Contacts of the helix formed by residues 58 - 87 (chain J) 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 J).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56J GLY 3.4 0.4 + - - -
57J ALA* 1.3 77.0 - - + +
59J PHE* 1.3 64.8 + - - +
60J ILE 3.7 1.1 - - - -
61J ALA* 3.5 21.4 - - - +
62J VAL* 3.2 30.2 + - + +
114J VAL* 4.4 1.7 - - + +
115J GLN* 5.9 3.6 - - - +
165J ASN* 3.1 32.9 + - - +
58K ASN* 3.5 33.4 - - + +
61K ALA* 5.4 0.2 - - - +
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Residues in contact with PHE 59 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51J HIS 4.6 1.1 - - - -
54J MET* 3.4 40.7 - - + +
56J GLY 3.2 10.4 + - - +
58J ASN* 1.3 75.8 - - - +
60J ILE* 1.3 76.2 + - + +
62J VAL* 3.2 3.4 + - - +
63J HIS* 2.7 68.8 + + + +
114J VAL* 4.1 7.0 - - + -
160K TRP* 4.3 9.4 - + - -
161K PHE* 3.7 35.0 - + - -
164K SER* 3.2 43.5 - - - +
165K ASN* 3.3 19.3 + - - +
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Residues in contact with ILE 60 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59J PHE* 1.3 87.2 - - + +
61J ALA* 1.3 67.2 + - - +
63J HIS* 3.3 3.6 + - + +
64J GLU* 2.9 64.7 + - + +
58K ASN* 4.6 4.0 - - - +
61K ALA* 3.4 34.8 - - + +
62K VAL* 4.6 1.3 - - - +
65K MET* 4.1 17.7 - - + -
161K PHE* 3.6 37.2 - - + -
165K ASN* 3.3 21.6 + - - +
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Residues in contact with ALA 61 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58J ASN* 3.5 21.9 + - - +
59J PHE 3.4 0.6 - - - -
60J ILE* 1.3 82.3 - - - +
62J VAL* 1.3 58.1 + - + +
64J GLU* 3.8 7.3 - - - +
65J MET* 2.9 30.6 + - - +
61K ALA* 4.2 16.4 - - + -
610K TRS 5.8 7.0 - - - +
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Residues in contact with VAL 62 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
54J MET* 3.4 31.0 - - + -
58J ASN* 3.2 37.8 + - - +
59J PHE 3.2 2.8 + - - +
61J ALA* 1.3 74.0 - - + +
63J HIS* 1.3 65.8 + - - +
65J MET* 3.6 9.7 - - + +
66J LEU* 3.0 30.7 + - + +
114J VAL* 4.2 12.1 - - + -
118J LEU* 3.8 22.9 - - + -
165J ASN* 4.2 17.9 - - + +
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Residues in contact with HIS 63 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82I GLU* 4.6 6.9 + - - -
51J HIS* 2.7 82.5 + + - -
52J TRP* 4.7 1.1 - + - -
54J MET* 4.1 7.6 - - - -
59J PHE* 2.7 41.8 + + + +
60J ILE* 3.3 6.3 - - + +
62J VAL* 1.3 74.0 - - - +
64J GLU* 1.3 72.3 + - + +
66J LEU* 3.6 1.4 + - - +
67J ASP 3.4 5.4 + - - -
160K TRP* 4.1 21.4 - + - -
161K PHE* 3.9 29.4 - + - -
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Residues in contact with GLU 64 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51J HIS* 5.0 0.2 - - - -
60J ILE* 2.9 47.5 + - + +
61J ALA* 4.0 4.8 - - - +
63J HIS* 1.3 79.2 - - + +
65J MET* 1.3 67.3 + - - +
67J ASP* 3.1 18.1 + - - +
68J GLY* 3.2 9.5 + - - -
161K PHE* 5.1 3.5 - - + -
610K TRS 3.8 30.3 + - - +
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Residues in contact with MET 65 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61J ALA 2.9 19.6 + - - +
62J VAL* 3.3 15.7 + - + +
64J GLU* 1.3 76.7 - - - +
66J LEU* 1.3 78.8 + - + +
68J GLY* 3.0 12.0 + - - -
69J PHE* 3.1 50.8 + - + -
118J LEU* 5.0 2.2 - - + -
