Contacts of the helix formed by residues 80 - 108 (chain A) in PDB entry 1TU8
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 80 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78A GLY 3.6 0.8 - - - -
79A GLU* 1.3 83.6 - - - +
81A GLU* 1.3 66.3 + - - +
82A MET* 3.3 13.9 - - - +
83A GLU* 3.0 40.4 + - - +
84A THR* 3.0 26.1 + - - -
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Residues in contact with GLU 81 (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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80A ASN* 1.3 73.8 - - - +
82A MET* 1.3 59.2 + - + +
84A THR* 3.5 3.9 + - - -
85A THR* 2.9 44.2 + - - -
69B HIS* 2.8 39.9 - - + +
72B ARG* 3.0 43.7 + - - +
73B LYS* 5.1 8.7 - - + -
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Residues in contact with MET 82 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
80A ASN* 3.3 11.0 - - - +
81A GLU* 1.3 80.2 - - + +
83A GLU* 1.3 57.8 + - - +
85A THR* 3.5 6.4 + - - -
86A TYR* 2.9 30.7 + - - +
135A ARG* 3.7 22.9 + - - +
58B GLN* 3.3 48.2 - - + +
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Residues in contact with GLU 83 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78A GLY* 3.7 6.7 - - - -
79A GLU* 2.9 38.0 + - - +
80A ASN* 3.0 32.6 - - - +
82A MET* 1.3 73.1 - - - +
84A THR* 1.3 59.8 + - - +
86A TYR* 3.2 3.3 + - - +
87A ILE* 3.0 35.7 + - - +
135A ARG* 3.7 25.4 + - - +
143A LEU* 3.9 31.2 - - + +
146A LYS* 6.1 0.5 - - - +
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Residues in contact with THR 84 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
77A ASN* 2.7 50.0 + - - +
78A GLY* 4.1 4.3 + - - -
80A ASN 3.0 18.6 + - - -
81A GLU* 3.8 6.5 - - - -
83A GLU* 1.3 74.7 - - - +
85A THR* 1.3 62.2 + - - +
87A ILE* 3.4 5.7 - - - +
88A ASP* 3.2 23.4 + - - +
149A TYR* 4.7 0.5 + - - -
72B ARG* 3.7 32.0 + - - +
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Residues in contact with THR 85 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
81A GLU* 2.9 40.0 + - - -
82A MET* 3.7 6.3 - - - -
84A THR* 1.3 78.1 - - - +
86A TYR* 1.3 57.4 + - - +
88A ASP* 3.2 6.1 + - - +
89A MET* 2.9 28.8 + - + +
60B ILE* 3.8 43.7 - - + -
65B ALA* 4.4 4.8 - - + +
69B HIS* 3.3 14.8 - - + -
72B ARG* 3.3 9.5 + - - +
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Residues in contact with TYR 86 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82A MET 2.9 19.5 + - - +
83A GLU 3.2 4.2 + - - +
85A THR* 1.3 78.6 - - - +
87A ILE* 1.3 58.8 + - - +
89A MET* 3.3 22.1 + - + +
90A PHE* 2.9 45.0 + + - +
131A LEU* 2.9 45.7 + - + +
132A LEU* 4.4 2.6 + - - -
134A THR* 2.9 13.2 + - - -
135A ARG* 3.4 33.3 - - + +
142A ILE* 3.6 33.5 + - + -
143A LEU* 4.0 8.5 - - + -
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Residues in contact with ILE 87 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
77A ASN* 3.5 33.2 - - - +
78A GLY* 3.8 3.8 - - - +
83A GLU 3.0 14.2 + - - +
84A THR 3.4 6.7 - - - +
86A TYR* 1.3 73.5 - - + +
88A ASP* 1.3 62.3 + - - +
90A PHE* 3.7 6.6 - - - +
91A CYS* 2.8 32.7 + - - +
142A ILE* 4.2 10.5 - - + -
143A LEU* 3.5 37.0 - - + -
