Contacts of the helix formed by residues 37 - 65 (chain R) 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 R).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
140P LEU* 4.3 7.0 - - + -
143P LYS* 4.8 10.8 - - + -
144P VAL* 5.3 0.2 - - + -
32R TRP* 2.9 41.4 + - + +
35R TRP* 4.2 21.5 - - + +
36R GLY* 1.3 77.7 - - - +
38R LYS* 1.3 61.6 + - - +
40R LEU* 3.1 10.0 + - + +
41R GLY 3.0 17.8 + - - -
83R THR* 3.9 13.2 - - - +
150R LEU* 3.4 48.5 - - + +
153R HIS* 3.1 15.7 - - + +
154R MET* 4.2 9.6 - - + -
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Residues in contact with LYS 38 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33R ASN* 3.8 19.2 + - - +
36R GLY* 4.1 14.8 - - - +
37R LEU* 1.3 72.0 - - - +
39R ARG* 1.3 58.0 + - - +
41R GLY 3.7 0.2 - - - -
42R ALA* 2.9 29.5 + - - +
154R MET 3.1 20.1 + - - +
155R HIS* 5.2 9.4 - - - +
156R GLU* 3.6 28.3 - - + +
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Residues in contact with ARG 39 (chain R).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38R LYS* 1.3 76.4 - - - +
40R LEU* 1.3 64.3 + - - +
42R ALA* 4.0 2.5 - - + +
43R HIS* 3.2 23.6 + - - +
152R SER 3.4 18.5 + - - -
153R HIS* 3.0 32.0 + - + +
154R MET 4.0 0.6 + - - -
155R HIS* 2.9 27.4 + - - +
156R GLU* 3.4 28.7 + - - +
155T HIS* 3.4 44.6 + - - +
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Residues in contact with LEU 40 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32R TRP* 3.6 51.2 - - + +
37R LEU* 3.1 13.0 + - + +
39R ARG* 1.3 75.6 - - - +
41R GLY* 1.3 67.2 + - - +
43R HIS* 3.4 3.1 + - - +
44R GLU* 2.9 28.4 + - - +
83R THR* 4.1 14.4 - - + +
87R LEU* 4.8 4.9 - - + -
133R TYR* 3.7 21.7 + - - +
149R TYR* 3.9 21.1 - - + +
150R LEU* 4.6 4.9 - - + -
153R HIS* 3.6 30.9 + - + -
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Residues in contact with GLY 41 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29R SER* 2.6 38.4 + - - -
30R ARG* 5.3 0.4 - - - -
32R TRP* 3.6 5.0 - - - +
33R ASN* 3.2 26.0 - - - -
37R LEU 3.0 9.9 + - - -
40R LEU* 1.3 77.7 - - - +
42R ALA* 1.3 55.6 + - - +
45R TYR* 3.0 16.3 + - - +
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Residues in contact with ALA 42 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33R ASN* 4.2 1.0 - - - +
38R LYS 2.9 15.6 + - - +
39R ARG* 4.0 3.8 - - - +
40R LEU 3.3 0.2 - - - -
41R GLY* 1.3 72.3 - - - +
43R HIS* 1.3 66.0 + - - +
45R TYR* 3.3 7.8 + - - +
46R HIS* 3.0 38.4 + - + +
156R GLU* 3.4 29.6 - - + +
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Residues in contact with HIS 43 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39R ARG 3.2 15.1 + - - +
40R LEU* 3.9 3.4 - - - +
42R ALA* 1.3 78.2 - - - +
44R GLU* 1.3 60.8 + - - +
46R HIS* 3.2 7.8 + - - +
47R GLU* 2.9 53.2 + - + +
133R TYR* 3.5 56.2 - + + +
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Residues in contact with GLU 44 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25R TYR* 3.1 38.5 - - - +
28R HIS* 3.4 13.2 + - - +
29R SER* 3.6 15.5 - - - +
32R TRP* 3.5 18.3 - - + -
40R LEU 2.9 18.6 + - - +
43R HIS* 1.3 80.8 - - - +
45R TYR* 1.3 58.2 + - - +
47R GLU* 3.1 15.4 + - - +
48R SER* 2.9 27.4 + - - -
87R LEU* 5.8 0.5 - - - +
90R ASP* 2.5 37.1 - - - +
