Contacts of the helix formed by residues 37 - 65 (chain X) in PDB entry 3IS7
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 X).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
140A LEU* 4.1 17.7 - - + -
143A LYS* 4.4 13.2 - - + -
32X TRP* 2.8 41.7 + - + +
35X TRP* 4.3 18.6 - - + +
36X GLY* 1.3 74.8 - - - +
38X LYS* 1.3 57.6 + - - +
39X ARG 3.1 0.7 + - - -
40X LEU* 3.2 8.1 + - + +
41X GLY 3.0 22.7 + - - -
83X THR* 3.7 14.6 - - - +
150X LEU* 3.3 46.2 - - + +
153X HIS* 3.1 17.0 - - + +
154X MET* 4.2 1.6 - - + +
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Residues in contact with LYS 38 (chain X).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33X ASN* 3.8 22.3 + - + +
36X GLY* 4.2 15.3 - - - +
37X LEU* 1.3 74.8 - - - +
39X ARG* 1.3 59.2 + - - +
41X GLY 3.6 0.2 - - - -
42X ALA* 2.9 28.9 + - - +
154X MET 3.2 21.1 + - - +
155X HIS* 5.3 9.0 - - - +
156X GLU* 3.7 22.6 - - + +
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Residues in contact with ARG 39 (chain X).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
155M HIS* 3.4 48.4 + - - +
38X LYS* 1.3 75.7 - - - +
40X LEU* 1.3 66.1 + - - +
42X ALA* 3.9 3.4 - - + +
43X HIS* 3.1 24.6 + - - +
152X SER 3.6 17.4 + - - -
153X HIS* 3.0 30.4 + - + +
154X MET 4.2 1.2 + - - -
155X HIS 3.5 23.5 + - - +
156X GLU* 4.0 22.8 + - + +
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Residues in contact with LEU 40 (chain X).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32X TRP* 3.7 52.1 - - + +
37X LEU* 3.2 14.7 + - + +
39X ARG* 1.3 77.8 - - - +
41X GLY* 1.3 65.5 + - - +
43X HIS* 3.4 3.3 + - - +
44X GLU* 3.0 26.9 + - - +
83X THR* 3.9 17.3 - - + +
87X LEU* 4.6 5.6 - - + -
133X TYR* 3.5 23.3 - - - +
149X TYR* 4.0 18.6 - - + +
150X LEU* 4.7 1.6 - - + -
153X HIS* 3.7 28.8 + - + -
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Residues in contact with GLY 41 (chain X).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29X SER* 2.9 37.0 + - - -
30X ARG* 5.2 0.2 - - - -
32X TRP* 3.7 6.0 - - - +
33X ASN* 3.3 25.4 - - - -
37X LEU 3.0 11.1 + - - -
38X LYS 3.4 0.2 + - - -
39X ARG 3.2 0.2 - - - -
40X LEU* 1.3 78.5 - - - +
42X ALA* 1.3 56.4 + - - +
44X GLU 3.5 0.2 + - - -
45X TYR* 3.0 15.6 + - - +
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Residues in contact with ALA 42 (chain X).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30X ARG* 5.9 0.2 - - - +
33X ASN* 4.3 1.0 - - - +
38X LYS 2.9 17.4 + - - +
39X ARG* 3.9 3.8 - - + +
41X GLY* 1.3 75.5 - - - +
43X HIS* 1.3 64.4 + - - +
45X TYR* 3.3 8.1 + - - +
46X HIS* 2.9 38.7 + - + +
156X GLU* 3.4 30.5 - - + +
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Residues in contact with HIS 43 (chain X).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39X ARG 3.1 16.3 + - - +
40X LEU 3.9 2.9 - - - +
42X ALA* 1.3 80.0 - - - +
44X GLU* 1.3 58.2 + - - +
46X HIS* 3.2 10.0 + - + +
47X GLU* 2.8 52.3 + - + +
133X TYR* 3.4 58.4 - + + +
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Residues in contact with GLU 44 (chain X).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25X TYR* 3.2 36.4 - - - +
