Contacts of the helix formed by residues 4 - 40 (chain L) in PDB entry 1NF6
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 L).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3L GLY* 1.3 78.1 - - - +
5L ARG* 1.3 67.9 + - - +
6L GLU* 3.6 10.2 + - - +
7L ASP* 2.9 32.1 + - - +
8L ARG* 3.3 19.1 + - - -
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Residues in contact with ARG 5 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
4L ASN* 1.3 77.5 - - - +
6L GLU* 1.3 62.1 + - - +
8L ARG* 3.3 38.2 + - - +
9L LYS* 3.2 49.1 + - - +
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Residues in contact with GLU 6 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
4L ASN* 3.3 11.1 + - - +
5L ARG* 1.3 78.0 - - - +
7L ASP* 1.3 64.6 + - - +
9L LYS* 3.4 12.2 + - - +
10L ALA* 3.2 22.9 + - - +
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Residues in contact with ASP 7 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3L GLY* 4.3 10.1 - - - +
4L ASN* 2.9 29.4 + - - +
5L ARG 3.4 0.2 - - - -
6L GLU* 1.3 76.5 - - - +
8L ARG* 1.3 58.0 + - - +
10L ALA* 3.4 6.3 + - - +
11L LYS* 3.0 44.9 + - + +
116L GLN* 4.5 0.4 - - - -
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Residues in contact with ARG 8 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3L GLY 3.6 19.9 + - - +
4L ASN 3.3 14.9 + - - +
5L ARG* 3.4 40.4 - - - +
6L GLU 3.2 0.4 - - - -
7L ASP* 1.3 75.5 - - - +
9L LYS* 1.3 65.1 + - + +
11L LYS* 3.5 2.3 + - - +
12L VAL* 3.1 28.8 + - - +
115L GLU 5.9 0.2 - - - -
116L GLN* 2.7 55.2 + - - +
117L GLY* 3.6 19.2 + - - -
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Residues in contact with LYS 9 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
5L ARG* 3.2 42.4 + - - +
6L GLU* 3.4 12.5 + - - +
8L ARG* 1.3 78.1 - - - +
10L ALA* 1.3 51.2 + - - +
12L VAL* 3.0 8.3 + - - +
13L ILE* 2.7 40.2 + - + +
69L GLU 5.2 3.4 - - - -
70L LEU* 3.8 49.4 - - + +
118L ASP* 5.7 0.7 - - - -
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Residues in contact with ALA 10 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
6L GLU 3.2 13.7 + - - +
7L ASP* 3.8 6.7 - - - +
9L LYS* 1.3 75.4 - - - +
11L LYS* 1.3 65.8 + - + +
13L ILE* 3.9 13.7 - - + +
14L GLU* 3.1 22.9 + - - +
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Residues in contact with LYS 11 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3L GLY* 5.1 9.9 - - - +
7L ASP* 3.0 30.2 + - - +
10L ALA* 1.3 77.4 - - + +
12L VAL* 1.3 61.8 + - - +
14L GLU* 3.7 13.8 - - - +
15L VAL* 3.6 22.9 + - - +
112L VAL* 4.1 10.3 - - + +
116L GLN* 3.4 40.2 + - + +
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Residues in contact with VAL 12 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8L ARG 3.1 15.8 + - - +
9L LYS* 3.0 9.0 + - - +
11L LYS* 1.3 77.2 - - - +
13L ILE* 1.3 65.3 + - - +
15L VAL* 3.2 8.0 - - - +
16L LEU* 2.9 21.7 + - + +
70L LEU* 3.5 13.9 - - + -
112L VAL* 5.2 0.2 - - - -
113L CYS* 4.1 13.5 - - - +
116L GLN* 3.7 24.0 - - + -
118L ASP* 3.4 32.8 - - + +
121L THR* 3.6 24.7 - - + -
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Residues in contact with ILE 13 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9L LYS* 2.7 27.8 + - + +
10L ALA* 3.9 10.8 - - + +
