Contacts of the helix formed by residues 79 - 102 (chain B) in PDB entry 3UNE
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 ILE 79 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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12A PHE* 3.7 33.7 - - + -
18A LEU* 3.8 18.8 - - + -
21A ILE* 6.1 1.3 - - + -
151A SER* 5.7 5.8 - - - -
27B ALA* 4.9 9.0 - - + +
76B VAL* 5.2 0.4 - - - -
78B GLY* 1.3 70.7 - - - -
80B THR* 1.3 65.4 + - - +
81B SER* 3.4 24.9 - - - +
82B ASP* 3.5 26.2 - - + +
83B ALA* 3.3 20.0 + - - +
131B GLY* 3.4 18.0 + - - +
132B VAL* 3.4 7.8 - - - +
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Residues in contact with THR 80 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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153A ALA* 3.4 24.9 - - - +
155A PHE* 5.5 3.5 - - + -
51B ASN* 5.9 5.2 - - - +
63B GLU* 6.0 1.6 - - + +
64B LYS* 5.6 11.9 - - + -
66B TYR* 4.8 4.2 + - - +
76B VAL* 5.1 8.7 - - + -
78B GLY 3.6 7.1 + - - +
79B ILE* 1.3 74.4 - - - +
81B SER* 1.3 60.7 + - - +
83B ALA* 3.5 7.2 + - - +
84B ASN* 2.9 33.7 + - - +
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Residues in contact with SER 81 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
118A GLN* 3.6 10.2 - - - +
121A THR* 5.3 0.2 + - - -
151A SER* 3.1 29.9 + - - -
152A GLY* 3.6 22.4 - - - -
153A ALA* 4.0 2.0 - - - -
79B ILE* 3.4 12.6 - - - +
80B THR* 1.3 79.6 + - - +
82B ASP* 1.3 77.4 + - - +
84B ASN* 3.4 19.8 + - - +
85B VAL* 3.6 15.2 - - - +
128B ARG* 5.2 0.2 + - - -
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Residues in contact with ASP 82 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
118A GLN* 2.8 25.8 + - - +
79B ILE* 3.5 20.9 + - - +
80B THR 3.5 0.2 - - - -
81B SER* 1.3 85.5 + - - +
83B ALA* 1.3 62.5 + - - +
85B VAL* 3.5 6.6 + - - +
86B LEU* 3.3 25.3 + - - +
128B ARG* 2.7 38.6 + - - -
130B PHE* 3.9 17.0 - - + -
131B GLY 4.0 4.3 + - - -
132B VAL* 3.8 18.4 - - + -
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Residues in contact with ALA 83 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66B TYR* 5.2 3.4 - - + +
76B VAL* 3.6 37.0 - - + -
79B ILE 3.3 18.3 + - - +
80B THR* 3.6 6.5 - - - +
81B SER 3.2 0.2 - - - -
82B ASP* 1.3 76.4 - - - +
84B ASN* 1.3 53.5 + - - +
85B VAL 3.2 0.7 - - - -
86B LEU* 3.2 3.7 + - - +
87B THR* 2.8 42.6 + - + +
132B VAL* 3.6 13.8 - - + +
134B LEU* 5.6 0.4 - - + -
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Residues in contact with ASN 84 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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152A GLY 4.7 3.0 + - - -
153A ALA* 5.4 1.2 - - - +
154A TYR* 3.6 35.5 + - + -
66B TYR* 2.7 33.6 + - - -
80B THR* 2.9 25.0 + - - -
81B SER* 3.7 11.3 - - - +
82B ASP 3.3 0.4 - - - -
83B ALA* 1.3 77.2 - - - +
85B VAL* 1.3 61.0 + - + +
87B THR* 3.4 8.6 + - - -
88B ASN* 3.3 20.3 + - - +
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Residues in contact with VAL 85 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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115A SER* 5.0 10.5 - - - +
118A GLN* 3.4 31.6 - - + +
122A GLN* 5.8 0.4 - - - +
81B SER 3.6 14.4 - - - +
82B ASP 3.7 6.5 - - - +
83B ALA 3.2 0.4 - - - -
84B ASN* 1.3 78.5 - - + +
86B LEU* 1.3 63.1 + - + +
88B ASN* 3.6 5.7 + - - +
89B GLU* 3.2 22.5 + - + +
130B PHE* 4.6 18.2 - - + -
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Residues in contact with LEU 86 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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82B ASP 3.3 15.0 + - - +
83B ALA* 3.2 5.9 + - - +
