Contacts of the helix formed by residues 49 - 76 (chain C) 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 C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35C ALA* 4.8 2.0 - - + -
39C ILE* 2.9 39.7 - - + -
45C ALA 3.3 5.4 + - - +
47C GLY 2.8 2.1 - - - +
48C LYS* 1.3 74.4 - - - +
50C ARG* 1.3 68.9 + - + +
51C GLY 3.1 1.8 - - - -
52C THR* 2.8 19.1 + - - -
53C LEU 3.3 5.9 + - - -
36D VAL* 3.7 30.9 - - + +
39D ILE* 4.7 6.2 - - + +
40D ALA* 5.9 1.1 - - - +
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Residues in contact with ARG 50 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47B GLY 4.0 0.8 + - - -
48B LYS* 2.8 24.4 + - - +
51B GLY* 3.4 15.1 + - - -
52B THR* 2.5 56.7 + - + +
55B LEU* 4.6 8.5 - - + -
35C ALA* 5.8 0.2 - - - +
39C ILE* 5.9 2.0 - - + +
46C GLU* 3.4 23.4 + - + +
47C GLY* 2.9 21.3 + - - +
49C ILE* 1.3 78.3 - - + +
51C GLY* 1.3 64.3 + - - +
52C THR 2.8 0.9 + - - -
53C LEU* 2.8 8.9 + - - -
54C LEU* 2.7 41.3 + - + +
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Residues in contact with GLY 51 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47C GLY 2.7 16.3 + - - -
50C ARG* 1.3 71.8 - - - +
52C THR* 1.3 56.0 + - - +
54C LEU* 4.5 6.1 - - - +
55C LEU* 3.2 22.0 + - - +
50D ARG* 3.3 21.6 + - - -
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Residues in contact with THR 52 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48C LYS 3.8 3.5 + - - -
49C ILE* 2.8 13.7 + - - -
51C GLY* 1.3 71.8 - - - -
53C LEU* 1.3 56.4 + - - -
54C LEU 3.2 1.1 - - - -
55C LEU* 2.8 18.6 + - + +
56C SER* 2.5 39.1 + - - +
32D ALA 5.7 0.7 - - - +
35D ALA* 5.3 3.6 - - + -
36D VAL* 5.5 8.9 - - - -
39D ILE* 5.3 5.9 - - + +
50D ARG* 2.4 44.8 + - + +
53D LEU* 3.0 37.9 - - + -
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Residues in contact with LEU 53 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52B THR* 3.0 26.5 - - + -
55B LEU* 3.1 33.2 - - + -
56B SER* 3.6 11.2 - - - +
31C ALA* 5.6 4.5 - - - +
32C ALA* 3.8 20.0 - - - +
35C ALA* 3.9 17.7 - - + -
49C ILE 3.3 5.2 + - - +
50C ARG* 2.8 14.6 + - - +
52C THR* 1.3 79.7 - - - +
54C LEU* 1.3 70.1 + - + +
56C SER* 3.4 4.3 - - - -
57C LEU* 2.5 61.8 + - + +
32D ALA* 5.8 0.7 - - - -
36D VAL* 4.9 5.0 - - + +
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Residues in contact with LEU 54 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55B LEU* 3.0 48.0 - - + -
59B PHE* 4.5 8.3 - - + -
50C ARG* 2.7 33.4 + - + +
51C GLY* 4.5 4.7 - - - +
53C LEU* 1.3 80.6 - - + +
55C LEU* 1.3 54.5 + - - +
57C LEU* 3.8 3.4 - - - -
58C ALA* 2.6 37.2 + - - +
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Residues in contact with LEU 55 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51C GLY 3.2 16.4 + - - +
52C THR* 2.8 24.5 + - + +
54C LEU* 1.3 73.7 - - - +
56C SER* 1.3 58.3 + - - +
58C ALA* 3.0 23.5 - - - +
59C PHE* 3.2 22.8 - - + -
50D ARG* 4.5 8.1 - - + -
53D LEU* 3.1 21.5 - - + -
54D LEU* 2.9 46.7 - - + -