28X HIS* 3.4 9.5 - - - +
29X SER* 3.4 13.2 - - - +
32X TRP* 3.7 19.8 - - + -
40X LEU 3.0 18.2 + - - +
41X GLY 3.9 2.5 - - - +
43X HIS* 1.3 76.5 - - - +
45X TYR* 1.3 66.7 + - - +
47X GLU* 3.3 12.9 + - - +
48X SER* 3.0 22.2 + - - -
87X LEU* 5.9 0.7 - - - +
90X ASP* 2.3 35.8 - - - +
130X HIS* 4.6 4.0 + - - -
133X TYR* 5.3 4.0 - - - -
134X LEU* 5.5 0.5 - - - +
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Residues in contact with TYR 45 (chain X).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26X PHE* 3.9 24.2 - + - -
29X SER* 3.5 13.3 - - - +
30X ARG* 3.5 30.7 - - - +
41X GLY 3.0 17.2 + - - +
42X ALA* 3.5 6.7 - - - +
44X GLU* 1.3 74.9 - - - +
46X HIS* 1.3 84.0 + + - +
48X SER* 3.1 7.5 + - - -
49X ILE* 3.0 47.7 + - + +
159X HEM 3.3 35.6 + - + +
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Residues in contact with HIS 46 (chain X).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42X ALA* 2.9 29.8 + - + -
43X HIS* 3.2 12.1 + - + +
45X TYR* 1.3 94.1 - + - +
47X GLU* 1.3 61.3 + - - +
49X ILE* 3.4 9.9 + - + +
50X ASP* 2.9 37.2 + - - +
156X GLU* 6.1 0.2 - - - -
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Residues in contact with GLU 47 (chain X).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25X TYR* 4.0 17.3 - - + -
43X HIS* 2.8 44.6 + - + +
44X GLU* 3.3 12.7 + - - +
46X HIS* 1.3 77.7 - - - +
48X SER* 1.3 60.9 + - - +
50X ASP* 3.5 12.4 + - - +
51X GLU* 3.1 27.2 + - - +
130X HIS* 3.4 45.0 + - + +
133X TYR* 4.6 1.7 - - - +
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Residues in contact with SER 48 (chain X).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22X ILE* 2.8 23.8 + - - +
25X TYR* 3.8 19.6 - - - +
26X PHE* 3.6 19.9 - - - +
44X GLU 3.0 13.3 + - - -
45X TYR 3.4 9.6 - - - -
47X GLU* 1.3 76.2 - - - +
49X ILE* 1.3 56.5 + - - +
51X GLU* 3.2 6.6 + - - +
52X MET* 2.9 44.4 + - - +
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Residues in contact with ILE 49 (chain X).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45X TYR* 3.0 49.3 + - + +
46X HIS* 3.6 13.9 - - + +
48X SER* 1.3 74.5 - - - +
50X ASP* 1.3 71.3 + - - +
52X MET* 3.2 18.2 + - + +
53X LYS* 3.1 30.2 + - + +
159X HEM 3.7 57.4 - - + +
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Residues in contact with ASP 50 (chain X).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46X HIS* 2.9 25.9 + - - +
47X GLU* 3.9 14.6 - - - +
48X SER 3.3 0.2 - - - -
49X ILE* 1.3 79.1 - - - +
51X GLU* 1.3 61.1 + - + +
53X LYS* 3.3 25.9 + - - +
54X HIS* 3.2 37.9 + - + +
126X SER* 5.2 4.3 + - - +
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Residues in contact with GLU 51 (chain X).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18X GLU* 2.7 27.7 - - - +
21X ALA* 3.2 19.1 - - + +
22X ILE* 3.5 18.9 - - + +
25X TYR* 3.9 21.8 - - + -
47X GLU* 3.1 17.7 + - - +
48X SER 3.2 6.7 + - - +
50X ASP* 1.3 71.6 - - + +
52X MET* 1.3 66.1 + - - +
54X HIS* 3.2 13.1 + - - +
55X ALA* 2.9 24.8 + - - +
94X GLU* 4.1 1.8 - - - +
126X SER* 5.3 0.2 + - - -
127X GLU* 2.6 35.5 - - - +
130X HIS* 5.9 0.2 - - - -
