Contacts of the helix formed by residues 82 - 113 (chain K) in PDB entry 6A5T
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 ARG 82 (chain K).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29K ASN* 4.9 0.9 - - - +
80K GLY 3.7 4.0 + - - -
81K THR* 1.3 83.8 - - - +
83K PRO* 1.3 80.7 - - + +
84K LYS* 3.9 39.5 - - + +
85K GLN* 3.0 52.0 + - + +
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Residues in contact with PRO 83 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29K ASN* 3.4 30.1 - - - +
31K ILE* 4.1 28.5 - - + -
75K LEU* 3.4 41.0 - - + +
77K THR* 4.4 9.2 - - + +
81K THR 3.4 2.9 - - - +
82K ARG* 1.3 89.9 - - + +
84K LYS* 1.3 66.4 + - - +
86K ALA* 3.1 5.4 + - + +
87K LEU* 3.0 18.5 + - - +
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Residues in contact with LYS 84 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
262C LEU* 5.1 16.2 - - + +
266C ARG* 3.4 50.5 - - - +
31K ILE* 5.0 5.2 - - - +
82K ARG* 3.9 37.9 - - + +
83K PRO* 1.3 77.4 - - - +
85K GLN* 1.3 65.8 + - + +
87K LEU* 2.9 20.7 + - - +
88K GLU* 3.0 26.5 + - + +
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Residues in contact with GLN 85 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
81K THR* 4.0 15.3 - - + +
82K ARG* 3.0 56.1 + - + +
84K LYS* 1.3 78.3 - - + +
86K ALA* 1.3 64.7 + - - +
88K GLU* 3.1 17.9 + - - +
89K ARG* 2.9 29.8 + - + +
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Residues in contact with ALA 86 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
50K LEU* 4.5 15.4 - - + +
53K TYR* 4.6 2.3 - - - -
55K ASP* 5.1 0.7 - - - +
56K VAL* 4.8 2.5 - - + -
75K LEU* 5.2 1.8 - - + -
77K THR* 4.2 19.7 - - + -
81K THR* 4.0 16.0 - - + +
82K ARG 3.6 2.0 + - - -
83K PRO 3.1 9.7 + - - +
85K GLN* 1.3 77.9 - - - +
87K LEU* 1.3 64.1 + - - +
89K ARG* 3.0 25.1 + - - +
90K ALA* 2.9 22.7 + - - +
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Residues in contact with LEU 87 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
258C VAL* 5.8 1.8 - - + -
262C LEU* 3.6 33.9 - - + -
19K LEU* 6.2 1.1 - - + -
33K ILE* 4.8 19.1 - - + -
35K PHE* 5.8 5.4 - - + -
46K LEU* 4.4 26.5 - - + -
50K LEU* 3.8 28.0 - - + -
73K MET* 5.2 8.1 - - - -
75K LEU* 4.6 8.0 - - + +
83K PRO 3.0 10.6 + - - +
84K LYS* 2.9 13.1 + - - +
86K ALA* 1.3 76.2 - - - +
88K GLU* 1.3 63.4 + - - +
90K ALA* 3.2 5.1 + - + +
91K CYS* 3.0 29.8 + - - -
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Residues in contact with GLU 88 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
259C LEU* 3.7 29.7 - - + +
262C LEU* 4.8 10.0 - - + +
263C GLU* 4.0 10.6 + - - +
266C ARG* 2.9 40.8 + - - -
84K LYS* 3.0 26.9 + - + +
85K GLN* 3.4 16.8 - - - +
87K LEU* 1.3 78.2 - - - +
89K ARG* 1.3 62.9 + - + +
91K CYS* 3.1 4.4 + - - +
92K ALA* 2.9 22.4 + - - +
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Residues in contact with ARG 89 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53K TYR* 3.5 40.0 + - + +
54K PRO* 5.7 1.8 - - - +
55K ASP* 3.6 25.9 + - - -
81K THR* 5.4 3.6 - - - +
85K GLN* 2.9 20.1 + - + +
86K ALA* 3.0 18.9 + - - +
88K GLU* 1.3 76.8 - - + +
90K ALA* 1.3 58.2 + - - +
92K ALA* 3.3 8.7 + - - +
93K SER* 2.9 28.2 + - - -