11L LYS 3.4 0.2 - - - -
12L VAL* 1.3 72.7 - - - +
14L GLU* 1.3 58.9 + - - +
16L LEU* 3.4 8.2 + - - +
17L ASN* 2.8 47.3 + - - +
67L ILE* 4.3 9.6 - - + +
70L LEU* 3.5 31.2 - - + +
71L GLY 4.2 1.1 - - - -
72L GLY* 3.5 37.2 - - - +
73L GLU 4.9 0.7 - - - +
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Residues in contact with GLU 14 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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10L ALA 3.1 16.4 + - - +
11L LYS* 3.7 15.6 - - - +
12L VAL 3.2 0.2 - - - -
13L ILE* 1.3 79.0 - - - +
15L VAL* 1.3 67.7 + - - +
17L ASN* 3.4 6.4 + - - +
18L LYS* 3.1 49.8 + - + +
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Residues in contact with VAL 15 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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11L LYS 3.6 12.1 + - - +
12L VAL* 3.2 16.1 + - - +
14L GLU* 1.3 80.5 - - + +
16L LEU* 1.3 63.7 + - - +
18L LYS* 3.2 13.8 + - + +
19L ALA* 2.8 30.3 + - - +
109L PHE* 3.5 50.7 - - + +
112L VAL* 4.3 22.7 - - + -
113L CYS* 4.6 4.5 - - - -
125L PHE* 4.3 9.0 - - + -
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Residues in contact with LEU 16 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12L VAL* 2.9 25.3 + - + +
13L ILE* 3.5 1.6 - - - +
15L VAL* 1.3 78.7 - - - +
17L ASN* 1.3 57.0 + - - +
19L ALA* 3.3 1.9 + - - +
20L ARG* 2.7 30.1 + - - +
63L PHE* 3.5 38.9 - - + +
66L ARG* 3.8 14.1 - - + -
67L ILE* 3.5 27.6 - - + +
70L LEU* 3.7 27.6 - - + -
121L THR* 3.8 19.3 - - + -
124L LEU* 4.2 6.5 - - + -
125L PHE* 4.0 11.7 - - + -
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Residues in contact with ASN 17 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13L ILE* 2.8 34.6 + - - +
14L GLU* 3.8 5.6 - - - +
15L VAL 3.2 0.4 - - - -
16L LEU* 1.3 73.9 - - - +
18L LYS* 1.3 58.4 + - - +
20L ARG* 3.4 3.9 + - - +
21L ALA* 2.9 27.4 + - - +
67L ILE* 3.2 17.0 - - - +
73L GLU 2.9 21.8 + - - -
75L THR* 2.5 41.8 + - - +
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Residues in contact with LYS 18 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14L GLU* 3.1 46.4 + - + +
15L VAL* 3.2 12.2 + - + +
17L ASN* 1.3 75.0 - - + +
19L ALA* 1.3 66.2 + - - +
21L ALA* 3.1 8.0 + - - +
22L MET* 3.1 28.2 + - - +
79L GLU* 5.0 0.9 - - - +
109L PHE* 3.9 29.4 - - + -
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Residues in contact with ALA 19 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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15L VAL 2.8 17.3 + - - +
16L LEU 3.7 3.1 - - - +
18L LYS* 1.3 75.6 - - - +
20L ARG* 1.3 63.5 + - - +
22L MET* 3.1 3.1 + - - +
23L GLU* 3.1 18.5 + - - +
63L PHE* 3.7 13.2 - - + -
106L TYR* 3.4 36.7 + - + -
109L PHE* 4.0 5.7 - - + -
125L PHE* 3.7 22.4 - - + -
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Residues in contact with ARG 20 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35K TYR* 4.1 5.1 - - - -
2104K FEC 2.8 41.8 + - - -
16L LEU 2.7 18.9 + - - +
17L ASN* 3.5 7.6 - - - +
19L ALA* 1.3 77.4 - - - +
21L ALA* 1.3 56.4 + - - +
23L GLU* 3.1 3.9 + - - +
24L LEU* 2.9 41.7 + - - +
60L ALA* 2.8 50.7 + - + +
63L PHE* 4.0 12.5 - - + -
64L ALA* 3.6 19.8 - - - +
67L ILE* 4.1 5.6 - - - -
