Contacts of the helix formed by residues 4 - 40 (chain I) in PDB entry 1NF4
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 4 (chain I).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3I GLY* 1.3 74.6 - - - -
5I ARG* 1.3 66.1 + - - +
6I GLU* 3.2 11.4 + - - +
7I ASP* 2.8 38.7 + - - +
8I ARG* 2.9 13.6 + - - +
1802I SO4 3.5 26.8 + - - +
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Residues in contact with ARG 5 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
4I ASN* 1.3 74.6 - - - +
6I GLU* 1.3 62.6 + - - +
8I ARG* 3.2 33.0 + - - +
9I LYS* 3.1 52.3 + - - +
1802I SO4 3.5 30.3 + - - +
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Residues in contact with GLU 6 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
4I ASN* 3.2 11.5 + - - +
5I ARG* 1.3 79.3 - - - +
7I ASP* 1.3 57.5 + - - +
9I LYS* 3.3 11.7 + - - +
10I ALA* 2.9 29.4 + - - +
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Residues in contact with ASP 7 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3I GLY* 4.4 6.0 - - - -
4I ASN* 2.8 33.4 + - - +
6I GLU* 1.3 72.4 - - - +
8I ARG* 1.3 65.9 + - - +
10I ALA* 4.2 7.9 - - - +
11I LYS* 2.4 68.8 + - - +
116I GLN* 4.4 0.9 - - - -
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Residues in contact with ARG 8 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3I GLY 3.7 26.2 + - - +
4I ASN 2.9 10.2 + - - +
5I ARG* 3.2 42.0 + - - +
7I ASP* 1.3 78.9 - - - +
9I LYS* 1.3 60.8 + - + +
12I VAL* 3.3 30.0 + - - +
116I GLN* 2.8 46.1 + - - +
117I GLY* 3.4 27.1 + - - -
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Residues in contact with LYS 9 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
5I ARG* 3.1 46.1 + - - +
6I GLU* 3.7 10.5 - - - +
8I ARG* 1.3 76.5 - - + +
10I ALA* 1.3 54.8 + - - +
12I VAL* 3.7 4.4 - - - +
13I ILE* 2.7 42.9 + - + +
69I GLU 5.2 2.9 - - - -
70I LEU* 3.6 51.8 - - + +
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Residues in contact with ALA 10 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
6I GLU 2.9 18.2 + - - +
7I ASP* 3.8 13.5 - - - +
8I ARG 3.4 0.2 - - - -
9I LYS* 1.3 77.1 - - - +
11I LYS* 1.3 59.1 + - + +
13I ILE* 3.3 10.7 + - - +
14I GLU* 3.0 26.7 + - - +
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Residues in contact with LYS 11 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3I GLY* 5.1 6.5 - - - +
7I ASP* 2.4 47.6 + - - +
10I ALA* 1.3 72.7 - - + +
12I VAL* 1.3 67.0 + - - +
14I GLU* 3.3 23.9 + - - +
15I VAL* 3.4 16.6 + - - +
112I VAL* 4.3 7.7 - - + +
116I GLN* 3.6 38.1 + - + +
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Residues in contact with VAL 12 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8I ARG 3.3 19.8 + - - +
9I LYS* 3.8 3.4 - - - +
11I LYS* 1.3 73.8 - - - +
13I ILE* 1.3 67.0 + - - +
14I GLU 3.1 0.3 + - - -
15I VAL* 3.2 8.9 + - + +
16I LEU* 3.0 22.2 + - + +
70I LEU* 3.7 13.0 - - + -
112I VAL* 4.9 1.1 - - + -
113I CYS* 4.1 14.8 - - - +
116I GLN* 3.7 22.7 - - + -
118I ASP* 3.4 34.8 - - + +
121I THR* 3.6 24.2 - - + -
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Residues in contact with ILE 13 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9I LYS* 2.7 33.1 + - + +
