Contacts of the helix formed by residues 58 - 87 (chain L) 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 L).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58H ASN* 3.5 33.0 - - + +
57I ALA* 5.1 1.8 - - + +
58I ASN* 3.4 35.1 - - + +
59I PHE 4.1 0.2 - - - +
60I ILE* 4.6 2.5 - - - +
56L GLY 3.4 0.4 + - - -
57L ALA* 1.3 76.4 - - + +
59L PHE* 1.3 66.5 + - - +
60L ILE 3.7 1.3 - - - -
61L ALA* 3.4 20.8 - - - +
62L VAL* 3.2 28.3 + - + +
114L VAL* 4.5 2.0 - - + +
115L GLN* 5.9 3.1 - - - +
118L LEU* 5.8 0.4 - - - +
165L ASN* 3.2 30.5 + - - +
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Residues in contact with PHE 59 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
160H TRP* 4.4 7.9 - + - -
161H PHE* 3.8 30.7 - + - -
164H SER* 3.1 45.3 - - - +
165H ASN* 3.3 18.2 + - - +
51L HIS 4.6 1.1 - - - -
52L TRP 5.6 0.2 - - - -
54L MET* 3.4 41.5 - - + +
56L GLY 3.2 11.7 + - - +
58L ASN* 1.3 73.7 - - - +
60L ILE* 1.3 77.8 + - + +
62L VAL* 3.2 3.6 + - - +
63L HIS* 2.7 70.4 + + + +
114L VAL* 4.1 7.4 - - + -
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Residues in contact with ILE 60 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58H ASN* 4.6 4.0 - - - +
61H ALA* 3.5 34.3 - - + +
62H VAL* 4.5 1.3 - - - +
65H MET* 3.9 18.8 - - + -
161H PHE* 3.5 42.0 - - + -
165H ASN* 3.1 23.2 + - - +
59L PHE* 1.3 86.8 - - + +
61L ALA* 1.3 68.4 + - - +
63L HIS* 3.2 2.8 + - + +
64L GLU* 2.9 59.8 + - + +
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Residues in contact with ALA 61 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61H ALA* 4.1 17.7 - - + -
60I ILE* 3.6 21.9 - - + +
61I ALA* 4.1 8.7 - - + -
609I TRS 6.2 0.2 - - - -
58L ASN* 3.4 20.8 + - - +
59L PHE 3.3 0.6 - - - -
60L ILE* 1.3 82.8 - - - +
62L VAL* 1.3 58.5 + - - +
64L GLU* 3.8 7.3 - - - +
65L MET* 2.9 29.8 + - - +
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Residues in contact with VAL 62 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60I ILE* 5.0 1.6 - - + -
54L MET* 3.5 26.0 - - + -
58L ASN* 3.2 37.2 + - - +
59L PHE 3.2 2.8 + - - +
61L ALA* 1.3 74.4 - - - +
63L HIS* 1.3 65.5 + - - +
65L MET* 3.6 9.3 - - + +
66L LEU* 3.0 29.9 + - + +
114L VAL* 4.3 11.7 - - + -
118L LEU* 3.8 23.1 - - + -
165L ASN* 4.2 21.5 - - + +
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Residues in contact with HIS 63 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
160H TRP* 4.0 21.7 - + - -
161H PHE* 3.8 33.1 - + - -
51L HIS* 2.7 81.5 + + - -
52L TRP* 4.7 1.3 - + - -
54L MET* 4.2 8.3 - - - -
59L PHE* 2.7 40.5 + + + +
60L ILE* 3.3 6.1 - - + +
62L VAL* 1.3 75.4 - - - +
64L GLU* 1.3 72.3 + - + +
66L LEU* 3.6 1.4 + - - +
67L ASP 3.4 4.9 + - - -
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Residues in contact with GLU 64 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
161H PHE* 5.0 4.7 - - + -
609I TRS 3.8 36.4 + - - +
60L ILE* 2.9 46.5 + - + +
61L ALA* 4.0 5.6 - - - +
63L HIS* 1.3 82.5 - - + +
65L MET* 1.3 66.0 + - - +
67L ASP* 3.0 19.2 + - - +
68L GLY* 3.1 9.4 + - - -
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Residues in contact with MET 65 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60I ILE* 4.0 25.4 - - + -
