Contacts of the helix formed by residues 32 - 61 (chain I) in PDB entry 1JI4
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 ASP 32 (chain I).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31F THR* 4.9 12.7 - - - +
28I VAL* 5.6 0.4 - - + -
29I LYS 5.3 1.1 - - - +
30I GLY* 2.8 4.2 + - - +
31I THR* 1.3 80.8 + - - +
33I PHE* 1.3 65.2 + - - +
34I PHE 3.5 1.3 - - - -
35I ASN* 3.0 29.1 + - - +
36I VAL* 3.0 23.4 + - + +
88I SER* 2.5 43.1 + - - +
92I PHE* 4.6 3.5 - - - -
142I HIS* 4.6 7.0 - - - -
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Residues in contact with PHE 33 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137C TRP* 3.8 29.4 - + - -
138C MET* 3.6 43.5 - - + -
141C ALA* 3.5 21.5 - - + -
142C HIS* 4.1 14.4 - - + +
25I HIS 4.8 1.1 - - - -
26I TRP 4.9 1.6 - - - -
28I VAL* 3.5 37.9 - - + +
30I GLY 2.9 16.6 + - - +
31I THR 3.4 0.8 - - - -
32I ASP* 1.3 75.3 - - - +
34I PHE* 1.3 68.0 + + + +
36I VAL* 3.3 4.7 + - - +
37I HIS* 2.8 59.1 + + + +
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Residues in contact with PHE 34 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35C ASN* 4.3 16.2 - - + -
42C GLU* 5.7 5.2 - - - -
138C MET* 6.3 3.1 - - - -
142C HIS* 5.3 3.3 + - - +
31I THR 5.2 0.8 + - - -
32I ASP 3.2 1.4 + - - -
33I PHE* 1.3 87.3 - + + +
35I ASN* 1.3 74.8 + - - +
37I HIS* 3.6 5.9 + + - +
38I LYS* 3.0 50.3 + - + +
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Residues in contact with ASN 35 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35C ASN* 3.6 34.2 + - - +
34F PHE* 4.2 16.8 - - + -
35F ASN* 3.7 21.9 + - - +
31I THR 5.6 1.6 + - - -
32I ASP* 3.0 24.1 + - - +
34I PHE* 1.3 89.8 - - - +
36I VAL* 1.3 58.1 + - + +
38I LYS* 3.3 5.5 + - - +
39I ALA* 2.8 30.4 + - - +
92I PHE* 6.0 0.2 - - - -
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Residues in contact with VAL 36 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28I VAL* 3.3 40.8 - - + -
32I ASP* 3.0 40.8 - - + +
33I PHE 3.8 1.1 - - - +
35I ASN* 1.3 72.4 - - - +
37I HIS* 1.3 53.9 + - - +
39I ALA* 4.2 6.7 - - - -
40I THR* 2.7 49.3 + - + +
88I SER* 4.6 5.2 - - - +
91I ILE* 4.0 14.6 - - + -
92I PHE* 4.2 19.5 - - + -
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Residues in contact with HIS 37 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
134C LYS* 5.7 0.2 - - - -
137C TRP* 3.7 18.9 - + - -
138C MET* 4.9 8.4 - - - -
25I HIS* 2.8 82.6 + + - +
28I VAL* 4.6 1.1 - - + -
33I PHE* 2.8 43.9 + + + +
34I PHE* 3.8 7.0 - + - +
36I VAL* 1.3 79.9 - - - +
38I LYS* 1.3 63.4 + - - +
40I THR* 3.0 7.7 + - - -
41I GLU* 3.5 2.1 + - - +
818I UNX 3.6 16.8 - - - -
56L GLU* 3.3 12.3 + - - -
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Residues in contact with LYS 38 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34I PHE* 3.0 40.9 + - + +
35I ASN* 3.5 5.8 - - - +
37I HIS* 1.3 78.4 - - - +
39I ALA* 1.3 63.8 + - - +
41I GLU* 3.4 31.8 + - - +
42I GLU* 3.4 36.3 + - - +
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Residues in contact with ALA 39 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35I ASN 2.8 20.9 + - - +
36I VAL* 3.4 7.2 + - - +
38I LYS* 1.3 71.5 - - - +
40I THR* 1.3 66.1 + - + +
42I GLU* 3.1 16.3 + - - +
43I ILE* 3.0 32.3 + - + +
92I PHE* 5.3 12.1 - - + -
