Contacts of the helix formed by residues 48 - 77 (chain K) in PDB entry 5JKL
Residue contacts within the protein are
derived with the CSU software (Sobolev V., Sorokine A.,
Prilusky J., Abola E.E. and Edelman M. (1999) Automated
analysis of interatomic contacts in proteins.
Bioinformatics, 15, 327-332). A
short description of the analytical approach
is given at the end of the page.
Note:
Non-standard 3 letter residue
codes indicate a heterogroup. To identify
and analyse, use LPC software
Legend:
Dist - nearest distance (Å) between atoms of two residues
Surf - contact surface area (Å2) between two residues
HB - hydrophilic-hydrophilic contact (hydrogen bond)
Arom - aromatic-aromatic contact
Phob - hydrophobic-hydrophobic contact
DC - hydrophobic-hydrophilic contact (destabilizing contact)
+/- - indicates presence/absence of a specific contacts
* - indicates residues forming contacts by their side chain
(including CA atoms)
Residues in contact with LEU 48 (chain K).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
154J ASN* 3.9 13.7 - - - +
41K PHE* 3.0 31.8 + - + +
46K VAL* 3.8 13.5 - - + +
47K ALA* 1.3 82.5 - - - +
49K LYS* 1.3 63.6 + - - +
50K ASN 3.3 2.8 + - - -
51K PHE* 3.3 25.6 + - + -
52K ALA 3.1 16.6 + - - -
167K GLU* 4.1 25.8 - - + +
168K TYR* 4.0 17.3 - - + +
171K ASP* 3.3 27.4 - - + +
172K LYS* 4.6 2.7 - - - +
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Residues in contact with LYS 49 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
147J GLU* 5.6 5.6 + - - +
150J ASP* 4.3 21.1 - - - +
151J HIS* 6.3 2.7 - - - -
41K PHE 5.0 0.9 - - - +
42K ASP* 5.7 6.3 - - - +
47K ALA* 3.7 7.6 + - - +
48K LEU* 1.3 73.8 - - - +
50K ASN* 1.3 65.8 + - - +
52K ALA* 3.4 9.1 + - - +
53K LYS* 2.9 40.0 + - - +
171K ASP* 3.5 4.0 + - - +
172K LYS* 5.7 0.4 - - - +
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Residues in contact with ASN 50 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49K LYS* 1.3 79.9 - - - +
51K PHE* 1.3 59.3 + - - +
52K ALA 3.2 0.4 - - - -
53K LYS* 3.8 23.8 + - - +
54K TYR* 2.9 30.1 + - - +
171K ASP* 2.9 45.6 + - - +
172K LYS* 4.3 10.3 - - - +
175K LEU* 3.7 19.0 - - + +
176K GLY* 3.5 21.4 - - - -
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Residues in contact with PHE 51 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41K PHE* 3.5 23.8 - + + -
48K LEU* 3.3 19.0 + - + +
50K ASN* 1.3 75.0 - - - +
52K ALA* 1.3 63.3 + - - +
54K TYR* 3.3 1.0 + - - +
55K PHE* 3.0 41.1 + + - -
96K GLY* 3.4 37.0 - - - -
100K MET* 3.8 22.4 - - + -
155K LEU* 4.1 9.6 - - + -
167K GLU* 3.9 21.5 - - + -
170K PHE* 3.6 22.7 - + - -
171K ASP* 3.0 23.5 + - + -
175K LEU* 3.7 17.5 - - + +
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Residues in contact with ALA 52 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38K SER* 2.7 48.3 + - - +
41K PHE* 3.7 5.8 - - + +
42K ASP* 4.1 16.4 - - + +
48K LEU 3.1 13.3 + - - +
49K LYS* 3.5 11.9 - - - +
50K ASN 3.2 0.4 - - - -
51K PHE* 1.3 77.8 - - - +
53K LYS* 1.3 61.5 + - + +
55K PHE 3.4 0.2 + - - -
56K LEU* 3.1 10.6 + - - +
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Residues in contact with LYS 53 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49K LYS* 2.9 27.8 + - - +
50K ASN* 3.8 23.6 + - - +
51K PHE 3.3 0.4 - - - -