161J PHE* 4.0 22.7 - - + +
162J ILE* 4.4 8.1 - - + -
165J ASN* 3.7 28.5 - - - +
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Residues in contact with LEU 66 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47J THR* 3.4 24.0 - - + +
51J HIS* 4.0 22.0 - - + +
54J MET* 3.3 34.5 - - + -
62J VAL* 3.0 24.0 + - + +
63J HIS 3.8 4.0 - - - +
64J GLU 3.2 0.2 - - - -
65J MET* 1.3 85.7 - - + +
67J ASP* 1.3 64.5 + - - +
69J PHE* 2.9 35.3 + - + +
70J ARG 3.0 10.0 + - - -
118J LEU* 5.4 0.9 - - + -
121J LEU* 3.7 26.7 - - + -
125J TYR* 5.1 0.7 - - - +
162J ILE* 4.8 6.5 - - + -
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Residues in contact with ASP 67 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78I ASP* 4.4 0.5 - - - +
47J THR* 5.4 0.2 - - - -
48J LYS* 2.8 34.2 + - - +
51J HIS* 3.9 18.8 + - + -
63J HIS 3.4 2.8 + - - +
64J GLU* 3.1 12.9 + - - +
66J LEU* 1.3 80.1 - - - +
68J GLY* 1.3 62.3 + - - +
70J ARG* 3.3 23.4 + - - +
71J THR* 3.3 17.6 + - - -
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Residues in contact with GLY 68 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64J GLU 3.2 7.7 + - - -
65J MET* 3.0 10.1 + - - -
67J ASP* 1.3 77.4 - - - +
69J PHE* 1.3 62.5 + - - +
71J THR* 3.2 17.8 + - - -
72J ALA* 3.3 11.8 + - - +
158J PHE* 5.6 0.7 - - - -
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Residues in contact with PHE 69 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65J MET* 3.4 36.8 - - + -
66J LEU* 2.9 21.6 + - + +
68J GLY* 1.3 77.6 - - - +
70J ARG* 1.3 52.6 + - - +
72J ALA* 3.0 4.2 + - - +
73J LEU* 2.7 37.9 + - + +
125J TYR* 3.6 26.2 - + - +
158J PHE* 3.4 57.5 - + + -
161J PHE* 3.7 29.8 - + + -
162J ILE* 3.7 21.3 - - + -
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Residues in contact with ARG 70 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
74I ILE* 2.9 40.5 - - - +
77I LEU* 5.1 4.0 - - - +
78I ASP* 3.5 18.4 + - - -
44J SER* 4.1 24.3 + - - +
47J THR* 4.5 7.1 - - + +
48J LYS* 2.9 39.3 - - + +
66J LEU 3.0 9.9 + - - +
67J ASP* 3.3 23.1 + - - +
69J PHE* 1.3 77.1 - - - +
71J THR* 1.3 66.3 + - - +
73J LEU* 3.3 11.6 + - - +
74J ILE* 3.0 46.6 + - - +
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Residues in contact with THR 71 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67J ASP* 3.3 12.9 + - - -
68J GLY* 3.2 12.0 + - - -
70J ARG* 1.3 85.7 + - - +
72J ALA* 1.3 63.9 + - - +
74J ILE* 3.4 6.4 + - - +
75J ASP* 3.1 38.5 + - - +
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Residues in contact with ALA 72 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68J GLY 3.3 6.7 + - - +
69J PHE 3.0 7.4 + - - +
71J THR* 1.3 76.5 - - - +
73J LEU* 1.3 68.5 + - - +
75J ASP* 3.0 17.9 + - - +
76J HIS* 3.1 21.2 + - + -
154J ASP* 4.2 12.8 - - - +
158J PHE* 3.5 28.5 - - + -
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Residues in contact with LEU 73 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40J PHE* 3.8 20.8 - - + +
43J LEU* 4.1 15.0 - - + -
44J SER* 3.9 25.8 - - - +
47J THR* 3.8 9.9 - - - +
69J PHE 2.7 23.3 + - - +
70J ARG* 3.3 5.8 + - - +
72J ALA* 1.3 73.2 - - - +
74J ILE* 1.3 58.1 + - - +
76J HIS* 3.4 4.3 + - + +
