Contacts of the helix formed by residues 46 - 75 (chain C) in PDB entry 2YW7
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 ASN 46 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45A PRO* 4.6 17.6 + - - +
46A ASN* 5.3 6.1 + - - +
48A ILE* 5.8 0.8 - - - +
45C PRO* 1.3 81.6 - - - +
47C PHE* 1.3 59.1 + - - +
48C ILE* 3.1 16.3 + - + -
49C GLY* 3.3 25.7 + - - +
50C VAL* 3.1 14.1 - - - +
102C VAL* 4.1 6.7 - - - +
103C GLN* 5.2 1.0 - - - +
155C HIS* 3.3 26.8 + - - -
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Residues in contact with PHE 47 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42C VAL* 3.2 32.1 - - + +
43C VAL* 3.8 31.6 - - + -
44C GLY 4.2 7.2 - - - -
45C PRO 3.0 14.3 + - - +
46C ASN* 1.3 70.0 - - - +
48C ILE* 1.3 81.4 + - + +
50C VAL* 3.3 12.0 - - - +
51C HIS* 2.9 55.4 + + - -
102C VAL* 3.9 4.5 - - + +
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Residues in contact with ILE 48 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45C PRO 4.7 2.9 - - - +
46C ASN* 3.1 12.1 - - + -
47C PHE* 1.3 106.3 - - + +
49C GLY* 1.3 55.4 + - - +
50C VAL 3.0 1.3 - - - -
51C HIS* 2.9 13.2 + - + +
52C GLU* 2.8 58.8 + - + +
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Residues in contact with GLY 49 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48A ILE* 5.7 2.7 - - - +
46C ASN* 3.3 27.3 + - - +
48C ILE* 1.3 77.6 - - - +
50C VAL* 1.3 58.1 + - - +
52C GLU* 3.5 17.7 + - - +
53C MET* 3.3 21.8 + - - +
151C PHE* 5.5 0.2 - - - -
155C HIS* 3.8 10.4 + - - -
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Residues in contact with VAL 50 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38C VAL* 5.2 4.3 - - + -
39C HIS* 6.4 1.1 - - - -
42C VAL* 4.2 17.9 - - + -
46C ASN* 3.1 19.5 - - - +
47C PHE* 3.3 9.2 - - - +
49C GLY* 1.3 75.1 - - - +
51C HIS* 1.3 56.4 + - + +
53C MET* 2.9 8.1 + - - +
54C ILE* 2.7 59.6 + - + +
102C VAL* 3.4 36.1 - - + -
105C HIS* 5.9 0.9 - - + -
106C LEU* 4.2 17.3 - - + -
155C HIS* 4.9 2.7 - - + -
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Residues in contact with HIS 51 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39C HIS* 3.0 67.0 + + + +
42C VAL* 4.9 7.5 + - + +
47C PHE* 2.9 51.0 + + - -
48C ILE* 2.9 15.4 + - + +
50C VAL* 1.3 78.3 - - + +
52C GLU* 1.3 57.1 + - + +
53C MET 3.0 0.5 + - - -
55C ASP* 2.8 43.1 + - - +
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Residues in contact with GLU 52 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48C ILE* 2.8 44.3 + - + +
49C GLY* 3.5 17.6 - - - +
51C HIS* 1.3 71.1 - - + +
53C MET* 1.3 55.4 + - - +
55C ASP* 4.4 5.4 - - - +
56C PRO* 3.5 20.1 - - - +
151C PHE* 6.0 0.5 - - - -
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Residues in contact with MET 53 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49C GLY 3.3 12.2 + - - +
50C VAL* 2.9 9.6 + - - +
52C GLU* 1.3 80.8 - - - +
54C ILE* 1.3 79.8 + - + +
55C ASP 3.6 0.2 - - - -
56C PRO* 3.7 7.8 - - - +
57C GLN* 3.8 2.8 + - - +
106C LEU* 3.8 17.3 - - + -
148C PHE* 3.3 20.5 - - + -
151C PHE* 3.2 45.3 - - + +
152C VAL* 3.2 45.3 - - + +
155C HIS* 3.9 16.4 - - + -
