Contacts of the helix formed by residues 36 - 64 (chain C) in PDB entry 3BVI
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 36 (chain C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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30C TRP* 4.1 25.6 - - + -
31C CYS* 2.8 27.2 + - + +
32C TYR* 4.8 0.2 - - - +
34C HIS* 3.5 12.8 - - + +
35C SER* 1.3 81.0 - - - +
37C ASP* 1.3 58.0 + - - +
38C GLY 3.3 3.5 + - - -
39C ALA* 3.5 2.8 + - + -
40C GLY 3.0 21.8 + - - -
83C LEU* 3.7 31.6 - - + +
151C LEU* 4.3 34.1 - - + +
152C TYR* 5.9 0.4 - - - -
155C ASP* 3.4 27.1 - - + +
1005D HIS* 5.1 3.1 - - + +
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Residues in contact with ASP 37 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32C TYR* 3.8 30.0 - - + +
35C SER 3.5 6.6 - - - +
36C LEU* 1.3 73.7 - - - +
38C GLY* 1.3 62.1 + - - +
40C GLY* 3.7 0.6 - - - -
41C LEU* 2.9 29.8 + - - +
155C ASP* 3.2 7.4 - - - +
156C GLN* 4.6 0.7 + - - -
159C LYS* 3.0 34.3 + - - -
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Residues in contact with GLY 38 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37C ASP* 1.3 77.6 + - - +
39C ALA* 1.3 58.8 + - - +
41C LEU* 3.5 4.3 + - - +
42C PHE* 3.1 26.5 + - - +
155C ASP* 3.1 17.3 + - - -
158C VAL* 3.9 2.1 - - - +
159C LYS* 3.6 42.4 + - - -
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Residues in contact with ALA 39 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31C CYS* 3.8 19.7 - - - -
36C LEU* 3.9 2.7 - - + +
38C GLY* 1.3 71.7 - - - +
40C GLY* 1.3 59.8 + - - +
42C PHE* 3.5 0.7 + - - +
43C LEU* 2.9 39.0 + - - +
83C LEU* 3.8 21.8 - - + -
87C PHE* 4.1 9.2 - - + -
155C ASP* 2.9 16.6 + - - +
158C VAL* 3.8 17.1 - - + +
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Residues in contact with GLY 40 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28C SER* 2.6 36.6 + - - -
31C CYS* 3.6 3.9 - - - +
32C TYR* 3.4 20.9 - - - -
36C LEU 3.0 18.0 + - - -
37C ASP 3.8 1.1 - - - -
38C GLY 3.3 0.2 - - - -
39C ALA* 1.3 75.1 - - - +
41C LEU* 1.3 57.1 + - - +
44C PHE* 2.9 17.0 + - - +
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Residues in contact with LEU 41 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32C TYR* 3.3 16.6 + - - +
37C ASP 2.9 18.1 + - - +
38C GLY* 3.7 4.0 - - - +
39C ALA 3.3 0.2 - - - -
40C GLY* 1.3 72.6 - - - +
42C PHE* 1.3 66.6 + - - +
44C PHE* 3.3 7.0 + - + +
45C ASP* 3.0 42.2 + - - +
159C LYS* 4.8 11.2 - - + -
162C ALA* 4.0 17.7 - - + -
163C LYS* 4.3 23.1 - - + -
166C LYS* 4.0 16.6 - - - +
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Residues in contact with PHE 42 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38C GLY 3.1 6.9 + - - +
39C ALA 3.7 3.4 - - - +
41C LEU* 1.3 77.4 - - - +
43C LEU* 1.3 65.4 + - + +
45C ASP* 3.5 3.9 + - - +
46C HIS* 3.0 32.6 + - + +
87C PHE* 3.9 19.1 - + - -
133C LEU* 3.7 28.5 - - + -
134C PHE* 3.6 33.2 - + - -
137C ILE* 3.3 28.5 - - + -
158C VAL* 3.4 28.0 - - + -
161C ILE* 3.8 18.8 - - + -
162C ALA* 3.8 19.2 - - + +
165C ARG* 4.6 4.3 - - - -
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Residues in contact with LEU 43 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24C TYR* 3.7 34.4 - - + +