77J LEU* 2.9 32.1 + - - +
125J TYR* 3.5 24.0 - - + +
155J LEU* 4.2 24.9 - - + -
158J PHE* 4.1 19.5 - - + -
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Residues in contact with ILE 74 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70I ARG* 2.9 43.3 - - - +
74I ILE* 4.1 15.9 - - + -
44J SER* 4.7 10.1 - - - +
70J ARG* 3.0 45.4 + - - +
71J THR* 3.6 7.2 - - - +
73J LEU* 1.3 78.0 - - - +
75J ASP* 1.3 63.6 + - - +
77J LEU* 3.3 14.9 - - + +
78J ASP* 2.8 33.5 + - - +
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Residues in contact with ASP 75 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
71J THR* 3.1 27.5 + - - +
72J ALA* 3.0 11.5 + - - +
74J ILE* 1.3 78.5 - - - +
76J HIS* 1.3 61.5 + - + +
78J ASP* 3.5 7.0 + - - +
79J THR* 2.7 34.0 + - - -
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Residues in contact with HIS 76 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40J PHE* 4.0 16.8 - + + -
72J ALA* 3.1 25.9 + - + +
73J LEU* 3.8 7.6 - - + +
75J ASP* 1.3 73.5 - - + +
77J LEU* 1.3 67.1 + - - +
79J THR* 3.0 9.4 + - - -
80J MET* 2.9 29.4 + - + +
147J ILE* 4.8 3.0 + - + +
150J ALA* 3.4 32.9 - - + +
151J ALA* 3.5 23.1 + - + +
154J ASP* 2.7 36.9 + - + +
155J LEU* 5.4 1.3 - - + -
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Residues in contact with LEU 77 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52I TRP* 3.4 25.4 - - + -
70I ARG* 5.1 3.4 - - - +
37J VAL* 4.0 9.0 - - + +
40J PHE* 4.1 13.7 - - + +
41J ILE* 3.2 46.4 - - + +
44J SER* 4.7 2.0 - - - +
73J LEU 2.9 17.1 + - - +
74J ILE* 3.3 21.3 - - + +
76J HIS* 1.3 75.9 - - - +
78J ASP* 1.3 80.7 + - - +
80J MET* 3.1 18.9 + - - +
81J ALA* 2.9 19.6 + - - +
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Residues in contact with ASP 78 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48I LYS* 2.7 34.0 + - - +
52I TRP* 3.2 17.7 + - - +
67I ASP* 4.3 0.7 - - - +
70I ARG* 3.5 17.4 + - - -
74J ILE* 2.8 24.6 + - - +
75J ASP* 3.9 7.5 - - - +
77J LEU* 1.3 90.8 - - - +
79J THR* 1.3 63.1 + - - +
81J ALA* 3.3 1.4 + - - +
82J GLU* 2.9 38.2 + - - +
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Residues in contact with THR 79 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
75J ASP* 2.7 21.0 + - - +
76J HIS* 3.0 13.3 + - - -
78J ASP* 1.3 78.5 - - - +
80J MET* 1.3 57.7 + - - +
82J GLU* 3.4 10.1 + - - +
83J ARG* 3.0 26.7 + - - +
86J GLN* 5.4 0.2 + - - -
147J ILE* 3.8 19.0 - - + +
153L ARG* 3.5 28.9 - - - +
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Residues in contact with MET 80 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33J LEU* 3.6 23.2 - - + +
36J GLN* 3.6 28.9 - - + -
37J VAL* 4.0 11.2 - - + +
40J PHE* 3.6 39.3 - - + -
76J HIS* 2.9 14.5 + - + +
77J LEU* 3.1 26.4 + - - +
79J THR* 1.3 71.2 - - - +
81J ALA* 1.3 67.5 + - - +
83J ARG* 3.1 6.3 + - - +
84J ALA* 3.0 19.9 + - - +
147J ILE* 3.6 20.0 - - + -
148J LEU* 3.8 17.3 - - - -
151J ALA* 5.0 3.8 - - - -
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Residues in contact with ALA 81 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52I TRP* 3.3 45.3 - - + +
37J VAL* 3.8 12.5 - - + +
77J LEU 2.9 11.9 + - - +
78J ASP 3.3 2.9 + - - +