130R HIS* 4.5 4.7 + - - -
133R TYR* 5.3 4.0 - - - -
134R LEU* 5.4 0.3 - - - +
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Residues in contact with TYR 45 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
159Q HEM 3.6 33.0 + - + +
26R PHE* 3.7 26.9 - + - -
29R SER* 3.5 11.7 - - - +
30R ARG* 3.4 28.7 - - - +
41R GLY 3.0 18.0 + - - +
42R ALA* 3.4 7.9 - - - +
44R GLU* 1.3 76.7 - - - +
46R HIS* 1.3 88.8 + + - +
48R SER* 3.2 8.3 + - - -
49R ILE* 3.0 42.8 + - + +
----------------------------------------------------------
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Residues in contact with HIS 46 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42R ALA* 3.0 34.0 + - + -
43R HIS* 3.2 9.0 + - - +
45R TYR* 1.3 98.1 - + - +
47R GLU* 1.3 62.9 + - - +
49R ILE* 3.7 9.1 - - + +
50R ASP* 2.9 31.7 + - - +
----------------------------------------------------------
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Residues in contact with GLU 47 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25R TYR* 4.0 18.1 - - + -
43R HIS* 2.9 49.8 + - + +
44R GLU* 3.1 13.6 + - - +
46R HIS* 1.3 75.8 - - - +
48R SER* 1.3 62.9 + - - +
50R ASP* 3.2 15.4 + - - +
51R GLU* 3.1 26.9 + - - +
130R HIS* 3.2 45.7 + - + +
133R TYR* 4.3 1.9 - - - +
----------------------------------------------------------
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Residues in contact with SER 48 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22R ILE* 2.9 23.2 + - - +
25R TYR* 3.8 25.4 - - - +
26R PHE* 3.6 21.0 - - - +
44R GLU 2.9 9.9 + - - -
45R TYR 3.4 8.1 - - - -
47R GLU* 1.3 73.6 - - - +
49R ILE* 1.3 59.2 + - - +
51R GLU* 3.2 7.1 + - - +
52R MET* 2.9 46.6 + - - +
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Residues in contact with ILE 49 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
159Q HEM 3.4 68.9 - - + +
45R TYR* 3.0 42.7 + - + +
46R HIS* 3.7 15.0 - - + +
48R SER* 1.3 75.3 - - - +
50R ASP* 1.3 66.8 + - - +
52R MET* 3.0 18.0 + - + +
53R LYS* 3.0 33.4 + - - +
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Residues in contact with ASP 50 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46R HIS* 2.9 25.5 + - - +
47R GLU* 3.2 15.8 + - - +
49R ILE* 1.3 79.3 - - - +
51R GLU* 1.3 61.9 + - + +
53R LYS* 3.3 25.2 + - - +
54R HIS* 3.1 38.1 + - + +
126R SER* 5.3 2.9 - - - +
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Residues in contact with GLU 51 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18R GLU* 2.6 27.7 - - - +
21R ALA* 3.9 8.3 - - + +
22R ILE* 3.7 20.0 - - + +
25R TYR* 3.6 21.7 - - + -
47R GLU* 3.1 16.7 + - - +
48R SER 3.2 6.3 + - - +
50R ASP* 1.3 74.1 - - - +
52R MET* 1.3 65.5 + - - +
54R HIS* 3.0 14.0 + - - +
55R ALA* 2.9 24.8 + - - +
94R GLU* 3.1 12.0 - - - +
127R GLU* 2.5 39.6 - - - +
130R HIS* 4.9 0.9 + - - -
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Residues in contact with MET 52 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
159Q HEM 2.2 111.2 - - + +
22R ILE* 3.6 17.7 - - + +
26R PHE* 4.1 4.9 - - + -
48R SER* 2.9 39.2 + - - +
49R ILE* 3.0 21.0 + - + +
51R GLU* 1.3 76.1 - - - +
53R LYS* 1.3 61.5 + - - +
55R ALA* 3.4 2.4 + - - +
56R ASP* 3.1 21.7 + - - +