61L ALA 2.9 19.6 + - - +
62L VAL* 3.3 15.5 + - + +
64L GLU* 1.3 76.3 - - - +
66L LEU* 1.3 77.3 + - + +
68L GLY* 3.0 13.3 + - - +
69L PHE* 3.1 51.9 + - + -
118L LEU* 5.1 2.0 - - + -
161L PHE* 4.0 15.9 - - + +
162L ILE* 4.4 8.3 - - + -
165L ASN* 3.7 28.3 - - - +
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Residues in contact with LEU 66 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47L THR* 3.3 23.7 - - + +
51L HIS* 4.0 21.1 - - + +
54L MET* 3.4 33.7 - - + -
62L VAL* 3.0 24.8 + - + +
63L HIS 3.8 4.7 - - - +
65L MET* 1.3 86.7 - - + +
67L ASP* 1.3 64.7 + - - +
69L PHE* 3.0 34.2 + - + +
70L ARG* 3.0 10.4 + - - +
118L LEU* 5.5 0.4 - - + -
121L LEU* 3.7 28.5 - - + -
125L TYR* 5.1 0.7 - - - +
162L ILE* 4.8 5.6 - - + -
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Residues in contact with ASP 67 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47L THR* 5.4 0.2 - - - -
48L LYS* 2.8 33.7 + - - +
51L HIS* 3.8 20.8 + - + -
63L HIS 3.4 2.4 + - - -
64L GLU* 3.0 13.7 + - - +
66L LEU* 1.3 78.3 - - - +
68L GLY* 1.3 64.2 + - - +
70L ARG* 3.2 28.7 + - - +
71L THR* 3.3 12.4 + - - -
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Residues in contact with GLY 68 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64L GLU 3.1 7.3 + - - -
65L MET* 3.0 9.5 + - - -
67L ASP* 1.3 78.0 + - - +
69L PHE* 1.3 63.4 + - - +
71L THR* 3.1 18.9 + - - -
72L ALA* 3.2 11.1 + - - +
158L PHE* 5.6 0.4 - - - -
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Residues in contact with PHE 69 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65L MET* 3.4 40.4 - - + -
66L LEU* 3.0 20.7 + - + +
68L GLY* 1.3 75.4 - - - +
70L ARG* 1.3 53.7 + - - +
72L ALA* 3.0 4.3 + - - +
73L LEU* 2.7 37.9 + - - +
125L TYR* 3.6 26.5 - + - +
158L PHE* 3.4 52.5 - + + -
161L PHE* 3.7 29.6 - + + -
162L ILE* 3.7 25.1 - - + -
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Residues in contact with ARG 70 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44L SER* 4.1 25.2 + - - +
47L THR* 4.5 7.3 - - + +
48L LYS* 2.9 46.7 - - + +
52L TRP* 5.5 3.0 - - - -
66L LEU 3.0 10.8 + - - +
67L ASP* 3.3 22.5 + - - +
68L GLY 3.2 0.4 - - - -
69L PHE* 1.3 76.7 - - - +
71L THR* 1.3 66.7 + - - +
73L LEU* 3.5 11.8 - - - +
74L ILE* 3.0 45.6 + - - +
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Residues in contact with THR 71 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67L ASP* 3.3 13.2 + - - -
68L GLY* 3.1 11.2 + - - -
70L ARG* 1.3 83.9 + - - +
72L ALA* 1.3 63.4 + - - +
74L ILE* 3.3 8.3 + - - +
75L ASP* 3.1 39.5 + - - +
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Residues in contact with ALA 72 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68L GLY 3.2 6.3 + - - +
69L PHE 3.0 7.9 + - - +
71L THR* 1.3 78.2 - - - +
73L LEU* 1.3 66.3 + - - +
75L ASP* 3.0 18.2 + - - +
76L HIS* 3.1 20.4 + - + -
154L ASP* 4.1 12.3 - - - +
158L PHE* 3.5 27.6 - - + -
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Residues in contact with LEU 73 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40L PHE* 3.8 21.3 - - + +
43L LEU* 4.1 14.8 - - + -
44L SER* 3.8 25.6 - - - +
47L THR* 3.8 10.3 - - - +
69L PHE 2.7 24.0 + - - +
