Contacts of the helix formed by residues 59 - 86 (chain A) in PDB entry 4GUN
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 ASP 59 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
54A ALA* 2.9 15.7 + - + +
57A LYS* 3.2 16.0 - - + +
58A ARG* 1.4 71.3 - - - +
60A LEU* 1.3 62.9 + - - +
61A LYS* 3.8 10.7 + - - +
62A SER* 2.7 36.4 + - - -
63A VAL* 3.0 24.7 + - - +
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Residues in contact with LEU 60 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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58A ARG* 3.2 23.5 + - + +
59A ASP* 1.3 73.2 + - - +
61A LYS* 1.3 55.0 + - - +
63A VAL* 3.7 4.4 - - - +
64A VAL* 2.9 36.0 + - + +
8C ILE* 3.8 18.4 - - + -
44C TYR* 3.4 50.3 - - + +
74C GLY* 3.7 23.3 - - - +
77C HIS* 4.0 21.5 - - + -
78C THR* 3.6 17.0 - - - +
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Residues in contact with LYS 61 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59A ASP* 3.2 10.0 + - - +
60A LEU* 1.3 76.6 - - - +
62A SER* 1.4 61.1 + - - +
64A VAL* 3.6 2.8 + - - +
65A GLU* 3.2 21.8 + - - +
78C THR* 4.8 11.7 + - + +
141C LYS* 4.8 4.2 - - - +
157C THR* 5.8 2.5 - - + -
158C ILE 3.4 27.8 - - - +
159C SER* 3.6 18.3 - - - +
160C ALA 3.2 19.5 + - - -
161C PRO* 3.8 13.6 + - - +
163C LEU 2.8 25.4 + - - -
164C VAL* 4.9 2.6 - - - +
165C PRO* 5.0 6.3 - - + +
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Residues in contact with SER 62 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
54A ALA* 3.7 15.3 - - - -
59A ASP* 2.7 31.6 + - - -
61A LYS* 1.4 74.8 - - - +
63A VAL* 1.4 61.7 - - - +
65A GLU* 3.2 8.0 + - - +
66A ILE* 2.9 42.6 + - - +
159C SER 5.7 0.2 - - - -
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Residues in contact with VAL 63 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51A LEU* 4.1 12.1 - - + -
54A ALA* 3.7 7.8 - - + +
55A VAL* 3.6 40.2 - - + +
59A ASP 3.0 22.2 + - - +
60A LEU* 3.7 7.0 - - - +
62A SER* 1.4 74.0 - - - +
64A VAL* 1.3 65.6 + - + +
66A ILE* 3.4 1.0 + - - -
67A GLN* 3.1 34.6 + - - +
44C TYR* 3.7 22.2 - - + +
70C ILE* 3.5 27.8 - - + -
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Residues in contact with VAL 64 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60A LEU* 2.9 21.4 + - - +
61A LYS 4.0 3.4 - - - +
63A VAL* 1.3 78.9 - - + +
65A GLU* 1.3 60.5 + - - +
67A GLN* 3.6 18.5 + - - +
68A GLN* 4.3 2.3 + - - +
70C ILE 4.5 4.3 - - - +
71C LYS* 4.1 25.3 - - + +
74C GLY* 3.9 11.0 - - - +
75C GLY* 3.8 26.9 - - - +
78C THR* 5.2 0.4 - - - +
155C GLN 5.9 0.4 - - - +
156C ASP* 6.1 0.9 - - - -
157C THR* 3.8 29.4 - - + +
159C SER* 3.9 9.9 - - - +
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Residues in contact with GLU 65 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61A LYS 3.2 15.0 + - - +
62A SER* 3.2 11.7 + - - +
64A VAL* 1.3 78.1 - - - +
66A ILE* 1.4 60.6 + - + +
67A GLN 3.5 0.5 + - - -
68A GLN* 3.6 17.2 + - - +
69A ASN* 4.4 8.7 + - - +
159C SER* 2.7 42.9 + - - +
160C ALA* 3.9 8.9 + - - +
161C PRO* 3.9 19.8 - - + +