10I ALA* 3.7 9.0 - - - +
11I LYS 3.3 0.4 - - - -
12I VAL* 1.3 72.5 - - - +
14I GLU* 1.3 58.0 + - - +
16I LEU* 3.5 8.2 + - - +
17I ASN* 3.0 43.2 + - - +
67I ILE* 4.2 15.9 - - + +
70I LEU* 3.6 32.3 - - + +
71I GLY 4.1 1.1 - - - -
72I GLY* 3.4 34.8 - - - +
73I GLU 4.9 0.9 - - - +
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Residues in contact with GLU 14 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10I ALA 3.0 12.6 + - - +
11I LYS* 3.4 20.2 - - - +
12I VAL 3.1 0.4 - - - -
13I ILE* 1.3 78.9 - - - +
15I VAL* 1.3 66.5 + - + +
17I ASN* 3.4 4.4 + - - +
18I LYS* 3.1 47.8 + - + +
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Residues in contact with VAL 15 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11I LYS 3.4 10.3 + - - +
12I VAL* 3.2 17.9 + - - +
14I GLU* 1.3 79.3 - - + +
16I LEU* 1.3 59.1 + - - +
18I LYS* 3.6 18.2 - - + +
19I ALA* 2.9 30.3 + - - +
109I PHE* 3.6 53.9 - - + +
112I VAL* 4.1 23.6 - - + -
113I CYS* 4.5 3.6 - - - -
125I PHE* 4.3 9.2 - - + -
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Residues in contact with LEU 16 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12I VAL* 3.0 19.7 + - + +
13I ILE* 3.8 2.2 - - - +
15I VAL* 1.3 76.7 - - - +
17I ASN* 1.3 58.4 + - - +
19I ALA* 3.5 1.6 + - - +
20I ARG* 2.8 30.5 + - - +
63I PHE* 3.5 37.0 - - + +
66I ARG* 3.8 13.5 - - + -
67I ILE* 3.6 28.0 - - + +
70I LEU* 3.8 28.5 - - + -
121I THR* 3.7 24.5 - - + -
124I LEU* 4.3 7.9 - - + -
125I PHE* 3.9 11.7 - - + -
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Residues in contact with ASN 17 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13I ILE* 3.0 32.2 + - - +
14I GLU* 4.0 4.3 - - - +
15I VAL 3.3 0.2 - - - -
16I LEU* 1.3 76.9 - - - +
18I LYS* 1.3 58.7 + - - +
20I ARG* 4.1 1.6 - - - -
21I ALA* 2.9 28.8 + - - +
67I ILE* 3.2 15.5 - - - +
73I GLU 3.0 22.4 + - - -
75I THR* 2.6 42.7 + - + +
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Residues in contact with LYS 18 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14I GLU* 3.1 40.6 + - + +
15I VAL* 3.6 20.9 - - - +
17I ASN* 1.3 72.9 - - - +
19I ALA* 1.3 66.5 + - - +
21I ALA* 3.2 6.9 + - - +
22I MET* 3.2 28.4 + - - +
79I GLU* 5.1 1.0 - - - +
109I PHE* 3.8 29.6 - - + -
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Residues in contact with ALA 19 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
15I VAL 2.9 17.3 + - - +
16I LEU 3.7 3.4 - - - +
18I LYS* 1.3 74.2 - - - +
20I ARG* 1.3 65.9 + - - +
22I MET* 3.0 15.8 + - - +
23I GLU* 3.0 10.6 + - - +
63I PHE* 3.8 10.5 - - + -
106I TYR* 3.3 27.3 + - + -
109I PHE* 3.9 6.0 - - + -
125I PHE* 3.6 28.3 - - + -
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Residues in contact with ARG 20 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16I LEU 2.8 22.1 + - - +
17I ASN* 3.9 13.0 - - - +
18I LYS 3.3 0.2 - - - -
19I ALA* 1.3 73.1 - - - +
21I ALA* 1.3 64.0 + - - +
23I GLU* 3.1 4.7 + - - +
24I LEU* 3.0 31.2 + - + +
60I ALA* 2.9 36.9 + - + +
63I PHE* 3.9 15.6 - - + -
64I ALA* 3.6 15.2 - - - +
67I ILE* 4.2 4.7 - - - -
74I PRO* 3.6 20.3 + - - +
75I THR* 2.8 30.4 + - + -