52K ALA* 1.3 76.6 - - + +
54K TYR* 1.3 63.6 + - - +
56K LEU* 3.3 6.1 + - - +
57K HIS* 3.0 25.3 + - - +
175K LEU 6.1 0.7 - - - +
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Residues in contact with TYR 54 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34K TYR* 5.6 0.2 - + - -
50K ASN 2.9 18.8 + - - +
51K PHE 3.7 3.4 - - - +
52K ALA 3.3 0.4 - - - -
53K LYS* 1.3 77.7 - - - +
55K PHE* 1.3 87.5 + + - +
57K HIS* 3.4 7.8 + + - +
58K GLN* 3.0 52.7 + - + +
100K MET* 3.8 25.1 - - + -
147K GLU* 2.6 34.7 + - - +
148K LEU* 3.7 19.5 - - + +
151K HIS* 3.8 14.4 - + - -
175K LEU* 4.1 20.6 - - + +
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Residues in contact with PHE 55 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34K TYR* 3.5 51.1 - + + +
37K MET* 3.9 17.0 - - + -
38K SER* 3.7 9.6 - - - +
41K PHE* 3.6 33.9 - + - -
51K PHE* 3.0 35.9 + + - +
54K TYR* 1.3 96.4 - + - +
56K LEU* 1.3 61.0 + - - +
58K GLN* 3.3 2.4 + - + -
59K SER* 3.0 18.4 + - - -
99K ALA* 4.0 18.4 - - + -
100K MET* 3.8 26.7 - - + -
103K ALA* 4.3 5.2 - - + -
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Residues in contact with LEU 56 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35K LEU* 3.8 21.3 - - + -
38K SER* 3.4 19.4 + - - +
39K TYR* 4.1 18.2 - - + +
52K ALA 3.1 11.6 + - - +
53K LYS* 3.9 6.5 - - - +
55K PHE* 1.3 76.4 - - - +
57K HIS* 1.3 62.7 + - - +
59K SER* 3.2 6.6 + - - -
60K HIS* 3.0 38.2 + - + +
67L GLU* 3.6 32.8 - - - +
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Residues in contact with HIS 57 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53K LYS 3.0 17.6 + - - +
54K TYR* 3.5 7.4 - + - +
56K LEU* 1.3 75.7 - - - +
58K GLN* 1.3 81.5 + - - +
60K HIS* 3.2 10.2 + - + +
61K GLU* 2.9 42.8 + - + +
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Residues in contact with GLN 58 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34K TYR* 3.8 32.7 - - + +
54K TYR* 3.0 58.5 + - + +
55K PHE* 3.6 7.2 - - - +
56K LEU 3.3 0.2 - - - -
57K HIS* 1.3 93.5 - - - +
59K SER* 1.3 55.0 + - - +
61K GLU* 3.1 8.9 + - - +
62K GLU* 3.0 32.2 + - - +
147K GLU* 4.1 5.5 + - - -
202K MG 2.1 33.5 - - - -
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Residues in contact with SER 59 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31K SER* 2.7 48.8 + - - +
34K TYR* 3.6 8.4 - - - +
35K LEU* 3.7 16.2 - - - +
55K PHE 3.0 13.6 + - - -
56K LEU* 3.2 12.5 + - - -
58K GLN* 1.3 73.9 - - - +
60K HIS* 1.3 64.1 + - - +
62K GLU 3.4 1.2 + - - -
63K ARG* 3.2 11.1 + - - +
63L ARG* 3.0 24.8 + - - -
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Residues in contact with HIS 60 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56K LEU* 3.0 32.3 + - + +
57K HIS* 3.2 11.2 + - - +
59K SER* 1.3 74.7 - - - +
61K GLU* 1.3 63.0 + - - +
63K ARG* 3.3 9.3 + - + +
64K GLU* 3.2 26.2 + - - +
63L ARG* 3.6 21.2 - - + +
64L GLU* 3.9 13.5 + - - -
67L GLU* 2.8 34.9 + - - -
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Residues in contact with GLU 61 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57K HIS* 2.9 34.8 + - + +
58K GLN* 3.5 12.2 + - - +
60K HIS* 1.3 76.3 - - - +
62K GLU* 1.3 62.1 + - - +
64K GLU* 3.0 10.6 + - + +
65K HIS* 3.0 49.5 + - + +
140K GLU* 5.2 7.2 - - - +
202K MG 1.8 34.9 - - - -
