Contacts of the helix formed by residues 58 - 87 (chain K) in PDB entry 1F33
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 58 (chain K).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57J ALA* 5.1 2.4 - - + +
58J ASN* 3.5 39.0 - - + +
59J PHE 4.1 0.2 - - - +
60J ILE* 4.6 1.9 - - - +
56K GLY 3.4 0.6 + - - -
57K ALA* 1.3 76.5 - - + +
59K PHE* 1.3 63.3 + - - +
60K ILE* 3.7 2.4 - - - +
61K ALA* 3.5 21.0 - - - +
62K VAL* 3.2 31.9 + - + +
114K VAL* 4.4 1.7 - - + +
115K GLN* 5.9 3.1 - - - +
118K LEU* 5.7 0.6 - - - +
165K ASN* 3.1 31.7 + - - +
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Residues in contact with PHE 59 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51K HIS 4.6 0.9 - - - -
52K TRP 5.5 2.0 - - - -
54K MET* 3.4 41.0 - - + +
55K ARG* 4.4 2.0 - - + -
56K GLY 3.2 22.8 + - - +
58K ASN* 1.3 74.0 - - - +
60K ILE* 1.3 88.3 + - + +
62K VAL* 3.1 2.6 + - - +
63K HIS* 2.6 74.0 + + + +
114K VAL* 4.2 8.3 - - + -
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Residues in contact with ILE 60 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58K ASN* 5.4 0.9 - - - -
59K PHE* 1.3 101.0 - - + +
61K ALA* 1.3 70.1 + - + +
63K HIS* 3.2 9.4 + - + +
64K GLU* 2.9 63.4 + - + +
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Residues in contact with ALA 61 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58J ASN* 5.4 0.2 - - - +
60J ILE* 3.4 26.4 - - + +
61J ALA* 4.2 16.2 - - + -
58K ASN* 3.5 15.4 + - - +
59K PHE 3.3 0.8 - - - -
60K ILE* 1.3 85.3 - - + +
62K VAL* 1.3 57.4 + - - +
64K GLU* 4.0 6.8 - - - +
65K MET* 2.9 30.5 + - - +
610K TRS 6.1 2.7 - - - +
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Residues in contact with VAL 62 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60J ILE* 5.0 1.3 - - + -
54K MET* 3.5 29.8 - - + -
58K ASN* 3.2 39.4 + - - +
59K PHE 3.1 3.0 + - - +
61K ALA* 1.3 73.8 - - - +
63K HIS* 1.3 67.9 + - - +
65K MET* 3.6 9.4 - - + +
66K LEU* 3.0 30.1 + - + +
114K VAL* 4.2 11.4 - - + -
118K LEU* 3.8 22.2 - - + -
165K ASN* 4.3 17.3 - - + +
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Residues in contact with HIS 63 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51K HIS* 2.7 86.2 + + - -
52K TRP* 4.6 7.0 - + - -
54K MET* 4.1 8.0 - - - -
59K PHE* 2.6 53.0 + + + +
60K ILE* 3.3 17.0 - - + +
62K VAL* 1.3 75.9 - - - +
64K GLU* 1.3 68.2 + - + +
66K LEU* 3.5 1.0 + - - +
67K ASP 3.4 5.4 + - - -
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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
----------------------------------------------------------
51K HIS* 5.0 0.2 - - - -
60K ILE* 2.9 46.2 + - + +
61K ALA* 4.1 5.5 - - - +
63K HIS* 1.3 79.3 - - + +
65K MET* 1.3 67.0 + - - +
67K ASP* 3.1 18.1 + - - +
68K GLY* 3.1 9.9 + - - -
610K TRS 3.5 39.9 + - - +
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Residues in contact with MET 65 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60J ILE* 4.1 24.5 - - + -
61K ALA 2.9 20.7 + - - +
62K VAL* 3.2 14.8 + - + +
64K GLU* 1.3 76.1 - - - +
66K LEU* 1.3 76.5 + - + +
68K GLY* 2.9 13.7 + - - -
69K PHE* 3.1 50.2 + - + -
118K LEU* 5.1 2.5 - - + -
161K PHE* 3.9 18.8 - - + +
162K ILE* 4.4 8.1 - - + -
165K ASN* 3.7 28.5 - - - +