74L PRO* 3.6 20.8 - - - +
75L THR* 2.9 35.8 + - + -
76L THR* 4.8 3.0 - - - +
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Residues in contact with ALA 21 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17L ASN 2.9 17.0 + - - +
18L LYS* 3.1 9.2 + - - +
20L ARG* 1.3 75.8 - - - +
22L MET* 1.3 61.2 + - - +
24L LEU* 4.3 1.8 - - - -
25L HIS* 3.1 13.0 + - - +
75L THR* 4.0 6.3 - - + +
77L GLN 3.5 23.1 - - - +
78L LYS* 3.6 1.0 - - - -
79L GLU* 2.9 40.8 + - + +
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Residues in contact with MET 22 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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18L LYS* 3.1 16.4 + - - +
19L ALA 3.1 5.8 + - - +
21L ALA* 1.3 76.2 - - - +
23L GLU* 1.3 62.1 + - - +
25L HIS* 3.3 8.4 + - - +
26L ALA* 2.9 27.7 + - - +
79L GLU* 4.4 17.5 - - + +
98L GLN* 4.5 2.4 + - - -
101L ALA* 4.6 4.5 - - + +
102L THR* 4.0 31.6 + - + +
105L ALA* 3.7 28.9 - - + -
106L TYR* 4.1 18.6 - - - +
109L PHE* 4.2 9.6 - - - -
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Residues in contact with GLU 23 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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19L ALA 3.1 11.2 + - - +
20L ARG 3.1 6.5 + - - +
22L MET* 1.3 74.5 - - - +
24L LEU* 1.3 67.1 + - - +
26L ALA* 2.9 6.7 + - - +
27L ILE* 2.8 30.0 + - - +
56L GLU* 3.2 40.1 - - - +
59L HIS* 3.2 38.0 + - + +
60L ALA* 3.7 9.6 - - + -
63L PHE* 3.8 9.6 - - + -
102L THR* 5.5 0.7 - - - -
106L TYR* 2.6 33.3 + - - +
132L GLU* 3.7 7.6 - - - +
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Residues in contact with LEU 24 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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28K HIS* 4.2 12.3 - - - +
2104K FEC 4.0 23.3 - - + +
20L ARG* 2.9 28.9 + - - +
21L ALA 3.8 4.9 - - - +
23L GLU* 1.3 78.1 - - - +
25L HIS* 1.3 56.7 + - - +
27L ILE* 3.7 17.5 + - + +
28L HIS* 2.5 37.6 + - + +
60L ALA* 4.3 5.6 - - + -
75L THR* 4.0 19.1 - - + +
76L THR* 3.7 32.8 - - - +
77L GLN 3.8 10.3 - - - +
78L LYS* 3.8 11.0 - - + +
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Residues in contact with HIS 25 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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21L ALA 3.1 10.6 + - - +
22L MET* 3.4 9.6 - - - +
23L GLU 3.0 0.6 - - - -
24L LEU* 1.3 77.1 - - - +
26L ALA* 1.3 59.2 + - - +
28L HIS* 3.2 5.0 + - - +
29L GLN* 2.8 45.8 + - + +
78L LYS* 3.6 12.1 - - + +
79L GLU 3.3 27.8 - - - +
80L GLY* 3.7 12.8 - - - -
81L LYS 2.9 31.1 + - - -
82L VAL* 4.1 8.4 - - + +
98L GLN* 3.2 34.3 + - - -
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Residues in contact with ALA 26 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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22L MET 2.9 14.9 + - - +
23L GLU* 2.9 14.1 + - - +
25L HIS* 1.3 76.3 + - - +
27L ILE* 1.3 57.5 + - - +
29L GLN* 4.4 1.3 - - - -
30L TYR* 2.9 52.3 + - + -
56L GLU* 4.1 14.6 - - + +
98L GLN* 3.6 23.6 - - - +
99L GLU* 5.1 0.7 - - - +
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Residues in contact with ILE 27 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
2104K FEC 3.7 51.4 - - + -
23L GLU 2.8 24.4 + - - +
24L LEU* 3.9 15.7 - - + +