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Residues in contact with MET 52 (chain X).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22X ILE* 3.6 16.6 - - + +
26X PHE* 4.1 4.7 - - + -
48X SER* 2.9 36.9 + - - +
49X ILE* 3.2 20.6 + - + +
51X GLU* 1.3 76.4 - - - +
53X LYS* 1.3 60.9 + - - +
55X ALA 3.3 0.3 + - - -
56X ASP* 3.0 19.1 + - - +
159X HEM 2.3 116.4 - - + +
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Residues in contact with LYS 53 (chain X).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49X ILE* 3.1 21.0 + - + +
50X ASP* 3.3 25.2 + - - +
52X MET* 1.3 74.6 - - - +
54X HIS* 1.3 68.1 + - + +
56X ASP* 3.4 7.6 + - - +
57X LYS* 3.0 30.9 + - + +
159X HEM 3.4 41.3 + - + +
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Residues in contact with HIS 54 (chain X).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18X GLU* 3.8 14.9 + - - +
50X ASP* 3.2 21.0 + - + +
51X GLU* 3.2 28.4 + - - +
53X LYS* 1.3 77.1 - - + +
55X ALA* 1.3 66.4 + - - +
57X LYS* 3.2 10.8 + - + +
58X LEU* 2.9 30.5 + - - +
122X ASP 5.0 1.0 + - - -
123X ILE* 3.7 31.4 - - + +
126X SER* 3.2 35.4 + - - -
127X GLU* 4.0 6.1 + - - -
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Residues in contact with ALA 55 (chain X).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
15X LEU* 3.8 21.5 - - + +
18X GLU* 4.3 6.4 - - + +
19X LEU* 4.7 2.5 - - + -
22X ILE* 4.1 15.5 - - + -
51X GLU 2.9 17.7 + - - +
52X MET 3.4 5.6 - - - +
54X HIS* 1.3 74.6 - - - +
56X ASP* 1.3 59.3 + - - +
58X LEU* 3.2 7.2 + - - +
59X ILE* 2.8 35.7 + - + +
159X HEM 3.9 14.1 - - + -
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Residues in contact with ASP 56 (chain X).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26W PHE* 3.3 23.4 - - + -
30W ARG* 2.8 39.0 + - - +
52X MET 3.0 13.7 + - - +
53X LYS* 3.6 11.2 - - - +
54X HIS 3.2 0.2 - - - -
55X ALA* 1.3 76.5 - - - +
57X LYS* 1.3 58.8 + - + +
59X ILE* 3.3 3.3 + - - +
60X GLU* 3.0 39.3 + - - +
159X HEM 3.7 14.7 - - + +
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Residues in contact with LYS 57 (chain X).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53X LYS* 3.0 21.7 + - + +
54X HIS* 3.2 12.5 + - + +
56X ASP* 1.3 78.4 - - + +
58X LEU* 1.3 63.1 + - - +
60X GLU* 3.1 28.4 + - - +
61X ARG* 3.1 24.1 + - - +
119X LEU* 3.9 23.7 - - + +
123X ILE* 5.6 1.3 - - + -
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Residues in contact with LEU 58 (chain X).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11X LEU* 4.2 30.5 - - + +
14X ILE* 3.8 13.0 - - + -
15X LEU* 3.7 39.5 - - + +
18X GLU* 3.9 12.8 - - + -
54X HIS 2.9 20.0 + - - +
55X ALA* 3.5 5.6 - - - +
57X LYS* 1.3 76.6 - - - +
59X ILE* 1.3 63.4 + - - +
61X ARG* 3.3 4.3 + - - +
62X ILE* 3.0 30.8 + - + +
119X LEU* 3.8 24.9 - - + -
120X LEU* 4.2 5.2 - - + -
123X ILE* 4.0 10.3 - - + -
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Residues in contact with ILE 59 (chain X).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26W PHE* 3.9 21.5 - - + -
27W LEU* 4.4 6.1 - - + -
30W ARG* 3.9 17.0 - - + -
15X LEU* 3.9 23.6 - - + -
19X LEU* 5.9 0.2 - - + -
55X ALA 2.8 28.2 + - - +
