Contacts of the helix formed by residues 59 - 86 (chain A) in PDB entry 1TAG
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 59 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58A SER* 1.3 73.3 - - - +
60A GLU* 1.3 62.9 + - + +
62A CYS* 3.1 6.7 + - - +
63A LEU* 2.9 44.5 + - + +
164A VAL* 3.8 34.8 - - + -
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Residues in contact with GLU 60 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58A SER* 3.3 7.4 + - - +
59A LEU* 1.3 81.7 - - + +
61A GLU* 1.3 63.4 + - + +
63A LEU* 3.3 16.7 + - + +
64A GLU* 3.1 22.3 + - - +
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Residues in contact with GLU 61 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
50A LYS* 3.1 29.8 + - - -
56A GLY 3.6 1.2 - - - +
57A TYR* 3.2 19.0 - - + -
58A SER* 2.9 42.9 + - - +
60A GLU* 1.3 78.5 - - + +
62A CYS* 1.3 60.8 + - - +
64A GLU* 2.4 40.4 - - - +
65A PHE* 3.1 14.9 - - - -
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Residues in contact with CYS 62 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57A TYR* 3.6 24.7 - - - -
58A SER 2.9 17.8 + - - -
59A LEU* 3.1 8.7 + - - +
61A GLU* 1.3 76.1 - - - +
63A LEU* 1.3 64.0 + - - +
65A PHE* 3.1 17.3 + - - +
164A VAL* 3.7 13.9 - - + -
165A PRO* 3.2 49.4 - - + +
166A THR 5.2 3.1 - - - -
167A GLU* 5.3 4.3 - - - -
170A VAL* 4.6 7.0 - - - -
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Residues in contact with LEU 63 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59A LEU* 2.9 36.8 + - + +
60A GLU* 3.7 18.6 - - + +
61A GLU 3.3 0.4 - - - -
62A CYS* 1.3 76.4 - - - +
64A GLU* 1.3 60.4 + - - +
66A ILE* 3.3 41.3 + - + +
67A ALA 4.8 0.7 + - - -
163A TYR 4.6 1.1 - - - +
164A VAL* 4.1 23.1 - - + -
165A PRO* 4.6 0.2 - - - -
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Residues in contact with GLU 64 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57A TYR* 5.3 0.5 - - - -
60A GLU 3.1 8.9 + - - +
61A GLU* 2.4 53.1 - - - +
63A LEU* 1.3 75.4 - - - +
65A PHE* 1.3 77.4 + - + +
66A ILE 3.3 0.7 + - - -
67A ALA* 4.1 9.7 + - - +
68A ILE* 3.9 15.0 + - + +
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Residues in contact with PHE 65 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47A LYS* 5.1 6.1 - - + -
57A TYR* 3.7 25.1 - + - -
61A GLU 3.1 26.2 - - - -
62A CYS 3.1 9.0 + - - +
64A GLU* 1.3 96.3 - - + +
66A ILE* 1.3 64.4 + - - +
67A ALA 3.4 0.4 - - - -
68A ILE* 3.3 23.7 + - + +
69A ILE* 2.9 40.3 + - + +
165A PRO* 4.3 0.9 - - + -
170A VAL* 3.7 33.2 - - + -
173A SER* 3.5 28.5 - - - -
175A VAL* 5.3 8.3 - - + -
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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
----------------------------------------------------------
62A CYS 3.8 0.2 + - - -
63A LEU* 3.3 34.8 + - + +
65A PHE* 1.3 77.3 - - - +
67A ALA* 1.3 63.7 + - - +
69A ILE* 3.2 4.3 + - - +
70A TYR* 2.9 59.4 + - + +
163A TYR* 3.4 29.8 - - + +
165A PRO* 3.6 23.1 - - + -
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Residues in contact with ALA 67 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63A LEU 4.8 0.6 + - - -
64A GLU 4.1 7.9 + - - +
65A PHE 3.4 0.4 - - - -
66A ILE* 1.3 79.0 - - - +
68A ILE* 1.3 58.4 + - + +
70A TYR 3.4 0.5 + - - -
71A GLY* 3.0 25.3 + - - -
112A GLU 5.4 1.1 - - - +
113A GLY* 3.4 35.2 - - - +
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Residues in contact with ILE 68 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64A GLU* 3.9 16.8 - - + +
65A PHE* 3.7 32.1 - - + +
66A ILE 3.3 0.4 - - - -
67A ALA* 1.3 78.3 - - + +
69A ILE* 1.3 58.7 + - - +
71A GLY* 3.3 2.1 + - - -
72A ASN* 2.9 41.3 + - - +
173A SER* 4.0 14.6 - - - +
174A ARG 3.5 26.5 - - - +
175A VAL* 4.1 25.4 - - + -