76I THR* 4.7 4.9 - - - +
1805I FEC 2.7 43.8 + - - -
35J TYR* 4.1 6.9 - - - -
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Residues in contact with ALA 21 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17I ASN 2.9 18.2 + - - +
18I LYS* 3.6 7.6 - - - +
19I ALA 3.2 0.4 - - - -
20I ARG* 1.3 76.5 - - - +
22I MET* 1.3 61.6 + - - +
24I LEU* 3.4 2.3 + - - -
25I HIS 3.1 13.2 + - - -
75I THR* 4.1 6.0 - - + +
77I GLN 3.1 24.9 - - - +
78I LYS* 3.5 1.8 - - - -
79I GLU* 3.0 35.9 + - + +
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Residues in contact with MET 22 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18I LYS* 3.2 15.8 + - - +
19I ALA 3.0 7.7 + - - +
21I ALA* 1.3 75.4 - - - +
23I GLU* 1.3 63.5 + - - +
25I HIS* 3.5 7.0 + - - +
26I ALA* 3.1 22.2 + - - +
79I GLU* 4.3 20.9 - - + -
98I GLN* 5.4 0.5 + - - -
101I ALA* 4.6 2.0 - - + +
102I THR* 3.8 28.7 - - - +
105I ALA* 3.8 24.2 - - + -
106I TYR* 4.0 21.3 - - + +
109I PHE* 4.1 15.9 - - - -
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Residues in contact with GLU 23 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19I ALA 3.0 17.0 + - - +
20I ARG 3.1 5.4 + - - +
22I MET* 1.3 76.3 - - - +
24I LEU* 1.3 65.4 + - - +
26I ALA* 3.0 4.9 + - - +
27I ILE* 2.8 29.8 + - - +
56I GLU* 2.8 32.4 - - - +
59I HIS* 3.3 16.2 + - + +
60I ALA* 4.0 9.4 - - + +
63I PHE* 3.7 17.9 - - + -
102I THR* 5.0 0.2 - - - +
106I TYR* 2.5 24.5 + - - +
132I GLU* 3.1 4.2 - - - +
200I FE2 2.2 31.6 - - - -
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Residues in contact with LEU 24 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
20I ARG* 3.0 23.7 + - + +
21I ALA* 3.6 8.1 - - - +
23I GLU* 1.3 76.8 - - - +
25I HIS* 1.3 58.7 + - - +
27I ILE* 3.7 9.3 + - + +
28I HIS* 2.7 35.6 + - - +
60I ALA* 4.4 6.3 - - + -
75I THR* 3.9 13.7 - - + +
76I THR* 3.7 32.3 - - - +
77I GLN 3.9 10.1 - - - +
78I LYS* 3.9 11.4 - - + -
1805I FEC 3.9 35.7 - - + -
28J HIS* 4.0 17.0 - - + +
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Residues in contact with HIS 25 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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21I ALA 3.1 11.2 + - - +
22I MET* 3.6 11.0 + - - +
23I GLU 3.1 0.4 - - - -
24I LEU* 1.3 75.2 - - - +
26I ALA* 1.3 60.1 + - - +
28I HIS* 3.3 2.3 + - - +
29I GLN* 2.8 35.8 + - + +
78I LYS* 3.7 10.7 - - + +
79I GLU 3.0 31.1 + - - +
80I GLY* 4.0 4.3 - - - -
81I LYS 2.9 36.9 + - - -
82I VAL* 4.0 11.2 + - + -
98I GLN* 3.5 32.2 + - + -
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Residues in contact with ALA 26 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22I MET 3.1 14.5 + - - +
23I GLU* 3.0 9.7 + - - +
25I HIS* 1.3 72.1 - - - +
27I ILE* 1.3 59.8 + - - +
29I GLN* 4.3 1.1 - - - -
30I TYR* 2.7 47.9 + - + +
56I GLU* 3.9 23.3 - - + +
98I GLN* 3.8 24.5 - - - +
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Residues in contact with ILE 27 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23I GLU 2.8 24.8 + - - +
24I LEU* 3.8 17.0 - - + +
26I ALA* 1.3 73.1 - - - +
28I HIS* 1.3 57.8 + - - +
30I TYR* 4.1 0.5 - - - +
31I MET* 2.9 35.3 + - - +