148A SER* 3.6 17.0 - - - +
149A TYR* 3.5 30.7 - - + -
150A ALA* 3.8 12.3 - - + +
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Residues in contact with ASP 88 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68A ARG* 4.1 8.0 + - - -
84A THR 3.2 15.4 + - - +
85A THR* 3.2 11.8 + - - +
87A ILE* 1.3 75.5 - - - +
89A MET* 1.3 58.8 + - - +
91A CYS* 3.2 2.4 + - - +
92A GLU* 2.8 32.2 + - - +
149A TYR* 3.4 17.1 + - - +
65B ALA* 3.6 16.7 - - + +
68B ARG* 2.7 53.4 + - - +
72B ARG* 4.8 6.3 + - - +
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Residues in contact with MET 89 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
85A THR* 2.9 12.8 + - - +
86A TYR* 3.5 36.6 - - + +
88A ASP* 1.3 76.4 - - - +
90A PHE* 1.3 61.4 + - - +
92A GLU 3.4 0.2 + - - -
93A GLY 3.1 17.3 + - - -
131A LEU* 4.1 13.0 - - + -
46B GLN* 3.6 32.5 - - + +
47B PHE* 3.5 8.5 - - + -
59B GLN 4.3 2.0 - - - +
60B ILE* 4.2 10.8 - - + -
61B VAL* 3.4 50.0 - - + +
62B GLN* 3.5 7.0 - - + +
65B ALA* 3.6 11.3 - - + +
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Residues in contact with PHE 90 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
86A TYR* 2.9 40.2 + + - +
87A ILE* 3.7 8.1 - - - +
89A MET* 1.3 77.0 - - - +
91A CYS* 1.3 63.7 + - - +
93A GLY* 3.1 4.7 + - - -
94A VAL* 3.1 23.3 + - + +
128A PHE* 3.6 40.1 - + + -
131A LEU* 3.5 22.9 - - + -
132A LEU* 4.0 17.0 - - + -
142A ILE* 3.8 31.4 - - + -
150A ALA* 4.9 2.5 - - + -
154A LEU* 3.8 31.4 - - + -
47B PHE* 4.3 6.3 - - - -
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Residues in contact with CYS 91 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67A LEU* 4.5 6.7 - - - -
68A ARG* 6.0 3.1 - - - +
87A ILE 2.8 19.6 + - - +
88A ASP* 3.8 3.6 - - - +
90A PHE* 1.3 77.2 - - - +
92A GLU* 1.3 62.8 + - + +
94A VAL* 3.1 10.6 + - - +
95A ARG* 3.0 33.1 + - - +
149A TYR* 3.8 31.2 - - + +
150A ALA* 4.1 9.4 - - + +
153A ALA* 3.6 29.2 - - - -
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Residues in contact with GLU 92 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68A ARG* 3.5 18.4 + - - -
88A ASP* 2.8 30.2 + - - +
91A CYS* 1.3 76.2 - - - +
93A GLY* 1.3 61.5 + - - +
95A ARG* 3.3 32.5 + - - +
96A ASP* 3.1 25.5 + - - +
62B GLN* 3.4 32.9 - - + +
64B GLY* 4.6 2.1 - - - -
65B ALA 4.6 2.5 - - - +
68B ARG* 3.6 16.2 + - - +
92B GLU* 4.9 5.1 - - - +
95B ARG* 3.8 26.5 + - - -
2002B GTX 5.5 0.3 + - - -
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Residues in contact with GLY 93 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
89A MET 3.1 11.1 + - - -
90A PHE 3.1 4.9 + - - -
92A GLU* 1.3 74.3 - - - +
94A VAL* 1.3 64.4 + - - +
96A ASP* 3.1 6.7 + - - +
97A LEU* 3.1 18.2 + - - +
128A PHE* 3.4 12.4 - - - -
47B PHE* 3.6 20.3 - - - -
62B GLN* 3.5 15.8 - - - +
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Residues in contact with VAL 94 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
90A PHE* 3.1 21.7 + - + +
91A CYS* 3.1 11.9 + - - +
93A GLY* 1.3 75.7 - - - +
95A ARG* 1.3 57.1 + - + +
97A LEU* 3.1 5.9 + - - +
98A HIS* 3.0 25.2 + - + +
128A PHE* 3.6 21.1 - - + -
150A ALA 5.3 0.7 - - - +