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Residues in contact with ILE 54 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35C LEU* 3.3 35.7 - - + +
38C VAL* 5.1 4.9 - - + -
39C HIS* 3.9 21.3 - - + +
50C VAL* 2.7 41.0 + - + +
51C HIS 4.1 1.6 - - - +
53C MET* 1.3 93.9 - - + +
55C ASP* 1.3 66.7 + - - +
56C PRO 3.3 0.4 - - - -
57C GLN* 2.8 17.4 + - - +
58C VAL* 2.9 23.3 + - + +
106C LEU* 4.8 0.2 - - + -
109C LEU* 4.1 25.6 - - + -
148C PHE* 4.3 4.9 - - + -
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Residues in contact with ASP 55 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36C LYS* 5.6 5.7 + - - -
39C HIS* 3.1 27.4 + - - -
51C HIS* 2.8 32.4 + - - +
52C GLU* 4.4 3.9 - - - +
54C ILE* 1.3 72.2 - - - +
56C PRO* 1.3 66.1 - - + +
58C VAL* 2.9 25.4 + - - +
59C GLU* 3.2 20.2 + - - +
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Residues in contact with PRO 56 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52C GLU* 3.5 23.6 - - - +
53C MET* 3.7 6.1 - - - +
54C ILE 3.5 1.6 - - - -
55C ASP* 1.3 96.2 - - + +
57C GLN* 1.3 60.9 + - - +
58C VAL 3.3 0.2 - - - -
59C GLU* 4.1 8.8 - - + +
60C LEU* 3.2 24.6 + - - +
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Residues in contact with GLN 57 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35C LEU* 3.2 12.3 - - + -
53C MET 3.8 2.4 + - - +
54C ILE 2.8 11.3 + - - +
56C PRO* 1.3 79.3 - - - +
58C VAL* 1.3 57.2 + - - +
60C LEU* 4.3 15.3 - - - +
61C VAL* 2.9 47.6 + - - +
113C TYR* 2.6 39.7 + - - +
144C GLU 4.6 3.9 + - - +
145C LEU* 4.3 5.5 - - - +
148C PHE* 3.2 54.1 - - + +
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Residues in contact with VAL 58 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32C HIS* 4.2 10.7 - - + +
35C LEU* 3.7 24.2 - - + +
36C LYS* 4.1 17.0 - - + -
54C ILE* 2.9 35.2 + - + +
55C ASP* 2.9 11.5 + - - +
57C GLN* 1.3 74.2 - - - +
59C GLU* 1.3 60.2 + - - +
60C LEU 3.1 1.6 - - - -
61C VAL* 4.3 1.5 - - - +
62C ARG* 2.9 73.9 + - + +
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Residues in contact with GLU 59 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55C ASP* 3.2 17.1 + - - +
56C PRO* 4.2 9.6 - - + +
58C VAL* 1.3 79.8 - - - +
60C LEU* 1.3 60.6 + - - +
62C ARG* 3.5 30.9 + - - +
63C GLY* 3.3 15.8 + - - -
59F GLU* 4.9 6.4 - - - +
62F ARG* 5.4 1.0 + - - -
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Residues in contact with LEU 60 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56C PRO 3.2 18.5 + - - +
57C GLN* 4.0 15.9 - - - +
58C VAL 3.1 0.8 - - - -
59C GLU* 1.3 73.4 - - - +
61C VAL* 1.3 68.2 + - + +
62C ARG 3.0 1.3 - - - -
63C GLY* 2.9 13.5 + - - -
64C TYR* 2.9 57.0 + - + +
144C GLU* 3.8 22.9 - - + +
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Residues in contact with VAL 61 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28C TYR* 3.6 22.4 - - + +
31C LEU* 3.6 27.8 - - + -
32C HIS* 3.5 24.9 - - + +
35C LEU* 4.1 3.6 - - + -
57C GLN* 2.9 51.1 + - + +
60C LEU* 1.3 72.4 - - + +
62C ARG* 1.3 59.6 + - - +
64C TYR* 3.3 14.1 - - + +
65C ALA* 3.2 20.4 + - - +
145C LEU* 4.6 6.7 - - + -