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Residues in contact with SER 56 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31C ALA* 5.1 0.2 - - - -
52C THR* 2.5 19.9 + - - +
53C LEU* 3.4 6.7 - - - -
55C LEU* 1.3 68.5 - - - +
57C LEU* 1.3 54.1 + - - -
58C ALA 2.7 15.6 + - - -
59C PHE* 2.7 19.9 + - - -
60C MET* 3.2 10.8 + - - +
32D ALA* 3.2 35.6 - - - +
53D LEU* 3.4 10.7 - - - +
57D LEU* 3.4 25.3 - - - +
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Residues in contact with LEU 57 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56B SER* 3.5 24.0 - - - +
59B PHE* 3.2 49.5 - - + -
28C GLN* 3.9 31.0 - - + +
31C ALA* 4.0 14.6 - - + -
32C ALA 4.3 1.8 - - - +
53C LEU* 2.5 55.4 + - + +
54C LEU* 3.6 3.8 - - - +
56C SER* 1.3 69.6 - - - +
58C ALA* 1.3 65.1 + - - +
60C MET* 4.1 8.3 - - - +
61C GLU* 3.6 11.3 + - - +
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Residues in contact with ALA 58 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59B PHE* 5.0 1.3 - - - -
54C LEU 2.6 16.2 + - - +
55C LEU* 3.0 17.9 - - - +
56C SER 2.7 2.6 + - - -
57C LEU* 1.3 76.9 - - - +
59C PHE* 1.3 65.1 + - + +
60C MET 3.1 0.2 - - - -
61C GLU* 2.9 22.5 + - - +
62C ALA* 3.2 4.6 + - - -
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Residues in contact with PHE 59 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55C LEU* 3.2 31.9 - - + -
56C SER 2.7 10.5 + - - -
58C ALA* 1.3 77.9 - - + +
60C MET* 1.3 59.2 + - - +
62C ALA* 3.4 13.9 - - + -
63C LEU* 3.9 3.6 - - - +
28D GLN* 5.6 6.4 - - + +
54D LEU* 4.4 8.5 - - + -
57D LEU* 3.1 63.0 - - + -
58D ALA* 4.9 1.1 - - - -
61D GLU* 2.9 44.7 - - + +
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Residues in contact with MET 60 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24C PRO* 4.3 14.4 - - + -
28C GLN* 3.6 36.3 - - + +
56C SER 3.2 8.4 + - - +
57C LEU* 4.2 5.4 - - - +
58C ALA 3.0 1.0 + - - -
59C PHE* 1.3 75.6 - - - +
61C GLU* 1.3 59.2 + - - +
62C ALA 3.0 4.9 + - - -
63C LEU* 2.9 31.3 + - - +
64C THR* 3.7 4.3 + - - +
25D GLY* 5.5 4.0 - - - +
28D GLN* 6.4 1.8 - - + -
29D GLY* 5.9 4.3 - - - +
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Residues in contact with GLU 61 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59B PHE* 2.9 49.6 - - + +
62B ALA* 3.0 21.1 - - - +
63B LEU* 3.2 19.1 + - + +
66B TYR* 2.5 25.8 + - - +
57C LEU 3.6 3.3 + - - +
58C ALA* 2.9 12.2 + - - +
60C MET* 1.3 78.3 - - + +
62C ALA* 1.3 60.2 + - - +
64C THR* 2.9 29.2 + - - -
65C ILE* 3.2 12.0 - - - +
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Residues in contact with ALA 62 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58C ALA 3.2 4.9 + - - +
59C PHE* 3.4 19.5 - - + -
60C MET 3.0 1.0 + - - -
61C GLU* 1.3 75.7 - - - +
63C LEU* 1.3 57.9 + - - +
64C THR 3.1 0.2 - - - -
65C ILE* 2.7 40.7 + - + +
66C TYR* 2.9 18.9 - - + +
61D GLU* 3.0 17.7 - - - +
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Residues in contact with LEU 63 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