27C MET* 4.0 12.8 - - + +
28C SER* 3.8 14.8 - - - -
31C CYS* 3.9 24.5 - - - -
39C ALA 2.9 21.9 + - - +
42C PHE* 1.3 84.1 - - + +
44C PHE* 1.3 61.3 + - - +
46C HIS* 3.8 2.7 - - - +
47C ALA* 3.0 27.4 + - - +
86C ILE* 4.0 20.6 - - + -
87C PHE* 4.1 12.3 - - + -
90C ALA* 5.1 0.2 - - + -
134C PHE* 4.0 23.1 - - + -
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Residues in contact with PHE 44 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25C MET* 3.6 24.5 - - + +
28C SER* 3.4 11.6 + - - +
32C TYR* 4.6 4.5 - + + +
40C GLY 2.9 19.2 + - - +
41C LEU* 3.6 9.9 - - + +
43C LEU* 1.3 76.1 - - - +
45C ASP* 1.3 79.3 + - - +
47C ALA* 3.2 8.8 + - - +
48C ALA* 3.1 21.1 + - + +
55D LYS* 3.8 34.3 - - + -
58D ILE* 3.7 26.7 - - + -
59D ILE* 3.5 31.9 - - + -
62D ASN* 4.1 9.4 - - - -
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Residues in contact with ASP 45 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41C LEU* 3.0 26.0 + - - +
42C PHE* 3.8 5.6 - - - +
44C PHE* 1.3 92.8 - - - +
46C HIS* 1.3 60.1 + - - +
48C ALA* 3.5 7.7 + - - +
49C GLU* 3.2 21.0 + - - +
162C ALA* 4.4 7.4 - - + +
166C LYS* 2.8 43.1 + - - +
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Residues in contact with HIS 46 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24C TYR* 3.4 30.8 - + - -
42C PHE* 3.0 23.6 + - + +
43C LEU* 3.8 7.4 - - - +
44C PHE 3.2 0.4 - - - -
45C ASP* 1.3 75.3 - - - +
47C ALA* 1.3 64.7 + - - +
49C GLU* 3.2 7.0 + - - +
50C GLU* 3.0 30.5 + - + +
94C GLU* 2.9 21.2 + - - -
130C GLU* 3.3 39.9 - - + +
133C LEU* 6.1 2.2 - - + +
134C PHE* 3.5 32.2 - + + -
1007C FE 3.8 1.3 - - - -
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Residues in contact with ALA 47 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21C SER* 3.4 36.0 + - - +
24C TYR* 3.7 13.3 - - + +
25C MET* 3.7 22.2 - - + +
43C LEU 3.0 14.7 + - - +
44C PHE 3.3 10.1 - - - +
46C HIS* 1.3 75.7 - - - +
48C ALA* 1.3 61.6 + - - +
50C GLU* 3.1 13.0 + - - +
51C TYR 3.2 8.8 + - - -
51D TYR* 3.7 2.9 + - - -
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Residues in contact with ALA 48 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25C MET* 4.5 0.2 - - - +
44C PHE* 3.1 11.4 + - + +
45C ASP* 3.7 13.0 - - - +
46C HIS 3.3 0.2 - - - -
47C ALA* 1.3 77.9 - - - +
49C GLU* 1.3 56.9 + - - +
51C TYR* 3.3 5.9 + - - +
52C GLU* 3.1 30.3 + - - +
51D TYR* 3.8 13.4 + - - -
55D LYS* 3.9 32.9 + - + +
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Residues in contact with GLU 49 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45C ASP 3.2 14.0 + - - +
46C HIS* 3.2 9.4 + - - +
47C ALA 3.2 0.4 - - - -
48C ALA* 1.3 78.0 - - - +
50C GLU* 1.3 66.6 + - - +
52C GLU* 3.3 17.3 + - - +
53C HIS* 3.1 26.8 + - - +
56C LYS* 4.0 18.7 + - - -
126C GLU* 4.4 5.0 - - - +
130C GLU* 4.0 19.1 - - - +
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Residues in contact with GLU 50 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17C GLU* 2.9 44.4 - - - +
20C SER* 3.7 20.3 + - - -
21C SER 3.9 4.9 - - - +
24C TYR* 4.0 12.3 - - + -
46C HIS* 3.0 29.6 + - - +
47C ALA 3.1 7.4 + - - +
49C GLU* 1.3 77.8 - - - +
51C TYR* 1.3 61.1 + - - +
53C HIS* 3.1 11.3 + - - +
54C ALA 3.0 17.7 + - - -
94C GLU* 3.9 5.0 - - - +