85B VAL* 1.3 76.2 - - + +
87B THR* 1.3 60.6 + - + +
89B GLU* 3.2 2.8 + - + -
90B LEU* 3.0 33.6 + - - +
114B LEU* 3.5 30.2 - - + +
117B ILE* 5.9 4.0 - - + -
118B LYS* 4.0 26.7 - - + -
130B PHE* 3.8 40.2 - - + -
132B VAL* 3.8 22.9 - - + -
134B LEU* 4.2 15.0 - - + -
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Residues in contact with THR 87 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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66B TYR* 3.8 33.7 - - + -
68B LEU* 3.5 8.9 - - - +
74B CYS* 3.8 28.5 - - - -
76B VAL* 4.4 1.1 - - + -
83B ALA 2.8 24.4 + - - +
84B ASN* 3.4 12.8 + - - -
86B LEU* 1.3 73.1 - - - +
88B ASN* 1.3 63.3 + - - +
90B LEU* 3.4 7.6 + - + -
91B ARG* 3.2 32.6 + - - +
134B LEU* 4.3 13.0 - - + -
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Residues in contact with ASN 88 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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84B ASN 3.3 17.1 + - - +
85B VAL* 3.7 6.1 - - - +
86B LEU 3.3 0.4 - - - -
87B THR* 1.3 79.7 + - - +
89B GLU* 1.3 63.0 + - - +
91B ARG* 3.5 21.7 + - - +
92B LEU* 3.3 34.7 + - - +
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Residues in contact with GLU 89 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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85B VAL* 3.2 15.2 + - + +
86B LEU* 3.2 9.8 + - + +
88B ASN* 1.3 76.2 - - - +
90B LEU* 1.3 58.4 + - - +
92B LEU* 3.1 16.5 + - - +
93B ILE* 3.0 41.2 + - + +
96B ARG* 3.7 27.4 + - - -
114B LEU* 3.9 7.2 - - + -
117B ILE* 3.8 28.6 - - + +
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Residues in contact with LEU 90 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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68B LEU* 3.7 21.5 - - + +
74B CYS* 4.6 5.4 - - - -
86B LEU 3.0 20.5 + - - +
87B THR* 3.6 17.9 - - + +
88B ASN 3.3 0.2 - - - -
89B GLU* 1.3 76.8 - - - +
91B ARG* 1.3 59.5 + - - +
93B ILE* 4.5 5.4 - - + -
94B ALA* 3.2 24.6 + - - +
110B LEU* 3.5 44.3 - - + +
114B LEU* 3.8 27.6 - - + -
134B LEU* 4.7 3.6 - - + -
136B TYR* 3.7 32.1 - - + +
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Residues in contact with ARG 91 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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111A GLN* 6.1 1.4 - - - +
66B TYR* 4.1 20.9 - - - +
67B LYS* 2.8 33.6 + - - +
68B LEU* 3.8 30.9 - - - +
87B THR* 3.2 17.5 + - - +
88B ASN* 3.6 22.6 - - - +
89B GLU 3.2 0.4 - - - -
90B LEU* 1.3 75.8 - - - +
92B LEU* 1.3 62.4 + - + +
94B ALA* 4.0 2.1 - - - +
95B GLN* 3.3 28.9 + - - +
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Residues in contact with LEU 92 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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88B ASN* 3.3 28.9 + - - +
89B GLU* 3.1 24.8 + - - +
91B ARG* 1.3 77.3 - - + +
93B ILE* 1.3 59.7 + - - +
95B GLN* 3.2 6.7 + - + +
96B ARG* 2.9 58.1 + - + +
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Residues in contact with ILE 93 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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89B GLU* 3.0 36.0 + - + +
90B LEU* 3.7 4.7 + - - -
92B LEU* 1.3 74.9 - - - +
94B ALA* 1.3 61.3 + - - +
96B ARG* 3.3 24.0 + - + +
97B TYR* 3.2 23.2 + - - +
105B ILE* 4.3 7.4 - - + +
110B LEU* 3.8 14.4 - - + +
113B ALA* 3.8 34.3 - - + -
114B LEU* 4.4 8.5 - - + +
117B ILE* 4.1 14.4 - - + -
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Residues in contact with ALA 94 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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68B LEU 4.4 8.7 - - - +