153A ALA* 3.5 33.2 - - + +
154A LEU* 4.0 25.1 - - + +
157A GLU* 3.7 21.8 - - + +
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Residues in contact with ARG 95 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13A LEU* 5.3 7.9 - - - +
63A SER* 2.9 22.2 + - - -
64A GLY* 3.3 21.5 - - - +
68A ARG* 5.4 0.7 - - - +
91A CYS* 3.0 22.8 + - - +
92A GLU* 3.4 33.6 + - - +
94A VAL* 1.3 78.1 - - + +
96A ASP* 1.3 57.9 + - - +
98A HIS* 3.1 9.2 + - - +
99A VAL* 2.9 34.8 + - + +
153A ALA* 6.4 0.7 - - + -
2001A GTX 3.2 27.9 + - - -
92B GLU* 4.1 17.1 + - - -
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Residues in contact with ASP 96 (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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92A GLU 3.1 13.2 + - - +
93A GLY* 3.1 10.9 + - - +
95A ARG* 1.3 74.5 - - - +
97A LEU* 1.3 65.4 + - - +
99A VAL* 3.3 11.9 + - - +
100A LYS* 3.3 40.4 + - - +
47B PHE* 5.6 1.8 - - + +
49B GLN* 4.3 7.3 + - - +
62B GLN* 2.8 15.9 + - - -
2002B GTX 2.8 40.1 + - - +
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Residues in contact with LEU 97 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
93A GLY 3.1 11.1 + - - +
94A VAL 3.1 8.3 + - - +
96A ASP* 1.3 76.3 - - - +
98A HIS* 1.3 59.0 + - - +
100A LYS* 3.2 10.1 + - + +
101A TYR* 2.9 25.6 + - - +
116A TYR* 3.3 24.9 - - + +
121A LEU* 4.1 4.9 - - + -
124A GLU* 3.9 28.9 - - + +
125A LEU* 4.4 20.0 - - + -
128A PHE* 3.9 25.6 - - + -
157A GLU* 4.0 13.5 - - + +
158A LEU* 6.1 1.3 - - + -
161A HIS* 3.8 21.8 - - + +
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Residues in contact with HIS 98 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12A GLY* 4.4 21.1 + - - -
13A LEU* 3.8 29.1 - - + +
94A VAL* 3.0 10.0 + - + +
95A ARG* 3.1 13.0 + - - +
97A LEU* 1.3 78.3 - - - +
99A VAL* 1.3 56.8 + - + +
101A TYR* 3.5 16.9 - + - +
102A THR* 2.8 64.8 + - + +
156A GLU* 6.4 1.8 - - + -
157A GLU* 2.8 39.9 + - - +
160A VAL* 5.2 6.1 - - + -
202A VAL* 6.0 1.3 - - + -
203A ASN* 5.2 2.2 - - - -
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Residues in contact with VAL 99 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
95A ARG* 2.9 21.4 + - + +
96A ASP* 3.5 13.0 - - - +
97A LEU 3.2 0.4 - - - -
98A HIS* 1.3 76.5 - - + +
100A LYS* 1.3 64.6 + - + +
102A THR* 3.3 7.9 + - - +
103A ARG* 3.0 24.8 + - + +
99B VAL* 6.4 0.9 - - + -
103B ARG* 4.8 20.8 + - - +
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Residues in contact with LYS 100 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
96A ASP* 3.3 31.9 + - - +
97A LEU* 3.2 11.5 + - + +
99A VAL* 1.3 78.3 - - + +
101A TYR* 1.3 63.7 + - - +
103A ARG* 3.5 14.8 + - - +
104A MET* 3.2 22.5 + - - +
116A TYR* 3.9 19.4 - - + +
120A ILE* 4.3 21.1 - - + -
124A GLU* 4.3 28.5 + - + -
49B GLN* 5.0 11.7 - - - +
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Residues in contact with TYR 101 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
97A LEU 2.9 15.5 + - - +
98A HIS* 3.5 21.8 - + - +
99A VAL 3.3 0.2 - - - -
100A LYS* 1.3 76.0 - - - +
102A THR* 1.3 69.8 + - + +
104A MET* 3.3 12.9 + - + +