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Residues in contact with ARG 62 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32C HIS* 3.4 40.8 + - + +
36C LYS* 4.1 27.3 - - - +
58C VAL* 2.9 42.8 + - - +
59C GLU* 3.5 27.5 + - - +
61C VAL* 1.3 78.4 - - - +
63C GLY* 1.3 61.9 + - - +
65C ALA* 3.2 8.1 + - - +
66C ASP* 3.2 23.0 + - - +
32F HIS* 4.6 4.8 + - - -
36F LYS* 5.6 2.0 - - - +
59F GLU* 5.2 1.4 + - - -
62F ARG* 3.1 64.5 + - - +
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Residues in contact with GLY 63 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59C GLU 3.3 8.4 + - - -
60C LEU* 2.9 7.3 + - - -
62C ARG* 1.3 75.7 - - - +
64C TYR* 1.3 56.7 + - - +
66C ASP* 3.0 12.6 + - - +
67C GLU* 2.7 41.5 + - - +
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Residues in contact with TYR 64 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28C TYR* 3.4 20.0 - + + -
60C LEU* 2.9 49.0 + - + +
61C VAL* 3.3 17.9 - - + +
62C ARG 3.2 0.2 - - - -
63C GLY* 1.3 77.6 - - - +
65C ALA* 1.3 52.3 + - - +
67C GLU* 3.1 11.0 + - - +
68C VAL* 2.8 37.2 + - - +
140C ALA 4.1 0.9 + - - -
141C HIS* 3.5 56.3 + + + -
144C GLU* 2.9 37.6 - - + +
145C LEU* 3.5 25.6 - - + -
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Residues in contact with ALA 65 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25C LEU* 3.3 24.5 - - + +
28C TYR* 3.3 28.8 - - + -
29C ASN* 3.9 13.2 - - - +
32C HIS* 4.9 2.7 - - + -
61C VAL 3.2 4.5 + - - +
62C ARG* 3.2 12.5 + - - +
64C TYR* 1.3 79.2 - - - +
66C ASP* 1.3 59.7 + - - +
68C VAL* 4.0 0.9 - - - -
69C ALA* 3.1 26.4 + - - +
40F TRP* 3.9 3.7 - - + -
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Residues in contact with ASP 66 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62C ARG 3.2 11.5 + - - +
63C GLY* 3.0 19.2 + - - +
65C ALA* 1.3 77.9 - - - +
67C GLU* 1.3 62.3 + - + +
68C VAL 3.3 0.2 - - - -
69C ALA* 3.6 4.2 - - - +
70C GLU* 3.2 38.9 + - - +
36F LYS* 3.1 35.6 + - - +
39F HIS* 5.7 3.1 - - - -
40F TRP* 3.4 25.5 + - - +
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Residues in contact with GLU 67 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63C GLY 2.7 21.6 + - - +
64C TYR* 3.1 17.0 + - - +
66C ASP* 1.3 73.5 - - + +
68C VAL* 1.3 63.3 + - - +
69C ALA 3.4 0.7 + - - -
70C GLU* 3.8 5.8 + - - +
71C ARG* 3.5 21.0 + - - +
137C LEU* 3.3 24.3 - - + +
141C HIS* 2.4 35.1 + - - +
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Residues in contact with VAL 68 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21C LEU* 3.9 31.5 - - + +
24C GLN* 4.0 20.9 - - + -
25C LEU* 3.4 41.5 - - + +
28C TYR* 4.1 4.9 - - + -
64C TYR 2.8 15.0 + - - +
65C ALA* 3.6 7.6 - - - +
67C GLU* 1.3 76.4 - - - +
69C ALA* 1.3 64.5 + - - +
71C ARG* 3.7 3.7 - - - +
72C ILE* 3.2 26.0 + - - +
137C LEU* 4.1 11.0 - - + +
138C LEU* 4.1 7.9 - - + -
141C HIS* 4.9 0.7 - - + -
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Residues in contact with ALA 69 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25C LEU* 4.4 2.0 - - + -
65C ALA 3.1 16.9 + - - +
66C ASP 3.6 5.2 - - - +
67C GLU 3.2 0.2 - - - -
68C VAL* 1.3 78.5 - - - +
70C GLU* 1.3 66.4 + - - +
71C ARG 3.1 1.3 - - - -