25L HIS 3.2 0.2 - - - -
26L ALA* 1.3 72.9 - - - +
28L HIS* 1.3 61.5 + - - +
31L MET* 3.2 27.7 + - - +
53L ALA* 4.3 6.9 - - - +
56L GLU* 3.9 10.3 - - + +
57L MET* 3.7 54.7 - - + +
60L ALA* 4.2 8.5 - - + -
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Residues in contact with HIS 28 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24K LEU* 4.3 16.6 - - + +
28K HIS* 3.6 35.9 - + - -
76K THR* 3.8 30.5 + - + +
78K LYS* 6.0 0.9 - - - -
2104K FEC 3.9 31.1 - - + +
24L LEU* 2.5 33.3 + - + -
25L HIS 3.2 6.6 + - - +
27L ILE* 1.3 80.8 - - + +
29L GLN* 1.3 62.5 + - - +
31L MET 4.2 0.2 - - - -
32L ASN* 3.2 23.4 + - - +
78L LYS* 3.7 15.4 - - + +
82L VAL* 3.8 21.0 - - + +
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Residues in contact with GLN 29 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25L HIS* 2.8 36.4 + - + +
26L ALA* 3.8 3.8 - - - +
28L HIS* 1.3 74.7 - - - +
30L TYR* 1.3 70.8 + - + +
32L ASN* 3.3 3.5 + - - +
33L GLN* 3.2 35.9 + - - +
81L LYS 4.4 0.2 + - - -
82L VAL* 3.5 11.1 - - + +
83L VAL* 2.6 59.6 - - - +
86L GLN* 3.6 7.4 - - - +
94L SER* 5.7 0.8 + - - -
95L ASP* 4.5 1.3 - - - +
98L GLN* 4.0 14.4 + - - +
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Residues in contact with TYR 30 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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26L ALA* 2.9 28.6 + - + +
29L GLN* 1.3 72.8 - - + +
31L MET* 1.3 60.5 + - - +
33L GLN* 3.3 17.1 + - - -
34L HIS* 2.8 23.8 + - - +
49L MET* 3.2 21.1 - - - +
52L ILE* 4.1 7.4 - - + -
53L ALA* 4.2 14.1 - - + -
56L GLU* 3.6 24.5 - - + -
95L ASP* 3.1 28.8 + - - -
98L GLN* 3.6 33.0 + - - +
99L GLU* 2.5 38.3 + - - +
139L TYR* 3.7 19.1 - + - -
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Residues in contact with MET 31 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61K GLU* 4.5 1.1 - - - +
2104K FEC 3.4 55.6 - - + +
27L ILE 3.2 25.2 + - - +
30L TYR* 1.3 73.7 - - - +
32L ASN* 1.3 67.0 + - - +
34L HIS* 3.1 24.5 + - + +
35L TYR* 2.9 48.9 + - + +
50L LYS* 4.0 25.4 - - + -
53L ALA* 3.7 23.1 - - + -
57L MET* 4.5 8.3 - - + -
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Residues in contact with ASN 32 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
20K ARG* 6.2 1.1 - - - +
68K LYS* 5.5 0.2 + - - -
73K GLU* 2.8 27.5 + - - +
74K PRO* 3.9 16.0 + - - +
76K THR* 4.5 6.3 - - + +
2104K FEC 4.8 0.6 + - - -
28L HIS 3.2 16.7 + - - +
29L GLN* 3.4 10.2 - - - +
30L TYR 3.3 0.4 - - - -
31L MET* 1.3 78.2 - - - +
33L GLN* 1.3 66.3 + - - +
35L TYR* 3.3 12.9 + - - +
36L SER* 3.3 19.9 + - - -
82L VAL* 4.4 6.7 - - + -
83L VAL 3.5 19.8 - - - +
84L THR* 3.6 21.6 - - - +
85L GLY 3.9 4.0 + - - -
86L GLN* 4.7 1.4 + - - +
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Residues in contact with GLN 33 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29L GLN* 3.2 21.6 + - - +
30L TYR* 3.5 7.4 - - - +
31L MET 3.3 0.2 - - - -
32L ASN* 1.3 74.6 - - - +
34L HIS* 1.3 60.5 + - - +
36L SER* 2.9 9.8 + - - -
37L LEU* 2.8 33.4 + - - +
49L MET* 3.4 13.8 - - + +
86L GLN* 2.8 39.3 + - - +
91L ILE* 3.7 28.7 - - + +
94L SER* 3.9 1.6 + - - -
95L ASP* 2.4 46.1 + - - +