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Residues in contact with LYS 53 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
159Q HEM 3.3 48.9 + - + +
49R ILE* 3.0 24.5 + - - +
50R ASP* 3.3 23.7 + - - +
51R GLU 3.2 0.2 - - - -
52R MET* 1.3 76.8 - - - +
54R HIS* 1.3 66.2 + - + +
56R ASP* 3.3 9.8 + - - +
57R LYS* 3.1 27.9 + - + +
----------------------------------------------------------
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Residues in contact with HIS 54 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18R GLU* 3.7 14.4 - - - +
50R ASP* 3.1 19.3 + - + -
51R GLU* 3.0 29.9 + - - +
53R LYS* 1.3 76.5 - - + +
55R ALA* 1.3 64.1 + - - +
57R LYS* 3.2 12.8 + - + +
58R LEU* 3.1 27.9 + - - +
122R ASP 4.7 1.6 + - - -
123R ILE* 3.9 32.4 - - + +
126R SER* 2.8 38.6 + - - -
127R GLU* 3.7 7.4 + - - -
----------------------------------------------------------
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Residues in contact with ALA 55 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
159Q HEM 4.2 8.3 - - + -
15R LEU* 3.9 22.7 - - + -
18R GLU* 4.1 7.1 - - + +
19R LEU* 4.9 2.5 - - + -
22R ILE* 3.9 17.5 - - + -
51R GLU 2.9 16.1 + - - +
52R MET 3.6 5.2 - - - +
54R HIS* 1.3 75.5 - - - +
56R ASP* 1.3 62.9 + - - +
58R LEU* 3.3 6.8 + - - +
59R ILE* 3.0 31.1 + - + +
----------------------------------------------------------
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Residues in contact with ASP 56 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26Q PHE* 3.4 24.9 - - + -
30Q ARG* 2.8 44.6 + - - +
159Q HEM 4.2 10.1 - - + +
52R MET 3.1 14.2 + - - +
53R LYS* 3.5 12.2 - - - +
55R ALA* 1.3 75.7 - - - +
57R LYS* 1.3 64.7 + - + +
59R ILE* 3.2 2.0 + - - +
60R GLU* 2.8 37.4 + - - +
----------------------------------------------------------
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Residues in contact with LYS 57 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53R LYS* 3.1 14.8 + - + +
54R HIS* 3.2 14.3 + - + +
56R ASP* 1.3 78.4 - - + +
58R LEU* 1.3 57.8 + - - +
60R GLU* 3.8 13.3 - - - +
61R ARG* 3.0 27.7 + - - +
119R LEU* 3.7 23.4 - - + +
123R ILE* 5.8 0.9 - - + -
----------------------------------------------------------
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Residues in contact with LEU 58 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11R LEU* 4.0 29.4 - - + +
14R ILE* 3.8 23.6 - - + -
15R LEU* 3.8 31.2 - - + +
18R GLU* 4.1 9.4 - - + -
54R HIS 3.1 15.9 + - - +
55R ALA* 3.7 6.5 - - - +
57R LYS* 1.3 73.2 - - - +
59R ILE* 1.3 66.8 + - - +
61R ARG* 3.2 4.1 + - - +
62R ILE* 2.9 33.1 + - + +
119R LEU* 3.7 23.1 - - + -
120R LEU* 4.3 6.5 - - + -
123R ILE* 4.0 11.9 - - + -
----------------------------------------------------------
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Residues in contact with ILE 59 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26Q PHE* 4.0 26.7 - - + -
27Q LEU* 4.4 6.1 - - + -
30Q ARG* 3.9 21.1 - - + -
159Q HEM 4.6 4.7 - - + -
15R LEU* 3.9 24.0 - - + -
19R LEU* 6.1 0.2 - - + -
55R ALA* 3.0 20.9 + - + +
56R ASP* 3.6 4.3 - - - +
58R LEU* 1.3 76.5 - - - +
60R GLU* 1.3 57.7 + - - +
62R ILE* 3.5 2.1 + - - +
63R LEU* 2.5 50.9 + - + +