70L ARG* 3.5 6.3 - - - +
72L ALA* 1.3 72.2 - - - +
74L ILE* 1.3 58.0 + - - +
76L HIS* 3.5 4.3 + - + +
77L LEU* 2.9 32.5 + - - +
125L TYR* 3.4 24.0 - - + +
155L LEU* 4.2 25.4 - - + -
158L PHE* 4.1 19.1 - - + -
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Residues in contact with ILE 74 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44L SER* 4.6 11.2 - - - +
70L ARG* 3.0 45.9 + - - +
71L THR* 3.6 7.0 - - - +
72L ALA 3.2 0.2 - - - -
73L LEU* 1.3 77.0 - - - +
75L ASP* 1.3 63.6 + - - +
77L LEU* 3.4 16.7 - - + +
78L ASP* 2.8 47.2 + - - +
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Residues in contact with ASP 75 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
71L THR* 3.1 28.6 + - - +
72L ALA* 3.0 10.3 + - - +
74L ILE* 1.3 79.6 - - - +
76L HIS* 1.3 62.2 + - + +
78L ASP* 3.8 6.7 - - - +
79L THR* 2.7 34.8 + - - +
----------------------------------------------------------
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Residues in contact with HIS 76 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40L PHE* 4.0 10.5 - + + -
72L ALA* 3.1 28.5 + - + +
73L LEU* 3.8 7.9 - - + +
75L ASP* 1.3 76.5 - - + +
77L LEU* 1.3 65.2 + - - +
79L THR* 3.0 10.4 + - - -
80L MET* 2.9 29.0 + - + +
147L ILE* 4.7 3.3 + - + +
150L ALA* 3.4 18.6 - - + +
151L ALA* 3.4 42.6 + - + +
154L ASP* 2.6 36.8 + - + +
155L LEU* 5.4 1.3 - - + -
----------------------------------------------------------
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Residues in contact with LEU 77 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37L VAL* 4.1 12.2 - - + +
40L PHE* 4.0 13.7 - - + +
41L ILE* 3.2 53.4 - - + +
44L SER* 4.7 2.5 - - - +
73L LEU 2.9 16.5 + - - +
74L ILE* 3.4 22.4 - - + +
76L HIS* 1.3 76.8 - - - +
78L ASP* 1.3 82.2 + - - +
80L MET* 3.2 17.9 + - - +
81L ALA* 3.0 23.9 + - + +
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Residues in contact with ASP 78 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
74L ILE* 2.8 37.7 + - - +
75L ASP* 3.8 7.0 - - - +
77L LEU* 1.3 91.5 - - - +
79L THR* 1.3 62.2 + - - +
81L ALA* 3.6 5.3 - - - +
82L GLU* 2.9 39.2 + - + +
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Residues in contact with THR 79 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
75L ASP* 2.7 18.8 + - - +
76L HIS* 3.0 14.1 + - - -
78L ASP* 1.3 77.8 - - - +
80L MET* 1.3 57.4 + - - +
82L GLU* 3.3 11.5 + - - +
83L ARG* 3.0 26.2 + - - +
147L ILE* 3.8 32.3 - - + +
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Residues in contact with MET 80 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33L LEU* 3.6 23.2 - - + +
36L GLN* 3.6 28.0 - - + -
37L VAL* 4.0 11.7 - - + +
40L PHE* 3.6 42.0 - - + -
76L HIS* 2.9 13.6 + - + +
77L LEU* 3.6 26.0 - - - +
79L THR* 1.3 73.9 - - - +
81L ALA* 1.3 65.1 + - - +
83L ARG* 3.1 6.6 + - - +
84L ALA* 3.0 20.6 + - - +
147L ILE* 3.6 20.6 - - + -
148L LEU* 3.8 17.0 - - - -
151L ALA* 5.0 4.3 - - + -
----------------------------------------------------------
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Residues in contact with ALA 81 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37L VAL* 3.8 18.5 - - + +
77L LEU* 3.0 16.3 + - + +
78L ASP* 3.6 11.9 - - - +