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Residues in contact with ALA 90 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46K LEU* 4.6 10.1 - - + -
49K GLU* 3.7 21.3 - - + -
50K LEU* 4.3 20.4 - - + -
53K TYR* 4.1 12.7 + - + -
86K ALA 2.9 11.7 + - - +
87K LEU* 3.5 9.4 - - - +
88K GLU 3.1 0.2 - - - -
89K ARG* 1.3 74.7 - - - +
91K CYS* 1.3 65.6 + - - +
93K SER* 3.1 1.6 + - - -
94K ILE* 2.9 31.1 + - - +
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Residues in contact with CYS 91 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
255C LEU* 4.2 28.0 - - + +
258C VAL* 4.8 4.3 - - - -
259C LEU* 4.1 37.7 - - + -
262C LEU* 4.7 4.5 - - - -
46K LEU* 4.8 6.0 - - - +
87K LEU* 3.0 31.5 + - - -
88K GLU 3.4 6.1 - - - +
90K ALA* 1.3 76.8 - - - +
92K ALA* 1.3 64.4 + - - +
93K SER 3.2 0.3 + - - -
94K ILE* 3.9 2.7 - - - +
95K ILE* 2.9 33.9 + - + +
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Residues in contact with ALA 92 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
259C LEU* 5.5 4.4 - - + +
88K GLU 2.9 12.8 + - - +
89K ARG* 3.5 11.2 - - - +
90K ALA 3.3 0.2 - - - -
91K CYS* 1.3 75.4 - - - +
93K SER* 1.3 58.8 + - - +
95K ILE* 3.4 9.4 + - - +
96K ASN* 2.9 30.6 + - - +
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Residues in contact with SER 93 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49K GLU* 4.1 6.0 + - - -
53K TYR* 3.7 15.6 + - - -
89K ARG 2.9 16.9 + - - -
90K ALA 3.1 4.0 + - - -
92K ALA* 1.3 78.1 - - - +
94K ILE* 1.3 58.3 + - - +
96K ASN* 3.2 5.4 + - - +
97K LYS* 2.9 55.2 + - - +
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Residues in contact with ILE 94 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28C LEU* 5.3 8.5 - - + -
255C LEU* 3.8 25.6 - - + -
45K LEU* 4.1 22.4 - - + +
46K LEU* 3.9 24.2 - - + -
49K GLU* 3.6 35.0 - - + +
90K ALA 2.9 17.3 + - - +
91K CYS* 4.0 2.7 - - - +
93K SER* 1.3 73.3 - - - +
95K ILE* 1.3 67.4 + - - +
97K LYS* 3.3 8.4 + - + +
98K LEU* 3.0 44.0 + - + +
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Residues in contact with ILE 95 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
252C GLN* 4.0 25.0 + - + +
255C LEU* 4.3 19.7 - - + +
256C ALA* 4.6 21.1 - - + +
259C LEU* 5.1 9.9 - - + -
91K CYS* 2.9 29.2 + - + +
92K ALA* 3.6 7.6 - - - +
94K ILE* 1.3 77.1 - - - +
96K ASN* 1.3 57.2 + - - +
98K LEU* 3.1 7.1 + - - +
99K LYS* 2.8 30.8 + - + +
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Residues in contact with ASN 96 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
92K ALA 2.9 19.1 + - - +
93K SER* 3.6 6.5 - - - +
95K ILE* 1.3 74.9 - - - +
97K LYS* 1.3 68.8 + - + +
99K LYS* 3.3 12.9 + - - +
100K THR* 3.0 29.2 + - - -
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Residues in contact with LYS 97 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
5C PRO* 4.6 25.3 - - + +
24C VAL* 6.4 0.9 - - + -
25C ASN* 4.7 11.3 + - - +
28C LEU* 4.8 19.1 - - + -
49K GLU* 3.3 25.7 + - - -
52K LEU* 5.6 4.2 - - - +
93K SER* 2.9 38.0 + - - +
94K ILE* 3.7 9.0 - - + +
96K ASN* 1.3 76.1 - - + +
98K LEU* 1.3 61.3 + - + +
100K THR* 3.3 7.1 + - - -
101K LEU* 2.9 26.3 + - - +