20C ALA* 4.2 2.1 - - - +
24C PRO* 3.2 24.9 - - + -
59C PHE 3.9 3.4 - - - +
60C MET* 2.9 27.1 + - - +
62C ALA* 1.3 76.8 - - - +
64C THR* 1.3 57.6 + - - +
66C TYR* 3.6 22.3 - - + +
67C GLY 4.7 0.2 + - - -
20D ALA 4.5 0.9 - - - +
21D SER* 3.7 19.9 - - - +
24D PRO* 3.8 13.9 - - + -
25D GLY* 4.4 4.9 - - - +
60D MET* 6.0 0.2 - - + -
61D GLU* 3.2 25.8 - - + +
64D THR* 3.0 47.6 - - + +
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Residues in contact with THR 64 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63B LEU* 3.1 30.5 - - + +
66B TYR* 3.5 10.2 - - - -
20C ALA* 2.6 42.4 - - - +
24C PRO* 3.1 19.3 - - + -
60C MET 3.7 3.8 - - - +
61C GLU* 2.9 25.3 + - - -
62C ALA 3.0 0.6 + - - -
63C LEU* 1.3 75.6 - - - +
65C ILE* 1.3 69.1 + - - +
66C TYR 3.2 0.9 - - - -
67C GLY 3.2 3.5 + - - -
68C LEU* 3.2 16.1 + - - +
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Residues in contact with ILE 65 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66B TYR* 3.3 30.5 - - + +
61C GLU* 3.2 12.6 - - + +
62C ALA* 2.7 32.7 + - + +
64C THR* 1.3 78.3 + - - +
66C TYR* 1.3 63.1 + - + +
67C GLY 2.9 2.5 - - - -
68C LEU* 2.8 13.7 + - + -
69C VAL* 2.5 44.4 + - + +
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Residues in contact with TYR 66 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62C ALA* 2.9 29.9 - - + +
63C LEU* 3.6 18.8 - - + +
65C ILE* 1.3 81.7 - - + +
67C GLY* 1.3 58.3 + - - +
69C VAL* 3.4 7.7 - - - +
70C VAL* 3.1 32.4 + - - +
61D GLU* 2.6 37.9 + - - +
64D THR* 3.4 10.8 - - - -
65D ILE* 3.2 28.1 - - + +
68D LEU* 3.3 40.6 - - + +
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Residues in contact with GLY 67 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17C VAL* 3.0 30.2 - - - +
20C ALA* 4.6 2.2 - - - -
63C LEU 4.7 2.0 + - - -
64C THR 3.2 6.2 + - - -
65C ILE 2.9 0.4 - - - -
66C TYR* 1.3 76.8 - - - +
68C LEU* 1.3 52.3 + - - +
69C VAL 2.9 1.6 - - - -
70C VAL* 2.6 10.1 + - - -
71C ALA 2.2 36.0 + - - -
17D VAL 6.0 1.8 - - - -
18D GLY* 6.0 1.6 - - - -
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Residues in contact with LEU 68 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66B TYR* 3.3 55.9 - - + +
69B VAL* 4.8 3.4 - - + -
70B VAL* 3.4 31.2 - - + -
17C VAL* 4.0 3.7 + - - +
64C THR 3.2 8.0 + - - +
65C ILE* 2.8 22.0 + - + +
67C GLY* 1.3 70.1 - - - +
69C VAL* 1.3 61.4 + - - +
71C ALA* 3.3 6.7 - - + +
72C LEU* 3.1 45.1 + - + +
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Residues in contact with VAL 69 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65C ILE* 2.5 30.1 + - + +
66C TYR* 3.4 10.5 - - - +
67C GLY 2.8 0.2 + - - -
68C LEU* 1.3 72.2 - - - +
70C VAL* 1.3 65.3 + - + +
71C ALA 3.0 0.4 - - - -
72C LEU* 3.2 5.4 + - - +
73C ALA* 2.7 40.9 + - + +
68D LEU* 4.8 5.4 - - + -
72D LEU* 4.9 6.5 - - + -
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Residues in contact with VAL 70 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14C GLY* 5.6 0.3 - - - -