69R PRO* 4.0 14.8 - - + -
71R LEU* 4.0 21.8 - - + -
----------------------------------------------------------
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Residues in contact with GLU 60 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30Q ARG* 3.3 31.1 + - + +
33Q ASN* 5.3 4.1 - - + +
56R ASP* 2.8 41.0 + - - +
57R LYS* 3.8 13.0 - - - +
58R LEU 3.1 0.2 - - - -
59R ILE* 1.3 74.9 - - - +
61R ARG* 1.3 59.6 + - - +
63R LEU* 3.4 7.6 + - - +
64R PHE* 3.0 26.5 + - - +
----------------------------------------------------------
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Residues in contact with ARG 61 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11R LEU* 3.9 19.5 - - + -
57R LYS 3.0 19.0 + - - +
58R LEU* 3.7 4.0 - - - +
60R GLU* 1.3 75.6 - - - +
62R ILE* 1.3 66.0 + - - +
64R PHE* 3.1 29.2 + - - +
65R LEU* 2.9 34.4 + - + +
113R ASP* 2.9 31.3 + - - -
115R VAL* 3.3 22.5 - - - +
116R SER* 2.9 17.9 + - - +
119R LEU* 3.6 23.8 - - + -
128V GLU* 2.7 31.9 + - - +
----------------------------------------------------------
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Residues in contact with ILE 62 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8R ILE* 4.6 10.9 - - + +
11R LEU* 3.8 36.8 - - + +
12R ASN* 3.7 26.2 - - - +
15R LEU* 4.3 10.3 - - + -
58R LEU* 2.9 27.2 + - + +
59R ILE 3.7 3.8 - - - +
61R ARG* 1.3 75.6 - - - +
63R LEU* 1.3 64.3 + - - +
65R LEU* 3.1 8.3 + - - +
66R GLU 3.0 5.2 + - - -
67R GLY* 3.0 48.4 + - - -
68R LEU 3.8 2.2 - - - +
69R PRO* 3.6 19.7 - - + -
----------------------------------------------------------
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Residues in contact with LEU 63 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27Q LEU* 4.5 3.1 - - + -
30Q ARG* 4.6 11.7 - - + +
31Q MET* 4.3 17.9 - - + -
34Q ASP* 3.8 42.4 - - + +
59R ILE* 2.5 43.9 + - + +
60R GLU* 3.8 6.5 - - - +
62R ILE* 1.3 76.5 - - - +
64R PHE* 1.3 67.1 + - - +
66R GLU* 3.0 16.5 + - - +
67R GLY 4.1 8.3 - - - +
68R LEU* 6.0 1.8 - - + -
69R PRO* 3.2 35.4 - - + -
----------------------------------------------------------
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Residues in contact with PHE 64 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34Q ASP* 4.7 6.5 + - - +
60R GLU 3.0 14.4 + - - +
61R ARG* 3.1 41.0 + - - +
63R LEU* 1.3 78.9 - - - +
65R LEU* 1.3 72.2 + - + +
66R GLU* 3.2 9.4 + - - +
128V GLU* 3.6 30.1 - - + -
131V ILE* 4.2 15.7 - - + -
132V ASP* 3.6 49.6 - - + +
135V GLU* 4.7 12.2 - - - +
----------------------------------------------------------
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Residues in contact with LEU 65 (chain R).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
2R LYS* 3.7 2.1 - - - +
3R GLY* 2.9 41.9 + - - +
7R VAL* 4.1 8.1 - - + -
8R ILE* 3.6 17.7 - - + +
11R LEU* 4.1 22.7 - - + -
61R ARG* 2.9 32.8 + - - +
62R ILE* 3.7 6.5 - - - +
64R PHE* 1.3 95.2 - - + +
66R GLU* 1.3 69.3 + - - +
67R GLY 3.3 1.4 + - - -
113R ASP* 4.0 19.1 - - - +
116R SER* 4.1 3.6 - - - +
128V GLU* 6.1 0.2 - - - -
----------------------------------------------------------
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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