69B ASN* 4.2 17.6 - - + +
90B LEU 3.2 17.5 + - - +
91B ARG 4.0 5.2 - - - +
93B ILE* 1.3 77.8 - - - +
95B GLN* 1.3 59.2 + - + +
97B TYR* 3.8 3.3 + - - +
98B LEU* 3.3 26.3 + - - +
105B ILE* 3.8 31.3 + - + +
110B LEU* 3.6 8.9 - - + +
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Residues in contact with GLN 95 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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68B LEU 5.6 3.1 - - - +
69B ASN* 4.4 7.3 - - - +
91B ARG 3.3 18.1 + - - +
92B LEU* 3.2 8.3 + - + +
94B ALA* 1.3 77.1 - - + +
96B ARG* 1.3 60.8 + - + +
97B TYR 3.3 0.9 - - - -
98B LEU* 3.6 29.8 - - - +
99B LEU* 3.0 29.0 + - - +
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Residues in contact with ARG 96 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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89B GLU* 3.7 13.7 + - - -
92B LEU* 2.9 43.1 + - + +
93B ILE* 3.3 46.4 + - + +
95B GLN* 1.3 75.1 - - - +
97B TYR* 1.3 62.0 + - - +
99B LEU* 3.6 12.0 + - + +
100B GLN* 3.2 27.4 + - - +
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Residues in contact with TYR 97 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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93B ILE 3.2 15.5 + - - +
94B ALA 3.9 4.9 - - - +
95B GLN 3.3 0.2 - - - -
96B ARG* 1.3 75.9 - - - +
98B LEU* 1.3 59.6 + - - +
100B GLN* 4.6 0.4 - - - -
101B TYR* 2.9 66.7 + + - +
103B GLU* 3.3 42.7 + - + -
104B PRO 3.9 2.5 - - - -
105B ILE* 3.6 37.9 - - + -
106B PRO* 3.8 8.8 - - + +
109B GLN* 3.4 34.1 + - - -
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Residues in contact with LEU 98 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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69B ASN* 4.4 13.7 - - - +
70B GLU* 6.3 1.8 - - + -
94B ALA 3.3 13.3 + - - +
95B GLN* 3.6 33.9 - - - +
96B ARG 3.3 0.2 - - - -
97B TYR* 1.3 78.4 - - - +
99B LEU* 1.3 58.5 + - - +
102B GLN* 2.9 52.4 + - - +
103B GLU* 3.9 18.8 - - - +
104B PRO* 4.8 9.0 - - + -
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Residues in contact with LEU 99 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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95B GLN 3.0 16.9 + - - +
96B ARG* 3.8 11.2 - - + +
97B TYR 3.3 0.2 - - - -
98B LEU* 1.3 78.7 - - - +
100B GLN* 1.3 59.9 + - + +
102B GLN* 3.4 19.2 + - - +
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Residues in contact with GLN 100 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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96B ARG 3.2 16.2 + - - +
97B TYR 3.4 0.2 + - - -
98B LEU 3.3 0.2 - - - -
99B LEU* 1.3 81.4 - - + +
101B TYR* 1.3 98.2 + - + +
102B GLN* 5.3 1.5 - - - +
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Residues in contact with TYR 101 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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97B TYR* 2.9 56.2 + + + +
100B GLN* 1.3 108.0 + - + +
102B GLN* 1.3 71.8 + - - +
103B GLU* 3.4 24.0 + - + +
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Residues in contact with GLN 102 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
98B LEU* 2.9 46.1 + - - +
99B LEU* 3.4 21.9 + - - +
100B GLN 5.3 1.1 - - - +
101B TYR* 1.3 79.1 - - - +
103B GLU* 1.3 59.3 + - - +
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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
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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) + - + + + + + -
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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