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Residues in contact with LEU 66 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47K THR* 3.3 24.1 - - + +
51K HIS* 4.0 21.5 - - + +
54K MET* 3.3 34.1 - - + -
62K VAL* 3.0 23.3 + - + +
63K HIS 3.7 4.3 - - - +
65K MET* 1.3 85.2 - - + +
67K ASP* 1.3 63.5 + - - +
69K PHE* 3.0 34.7 + - + +
70K ARG 3.1 9.7 + - - -
118K LEU* 5.5 0.9 - - + -
121K LEU* 3.7 26.9 - - + -
125K TYR* 5.1 0.9 - - - +
162K ILE* 4.8 5.6 - - + -
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Residues in contact with ASP 67 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48K LYS* 2.8 33.9 + - - +
51K HIS* 3.9 19.9 + - + -
63K HIS 3.4 2.6 + - - -
64K GLU* 3.1 13.5 + - - +
66K LEU* 1.3 78.1 - - - +
68K GLY* 1.3 63.5 + - - +
70K ARG* 3.2 29.9 + - - +
71K THR* 3.3 13.4 + - - -
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Residues in contact with GLY 68 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64K GLU 3.1 7.9 + - - -
65K MET* 2.9 9.3 + - - -
67K ASP* 1.3 77.8 + - - +
69K PHE* 1.3 63.7 + - - +
71K THR* 3.2 17.7 + - - -
72K ALA* 3.3 12.3 + - - +
158K PHE* 5.6 0.2 - - - -
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Residues in contact with PHE 69 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65K MET* 3.1 38.3 + - + -
66K LEU* 3.0 20.7 + - + +
68K GLY* 1.3 76.6 - - - +
70K ARG* 1.3 51.6 + - - +
72K ALA* 3.0 4.0 + - - +
73K LEU* 2.7 39.2 + - - +
125K TYR* 3.6 26.7 - + - +
158K PHE* 3.4 55.4 - + + -
161K PHE* 3.6 30.3 - + + -
162K ILE* 3.7 20.9 - - + -
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Residues in contact with ARG 70 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44K SER* 4.1 24.6 + - - +
47K THR* 4.5 7.6 - - + +
48K LYS* 2.9 46.9 - - + +
52K TRP* 5.5 2.8 - - - -
66K LEU 3.1 10.6 + - - +
67K ASP* 3.3 22.7 + - - +
69K PHE* 1.3 77.0 - - - +
71K THR* 1.3 67.9 + - - +
73K LEU* 3.3 12.3 + - - +
74K ILE* 3.0 47.0 + - - +
----------------------------------------------------------
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Residues in contact with THR 71 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67K ASP* 3.3 12.9 + - - -
68K GLY* 3.2 12.4 + - - -
70K ARG* 1.3 86.9 + - - +
72K ALA* 1.3 62.1 + - - +
74K ILE* 3.4 6.4 + - - +
75K ASP* 3.1 34.9 + - - +
----------------------------------------------------------
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Residues in contact with ALA 72 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68K GLY 3.3 5.7 + - - +
69K PHE 3.0 8.4 + - - +
71K THR* 1.3 76.7 - - - +
73K LEU* 1.3 67.3 + - - +
75K ASP* 3.1 8.7 + - - +
76K HIS* 3.1 31.1 + - + -
154K ASP* 4.3 11.9 - - - +
158K PHE* 3.5 27.6 - - + -
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Residues in contact with LEU 73 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40K PHE* 3.8 22.0 - - + +
43K LEU* 4.1 13.7 - - + -
44K SER* 3.8 25.8 - - - +
47K THR* 3.8 11.0 - - - +
69K PHE 2.7 23.2 + - - +
70K ARG* 3.5 5.8 - - - +
72K ALA* 1.3 75.5 - - - +
74K ILE* 1.3 57.5 + - - +
76K HIS* 3.3 4.3 + - + +
77K LEU* 2.9 31.7 + - - +
125K TYR* 3.5 23.6 - - - +
155K LEU* 4.2 24.5 - - + -
158K PHE* 4.1 20.9 - - + -