105A ILE* 3.0 53.2 + - + +
116A TYR* 3.5 15.1 + - - +
157A GLU* 4.4 0.7 - - - -
160A VAL* 4.0 29.1 + - + +
161A HIS* 3.6 25.8 - + - +
164A LEU* 4.4 13.0 - - + -
202A VAL* 3.4 13.8 - - + +
203A ASN* 3.0 36.9 + - - -
208A GLN* 4.3 7.6 - - - +
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Residues in contact with THR 102 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13A LEU* 6.1 0.2 - - + -
98A HIS* 2.8 58.5 + - + +
99A VAL* 3.3 9.7 + - - +
101A TYR* 1.3 77.5 - - + +
103A ARG* 1.3 62.0 + - - +
105A ILE* 4.1 5.4 - - - -
106A TYR* 2.9 54.7 + - + +
203A ASN* 4.9 2.7 - - - +
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Residues in contact with ARG 103 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
99A VAL* 3.0 17.8 + - + +
100A LYS* 3.6 14.5 + - - +
101A TYR 3.3 0.2 - - - -
102A THR* 1.3 77.7 + - - +
104A MET* 1.3 59.5 + - - +
107A MET* 3.0 51.3 + - + +
108A ALA* 3.9 1.0 + - - +
112A GLU* 3.1 32.1 + - - -
116A TYR* 5.8 5.3 - - - -
120A ILE* 5.9 5.1 - - - +
103B ARG* 3.9 24.7 - - - +
107B MET* 5.4 11.5 - - - +
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Residues in contact with MET 104 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
100A LYS 3.2 10.8 + - - +
101A TYR* 3.5 17.3 - - + +
103A ARG* 1.3 82.8 - - - +
105A ILE* 1.3 74.4 + - + +
108A ALA 3.1 8.3 + - - +
109A TYR* 2.9 48.1 + - - -
112A GLU* 3.9 42.2 - - + +
113A LYS* 3.9 16.6 - - - -
116A TYR* 3.9 22.0 - - + -
164A LEU* 3.8 28.3 - - + -
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Residues in contact with ILE 105 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
101A TYR* 3.0 56.3 + - + +
102A THR* 3.3 6.5 + - - +
104A MET* 1.3 95.9 - - + +
106A TYR* 1.3 66.2 + - + +
109A TYR* 3.7 36.3 + - + +
164A LEU* 4.4 1.3 - - + -
203A ASN* 3.7 22.9 - - + +
205A ASN* 2.9 35.2 + - - +
207A LYS* 3.9 4.9 + - + +
208A GLN* 4.1 9.0 - - - -
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Residues in contact with TYR 106 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10A ILE* 4.1 1.4 - - - +
102A THR* 2.9 45.7 + - + +
105A ILE* 1.3 83.9 - - + +
107A MET* 1.3 67.9 + - + +
203A ASN* 3.6 14.6 + - + +
204A GLY* 2.8 31.9 + - - -
205A ASN* 3.8 27.9 + - + +
207A LYS* 5.8 1.9 + - - -
2001A GTX 3.3 36.6 - - + +
----------------------------------------------------------
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Residues in contact with MET 107 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
103A ARG* 3.0 33.6 + - + +
106A TYR* 1.3 85.6 - - + +
108A ALA* 1.3 65.5 + - + +
103B ARG* 4.9 11.9 - - - -
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Residues in contact with ALA 108 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
103A ARG 3.9 1.3 + - - +
104A MET* 3.1 9.5 + - - +
106A TYR 3.8 0.2 - - - -
107A MET* 1.3 83.5 - - + +
109A TYR* 1.3 66.8 + - - +
110A GLU* 3.3 5.6 - - - -
111A THR* 3.7 13.5 - - - +
112A GLU* 2.9 55.3 + - + +
113A LYS 4.0 0.2 + - - -
----------------------------------------------------------
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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