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Residues in contact with ILE 66 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47A ALA* 3.3 33.0 - - + +
50A ALA* 3.5 37.2 - - + +
51A LEU* 3.9 8.3 - - + +
54A ALA* 4.0 9.2 - - + -
62A SER* 2.9 34.6 + - - +
63A VAL* 3.9 4.5 - - - +
65A GLU* 1.4 68.8 - - + +
67A GLN* 1.3 65.9 + - - +
68A GLN 3.2 2.7 - - - -
69A ASN* 2.9 25.0 + - + +
70A ILE* 3.1 20.7 + - + +
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Residues in contact with GLN 67 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51A LEU* 3.1 29.1 - - - +
63A VAL 3.1 24.7 + - - +
64A VAL* 3.6 11.9 - - - +
65A GLU 3.4 0.8 - - - -
66A ILE* 1.3 74.4 - - - +
68A GLN* 1.3 61.1 + - - +
70A ILE* 3.1 15.5 + - - +
71A LYS 3.0 19.4 + - - -
51C LEU* 5.3 0.5 - - - +
67C GLN* 3.1 50.7 - - - +
70C ILE* 3.4 41.7 - - + +
71C LYS* 4.2 11.9 - - + +
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Residues in contact with GLN 68 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64A VAL 4.3 1.9 + - - +
65A GLU 3.6 13.0 + - - +
66A ILE 3.2 0.8 + - - -
67A GLN* 1.3 77.8 - - - +
69A ASN* 1.3 59.7 + - - +
71A LYS* 3.4 40.1 + - - +
72A PHE* 3.0 31.7 + - - +
130B GLN* 2.7 32.7 + - - +
67C GLN* 4.9 1.5 - - - +
71C LYS* 5.9 2.6 - - - +
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Residues in contact with ASN 69 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47A ALA* 4.1 17.1 - - + +
65A GLU* 4.4 7.7 + - - +
66A ILE* 2.9 24.6 + - - +
68A GLN* 1.3 75.9 - - - +
70A ILE* 1.3 59.6 + - - +
72A PHE* 4.4 0.2 - - - -
73A HIS* 3.0 48.9 + - + +
130B GLN* 3.2 20.8 + - - +
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Residues in contact with ILE 70 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44A TYR* 4.2 8.6 - - + -
47A ALA* 4.0 18.2 - - + -
48A ILE* 4.1 13.0 - - + -
51A LEU* 3.6 33.4 - - + -
66A ILE* 3.1 14.5 + - + +
67A GLN* 3.1 27.5 + - - +
69A ASN* 1.3 73.4 - - - +
71A LYS* 1.3 57.2 + - - +
74A GLY* 2.8 34.5 + - - +
51C LEU* 5.4 5.2 - - + -
63C VAL* 3.6 30.7 - - + +
64C VAL* 4.3 1.8 - - - +
67C GLN* 4.3 13.9 - - + -
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Residues in contact with LYS 71 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67A GLN 3.0 5.5 + - - +
68A GLN* 3.4 40.9 + - - +
70A ILE* 1.3 76.6 - - - +
72A PHE* 1.3 57.9 + - - +
75A GLY* 2.9 27.2 + - - -
155A GLN 4.1 3.7 - - - +
156A ASP* 3.3 35.4 + - - +
64C VAL* 4.0 17.4 - - + +
67C GLN* 3.5 44.1 - - - +
68C GLN* 5.8 1.6 - - - +
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Residues in contact with PHE 72 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40A TYR* 3.6 24.3 - + - -
68A GLN* 3.0 20.9 + - - +
69A ASN 4.1 2.0 - - - +
70A ILE 3.3 0.2 - - - -
71A LYS* 1.3 76.3 - - - +
73A HIS* 1.3 85.1 + + - +
76A GLY* 2.9 23.2 + - - -
154A ASN* 4.6 4.5 - - + -
155A GLN* 3.2 37.9 - - + +
172A TRP* 3.8 23.6 - + - -
130B GLN* 3.4 55.0 - - + +
131B GLY 4.3 1.1 - - - -
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Residues in contact with HIS 73 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39A ALA* 4.1 7.0 - - + -