53I ALA* 3.9 8.5 - - - +
56I GLU* 3.8 9.6 - - + +
57I MET* 3.7 61.5 - - + +
60I ALA* 4.3 2.0 - - + -
1805I FEC 3.9 49.6 - - + -
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Residues in contact with HIS 28 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24I LEU* 2.7 27.6 + - + +
25I HIS 3.3 2.7 + - - +
26I ALA 3.3 0.4 - - - -
27I ILE* 1.3 73.3 - - - +
29I GLN* 1.3 66.8 + - - +
32I ASN* 3.0 24.6 + - - +
78I LYS* 3.9 20.7 + - + +
82I VAL* 3.8 20.6 - - + +
1805I FEC 3.0 47.6 - - + +
24J LEU* 4.0 18.9 - - + +
28J HIS* 3.7 32.4 - + - -
76J THR* 4.1 23.4 + - + +
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Residues in contact with GLN 29 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25I HIS* 2.8 36.4 + - + +
26I ALA* 3.8 5.8 - - - +
28I HIS* 1.3 74.1 - - - +
30I TYR* 1.3 69.3 + - + +
32I ASN* 3.3 2.1 + - - +
33I GLN* 3.2 30.1 + - - +
81I LYS 4.2 0.7 - - - +
82I VAL* 3.7 13.1 - - + +
83I VAL* 2.9 52.1 + - - +
86I GLN* 3.4 17.1 + - - -
95I ASP* 4.5 1.8 - - - +
98I GLN* 3.8 18.1 - - - +
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Residues in contact with TYR 30 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26I ALA* 2.7 26.1 + - + +
29I GLN* 1.3 76.8 - - + +
31I MET* 1.3 57.1 + - - +
33I GLN* 3.3 18.0 + - - +
34I HIS* 2.9 22.4 + - - -
49I MET* 3.1 21.1 - - + +
52I ILE* 3.7 12.3 - - + -
53I ALA* 4.0 15.9 - - + -
56I GLU* 3.3 31.4 + - + -
95I ASP* 3.5 29.9 + - + -
98I GLN* 3.5 28.7 + - - +
99I GLU* 2.6 32.1 + - - +
139I TYR* 3.4 20.1 - + - -
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Residues in contact with MET 31 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27I ILE 2.9 23.3 + - - +
30I TYR* 1.3 76.1 - - - +
32I ASN* 1.3 65.1 + - - +
34I HIS* 3.2 26.0 + - + +
35I TYR* 2.9 43.9 + - + +
50I LYS* 4.1 23.6 - - + -
53I ALA* 3.8 22.7 - - + -
57I MET* 4.5 7.6 - - + -
1805I FEC 3.3 60.1 - - + +
61J GLU* 4.4 7.0 - - - +
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Residues in contact with ASN 32 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28I HIS 3.0 19.4 + - - +
29I GLN* 3.5 6.7 - - - +
30I TYR 3.3 0.2 - - - -
31I MET* 1.3 76.4 - - - +
33I GLN* 1.3 67.8 + - - +
35I TYR* 3.1 21.8 + - - +
36I SER* 3.2 20.6 + - - -
82I VAL* 4.3 8.7 - - + -
83I VAL 3.8 5.7 + - - -
84I THR* 3.5 31.7 - - - +
85I GLY 4.4 4.0 - - - +
86I GLN* 5.0 1.8 + - - +
1805I FEC 5.0 0.4 + - - -
20J ARG* 6.2 0.7 - - - +
73J GLU* 2.8 23.9 + - - +
74J PRO* 4.1 14.7 - - - +
76J THR* 4.6 5.5 - - + +
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Residues in contact with GLN 33 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29I GLN* 3.2 19.8 + - - +
30I TYR* 3.6 10.7 - - - +
31I MET 3.2 0.4 - - - -
32I ASN* 1.3 75.6 - - - +
34I HIS* 1.3 61.0 + - - +
36I SER* 3.1 9.4 + - - -
37I LEU* 2.9 34.3 + - - +
49I MET* 3.4 22.0 - - + +
86I GLN* 3.0 32.7 + - - +
91I ILE* 3.7 24.5 - - + +
95I ASP* 2.5 44.0 + - - +
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Residues in contact with HIS 34 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30I TYR 2.9 14.9 + - - +
31I MET* 3.4 27.1 - - + +
33I GLN* 1.3 77.9 - - - +
35I TYR* 1.3 83.0 + + - +