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Residues in contact with GLU 62 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27K GLU* 2.8 13.4 - - - +
30K ALA* 3.8 22.6 - - + +
31K SER* 3.5 26.7 - - - +
34K TYR* 3.8 14.8 - - + -
58K GLN 3.0 18.4 + - - +
59K SER 3.4 0.6 + - - +
61K GLU* 1.3 75.3 - - - +
63K ARG* 1.3 61.9 + - - +
65K HIS* 3.1 16.5 + - - +
66K ALA* 3.0 21.8 + - - +
107K GLU* 3.4 23.5 - - - +
110K VAL* 5.5 0.6 - - - +
201K FE 2.1 31.8 - - - -
202K MG 4.2 8.3 - - - -
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Residues in contact with ARG 63 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28K LEU* 4.0 23.1 - - - +
31K SER* 3.9 10.8 + - - +
59K SER 3.2 12.7 + - - +
60K HIS* 3.5 13.0 - - + +
61K GLU 3.2 0.2 - - - -
62K GLU* 1.3 75.8 - - - +
64K GLU* 1.3 62.5 + - - +
66K ALA* 3.2 3.7 + - - +
67K GLU* 2.9 62.7 + - - +
31L SER* 2.8 32.5 + - - -
32L TYR* 4.8 2.4 - - - +
35L LEU* 4.0 18.5 - - - +
59L SER* 3.0 20.8 + - - -
60L HIS* 3.6 17.8 - - + +
63L ARG* 5.0 20.4 - - - +
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Residues in contact with GLU 64 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60K HIS* 3.2 14.3 + - + +
61K GLU* 3.0 11.3 + - + +
63K ARG* 1.3 76.8 - - - +
65K HIS* 1.3 69.1 + - + +
67K GLU* 2.9 30.4 + - - +
68K LYS* 3.0 25.4 + - - +
60L HIS* 3.8 14.6 + - - -
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Residues in contact with HIS 65 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27K GLU* 3.3 13.7 - - - +
61K GLU* 3.0 45.7 + - + +
62K GLU* 3.2 22.8 + - - +
64K GLU* 1.3 81.0 - - + +
66K ALA* 1.3 61.9 + - - +
68K LYS* 4.7 1.3 - - - +
69K LEU* 3.3 10.9 + - - +
136K HIS 5.5 3.1 - - - -
137K TYR* 2.7 43.4 + + + -
140K GLU* 4.9 21.0 + - + +
141K GLN* 4.6 9.0 - - - -
201K FE 2.2 28.0 - - - -
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Residues in contact with ALA 66 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24K ILE* 4.2 7.8 - - + +
27K GLU* 3.8 19.4 - - + +
28K LEU* 3.6 38.1 - - + +
62K GLU 3.0 9.1 + - - +
63K ARG* 3.2 8.3 + - - +
65K HIS* 1.3 74.6 - - - +
67K GLU* 1.3 64.7 + - + +
69K LEU* 3.3 8.3 + - - +
70K MET* 3.1 26.7 + - - +
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Residues in contact with GLU 67 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63K ARG* 2.9 40.5 + - - +
64K GLU* 2.9 35.8 + - - +
66K ALA* 1.3 76.3 - - + +
68K LYS* 1.3 56.8 + - - +
70K MET* 3.2 8.2 + - - +
71K LYS* 2.9 25.3 + - - +
35L LEU* 4.1 15.7 - - + -
39L TYR* 3.4 23.4 + - - +
56L LEU* 3.7 15.0 - - - +
60L HIS* 2.7 30.5 + - - -
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Residues in contact with LYS 68 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64K GLU 3.0 15.9 + - - +
65K HIS* 4.5 0.9 - - - +
66K ALA 3.3 0.2 - - - -
67K GLU* 1.3 76.1 - - - +
69K LEU* 1.3 57.9 + - - +
71K LYS* 3.4 14.3 + - + +
72K LEU* 2.9 27.4 + - - +
132K PHE* 3.9 12.9 - - + -
136K HIS* 3.1 49.9 + - + +
137K TYR* 3.3 18.6 - - + +
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Residues in contact with LEU 69 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
20K ILE* 3.7 30.8 - - + +
23K GLN* 3.6 37.5 - - + -
24K ILE* 3.5 19.3 - - + +
27K GLU* 3.7 16.8 - - + -
65K HIS 3.3 12.7 + - - +
66K ALA* 3.3 4.6 + - - +