72C ILE* 2.9 16.1 + - - +
73C ALA 3.0 8.8 + - - -
79C PRO* 3.2 18.7 - - + +
40F TRP* 3.4 41.5 - - + -
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Residues in contact with GLU 70 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66C ASP* 3.2 24.1 + - - +
67C GLU* 4.2 5.6 - - - +
69C ALA* 1.3 78.3 - - - +
71C ARG* 1.3 54.0 + - - +
73C ALA* 3.2 12.2 + - - +
74C THR* 2.8 37.6 + - - +
39F HIS* 6.0 1.9 - - - -
40F TRP* 5.1 13.1 - - + -
147J LYS* 4.2 28.9 + - + +
150J TRP* 5.8 0.8 - - + -
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Residues in contact with ARG 71 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21C LEU* 3.7 22.7 - - + -
67C GLU 3.5 11.9 + - - +
68C VAL 3.7 10.5 - - - +
69C ALA 3.0 0.6 + - - -
70C GLU* 1.3 78.3 - - - +
72C ILE* 1.3 51.9 + - - +
74C THR* 3.0 13.7 + - - -
75C LEU* 2.7 60.7 + - + +
131C ASP* 3.6 13.7 + - - -
133C VAL* 4.0 14.1 - - - +
134C SER* 2.7 30.1 + - - +
137C LEU* 4.6 13.0 - - + -
121J ARG* 3.9 0.8 - - - +
143J GLY* 4.5 13.5 + - - -
146J GLU* 3.0 43.0 + - - +
147J LYS* 5.9 1.0 - - - +
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Residues in contact with ILE 72 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18C ALA* 4.2 16.8 - - + +
21C LEU* 3.7 22.9 - - + +
22C GLN* 3.7 38.1 - - + +
25C LEU* 4.3 11.2 - - + -
68C VAL 3.2 20.9 - - - +
69C ALA 2.9 7.4 + - - +
71C ARG* 1.3 75.3 - - - +
73C ALA* 1.3 63.8 + - - +
75C LEU* 3.3 14.8 + - - +
76C GLY 3.6 0.5 + - - -
77C LYS* 3.2 41.6 + - + +
78C SER 4.2 1.8 - - - +
79C PRO* 3.8 17.7 - - + -
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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 ALA 3.0 7.6 + - - +
70C GLU* 3.2 18.4 - - - +
72C ILE* 1.3 77.4 - - - +
74C THR* 1.3 58.8 + - - +
76C GLY* 3.3 5.0 + - - -
77C LYS 3.2 12.5 + - - +
79C PRO* 3.9 5.9 - - + +
40F TRP 4.1 19.3 - - - +
41F ASN* 5.2 0.2 - - - +
99F ARG* 2.5 32.1 + - + +
150J TRP* 3.7 20.2 - - + +
----------------------------------------------------------
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Residues in contact with THR 74 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70C GLU* 2.8 23.9 + - - +
71C ARG* 3.0 16.2 + - - +
73C ALA* 1.3 68.9 - - - +
75C LEU* 1.3 59.3 + - - +
76C GLY* 2.8 11.6 + - - -
99F ARG* 4.9 1.0 + - - -
146J GLU* 3.2 50.7 - - + +
147J LYS* 4.1 13.7 - - - +
149J GLN* 5.3 1.1 - - + -
150J TRP* 3.9 23.2 - - + +
153J ARG* 4.9 10.6 + - - -
----------------------------------------------------------
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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
----------------------------------------------------------
14C ALA* 4.2 30.5 - - + +
17C VAL* 3.7 32.8 - - + -
18C ALA* 4.7 7.6 - - + +
21C LEU* 4.0 5.6 - - + -
71C ARG* 2.7 65.7 + - + +
72C ILE* 3.3 7.5 + - - +
74C THR* 1.3 71.0 - - - +
76C GLY* 1.3 65.5 + - - +
77C LYS* 4.5 1.9 - - - +
131C ASP* 3.5 13.0 - - - +
134C SER* 3.9 1.1 - - - +
121J ARG* 3.7 14.6 - - - +
146J GLU* 4.1 2.7 - - - +
----------------------------------------------------------
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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