37I LEU* 3.8 4.1 - - - +
38I ASP* 2.9 47.6 + - - +
46I ALA* 2.8 30.9 + - + -
47I ALA* 4.8 1.3 - - - -
49I MET* 3.8 17.6 - - + +
50I LYS* 3.6 30.7 - - + +
162I SER 5.5 3.1 - - - -
164I THR* 5.7 0.2 - - + -
1801I SO4 5.1 4.0 + - - -
61J GLU* 4.3 6.5 + - - -
65J GLU* 4.9 4.0 + - - -
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Residues in contact with TYR 35 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31I MET* 2.9 46.4 + - + +
32I ASN* 3.1 12.1 + - - +
34I HIS* 1.3 97.0 - + - +
36I SER* 1.3 57.5 + - - +
38I ASP* 3.9 5.3 - - + +
39I ASP* 3.0 27.9 + - - +
1805I FEC 3.1 39.1 + - - +
20J ARG* 3.8 6.4 + - - -
61J GLU* 3.5 22.7 - - + -
64J ALA* 3.6 29.8 - - + -
65J GLU* 4.6 12.8 - - + -
68J LYS* 3.7 24.2 - - + +
74J PRO* 4.2 11.0 - - + -
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Residues in contact with SER 36 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32I ASN* 3.2 17.2 + - - -
33I GLN* 3.1 12.6 + - - -
35I TYR* 1.3 76.4 - - - +
37I LEU* 1.3 59.5 + - - +
39I ASP* 3.2 3.6 + - - +
40I MET* 2.8 47.2 + - - +
85I GLY* 5.5 6.1 + - - -
86I GLN 5.4 4.4 + - - -
91I ILE* 5.0 5.2 - - - -
68J LYS* 3.4 24.4 + - - +
73J GLU* 5.3 1.4 + - - -
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Residues in contact with LEU 37 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33I GLN 2.9 21.6 + - - +
34I HIS 3.8 0.9 - - - +
36I SER* 1.3 75.4 - - - +
38I ASP* 1.3 56.5 + - - +
40I MET* 3.4 22.4 + - + +
41I ASP 3.0 6.8 + - - -
42I TYR* 2.9 35.5 + - + +
45I LEU* 4.1 25.4 - - + +
46I ALA* 3.8 18.2 - - + +
49I MET* 3.9 23.3 - - + -
88I VAL* 4.3 14.4 - - + -
91I ILE* 4.4 10.8 - - + -
92I TYR* 3.4 29.2 - - + +
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Residues in contact with ASP 38 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34I HIS* 2.9 35.2 + - + +
35I TYR* 3.9 6.5 - - + +
37I LEU* 1.3 72.5 - - - +
39I ASP* 1.3 62.1 + - - +
41I ASP* 2.9 24.2 + - - +
42I TYR 4.9 0.4 - - - +
43I GLY* 5.3 1.4 - - - -
46I ALA* 3.6 13.7 - - + +
162I SER* 3.7 26.9 + - - -
1801I SO4 5.7 1.0 + - - -
65J GLU* 4.4 14.4 - - + +
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Residues in contact with ASP 39 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35I TYR 3.0 19.5 + - - +
36I SER* 3.3 5.2 - - - +
38I ASP* 1.3 78.5 - - - +
40I MET* 1.3 62.3 + - - +
41I ASP* 3.3 3.1 + - - +
68J LYS* 3.7 47.0 + - + +
69J GLU* 5.0 2.4 - - - +
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Residues in contact with MET 40 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36I SER* 2.8 43.4 + - - +
37I LEU* 3.6 14.6 - - + +
39I ASP* 1.3 75.3 - - + +
41I ASP* 1.3 68.8 + - - +
42I TYR* 3.5 32.1 - - + -
86I GLN 5.1 3.1 - - - +
87I ALA* 6.0 0.4 - - - -
88I VAL* 3.6 35.4 - - + +
91I ILE* 4.7 6.5 - - + -
158I ALA* 6.1 0.3 - - - +
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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
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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) + - + + + + + -
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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