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Residues in contact with LEU 98 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28C LEU* 4.1 22.9 - - + -
32C LEU* 6.0 4.0 - - + -
248C ILE* 3.7 23.4 - - + +
251C LEU* 4.4 30.5 - - + -
252C GLN* 3.8 13.7 - - + +
255C LEU* 5.4 1.6 - - + -
45K LEU* 5.2 0.7 - - + -
94K ILE* 3.0 36.7 + - + +
95K ILE* 3.6 5.4 - - - +
97K LYS* 1.3 78.4 - - + +
99K LYS* 1.3 65.0 + - - +
101K LEU* 3.0 25.6 + - + +
102K ASP* 2.9 24.6 + - - +
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Residues in contact with LYS 99 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
252C GLN* 3.2 18.9 - - - +
95K ILE* 2.8 15.0 + - + +
96K ASN* 3.6 16.4 - - - +
98K LEU* 1.3 77.1 - - - +
100K THR* 1.3 64.4 + - - +
102K ASP* 3.3 7.3 + - - +
103K HIS* 3.0 26.5 + - + +
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Residues in contact with THR 100 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
4C GLU 4.9 3.1 - - - +
5C PRO* 4.8 12.6 - - + +
96K ASN* 3.0 22.0 + - - -
97K LYS* 3.5 11.6 - - - -
99K LYS* 1.3 77.2 - - - +
101K LEU* 1.3 63.3 + - - +
103K HIS* 3.2 9.4 + - + +
104K LYS* 2.9 56.6 + - + +
----------------------------------------------------------
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Residues in contact with LEU 101 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
5C PRO* 4.6 17.0 - - + +
6C LYS* 4.5 3.6 - - - +
7C VAL* 3.5 33.0 - - + -
21C LEU* 3.7 26.0 - - + -
24C VAL* 5.8 2.0 - - + -
28C LEU* 4.9 6.7 - - + -
32C LEU* 5.7 3.4 - - + -
244C PHE* 4.0 22.9 - - + -
248C ILE* 4.5 3.1 - - + -
97K LYS 2.9 12.8 + - - +
98K LEU* 3.0 30.0 + - + +
100K THR* 1.3 77.2 - - - +
102K ASP* 1.3 64.0 + - - +
104K LYS* 3.2 5.2 + - + +
105K PHE* 2.9 21.7 + - - +
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Residues in contact with ASP 102 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
245C SER* 4.4 21.2 + - - +
248C ILE* 3.8 26.8 - - + +
252C GLN* 5.3 1.1 - - - +
98K LEU 2.9 11.4 + - - +
99K LYS* 3.4 13.2 - - - +
101K LEU* 1.3 76.3 - - - +
103K HIS* 1.3 66.7 + - - +
105K PHE* 3.1 4.3 + - - +
106K ASN* 3.0 44.5 + - - -
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Residues in contact with HIS 103 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
99K LYS* 3.0 18.7 + - + +
100K THR* 3.2 13.9 + - + +
102K ASP* 1.3 82.7 + - - +
104K LYS* 1.3 71.8 + - + +
106K ASN* 3.4 6.1 + - - +
107K GLU* 2.7 58.5 + - + +
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Residues in contact with LYS 104 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
4C GLU* 4.0 14.8 + - - +
5C PRO 3.3 27.2 + - - +
6C LYS* 4.8 8.4 - - + +
7C VAL* 5.0 14.1 - - + +
100K THR* 2.9 39.8 + - + +
101K LEU* 3.9 5.2 - - + +
103K HIS* 1.3 86.5 - - + +
105K PHE* 1.3 58.4 + - - +
107K GLU* 3.4 12.6 + - - +
108K GLU* 2.9 30.4 + - - +
----------------------------------------------------------
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Residues in contact with PHE 105 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7C VAL* 3.6 25.5 - - + +
9C ILE* 3.8 24.5 - - + -
17C VAL* 4.4 10.8 - - + -
19C LEU* 4.6 13.2 - - + -
241C ASN* 4.2 24.7 - - + -
244C PHE* 3.2 52.0 - + + -
245C SER* 4.6 8.1 - - - -
101K LEU 2.9 12.2 + - - +
102K ASP* 3.1 3.1 + - - +