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Residues in contact with THR 40 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21I VAL* 3.7 17.9 - - + +
24I PHE* 4.0 24.5 - - + -
25I HIS* 3.1 17.0 + - - +
36I VAL* 2.7 35.0 + - + +
37I HIS 3.0 10.6 + - - -
39I ALA* 1.3 75.7 - - + +
41I GLU* 1.3 56.6 + - - +
43I ILE* 3.3 10.3 + - + +
44I TYR* 2.9 33.4 + - - -
91I ILE* 4.7 1.8 - - + -
92I PHE* 5.9 2.5 - - + -
95I ILE* 4.6 16.4 - - + -
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Residues in contact with GLU 41 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25I HIS* 3.8 12.3 - - + -
37I HIS 3.5 9.3 + - - +
38I LYS* 3.4 34.4 + - - +
39I ALA 3.1 0.6 - - - -
40I THR* 1.3 83.0 + - - +
42I GLU* 1.3 63.1 + - + +
44I TYR* 3.4 31.2 + - + +
45I GLU* 2.8 43.6 + - + +
52L ASP* 5.6 0.5 - - - +
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Residues in contact with GLU 42 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34F PHE* 5.8 3.5 - - - -
38I LYS* 3.6 38.7 - - - +
39I ALA* 3.1 14.3 + - - +
41I GLU* 1.3 80.0 - - + +
43I ILE* 1.3 63.4 + - + +
45I GLU* 3.4 9.4 + - - +
46I GLU* 3.2 27.4 + - - +
708I MPD 5.1 1.6 - - - -
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Residues in contact with ILE 43 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21I VAL* 4.1 12.3 - - + -
39I ALA* 3.0 23.7 + - + +
40I THR* 3.5 10.5 - - + +
41I GLU 3.2 0.2 - - - -
42I GLU* 1.3 77.9 - - + +
44I TYR* 1.3 62.2 + - - +
46I GLU* 3.1 6.4 + - - +
47I PHE* 3.1 40.3 + - + -
92I PHE* 5.8 3.6 - - + -
95I ILE* 4.1 27.1 - - + -
99I TYR* 3.3 29.6 - - + +
139I LEU* 6.2 2.9 - - + -
708I MPD 4.1 13.0 - - + +
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Residues in contact with TYR 44 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18I PHE* 3.3 21.3 - + + +
21I VAL* 3.0 24.5 - - + -
22I HIS* 3.5 50.9 - + + -
25I HIS* 3.7 20.1 + + - -
40I THR 2.9 22.6 + - - -
41I GLU* 3.4 40.4 + - + +
43I ILE* 1.3 75.1 - - - +
45I GLU* 1.3 81.6 + - - +
47I PHE* 4.2 5.8 - - - +
48I ALA* 3.0 18.5 + - - +
48L ALA* 6.5 1.1 - - + -
52L ASP* 3.5 23.7 + - - +
817L FE 3.9 0.3 - - - -
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Residues in contact with GLU 45 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18I PHE* 5.8 0.5 - - - -
41I GLU* 2.8 40.1 + - + +
42I GLU* 3.4 10.8 - - - +
43I ILE 3.2 0.2 - - - -
44I TYR* 1.3 90.7 - - + +
46I GLU* 1.3 62.2 + - - +
48I ALA* 3.4 10.0 + - - +
49I ASP* 3.2 27.7 + - - +
45L GLU* 5.5 2.3 - - - +
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Residues in contact with GLU 46 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42I GLU* 3.2 11.3 + - - +
43I ILE 3.1 10.0 + - - +
45I GLU* 1.3 78.3 - - - +
47I PHE* 1.3 59.9 + - - +
49I ASP* 3.1 16.7 + - - +
50I MET* 2.9 28.7 + - - +
131I LYS* 3.7 20.4 + - - +
708I MPD 3.2 52.4 - - + +
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Residues in contact with PHE 47 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14I ALA* 3.8 17.8 - - - +
17I LEU* 3.9 44.2 - - + -
18I PHE* 4.2 7.6 - - - -
21I VAL* 4.2 6.7 - - + -
43I ILE* 3.1 46.3 + - + -
44I TYR* 3.9 8.7 - - - +
45I GLU 3.4 0.2 - - - -
46I GLU* 1.3 74.0 - - + +
48I ALA* 1.3 60.7 + - - +
50I MET* 3.7 23.6 - - + +
51I PHE* 2.8 32.1 + - - +
99I TYR* 3.7 23.8 - + - -
102I LEU* 3.6 24.5 - - + -
708I MPD 4.3 13.2 - - + -