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Residues in contact with ILE 69 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65A PHE* 2.9 26.4 + - + +
66A ILE* 3.7 4.5 - - - +
68A ILE* 1.3 77.1 - - - +
70A TYR* 1.3 64.1 + - + +
72A ASN* 3.3 7.7 + - - +
73A THR* 2.8 38.2 + - - +
151A TYR* 3.6 37.9 - - + +
158A LEU* 4.2 12.3 - - + -
163A TYR* 3.7 24.0 - - + +
165A PRO* 3.9 14.1 - - + -
169A ASP* 3.8 25.1 - - + +
170A VAL* 4.9 0.4 - - - -
173A SER* 4.2 8.3 - - - -
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Residues in contact with TYR 70 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66A ILE* 2.9 40.9 + - + +
67A ALA 3.8 0.2 - - - +
69A ILE* 1.3 78.0 - - + +
71A GLY* 1.3 60.0 + - - +
73A THR* 3.3 7.2 + - - -
74A LEU* 2.9 31.2 + - - +
113A GLY* 3.5 30.3 - - - +
114A THR* 4.0 8.5 - - - +
115A MET* 3.5 38.6 - - + +
155A LEU* 5.6 1.8 - - + -
158A LEU* 2.5 41.7 + - + -
159A VAL* 3.8 15.9 - - + +
163A TYR* 4.2 7.2 - + - +
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Residues in contact with GLY 71 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67A ALA 3.0 14.7 + - - -
68A ILE* 3.7 3.1 - - - -
70A TYR* 1.3 76.0 - - - +
72A ASN* 1.3 58.4 + - - +
74A LEU* 3.3 6.1 + - - +
75A GLN* 2.9 39.6 + - - +
113A GLY* 4.5 10.2 - - - -
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Residues in contact with ASN 72 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68A ILE* 2.9 22.9 + - - +
69A ILE* 3.5 5.8 - - - +
71A GLY* 1.3 77.7 - - - +
73A THR* 1.3 57.3 + - - +
75A GLN* 3.5 4.6 + - - +
76A SER* 2.9 34.0 + - - +
145A ASN* 4.7 5.2 + - - +
151A TYR* 4.1 16.7 - - + -
172A ARG 4.6 0.3 - - - +
173A SER* 3.3 14.4 - - - -
174A ARG* 2.9 50.5 + - - +
176A LYS* 4.5 8.5 - - - +
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Residues in contact with THR 73 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69A ILE* 2.8 27.1 + - - +
70A TYR* 3.6 8.6 - - - -
72A ASN* 1.3 73.4 - - - +
74A LEU* 1.3 65.8 + - - +
76A SER* 3.3 7.2 + - - -
77A ILE* 3.2 22.5 + - - +
115A MET* 4.5 8.3 - - + -
123A ILE* 4.9 2.2 - - + -
151A TYR* 3.4 28.1 - - + +
152A LEU* 3.7 26.4 - - + +
155A LEU* 4.1 24.2 - - + -
158A LEU* 4.3 3.1 - - - +
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Residues in contact with LEU 74 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70A TYR 2.9 18.0 + - - +
71A GLY* 3.8 5.4 - - - +
73A THR* 1.3 77.4 - - - +
75A GLN* 1.3 74.5 + - - +
77A ILE* 3.3 9.3 - - + +
78A LEU* 3.0 46.1 + - + +
103A LEU* 4.0 14.4 - - + -
107A ALA* 4.1 17.3 - - + +
110A ILE* 4.1 16.2 - - + -
114A THR 5.6 0.7 - - - +
115A MET* 4.3 9.1 - - + +
119A MET* 3.8 36.6 - - + -
123A ILE* 4.4 1.8 - - + -
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Residues in contact with GLN 75 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
71A GLY* 2.9 23.8 + - - +
72A ASN* 4.0 5.4 - - - +
74A LEU* 1.3 87.1 - - - +
76A SER* 1.3 62.1 + - - +
78A LEU* 3.6 24.4 + - - +
79A ALA* 3.1 24.1 + - - +
82A ARG* 4.7 11.4 + - - +
145A ASN* 5.3 1.8 - - - +
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Residues in contact with SER 76 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
72A ASN 2.9 19.8 + - - -
73A THR* 3.5 7.7 - - - -
74A LEU 3.2 0.2 - - - -
75A GLN* 1.3 76.7 - - - +
77A ILE* 1.3 62.3 + - - +
79A ALA* 3.3 5.2 + - - +
80A ILE* 3.2 24.9 + - - +
144A LEU* 3.6 8.7 - - - +
145A ASN* 2.8 27.0 + - - +
147A SER 5.0 0.2 - - - -
148A ALA* 3.6 30.3 - - - +
151A TYR* 5.7 1.8 - - - -
152A LEU* 4.1 8.7 - - - -
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Residues in contact with ILE 77 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
73A THR 3.2 10.6 + - - +
74A LEU* 3.3 17.3 - - + +
76A SER* 1.3 76.7 - - - +
78A LEU* 1.3 59.9 + - - +
80A ILE* 3.2 13.4 + - + +