104K LYS* 1.3 75.0 - - - +
106K ASN* 1.3 70.7 + - - +
108K GLU* 4.3 2.2 - - + -
109K TRP* 2.8 45.0 + + + +
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Residues in contact with ASN 106 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
241C ASN* 6.1 1.0 - - - +
245C SER* 3.9 15.8 + - - -
102K ASP* 3.0 39.0 + - - -
103K HIS* 3.7 6.8 - - - +
105K PHE* 1.3 80.3 - - - +
107K GLU* 1.3 64.7 + - + +
109K TRP* 3.1 8.0 + - - +
110K ASN* 3.0 35.4 + - - +
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Residues in contact with GLU 107 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
103K HIS* 2.7 53.3 + - + +
104K LYS* 3.7 11.9 - - - +
106K ASN* 1.3 77.8 - - + +
108K GLU* 1.3 63.7 + - - +
110K ASN* 3.3 6.5 + - - +
111K ILE* 3.0 33.6 + - + +
----------------------------------------------------------
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Residues in contact with GLU 108 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7C VAL* 4.5 18.2 - - + +
8C ASN* 4.5 7.5 + - - -
9C ILE* 3.6 39.8 + - + +
104K LYS 2.9 18.8 + - - +
105K PHE* 3.7 6.5 - - - +
107K GLU* 1.3 77.4 - - - +
109K TRP* 1.3 58.1 + - - +
111K ILE* 3.1 18.0 + - - +
112K LYS* 2.9 32.9 + - - +
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Residues in contact with TRP 109 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9C ILE* 3.6 27.3 - - + +
12C ALA* 3.6 24.9 - - + -
13C GLN* 3.3 26.7 - - - -
14C ASP* 4.7 9.9 - - - -
17C VAL* 4.0 17.9 - - + -
240C ALA* 5.5 0.2 - - + -
241C ASN* 2.9 43.7 - - + +
105K PHE* 2.8 35.7 + + + +
106K ASN* 3.7 7.0 - - - +
108K GLU* 1.3 73.4 - - - +
110K ASN* 1.3 73.3 + - - +
112K LYS* 3.5 4.6 + - + +
113K ASN* 3.3 28.7 + - + +
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Residues in contact with ASN 110 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
106K ASN* 3.0 29.1 + - - +
107K GLU* 3.8 5.5 - - - +
109K TRP* 1.3 85.9 - - - +
111K ILE* 1.3 66.4 + - + +
113K ASN* 3.7 14.8 + - - +
----------------------------------------------------------
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Residues in contact with ILE 111 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
107K GLU* 3.0 30.0 + - + +
108K GLU* 3.1 21.7 + - - +
110K ASN* 1.3 78.3 - - + +
112K LYS* 1.3 67.6 + - - +
113K ASN 3.2 4.3 + - - -
----------------------------------------------------------
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Residues in contact with LYS 112 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9C ILE* 4.5 23.6 - - + -
10C ILE 3.8 21.7 + - - +
11C ASN* 5.4 2.7 - - - +
12C ALA* 4.6 20.2 - - + +
108K GLU* 2.9 20.9 + - - +
109K TRP* 3.9 7.2 - - + +
110K ASN 3.4 0.2 - - - -
111K ILE* 1.3 78.9 - - - +
113K ASN* 1.3 67.0 + - - +
----------------------------------------------------------
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Residues in contact with ASN 113 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
109K TRP* 3.3 22.3 + - + +
110K ASN* 4.2 11.2 - - - +
111K ILE 3.2 7.8 - - - -
112K LYS* 1.3 85.6 - - - +
----------------------------------------------------------
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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