 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63G LEU* 3.1 25.2 - - + +
66G TYR* 3.5 9.6 - - - -
20H ALA* 2.6 44.7 - - - +
24H PRO* 3.1 24.2 - - + -
60H MET 3.7 4.3 - - - +
61H GLU* 2.8 30.0 + - - -
62H ALA 3.1 0.2 - - - -
63H LEU* 1.3 76.1 - - - +
65H ILE* 1.3 65.4 + - - +
66H TYR 3.2 1.3 - - - -
67H GLY 3.2 4.0 + - - -
68H LEU* 3.1 15.6 + - - +
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Residues in contact with ILE 65 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66G TYR* 3.3 33.0 - - + +
61H GLU* 3.3 9.6 - - + +
62H ALA* 2.7 32.3 + - + +
64H THR* 1.3 75.3 + - - +
66H TYR* 1.3 65.6 + - + +
67H GLY 2.9 2.5 - - - -
68H LEU* 2.7 14.2 + - + -
69H VAL* 2.5 44.7 + - + +
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Residues in contact with TYR 66 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62H ALA* 2.8 35.2 - - + +
63H LEU* 3.6 17.5 - - + +
65H ILE* 1.3 81.0 - - + +
67H GLY* 1.3 57.7 + - - +
69H VAL* 3.4 7.3 - - - +
70H VAL* 3.1 32.4 + - - +
61I GLU* 2.7 35.7 + - - +
64I THR* 3.5 11.2 - - - -
65I ILE* 3.2 28.1 - - + +
68I LEU* 3.3 39.4 - - + +
----------------------------------------------------------
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Residues in contact with GLY 67 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17H VAL* 3.0 28.9 - - - -
20H ALA* 4.6 2.9 - - - +
63H LEU 4.7 1.6 + - - -
64H THR 3.2 7.1 + - - -
65H ILE 2.9 0.8 + - - -
66H TYR* 1.3 77.0 - - - +
68H LEU* 1.3 51.7 + - - +
69H VAL 2.9 1.3 - - - -
70H VAL* 2.7 9.2 + - - -
71H ALA 2.3 37.2 + - - -
18I GLY* 6.1 2.0 - - - -
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Residues in contact with LEU 68 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66G TYR* 3.3 55.2 - - + +
69G VAL* 4.8 4.3 - - + -
70G VAL* 3.4 32.3 - - + -
17H VAL* 4.0 4.4 + - - +
64H THR 3.1 7.4 + - - +
65H ILE* 2.7 22.8 + - + +
67H GLY* 1.3 70.0 - - - +
69H VAL* 1.3 56.0 - - - +
71H ALA* 3.5 5.4 - - + -
72H LEU* 3.1 49.5 + - + +
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Residues in contact with VAL 69 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65H ILE* 2.5 35.0 + - + +
66H TYR* 3.4 10.8 - - - +
67H GLY 2.8 0.2 + - - -
68H LEU* 1.3 71.9 - - - +
70H VAL* 1.3 63.9 + - + +
71H ALA 3.1 0.2 - - - -
72H LEU* 3.2 6.0 + - - +
73H ALA* 2.7 40.6 + - + +
68I LEU* 4.8 4.9 - - + -
72I LEU* 4.9 7.0 - - + -
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Residues in contact with VAL 70 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14H GLY* 5.6 0.2 - - - -
17H VAL* 5.4 5.7 - - + +
66H TYR 3.1 17.5 + - - +
67H GLY* 2.7 7.8 + - - +
69H VAL* 1.3 77.0 - - + +
71H ALA* 1.3 64.4 + - - +
73H ALA* 3.7 7.2 - - - -
74H LEU* 3.1 23.5 + - + +
14I GLY 5.6 1.3 - - - -
15I LEU* 5.5 13.9 - - + +
68I LEU* 3.3 17.7 - - + -
71I ALA* 4.5 16.4 - - + +
72I LEU* 3.2 33.0 - - + -
75I LEU* 4.2 12.6 - - + -
----------------------------------------------------------
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Residues in contact with ALA 71 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70G VAL* 4.5 15.5 - - + +
14H GLY* 4.5 20.8 - - - +
17H VAL* 4.2 17.7 - - + +
67H GLY 2.3 31.4 + - - +
68H LEU* 3.3 22.0 - - + +
70H VAL* 1.3 71.4 - - - +
72H LEU* 1.3 62.0 + - - +
74H LEU* 4.2 2.9 - - - +
75H LEU* 3.4 19.2 + - - +
----------------------------------------------------------
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Residues in contact with LEU 72 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69G VAL* 4.9 7.4 - - + -
70G VAL* 3.3 28.5 - - + -
73G ALA* 5.2 2.0 - - + -
68H LEU* 3.1 33.2 + - + +
69H VAL* 4.0 3.1 - - - +
71H ALA* 1.3 73.9 - - - +
73H ALA* 1.3 59.8 + - - +
74H LEU 3.2 2.2 - - - -
75H LEU* 3.1 21.4 + - + -
76H PHE* 2.7 44.5 + - + +
77H ALA* 3.4 2.9 + - - +
----------------------------------------------------------
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Residues in contact with ALA 73 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69H VAL* 2.7 29.0 + - + +
70H VAL* 3.8 10.8 - - - +
71H ALA 3.4 0.2 - - - -
72H LEU* 1.3 74.0 - - - +
74H LEU* 1.3 56.6 + - - +
77H ALA* 3.0 38.8 - - + +
78H ASN* 3.2 0.5 + - - -
72I LEU* 5.1 2.7 - - + -
75I LEU* 4.4 3.4 - - + -
76I PHE* 3.5 25.6 - - + -
----------------------------------------------------------
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Residues in contact with LEU 74 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10H VAL* 3.7 21.6 - - - +
13H ALA* 6.0 1.1 - - + -
14H GLY* 5.1 4.9 - - - +
70H VAL* 3.1 20.5 + - + +
71H ALA 4.2 2.9 - - - +
73H ALA* 1.3 76.7 - - - +
75H LEU* 1.3 57.5 + - - +
78H ASN* 2.7 32.5 - - - +
11I ILE* 4.0 22.7 - - + -
15I LEU* 6.4 1.3 - - + -
75I LEU* 4.5 12.7 - - + +
----------------------------------------------------------
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Residues in contact with LEU 75 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70G VAL* 4.2 16.6 - - + -
73G ALA* 4.5 10.3 - - + +
74G LEU* 4.7 5.6 - - + +
79G PRO* 3.6 41.2 - - + +
10H VAL* 5.3 10.2 + - + +
11H ILE* 3.9 26.7 - - + -
14H GLY* 6.1 1.5 - - - -
71H ALA 3.4 14.0 + - - +
72H LEU* 3.1 20.1 + - + +
74H LEU* 1.3 82.7 - - - +
76H PHE* 1.3 93.6 + - + +
78H ASN* 4.1 6.6 - - - +
----------------------------------------------------------
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Residues in contact with PHE 76 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
73G ALA* 3.6 22.2 - - + -
77G ALA* 3.5 33.0 - - + -
79G PRO* 3.5 25.6 - - + -
72H LEU* 2.7 27.8 + - + +
75H LEU* 1.3 100.4 - - + +
77H ALA* 1.3 57.0 + - - +
78H ASN 3.6 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