40A TYR* 3.4 36.9 - + - +
43A GLY* 3.5 26.3 - - - -
44A TYR* 3.3 24.2 - - - +
69A ASN* 3.0 39.7 + - + +
72A PHE* 1.3 95.8 - + - +
74A GLY* 1.3 61.6 + - - +
77A HIS* 3.1 27.4 + - - +
130B GLN* 5.2 1.2 + - - -
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Residues in contact with GLY 74 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44A TYR* 3.7 19.9 - - - -
70A ILE 2.8 18.6 + - - -
73A HIS* 1.3 77.2 - - - +
75A GLY* 1.3 60.4 + - - +
77A HIS* 3.8 2.4 - - - +
78A THR* 2.9 29.1 + - - -
60C LEU* 3.8 11.3 - - - +
64C VAL* 3.9 11.7 - - - -
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Residues in contact with GLY 75 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
71A LYS 2.9 17.0 + - - -
74A GLY* 1.3 73.7 - - - +
76A GLY* 1.3 54.0 + - - +
78A THR* 3.3 6.3 + - - -
79A ASN* 2.8 39.5 + - - -
155A GLN* 3.3 23.8 - - - -
157A THR* 4.6 7.0 - - - -
64C VAL* 3.8 7.5 - - - +
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Residues in contact with GLY 76 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40A TYR* 3.8 15.9 - - - -
72A PHE 2.9 13.6 + - - -
73A HIS 3.5 0.2 + - - -
74A GLY 3.4 0.2 - - - -
75A GLY* 1.3 75.3 - - - +
77A HIS* 1.3 55.6 + - - +
80A HIS* 2.7 38.2 + - - +
155A GLN* 3.4 29.9 - - - +
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Residues in contact with HIS 77 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8A ILE* 3.4 38.5 - - + +
9A SER 3.4 25.1 - - - -
11A PRO* 4.2 3.6 - - + -
37A HIS* 2.9 33.7 + - + +
40A TYR* 3.9 5.0 - - + +
41A VAL* 4.0 1.8 - - - +
73A HIS 3.1 17.4 + - - +
74A GLY 3.8 3.6 - - - +
76A GLY* 1.3 76.6 - - - +
78A THR* 1.4 60.3 + - - +
81A SER* 2.9 52.3 + - - -
60C LEU* 3.9 16.4 - - + -
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Residues in contact with THR 78 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
74A GLY 2.9 17.3 + - - -
75A GLY* 3.7 6.5 - - - -
77A HIS* 1.4 80.9 - - - +
79A ASN* 1.3 61.8 + - - +
81A SER* 3.5 5.8 + - - -
82A LEU* 3.1 39.0 + - + +
157A THR* 3.8 24.0 - - + +
158A ILE 5.8 1.6 - - - +
60C LEU* 3.8 22.7 - - - +
61C LYS* 5.4 11.2 - - + +
64C VAL* 5.5 0.9 - - - +
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Residues in contact with ASN 79 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
75A GLY 2.8 16.5 + - - +
76A GLY 4.1 0.2 - - - +
78A THR* 1.3 73.6 - - - +
80A HIS* 1.3 56.6 + - - +
82A LEU* 3.4 8.9 + - - +
83A PHE* 2.9 27.4 + - - +
134A TRP* 3.4 36.7 - - + +
136A PHE* 3.2 19.8 - - - -
155A GLN* 3.2 29.8 + - - +
156A ASP 3.1 23.0 + - - -
157A THR* 2.7 26.1 + - - -
168A ALA* 4.4 0.2 - - - +
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Residues in contact with HIS 80 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32A HIS* 3.0 18.3 + + - -
36A HIS* 5.0 0.6 - - - +
37A HIS* 3.4 25.8 - + + +
40A TYR* 3.4 27.1 - + - -
76A GLY 2.7 28.9 + - - +
79A ASN* 1.3 73.9 - - - +
81A SER* 1.4 57.3 + - - +
83A PHE* 3.0 6.6 + + - +
84A TRP* 2.9 53.2 + + + -
134A TRP* 3.7 11.1 - + - -