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Residues in contact with ALA 48 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18I PHE* 3.8 22.1 - - + -
44I TYR 3.0 14.9 + - - +
45I GLU* 3.5 15.0 - - - +
47I PHE* 1.3 78.2 - - - +
49I ASP* 1.3 61.0 + - - +
51I PHE* 3.4 10.4 - - - +
52I ASP* 3.2 21.8 + - - +
18L PHE* 4.4 13.7 - - + -
22L HIS* 4.7 3.7 - - + +
44L TYR* 6.5 1.1 - - + -
45L GLU* 6.1 1.1 - - - +
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Residues in contact with ASP 49 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45I GLU* 3.2 14.9 + - - +
46I GLU* 3.1 20.5 + - - +
48I ALA* 1.3 78.2 - - - +
50I MET* 1.3 58.4 + - - +
52I ASP* 3.2 6.8 + - - +
53I ASP* 2.9 40.3 + - - +
----------------------------------------------------------
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Residues in contact with MET 50 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10I LEU* 3.9 6.1 - - + +
14I ALA* 3.4 32.1 - - + +
46I GLU 2.9 15.9 + - - +
47I PHE* 3.7 27.4 - - + +
49I ASP* 1.3 73.3 - - - +
51I PHE* 1.3 60.5 + - - +
53I ASP* 3.8 2.2 - - - +
54I LEU* 2.9 52.3 + - + +
102I LEU* 4.4 17.0 - - + -
106I PHE* 4.1 22.9 - - + -
124I TYR* 3.6 21.3 - - - +
128I GLN* 4.7 10.8 - - - +
708I MPD 5.1 9.0 - - - +
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Residues in contact with PHE 51 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11I GLN* 3.5 37.9 - - + +
14I ALA* 3.8 11.0 - - + +
15I ILE* 3.6 27.4 - - + +
18I PHE* 6.3 0.4 - - + -
47I PHE 2.8 18.4 + - - +
48I ALA* 3.4 7.0 - - - +
50I MET* 1.3 76.4 - - - +
52I ASP* 1.3 60.6 + - - +
54I LEU* 4.0 4.4 - - - +
55I ALA* 3.3 23.4 + - - +
66I LEU* 5.9 1.1 - - + -
18L PHE* 4.3 15.3 - + - -
19L MET* 3.7 26.0 - - + -
22L HIS* 3.8 44.4 - + + -
26L TRP* 3.6 16.6 - + - -
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Residues in contact with ASP 52 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48I ALA 3.2 11.1 + - - +
49I ASP* 3.6 9.0 - - - +
50I MET 3.2 0.2 - - - -
51I PHE* 1.3 78.0 - - - +
53I ASP* 1.3 65.9 + - - +
55I ALA* 3.5 1.4 + - - +
56I GLU* 3.0 35.4 + - - +
823I FE 2.1 31.5 - - - -
22L HIS* 3.6 10.5 + - + -
25L HIS* 3.3 6.9 - - - -
26L TRP* 2.7 33.1 + - - +
41L GLU* 5.5 0.3 - - - +
44L TYR* 3.5 14.0 + - - +
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Residues in contact with ASP 53 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
134D LYS* 5.4 4.2 + - - -
49I ASP* 2.9 29.4 + - - +
50I MET* 3.3 0.9 + - - -
52I ASP* 1.3 75.8 - - - +
54I LEU* 1.3 61.3 + - - +
56I GLU* 3.3 11.1 + - - +
57I ARG* 2.9 31.1 + - - +
124I TYR* 3.7 32.3 + - + +
128I GLN* 5.7 0.7 + - - -
----------------------------------------------------------
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Residues in contact with LEU 54 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7I LEU* 3.9 26.3 - - + +
10I LEU* 3.5 48.5 - - + +
11I GLN* 3.5 14.8 - - + +
14I ALA* 4.4 1.6 - - + -
50I MET* 2.9 39.2 + - + +
51I PHE 4.0 3.1 - - - +
53I ASP* 1.3 76.1 - - - +
55I ALA* 1.3 64.4 + - - +
57I ARG* 3.2 8.2 + - + +
58I ILE* 3.0 27.4 + - - +
106I PHE* 4.6 3.8 - - + -
124I TYR* 3.8 28.0 - - + +
----------------------------------------------------------
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Residues in contact with ALA 55 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11I GLN* 3.7 10.7 - - - +
51I PHE 3.3 8.9 + - - +