97C ILE* 5.0 2.6 - - - +
130C GLU* 2.9 22.3 - - - +
1006C FE 3.3 4.7 - - - -
1007C FE 2.9 17.5 - - - -
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Residues in contact with TYR 51 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17C GLU 5.2 0.9 - - - -
18C MET* 3.6 28.9 - - + -
21C SER* 4.3 5.5 - - - +
47C ALA 3.2 6.8 + - - +
48C ALA 3.5 8.3 - - - +
49C GLU 3.2 0.2 - - - -
50C GLU* 1.3 75.9 - - - +
52C GLU* 1.3 64.3 + - - +
54C ALA* 3.2 6.7 + - - +
55C LYS* 3.0 56.1 + - + +
21D SER* 2.7 20.1 + - - -
25D MET* 3.6 16.8 - - + +
47D ALA 3.7 5.0 + - - -
48D ALA* 3.8 3.6 - - - -
51D TYR* 3.3 60.7 - + + +
1008D GOL 3.5 23.3 - - - -
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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 ALA* 3.1 20.2 + - + +
49C GLU* 3.5 30.7 - - - +
50C GLU 3.3 0.4 - - - -
51C TYR* 1.3 77.2 - - - +
53C HIS* 1.3 55.5 + - - +
55C LYS* 2.8 37.5 + - - +
56C LYS* 3.0 45.1 + - - +
51D TYR* 6.1 0.2 - - - -
52D GLU* 4.7 7.3 - - - +
55D LYS* 5.0 4.5 + - - -
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Residues in contact with HIS 53 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17C GLU* 3.9 12.1 + - + -
49C GLU* 3.1 19.7 + - + +
50C GLU* 3.1 18.0 + - - +
52C GLU* 1.3 72.9 - - - +
54C ALA* 1.3 64.8 + - - +
56C LYS* 3.4 22.2 + - - +
57C LEU* 3.1 30.1 + - - +
122C TRP* 3.7 13.5 - + + -
123C TYR* 4.0 14.3 - + + -
126C GLU* 3.3 22.3 + - + +
127C GLN* 5.2 0.4 - - - -
130C GLU* 2.8 33.7 + - - -
1006C FE 2.9 24.9 - - - -
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Residues in contact with ALA 54 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14C VAL* 4.1 9.7 - - + +
17C GLU* 3.9 20.8 - - + +
18C MET* 3.8 33.7 - - + -
50C GLU 3.0 8.2 + - - +
51C TYR* 3.2 10.5 + - - +
53C HIS* 1.3 75.1 - - - +
55C LYS* 1.3 57.0 + - - +
57C LEU* 3.3 9.9 + - - +
58C ILE* 2.9 33.7 + - - +
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Residues in contact with LYS 55 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51C TYR* 3.0 42.7 + - + +
52C GLU* 2.8 47.0 + - - +
53C HIS 3.2 0.2 - - - -
54C ALA* 1.3 77.0 - - - +
56C LYS* 1.3 57.5 + - + +
58C ILE* 3.2 9.8 + - + +
59C ILE* 2.9 35.6 + - + +
25D MET* 3.9 14.8 - - + -
44D PHE* 3.8 18.7 - - + -
48D ALA* 3.8 28.0 - - + +
52D GLU* 4.9 6.7 + - - -
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Residues in contact with LYS 56 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49C GLU* 4.0 11.3 + - - -
52C GLU* 3.0 29.8 + - - +
53C HIS* 3.5 30.0 - - - +
55C LYS* 1.3 76.3 - - + +
57C LEU* 1.3 61.9 + - - +
59C ILE* 3.5 15.8 + - + +
60C PHE 3.2 15.6 + - - -
119C PHE* 3.6 14.6 - - + -
122C TRP* 3.5 38.9 - - + -
126C GLU* 3.6 10.5 + - - -
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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
----------------------------------------------------------
10C LEU* 4.8 12.1 - - + +
13C GLN* 3.9 36.3 - - + +
14C VAL* 3.7 20.4 - - + +
17C GLU* 4.3 5.4 - - + -
53C HIS 3.1 17.0 + - - +
54C ALA* 3.6 5.6 - - - +
56C LYS* 1.3 75.0 - - - +
58C ILE* 1.3 60.0 + - - +
60C PHE* 3.1 6.7 + - - +
61C LEU* 2.9 32.1 + - + +
119C PHE* 3.9 25.1 - - + -
120C LEU* 4.5 5.8 - - + -
122C TRP* 4.7 4.0 - - + -