67K GLU 3.2 0.4 - - - -
68K LYS* 1.3 76.7 - - - +
70K MET* 1.3 58.4 + - - +
72K LEU* 3.3 5.0 + - + +
73K GLN* 2.9 27.7 + - - +
114K LEU* 5.9 0.4 - - + -
117K LEU* 5.1 3.1 - - + -
132K PHE* 3.6 23.1 - - + -
137K TYR* 3.4 17.7 - - + +
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Residues in contact with MET 70 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24K ILE* 3.7 33.0 - - + -
28K LEU* 5.5 0.2 - - - -
66K ALA* 3.1 17.3 + - - +
67K GLU* 3.2 9.4 + - - +
69K LEU* 1.3 72.1 - - - +
71K LYS* 1.3 67.1 + - - +
73K GLN* 3.3 3.6 + - - +
74K ASN* 3.2 20.3 + - - +
80K ILE* 3.8 28.2 - - + +
82K LEU* 4.3 12.1 - - + -
35L LEU* 3.9 40.6 - - + +
36L SER* 5.0 1.3 - - - -
39L TYR* 3.5 41.3 - - + -
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Residues in contact with LYS 71 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67K GLU 2.9 13.8 + - - +
68K LYS* 3.5 17.5 - - + +
70K MET* 1.3 78.1 - - - +
72K LEU* 1.3 57.1 + - - +
74K ASN* 3.3 2.6 + - - +
75K GLN* 2.9 59.4 + - + +
39L TYR* 3.7 15.0 - - + +
42L ASP* 4.1 15.7 + - - +
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Residues in contact with LEU 72 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12K TYR* 3.9 18.8 - - + +
20K ILE* 4.2 12.1 - - + -
68K LYS 2.9 17.6 + - - +
69K LEU* 3.5 5.2 - - - +
71K LYS* 1.3 73.0 - - - +
73K GLN* 1.3 68.0 + - - +
75K GLN* 3.0 19.0 + - + +
76K ARG* 2.9 32.3 + - + +
128K HIS* 3.8 28.9 - - + +
129K LEU* 4.2 17.7 - - + -
132K PHE* 3.8 37.2 - - + -
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Residues in contact with GLN 73 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12K TYR* 2.6 38.7 + - - -
17K GLU* 2.9 27.0 + - - +
20K ILE* 3.6 13.2 - - + +
21K ASN* 3.0 25.2 + - - +
24K ILE* 4.7 0.7 - - + -
69K LEU 2.9 13.1 + - - +
70K MET* 3.6 8.7 - - - +
72K LEU* 1.3 82.6 - - - +
74K ASN* 1.3 60.1 + - - +
76K ARG* 3.4 1.6 + - - +
77K GLY 3.2 2.3 + - - -
78K GLY* 2.9 45.7 + - - -
79K ARG 3.8 3.4 - - - +
80K ILE* 3.7 23.6 - - + +
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Residues in contact with ASN 74 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8K VAL* 4.2 4.9 - - - +
70K MET 3.2 5.9 + - - +
71K LYS 3.8 1.8 - - - +
73K GLN* 1.3 74.7 - - - +
75K GLN* 1.3 68.0 + - - +
77K GLY* 3.1 11.6 + - - -
78K GLY 3.8 5.5 - - - +
79K ARG* 3.8 8.6 + - - +
80K ILE* 3.9 19.0 + - - +
39L TYR* 2.8 31.3 + - - -
42L ASP* 2.9 41.1 + - - +
43L ARG* 3.5 25.1 - - - +
44L ASP* 4.7 9.2 + - - +
----------------------------------------------------------
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Residues in contact with GLN 75 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8K VAL* 3.6 14.2 - - - +
68K LYS 5.3 0.2 - - - +
71K LYS* 2.9 43.8 + - + +
72K LEU* 3.0 32.0 + - + +
74K ASN* 1.3 76.5 - - - +
76K ARG* 1.4 67.6 + - + +
77K GLY 3.6 0.5 + - - -
128K HIS* 5.3 4.7 - - + -
132K PHE* 5.3 2.9 - - - -
----------------------------------------------------------
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Residues in contact with ARG 76 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8K VAL* 3.9 4.4 - - - +
9K ARG* 3.4 26.7 - - - +
10K GLN 3.0 28.8 + - - +
11K ASN* 3.0 24.0 + - - +
12K TYR* 3.7 40.3 - - + +
72K LEU* 2.9 32.1 + - + +
73K GLN 4.1 0.4 - - - +