52I ASP 3.8 0.2 - - - +
54I LEU* 1.3 80.2 - - - +
56I GLU* 1.3 61.5 + - - +
58I ILE* 3.3 8.6 + - - +
59I VAL* 3.2 26.7 + - - +
65I PRO* 3.8 11.0 - - + +
26L TRP* 3.2 49.1 - - + +
----------------------------------------------------------
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Residues in contact with GLU 56 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
134D LYS* 4.0 13.7 + - - -
137D TRP* 3.9 22.2 - - + -
52I ASP* 3.0 20.3 + - - +
53I ASP* 3.9 11.0 - - - +
55I ALA* 1.3 73.2 - - - +
57I ARG* 1.3 63.1 + - - +
59I VAL* 3.2 9.7 - - - +
60I GLN* 3.0 36.7 + - - +
823I FE 2.1 32.2 - - - -
25L HIS* 3.1 10.6 + - - -
26L TRP* 3.5 14.5 - - + -
37L HIS* 3.3 11.4 + - - -
824L UNX 3.7 9.4 - - - -
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Residues in contact with ARG 57 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
133D GLN* 2.9 30.7 + - - +
7I LEU* 4.2 11.7 - - + -
53I ASP 2.9 17.6 + - - +
54I LEU* 3.2 7.6 + - + +
56I GLU* 1.3 77.5 - - - +
58I ILE* 1.3 58.4 + - - +
60I GLN* 2.8 46.6 + - - +
61I LEU* 2.9 53.1 + - + +
118I ASP* 2.9 26.7 + - - -
120I VAL* 3.1 22.2 - - - +
121I THR* 2.9 23.3 + - + +
124I TYR* 5.8 10.5 - - + -
----------------------------------------------------------
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Residues in contact with ILE 58 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
4I PHE* 4.4 5.2 - - + +
7I LEU* 3.5 23.3 - - + +
8I LYS* 3.7 36.3 - - + +
11I GLN* 3.7 19.3 - - - +
54I LEU 3.0 21.5 + - - +
55I ALA* 3.4 7.0 - - - +
57I ARG* 1.3 77.6 - - - +
59I VAL* 1.3 60.1 + - - +
61I LEU* 3.2 14.4 + - - +
62I GLY 3.3 0.3 + - - -
63I HIS* 2.9 36.8 + - + -
64I HIS 3.6 30.3 - - - +
65I PRO* 3.7 4.3 - - + -
----------------------------------------------------------
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Residues in contact with VAL 59 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137D TRP* 3.5 44.2 - - + +
55I ALA 3.2 13.7 + - - +
56I GLU* 3.2 13.7 - - - +
58I ILE* 1.3 72.4 - - - +
60I GLN* 1.3 65.5 + - - +
62I GLY* 2.9 19.2 + - - -
63I HIS 3.5 9.0 - - - +
65I PRO* 3.6 26.9 - - + -
26L TRP* 4.4 9.0 - - + +
27L ASN* 4.0 15.9 - - - +
----------------------------------------------------------
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Residues in contact with GLN 60 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
130D ALA 5.0 2.4 + - - -
133D GLN* 4.1 8.6 - - + +
134D LYS* 3.8 39.1 - - - +
137D TRP* 3.8 35.4 - - + -
56I GLU* 3.0 34.5 + - - +
57I ARG* 2.8 41.2 + - - +
59I VAL* 1.3 77.9 - - - +
61I LEU* 1.3 63.0 + - - +
62I GLY* 3.1 1.8 + - - -
120I VAL* 5.2 1.2 - - - +
----------------------------------------------------------
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Residues in contact with LEU 61 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
133D GLN* 5.3 0.4 - - - +
3I THR* 4.3 7.2 - - + -
4I PHE* 5.0 5.2 - - + +
7I LEU* 3.6 29.8 - - + -
57I ARG* 2.9 54.4 + - - +
58I ILE* 3.4 9.2 - - - +
59I VAL 3.1 0.2 - - - -
60I GLN* 1.3 78.8 - - - +
62I GLY* 1.3 59.9 + - - +
63I HIS* 3.4 20.5 + - + -
118I ASP* 3.8 17.5 - - - +
----------------------------------------------------------
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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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