17C VAL* 5.4 6.0 - - + +
66C TYR 3.1 16.8 + - - +
67C GLY* 2.6 11.1 + - - +
69C VAL* 1.3 77.7 - - + +
71C ALA* 1.3 62.3 + - - +
73C ALA* 3.8 6.5 - - - -
74C LEU* 3.2 22.8 + - + +
14D GLY 5.6 1.3 - - - -
15D LEU* 5.5 14.6 - - + +
68D LEU* 3.3 16.6 - - + -
71D ALA* 4.5 15.9 - - + +
72D LEU* 3.1 33.7 - - + -
75D LEU* 4.3 11.4 - - + -
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Residues in contact with ALA 71 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70B VAL* 4.5 21.1 - - + +
14C GLY* 4.3 24.3 - - - +
17C VAL* 4.3 15.4 - - + +
67C GLY 2.2 31.1 + - - +
68C LEU* 3.3 16.6 - - - +
70C VAL* 1.3 70.6 - - - +
72C LEU* 1.3 60.4 + - - +
74C LEU* 4.2 2.4 - - - +
75C LEU* 3.4 22.9 + - - +
----------------------------------------------------------
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Residues in contact with LEU 72 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69B VAL* 4.8 8.1 - - + -
70B VAL* 3.1 31.6 - - + -
73B ALA* 5.1 2.0 - - + -
68C LEU* 3.1 33.0 + - + +
69C VAL* 4.0 2.9 - - - +
71C ALA* 1.3 73.2 - - - +
73C ALA* 1.3 59.7 + - - +
74C LEU 3.2 2.0 - - - -
75C LEU* 3.1 21.7 + - + -
76C PHE* 2.7 43.9 + - + +
77C ALA* 3.4 3.1 + - - +
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Residues in contact with ALA 73 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69C VAL* 2.7 27.4 + - + +
70C VAL* 3.9 9.4 - - - -
71C ALA 3.5 0.2 - - - -
72C LEU* 1.3 74.3 - - - +
74C LEU* 1.3 56.6 + - - +
77C ALA* 3.0 39.2 - - + +
78C ASN* 3.2 0.5 + - - -
72D LEU* 5.1 2.2 - - + -
75D LEU* 4.4 3.4 - - + -
76D PHE* 3.5 26.4 - - + -
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Residues in contact with LEU 74 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10C VAL* 3.7 21.8 - - - +
13C ALA* 6.0 0.9 - - + -
14C GLY* 5.1 5.2 - - - +
70C VAL* 3.2 20.0 + - + +
71C ALA 4.2 3.4 - - - +
73C ALA* 1.3 76.4 - - - +
75C LEU* 1.3 56.7 + - - +
78C ASN* 2.7 32.4 - - - +
11D ILE* 4.0 22.0 - - + -
15D LEU* 6.4 1.6 - - + -
75D LEU* 4.5 12.3 - - + +
----------------------------------------------------------
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Residues in contact with LEU 75 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70B VAL* 4.2 16.2 - - + -
73B ALA* 4.3 10.1 - - + +
74B LEU* 4.6 6.1 - - + +
79B PRO* 3.5 42.6 - - + +
10C VAL* 5.3 10.5 - - + +
11C ILE* 3.9 26.2 - - + -
14C GLY* 6.2 1.1 - - - -
71C ALA 3.4 14.7 + - - +
72C LEU* 3.1 19.7 + - + +
74C LEU* 1.3 82.8 - - - +
76C PHE* 1.3 93.2 + - + +
77C ALA 3.5 0.6 + - - -
78C ASN* 4.1 6.8 - - - +
----------------------------------------------------------
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Residues in contact with PHE 76 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
73B ALA* 3.5 32.5 - - + -
77B ALA* 3.4 25.8 - - + -
79B PRO* 3.6 25.1 - - + -
72C LEU* 2.7 26.8 + - + +
75C LEU* 1.3 106.5 - - + +
77C ALA* 1.3 56.1 + - - +
78C 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