79L THR 3.3 0.2 - - - -
80L MET* 1.3 75.3 - - - +
82L GLU* 1.3 63.0 + - + +
84L ALA* 3.2 7.2 + - - +
85L VAL* 3.1 25.7 + - - +
91L ALA* 3.8 22.1 - - + +
----------------------------------------------------------
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Residues in contact with GLU 82 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78L ASP* 2.9 31.9 + - + +
79L THR* 3.6 9.1 - - - +
80L MET 3.2 0.2 - - - -
81L ALA* 1.3 76.3 - - + +
83L ARG* 1.3 57.6 + - - +
85L VAL* 3.3 7.8 + - - +
86L GLN* 2.9 50.0 + - - +
----------------------------------------------------------
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Residues in contact with ARG 83 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19L ASN* 4.6 8.5 - - - +
21L VAL* 4.9 4.2 - - - +
33L LEU* 3.5 17.7 - - + -
79L THR 3.0 14.0 + - - +
80L MET* 3.4 9.9 - - - +
82L GLU* 1.3 76.9 - - - +
84L ALA* 1.3 65.2 + - - +
86L GLN* 3.2 30.2 + - - +
87L LEU* 3.2 44.1 + - + +
141L ASP* 2.7 39.3 + - - -
143L ASP* 3.3 31.1 + - - +
144L THR* 3.5 9.5 + - - +
147L ILE* 3.6 24.0 - - + -
----------------------------------------------------------
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Residues in contact with ALA 84 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30L VAL* 3.6 24.7 - - + +
33L LEU* 3.4 22.8 - - + +
34L ASN* 4.5 9.9 - - - +
37L VAL* 6.1 0.2 - - + -
80L MET 3.0 12.9 + - - +
81L ALA* 3.2 12.5 + - - +
83L ARG* 1.3 77.4 - - - +
85L VAL* 1.3 59.6 + - - +
87L LEU* 3.2 7.9 + - - -
88L GLY 3.5 0.2 + - - -
89L GLY* 3.0 23.2 + - - -
90L VAL 5.2 0.2 - - - -
91L ALA* 4.9 8.1 - - - +
----------------------------------------------------------
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Residues in contact with VAL 85 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
15L LEU* 6.4 2.2 - - + -
81L ALA 3.1 13.9 + - - +
82L GLU* 3.7 9.6 - - - +
84L ALA* 1.3 75.9 - - - +
86L GLN* 1.3 64.2 + - + +
88L GLY* 3.0 14.2 + - - -
89L GLY 3.7 12.5 - - - +
90L VAL* 4.9 0.2 - - - -
91L ALA* 3.9 26.2 - - + +
----------------------------------------------------------
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Residues in contact with GLN 86 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17L THR* 4.0 19.9 + - - +
19L ASN* 4.2 12.3 + - - +
79L THR 5.4 0.2 + - - -
82L GLU* 2.9 48.8 + - - +
83L ARG* 3.2 35.8 + - - +
85L VAL* 1.3 77.4 - - + +
87L LEU* 1.3 59.0 + - - +
88L GLY 3.1 3.5 + - - -
----------------------------------------------------------
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Residues in contact with LEU 87 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14L LEU* 4.0 3.6 - - - +
17L THR* 4.6 1.1 - - - -
19L ASN* 4.2 10.8 - - - +
21L VAL* 3.8 34.5 - - + -
26L LYS* 3.1 42.0 - - + +
29L THR* 3.3 41.3 - - + +
30L VAL* 4.1 8.5 - - + +
33L LEU* 4.8 0.7 - - + -
83L ARG* 3.2 41.1 + - + +
84L ALA 3.7 7.2 - - - +
85L VAL 3.2 0.6 - - - -
86L GLN* 1.3 76.4 - - - +
88L GLY* 1.3 58.4 + - - +
89L GLY 3.4 2.1 + - - -
141L ASP* 4.2 4.9 - - + +
----------------------------------------------------------
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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