74K ASN 3.1 0.2 - - - -
75K GLN* 1.4 79.7 - - - +
77K GLY* 1.3 61.4 + - - +
78K GLY 3.3 0.6 + - - -
126K ASP* 2.9 30.7 + - - -
128K HIS* 3.2 36.7 + - - +
129K LEU* 3.7 6.3 - - - +
----------------------------------------------------------
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Residues in contact with GLY 77 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
6K SER* 3.5 25.8 + - - -
8K VAL* 3.5 18.8 - - - +
9K ARG* 4.0 14.3 + - - +
74K ASN 3.1 13.3 + - - -
75K GLN 3.3 0.4 - - - -
76K ARG* 1.3 80.2 - - - +
78K GLY* 1.3 64.4 + - - +
79K ARG* 3.9 11.0 + - - +
44L ASP* 4.4 0.2 - - - -
----------------------------------------------------------
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A short description of the
analytical approach
The contact analysis used in this page
is based upon the approach
developed in:
Sobolev V., Wade R.C., Vriend G.
and Edelman M. PROTEINS (1996)
25, 120-129.
Contact legitimacy depends on the hydrophobic-hydrophilic
properties of the contacting atoms. In order to
define it, for each inter-atomic contact,
eight atom classes have been introduced:
I Hydrophilic - N and O that can donate and accept hydrogen bonds
(e.g., oxygen of hydroxyl group of Ser. or Thr)
II Acceptor - N or O that can only accept a hydrogen bond
III Donor - N that can only donate a hydrogen bond
IV Hydrophobic - Cl, Br, I and all C atoms that are not in
aromatic rings and do not have a covalent bond to
a N or O atom
V Aromatic - C in aromatic rings irrespective of any other
bonds formed by the atom
VI Neutral - C atoms that have a covalent bond to at least one
atom of class I or two or more atoms from class II
or III; atoms; S, F, P, and metal atoms in all cases
VII Neutral-donor - C atoms that have a covalent bond with only one
atom of class III
VIII Neutral-acceptor - C atoms that have a covalent bond with only
one atom of class II
For each pair of contacts the state of legitimacy
is shown below:
Legend:
+, legitimate
-, illegitimate
------------------------------------------------------------
Atomic class I II III IV V VI VII VIII
------------------------------------------------------------
I (Hydrophilic) + + + - + + + +
II (Acceptor) + - + - + + + -
III (Donor) + + - - + + - +
IV (Hydrophobic) - - - + + + + +
V (Aromatic) + + + + + + + +
VI (Neutral) + + + + + + + +
VII (Neutral-donor) + + - + + + - +
VIII (Neutral-acceptor) + - + + + + + -
------------------------------------------------------------
Warning!
Atom classes for heterogroups are automatically
assigned based on the atomic coordinates. However, in
three cases (see below) the automatic assignment
is currently ambiguous. In these
cases, the user is advised to manually analyse
the full list of contacts using
LPC software.
1. Carbon atoms belonging to a 4-, 5- or 6-member ring are
considered "aromatic" (Class V) if the ring is approximately
planar, and "hydrophobic" (Class IV) or "neutral" (Classes
VI, VII, VIII) if the ring is non-planar.
2. The oxygen atom of a carbonyl or hydroxy group is considered
"hydroxy" (Class I) if the CO bond is longer than 1.29 Å, and
"carbonyl" (Class II) if shorter.
3. All nitrogen atoms are considered "hydrophilic" (Class I).
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