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Residues in contact with HIS 34 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61K GLU* 4.2 7.1 + - - -
65K GLU* 5.5 2.6 + - - -
30L TYR 2.8 15.5 + - - +
31L MET* 3.1 30.7 + - + +
33L GLN* 1.3 77.5 - - - +
35L TYR* 1.3 83.2 + + - +
37L LEU* 3.2 3.9 + - - +
38L ASP* 2.9 37.8 + - + +
46L ALA* 2.7 39.3 + - + -
47L ALA* 5.0 1.8 - - - -
49L MET* 3.7 15.2 - - + +
50L LYS* 3.6 27.4 + - + +
162L SER* 5.3 3.8 - - - -
2201L SO4 5.2 5.1 + - - -
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Residues in contact with TYR 35 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
20K ARG* 4.1 4.9 - - - -
61K GLU* 3.5 33.2 - - + +
64K ALA* 3.6 31.0 - - + -
65K GLU* 4.7 11.4 - - + -
68K LYS* 3.9 24.7 - - + +
74K PRO* 4.2 10.1 - - + -
2104K FEC 2.7 33.2 + - - +
31L MET* 2.9 44.1 + - + +
32L ASN* 3.6 11.7 - - - +
34L HIS* 1.3 93.5 - + - +
36L SER* 1.3 57.0 + - - +
38L ASP* 3.9 4.1 - - + +
39L ASP* 3.0 29.3 + - - +
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Residues in contact with SER 36 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68K LYS* 3.5 22.8 + - - +
73K GLU* 5.0 1.2 + - - -
32L ASN* 3.3 12.8 + - - -
33L GLN* 2.9 13.5 + - - -
35L TYR* 1.3 75.9 - - - +
37L LEU* 1.3 61.2 + - - +
39L ASP* 3.3 2.7 + - - +
40L MET* 2.9 53.4 + - - +
85L GLY* 4.9 9.9 - - - -
86L GLN 4.8 8.5 + - - -
91L ILE* 4.9 1.8 - - - -
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Residues in contact with LEU 37 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33L GLN 2.8 20.6 + - - +
34L HIS 3.9 0.7 - - - +
36L SER* 1.3 72.7 - - - +
38L ASP* 1.3 61.0 + - - +
40L MET* 3.4 6.4 + - + +
41L ASP 3.1 3.8 + - - -
42L TYR* 2.9 33.7 + - + +
45L LEU* 3.4 34.8 - - + +
46L ALA* 3.7 17.0 - - + +
49L MET* 4.0 21.3 - - + -
88L VAL* 4.1 21.5 - - + -
91L ILE* 4.0 20.0 - - + -
92L TYR* 3.2 26.2 - - + +
----------------------------------------------------------
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Residues in contact with ASP 38 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
141F ASN* 5.1 1.6 + - - +
65K GLU* 4.2 17.2 - - - +
34L HIS* 2.9 30.8 + - + +
35L TYR* 3.9 6.1 - - + +
37L LEU* 1.3 76.4 - - - +
39L ASP* 1.3 60.1 + - - +
41L ASP* 2.9 21.9 + - - +
42L TYR 4.9 0.7 - - - +
43L GLY* 5.2 0.7 - - - -
46L ALA* 3.6 9.9 - - + +
162L SER* 3.3 31.0 + - - -
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Residues in contact with ASP 39 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
141F ASN* 3.6 14.4 - - - +
68K LYS* 3.9 45.1 + - + +
69K GLU* 4.9 2.1 + - - -
35L TYR 3.0 19.1 + - - +
36L SER* 3.5 5.0 - - - +
38L ASP* 1.3 77.2 - - - +
40L MET* 1.3 62.9 + - - +
41L ASP 3.1 1.3 + - - -
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Residues in contact with MET 40 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
141F ASN* 4.8 0.6 - - - +
144F SER* 5.2 8.4 + - - -
145F HIS* 3.3 14.4 + - - -
36L SER* 2.9 44.2 + - - +
37L LEU* 3.8 10.1 - - + +
38L ASP 3.2 0.4 - - - -
39L ASP* 1.3 77.1 - - + +
41L ASP* 1.3 69.0 + - - +
42L TYR* 3.6 21.2 + - + -
86L GLN 4.5 12.8 - - - +
87L ALA* 5.2 2.2 - - - -
88L VAL* 3.8 32.8 - - + +
91L ILE* 4.9 0.9 - - + -
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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