155A GLN* 3.5 14.1 - - - -
170A ASP* 3.3 3.1 + - - -
174A HIS* 3.9 0.4 + - - -
301A MN 2.1 37.3 + - - -
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Residues in contact with SER 81 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11A PRO* 3.7 11.8 - - - +
37A HIS* 3.5 12.2 - - - -
77A HIS* 2.9 39.2 + - - -
78A THR* 3.8 6.3 - - - -
80A HIS* 1.4 73.8 - - - +
82A LEU* 1.4 61.8 + - - +
84A TRP* 3.8 9.8 + - - +
85A LYS* 3.4 28.4 + - - +
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Residues in contact with LEU 82 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78A THR* 3.1 37.8 + - + +
79A ASN* 3.6 7.6 - - - +
81A SER* 1.4 72.6 - - - +
83A PHE* 1.3 66.7 + - - +
85A LYS 3.3 0.5 + - - -
86A ASN* 3.0 15.5 + - - +
136A PHE* 4.2 16.4 - - + -
157A THR* 4.6 1.6 - - - +
165A PRO* 3.9 40.8 - - + +
168A ALA* 3.9 9.9 - - + -
203A ARG* 2.9 47.3 + - - +
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Residues in contact with PHE 83 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24A ILE* 4.8 4.9 - - + -
29A ASN* 6.1 0.2 - - - -
32A HIS* 3.8 26.0 - + - -
79A ASN 2.9 13.9 + - - +
80A HIS* 3.0 9.2 + + - +
82A LEU* 1.3 75.6 - - - +
84A TRP* 1.3 89.3 + + - +
86A ASN* 3.1 19.1 + - - +
87A LEU* 3.3 35.8 + - + +
134A TRP* 3.8 11.9 - + + -
168A ALA* 3.2 22.6 - - - +
169A ILE* 4.1 1.6 - - + -
170A ASP* 3.6 26.2 - - + -
187A TYR* 3.6 19.5 - - - -
191A ILE* 3.6 22.7 - - + -
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Residues in contact with TRP 84 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11A PRO* 4.2 4.3 - - + -
13A ILE* 3.3 33.4 - - + +
14A ASP* 5.6 1.2 + - - +
15A TRP* 3.1 49.5 + + + -
29A ASN* 4.9 5.2 - - - -
32A HIS* 3.4 40.6 - + + -
33A ILE* 3.5 36.3 - - + +
37A HIS* 2.8 29.4 + + - -
80A HIS* 2.9 44.8 + + + -
81A SER* 4.1 6.5 - - - +
83A PHE* 1.3 93.2 - + - +
85A LYS* 1.4 57.6 + - + +
87A LEU* 3.3 13.2 + - + +
----------------------------------------------------------
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Residues in contact with LYS 85 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12A LYS 5.5 4.9 - - - -
14A ASP* 3.3 31.4 + - - +
81A SER 3.4 14.3 + - - +
82A LEU 3.3 0.6 + - - -
83A PHE 3.2 0.8 - - - -
84A TRP* 1.4 77.0 - - + +
86A ASN* 1.4 56.5 + - - +
87A LEU 3.4 1.6 - - - +
196A ASN* 3.4 12.6 + - - -
199A GLU* 3.3 35.8 + - + +
203A ARG* 3.3 21.3 - - - +
----------------------------------------------------------
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Residues in contact with ASN 86 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82A LEU 3.0 14.9 + - - +
83A PHE* 3.1 11.1 + - - +
85A LYS* 1.4 74.2 - - - +
87A LEU* 1.3 53.6 + - - +
166A ILE 4.8 0.2 - - - +
167A ILE* 3.5 19.8 - - + +
168A ALA* 2.7 47.3 + - - +
195A ILE* 3.5 21.8 - - - +
196A ASN* 2.8 33.4 + - - +
199A GLU* 4.6 2.0 - - + -
203A ARG* 3.0 24.5 + - - +
----------------------------------------------------------
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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