56X ASP* 3.6 4.9 - - - +
58X LEU* 1.3 71.3 - - - +
60X GLU* 1.3 63.0 + - - +
62X ILE* 3.3 4.4 + - - +
63X LEU* 3.0 40.9 + - + +
69X PRO* 3.9 15.9 - - + +
71X LEU* 3.9 32.3 - - + -
159X HEM 4.5 5.2 - - + -
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Residues in contact with GLU 60 (chain X).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30W ARG* 3.9 26.1 + - + +
33W ASN* 5.2 2.9 - - - +
34W ASP* 6.0 0.2 - - - +
56X ASP* 3.0 38.0 + - - +
57X LYS* 3.1 31.4 + - - +
58X LEU 3.3 0.2 - - - -
59X ILE* 1.3 76.7 - - - +
61X ARG* 1.3 63.5 + - - +
63X LEU* 3.3 8.7 + - - +
64X PHE* 3.0 22.0 + - - +
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Residues in contact with ARG 61 (chain X).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
128O GLU* 2.8 32.5 + - - +
11X LEU* 3.9 15.3 - - + -
57X LYS 3.1 17.6 + - - +
58X LEU* 3.6 4.9 - - - +
59X ILE 3.3 0.2 - - - -
60X GLU* 1.3 73.3 - - - +
62X ILE* 1.3 68.0 + - - +
64X PHE* 3.0 30.9 + - - +
65X LEU* 2.9 33.2 + - + +
113X ASP* 2.9 29.9 + - - -
115X VAL* 3.6 21.8 - - - +
116X SER* 2.9 21.7 + - - +
119X LEU* 3.9 20.2 - - + -
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Residues in contact with ILE 62 (chain X).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8X ILE* 4.3 12.1 - - + +
11X LEU* 3.7 41.1 - - + +
12X ASN* 3.6 23.1 - - - +
15X LEU* 4.4 9.9 - - + -
58X LEU* 3.0 25.9 + - + +
59X ILE 3.7 3.4 - - - +
61X ARG* 1.3 74.3 - - - +
63X LEU* 1.3 63.3 + - - +
65X LEU* 3.0 16.7 + - - +
67X GLY* 3.0 45.2 + - - -
68X LEU 3.9 2.9 - - - +
69X PRO* 3.6 17.7 - - + -
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Residues in contact with LEU 63 (chain X).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27W LEU* 4.6 1.3 - - + -
30W ARG* 3.7 40.8 - - + +
31W MET* 4.0 20.2 - - + +
34W ASP* 3.8 34.8 - - + +
59X ILE* 3.0 27.7 + - + +
60X GLU* 3.7 6.3 - - - +
62X ILE* 1.3 79.3 - - - +
64X PHE* 1.3 62.1 + - - +
66X GLU* 3.0 16.1 + - - +
67X GLY 3.8 9.2 - - - +
68X LEU* 6.0 1.6 - - + -
69X PRO* 3.3 28.0 - - + -
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Residues in contact with PHE 64 (chain X).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
128O GLU* 3.5 43.5 - - + -
131O ILE* 4.2 16.2 - - + -
132O ASP* 3.7 38.6 - - + +
135O GLU* 4.4 9.5 - - - +
34W ASP* 4.5 8.0 + - - +
60X GLU 3.0 14.2 + - - +
61X ARG* 3.0 41.3 + - - +
63X LEU* 1.3 78.4 - - - +
65X LEU* 1.3 72.2 + - + +
66X GLU* 3.1 15.4 + - - +
----------------------------------------------------------
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Residues in contact with LEU 65 (chain X).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
128O GLU* 6.1 0.2 - - - -
3X GLY* 3.7 41.3 + - - +
7X VAL* 4.1 7.2 - - + -
8X ILE* 3.8 14.8 - - + +
11X LEU* 4.0 18.8 - - + -
61X ARG* 2.9 32.3 + - - +
62X ILE* 3.0 6.9 + - - +
64X PHE* 1.3 94.9 - - + +
66X GLU* 1.3 70.6 + - - +
67X GLY 3.4 1.0 + - - -
113X ASP* 4.0 9.9 - - - +
116X SER* 4.0 20.2 - - - +
----------------------------------------------------------
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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