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Residues in contact with ILE 74 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44K SER* 4.6 11.0 - - - +
70K ARG* 3.0 47.8 + - - +
71K THR* 3.6 7.4 - - - +
73K LEU* 1.3 78.0 - - - +
75K ASP* 1.3 63.1 + - - +
77K LEU* 3.4 16.6 - - + +
78K ASP* 2.8 46.6 + - - +
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Residues in contact with ASP 75 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
71K THR* 3.1 28.2 + - - +
72K ALA* 3.1 10.8 + - - +
74K ILE* 1.3 83.5 - - - +
76K HIS* 1.3 57.4 + - + +
78K ASP* 3.5 7.1 + - - +
79K THR* 2.7 33.4 + - - -
----------------------------------------------------------
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Residues in contact with HIS 76 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40K PHE* 4.0 10.5 - + + -
72K ALA* 3.1 28.6 + - + +
73K LEU* 3.7 7.2 - - + +
75K ASP* 1.3 74.1 - - + +
77K LEU* 1.3 66.6 + - - +
79K THR* 3.0 9.6 + - - -
80K MET* 2.9 29.9 + - + +
147K ILE* 4.7 3.2 + - + +
150K ALA* 3.4 32.9 - - + +
151K ALA* 3.4 29.7 + - + +
154K ASP* 2.7 35.4 + - + +
155K LEU* 5.4 1.8 - - + -
----------------------------------------------------------
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Residues in contact with LEU 77 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37K VAL* 3.9 12.1 - - + +
40K PHE* 4.1 13.0 - - + +
41K ILE* 3.3 53.2 - - + +
44K SER* 4.7 2.7 - - - +
73K LEU 2.9 15.7 + - - +
74K ILE* 3.4 22.7 - - + +
76K HIS* 1.3 77.2 - - - +
78K ASP* 1.3 81.9 + - - +
80K MET* 3.1 17.7 + - - +
81K ALA* 3.0 23.4 + - + +
----------------------------------------------------------
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Residues in contact with ASP 78 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
74K ILE* 2.8 35.0 + - - +
75K ASP* 3.8 8.4 - - - +
77K LEU* 1.3 91.5 - - - +
79K THR* 1.3 57.8 + - - +
81K ALA* 3.3 5.3 + - - +
82K GLU* 2.9 46.6 + - + +
----------------------------------------------------------
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Residues in contact with THR 79 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
153G ARG* 3.7 27.1 - - - +
75K ASP 2.7 20.1 + - - -
76K HIS* 3.0 13.7 + - - -
78K ASP* 1.3 78.1 - - - +
80K MET* 1.3 62.9 + - - +
82K GLU* 3.4 10.8 + - - +
83K ARG* 3.0 21.8 + - - +
147K ILE* 3.8 21.0 - - + +
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Residues in contact with MET 80 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33K LEU* 3.7 22.7 - - + +
36K GLN* 3.6 26.9 - - + -
37K VAL* 4.0 11.4 - - + +
40K PHE* 3.6 40.6 - - + -
76K HIS* 2.9 14.5 + - + +
77K LEU* 3.1 26.7 + - - +
79K THR* 1.3 73.6 - - - +
81K ALA* 1.3 67.3 + - - +
83K ARG* 3.1 6.9 + - - +
84K ALA* 2.9 20.1 + - - +
147K ILE* 3.6 21.3 - - + -
148K LEU* 3.8 17.3 - - - -
151K ALA* 5.0 4.3 - - - -
----------------------------------------------------------
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Residues in contact with ALA 81 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37K VAL* 3.8 18.1 - - + +
77K LEU* 3.0 15.9 + - + +
78K ASP* 3.5 11.7 - - - +
80K MET* 1.3 76.1 - - - +
82K GLU* 1.3 64.3 + - + +
84K ALA* 3.1 8.0 + - - +
85K VAL* 3.0 26.2 + - - +
91K ALA* 3.8 22.3 - - + +
----------------------------------------------------------