123C TYR* 4.2 31.6 - - + +
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Residues in contact with ILE 58 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14C VAL* 3.9 28.9 - - + -
18C MET* 4.1 16.6 - - + -
54C ALA 2.9 23.9 + - - +
55C LYS* 3.5 10.3 - - - +
57C LEU* 1.3 75.1 - - - +
59C ILE* 1.3 58.8 + - - +
61C LEU* 3.1 9.1 + - - +
62C ASN* 2.8 44.3 + - - +
68C VAL* 4.0 24.5 - - + -
70C LEU* 4.9 0.9 - - + -
25D MET* 4.2 26.9 - - + +
28D SER* 5.9 0.2 - - - +
44D PHE* 3.8 15.5 - - + -
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Residues in contact with ILE 59 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55C LYS* 2.9 25.1 + - + +
56C LYS* 3.7 15.3 - - + +
57C LEU 3.3 0.2 - - - -
58C ILE* 1.3 75.7 - - - +
60C PHE* 1.3 57.1 + - - +
62C ASN* 3.2 11.3 + - + +
63C GLU* 2.9 40.6 + - + +
44D PHE* 3.7 30.1 - - + -
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Residues in contact with PHE 60 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
128A HIS* 3.8 18.8 - + - -
2C LEU* 3.8 20.0 - - + -
10C LEU* 3.9 17.9 - - + -
56C LYS 3.2 2.0 + - - -
57C LEU 3.1 8.1 + - - +
59C ILE* 1.3 78.8 - - - +
61C LEU* 1.3 62.2 + - - +
63C GLU* 3.1 24.2 - - - +
64C ASN* 2.8 49.7 + - - -
115C ALA 4.6 1.6 - - - -
116C THR* 3.8 30.7 - - + -
119C PHE* 3.4 64.6 - + + -
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Residues in contact with LEU 61 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
2C LEU* 4.4 6.5 - - + -
7C ILE* 5.2 1.8 - - - +
10C LEU* 3.8 34.8 - - + -
11C ASN* 3.6 36.3 - - - +
14C VAL* 4.1 19.5 - - + -
57C LEU* 2.9 15.2 + - + +
58C ILE* 3.1 7.4 + - - +
60C PHE* 1.3 74.4 - - - +
62C ASN* 1.3 61.5 - - - +
64C ASN* 3.3 6.3 + - - -
66C VAL* 2.8 55.5 + - + +
68C VAL* 3.9 19.3 - - + -
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Residues in contact with ASN 62 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
135A LYS* 4.3 1.6 + - - -
58C ILE* 2.8 35.2 + - - +
59C ILE* 3.4 11.9 - - + +
61C LEU* 1.3 77.2 - - - +
63C GLU* 1.3 61.6 + - - +
65C ASN* 3.2 18.2 + - - +
66C VAL 4.7 3.2 - - - +
68C VAL* 4.0 10.7 - - - +
28D SER* 4.4 2.0 + - - -
29D SER* 3.9 17.2 + - - -
32D TYR* 3.3 62.2 - - + +
33D THR* 6.1 0.8 - - - +
44D PHE* 4.2 9.5 - - - -
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Residues in contact with GLU 63 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
128A HIS* 3.4 27.6 + - - +
132A VAL* 3.6 25.1 - - + +
135A LYS* 2.8 28.6 + - - +
136A ASP* 6.0 0.4 - - - -
59C ILE* 2.9 27.9 + - + +
60C PHE* 3.1 35.6 - - - +
62C ASN* 1.3 77.3 - - - +
64C ASN* 1.3 58.2 - - - +
65C ASN 3.3 0.2 - - - -
32D TYR* 6.2 0.7 - - - -
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Residues in contact with ASN 64 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
128A HIS* 3.0 28.1 + - - -
1C MET* 2.9 46.9 + - + +
2C LEU* 3.7 17.6 - - + +
60C PHE* 2.8 59.4 + - - +
61C LEU 3.8 3.4 - - - +
62C ASN 3.2 0.8 - - - -
63C GLU* 1.3 78.2 - - - +
65C ASN* 1.3 63.3 + - - +
66C VAL* 3.2 13.8 - - + +
----------------------------------------------------------
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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).
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