81A VAL* 2.9 35.1 + - + +
103A LEU* 4.1 21.8 - - + -
123A ILE* 3.9 37.5 - - + -
126A LEU* 4.3 21.5 - - + -
127A TRP* 4.7 5.8 - - + +
132A ILE* 4.6 11.4 - - + -
152A LEU* 4.0 23.1 - - + +
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Residues in contact with LEU 78 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
74A LEU* 3.0 40.7 + - + +
75A GLN* 3.8 20.6 - - - +
77A ILE* 1.3 75.4 - - - +
79A ALA* 1.3 57.3 + - - +
81A VAL* 3.3 2.2 + - - +
82A ARG* 2.9 61.8 + - - +
103A LEU* 4.0 25.1 - - + -
104A MET* 3.6 29.6 - - + +
107A ALA* 3.9 22.7 - - + -
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Residues in contact with ALA 79 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
75A GLN 3.1 17.9 + - - +
76A SER 3.5 5.2 - - - +
77A ILE 3.2 0.2 - - - -
78A LEU* 1.3 77.0 - - - +
80A ILE* 1.3 61.2 + - - +
82A ARG* 3.5 14.5 + - - +
83A ALA* 3.1 24.1 + - - +
142A TYR* 3.9 12.5 - - + +
144A LEU* 3.9 17.0 - - + -
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Residues in contact with ILE 80 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
76A SER 3.2 15.7 + - - +
77A ILE* 3.2 11.6 + - + +
79A ALA* 1.3 74.4 - - - +
81A VAL* 1.3 61.2 + - - +
83A ALA 3.3 1.6 + - - -
84A MET* 3.3 18.2 + - - +
127A TRP* 4.0 17.0 - - + -
132A ILE* 3.8 38.8 - - + +
135A CYS* 3.4 10.2 - - - -
136A PHE* 3.8 26.7 - - + +
142A TYR* 3.6 25.4 - - - +
144A LEU* 3.8 13.2 - - + -
148A ALA* 5.0 0.2 - - + -
152A LEU* 4.2 11.9 - - + -
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Residues in contact with VAL 81 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
77A ILE* 2.9 24.6 + - + +
78A LEU* 3.7 4.7 - - - +
80A ILE* 1.3 75.6 - - - +
82A ARG* 1.3 61.9 + - - +
84A MET* 3.0 25.7 + - - +
85A THR* 3.9 3.6 + - - -
91A TYR* 3.7 16.9 + - - +
100A ALA* 3.8 15.3 - - + +
103A LEU* 4.3 6.3 - - + -
104A MET* 3.3 24.2 - - + -
126A LEU* 4.3 22.9 - - + -
132A ILE* 4.2 15.3 - - + -
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Residues in contact with ARG 82 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
75A GLN* 4.7 10.3 + - - +
78A LEU* 2.9 63.5 + - - +
79A ALA* 3.9 12.8 - - - +
81A VAL* 1.3 73.8 - - - +
83A ALA* 1.3 57.5 + - - +
85A THR* 3.1 22.9 + - - -
86A THR* 3.1 17.7 + - - +
104A MET* 3.9 22.5 - - + -
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Residues in contact with ALA 83 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
79A ALA 3.1 18.2 + - - +
81A VAL 3.2 0.2 - - - -
82A ARG* 1.3 73.1 - - - +
84A MET* 1.3 60.6 + - - +
85A THR 3.1 2.0 - - - -
86A THR* 3.8 10.1 - - - -
87A LEU* 2.8 36.4 + - + +
135A CYS* 3.4 23.3 - - - -
142A TYR* 3.7 29.8 - - + -
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Residues in contact with MET 84 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
80A ILE 3.3 8.8 + - - +
81A VAL 3.0 15.3 + - - +
83A ALA* 1.3 75.5 - - - +
85A THR* 1.3 57.9 + - - +
88A ASN* 2.9 8.5 + - - -
89A ILE* 2.8 54.3 + - - +
90A GLN 3.7 2.0 - - - +
91A TYR* 3.7 50.0 - - + +
131A GLY 3.6 25.8 - - - +
132A ILE* 3.8 17.3 - - + +
135A CYS* 3.6 27.3 - - - -
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Residues in contact with THR 85 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
81A VAL 4.7 3.1 + - - -
82A ARG* 3.1 11.2 + - - -
83A ALA 3.1 0.2 - - - -
84A MET* 1.3 77.2 - - - +
86A THR* 1.3 68.3 + - - +
88A ASN* 2.9 17.9 + - - +
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Residues in contact with THR 86 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82A ARG* 3.1 17.9 + - - +
83A ALA* 4.1 8.6 - - - -
85A THR* 1.3 81.0 - - - +
87A LEU* 1.3 69.7 + - + +
88A ASN* 5.0 1.2 - - - +
142A TYR* 6.3 3.1 - - + -
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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