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Residues in contact with GLU 82 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
157G LYS* 4.0 24.0 + - - +
160G TRP* 3.8 30.5 - - + -
161G PHE* 5.7 2.2 - - - -
78K ASP* 2.9 30.8 + - + +
79K THR* 3.6 8.8 - - - +
81K ALA* 1.3 78.8 - - + +
83K ARG* 1.3 56.0 + - - +
85K VAL* 3.2 5.3 + - - +
86K GLN* 2.9 44.6 + - - +
----------------------------------------------------------
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Residues in contact with ARG 83 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
133G ARG* 4.2 4.2 - - - +
153G ARG* 5.1 3.9 + - - +
156G ASP* 2.8 39.4 + - - +
19K ASN* 4.7 0.2 - - - +
33K LEU* 3.5 17.0 - - + -
79K THR 3.0 6.9 + - - +
80K MET* 3.1 9.4 + - - +
82K GLU* 1.3 73.1 - - - +
84K ALA* 1.3 67.2 + - - +
86K GLN* 3.1 20.9 + - - +
87K LEU* 3.1 42.4 + - + +
141K ASP* 2.7 39.2 + - - -
143K ASP* 3.3 26.0 + - - +
144K THR* 3.7 7.5 + - - +
147K ILE* 3.6 32.1 - - + -
----------------------------------------------------------
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Residues in contact with ALA 84 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30K VAL* 3.7 23.5 - - + +
33K LEU* 3.4 22.6 - - + +
34K ASN* 4.5 9.9 - - - +
80K MET 2.9 11.5 + - - +
81K ALA* 3.3 11.9 - - - +
83K ARG* 1.3 76.5 - - - +
85K VAL* 1.3 63.1 + - - +
87K LEU* 3.0 15.0 + - - +
88K GLY 3.5 0.2 + - - -
89K GLY* 3.1 16.5 + - - -
91K ALA* 4.8 8.1 - - - +
----------------------------------------------------------
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Residues in contact with VAL 85 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
160G TRP* 3.3 37.7 - - + +
15K LEU* 6.4 1.8 - - + -
81K ALA 3.0 14.3 + - - +
82K GLU* 3.6 8.3 - - - +
84K ALA* 1.3 75.1 - - - +
86K GLN* 1.3 56.7 + - - +
88K GLY* 3.0 19.6 + - - -
89K GLY 3.7 13.6 - - - +
90K VAL* 4.8 0.4 - - - -
91K ALA* 3.9 26.7 - - + +
----------------------------------------------------------
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Residues in contact with GLN 86 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
153G ARG 4.4 2.6 - - - +
156G ASP* 3.8 6.8 - - + +
157G LYS* 3.8 28.8 + - - +
160G TRP* 3.4 51.2 - - + +
17K THR* 4.0 19.4 + - - +
19K ASN* 4.2 10.2 + - - +
82K GLU* 2.9 36.2 + - - +
83K ARG* 3.1 38.1 + - - +
85K VAL* 1.3 75.8 - - - +
87K LEU* 1.3 59.4 + - - +
88K GLY 3.1 3.7 + - - -
----------------------------------------------------------
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Residues in contact with LEU 87 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14K LEU* 3.8 3.5 - - - +
17K THR* 4.6 1.6 - - - -
19K ASN* 4.2 11.0 - - - +
21K VAL* 3.8 34.1 - - + -
26K LYS* 3.1 41.7 - - + +
29K THR* 3.3 41.3 - - + +
30K VAL* 4.2 8.0 - - + +
33K LEU* 4.8 0.9 - - + -
83K ARG* 3.1 40.3 + - + +
84K ALA 3.0 9.3 + - - +
86K GLN* 1.3 76.0 - - - +
88K GLY* 1.3 58.9 + - - +
89K GLY 3.4 1.5 + - - -
141K ASP* 4.2 4.3 - - - +
----------------------------------------------------------
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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
------------------------------------------------------------
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