80J MET* 1.3 76.5 - - - +
82J GLU* 1.3 63.1 + - - +
84J ALA* 3.1 7.4 + - - +
85J VAL* 3.1 25.7 + - - +
91J ALA* 3.9 13.3 - - + +
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Residues in contact with GLU 82 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48I LYS* 5.4 0.2 + - - -
51I HIS* 4.6 7.4 + - - -
52I TRP* 4.2 12.1 - - + -
63I HIS* 4.5 10.3 + - - -
78J ASP* 2.9 30.5 + - - +
79J THR* 3.7 8.3 - - - +
81J ALA* 1.3 76.5 - - - +
83J ARG* 1.3 57.2 + - - +
85J VAL* 3.3 5.3 + - - +
86J GLN* 2.9 44.2 + - - +
157L LYS* 4.0 26.7 + - - +
160L TRP* 3.9 27.2 - - + -
161L PHE* 5.7 0.6 - - - -
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Residues in contact with ARG 83 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33J LEU* 3.5 17.3 - - + -
79J THR 3.0 13.6 + - - +
80J MET* 3.1 9.4 + - - +
82J GLU* 1.3 76.0 - - - +
84J ALA* 1.3 63.1 + - - +
86J GLN* 3.1 27.2 + - - +
87J LEU* 3.1 35.7 + - + +
141J ASP* 2.7 39.2 + - - -
143J ASP* 3.3 26.6 + - - +
144J THR* 3.6 9.1 + - - +
147J ILE* 3.6 25.1 - - + -
133L ARG* 4.1 4.2 - - - +
153L ARG* 5.1 4.1 + - - +
156L ASP* 2.7 41.0 + - - +
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Residues in contact with ALA 84 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30J VAL* 3.6 26.5 - - + +
33J LEU* 3.4 22.1 - - + +
34J ASN* 4.5 9.6 - - - +
37J VAL* 6.2 0.4 - - + -
80J MET 3.0 12.3 + - - +
81J ALA* 3.1 11.6 + - - +
83J ARG* 1.3 76.0 - - - +
85J VAL* 1.3 62.9 + - - +
87J LEU* 3.1 8.4 + - - -
88J GLY 3.5 0.2 + - - -
89J GLY* 3.0 20.1 + - - -
90J VAL 5.2 0.2 - - - -
91J ALA* 4.9 8.1 - - - +
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Residues in contact with VAL 85 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52I TRP* 3.4 23.1 - - + +
53I ASN* 3.3 28.7 - - - +
54I MET 6.0 0.2 - - - +
55I ARG* 3.7 19.5 + - + +
15J LEU* 6.4 0.7 - - + -
81J ALA 3.1 14.2 + - - +
82J GLU* 3.8 8.1 - - - +
84J ALA* 1.3 75.9 - - - +
86J GLN* 1.3 57.6 + - - +
88J GLY* 3.0 19.2 + - - -
89J GLY 3.7 10.7 - - - +
91J ALA* 3.9 13.5 - - + +
160L TRP* 3.2 29.6 - - + +
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Residues in contact with GLN 86 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55I ARG* 5.5 0.3 + - - -
17J THR* 4.0 19.8 + - - +
19J ASN* 4.2 9.3 + - - +
79J THR 5.4 0.2 + - - -
82J GLU* 2.9 41.1 + - - +
83J ARG* 3.4 38.2 + - - +
85J VAL* 1.3 76.1 - - - +
87J LEU* 1.3 59.0 + - - +
88J GLY 3.1 3.3 + - - -
153L ARG* 4.3 4.7 - - - +
156L ASP* 3.7 7.9 - - + +
157L LYS* 3.8 27.0 + - - +
160L TRP* 3.5 48.8 - - + +
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Residues in contact with LEU 87 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14J LEU* 4.3 3.3 - - - +
17J THR* 4.6 1.3 - - - -
19J ASN* 4.2 11.0 - - - +
21J VAL* 3.9 34.3 - - + -
26J LYS* 3.1 41.7 - - + +
29J THR* 3.3 41.1 - - + +
30J VAL* 4.1 9.1 - - + +
33J LEU* 4.8 0.9 - - + -
83J ARG* 3.1 40.4 + - + +
84J ALA 3.1 8.9 + - - +
86J GLN* 1.3 76.0 - - - +
88J GLY* 1.3 59.3 + - - +
89J GLY 3.4 1.2 + - - -
141J ASP* 4.2 4.0 - - + +
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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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