Contacts of the helix formed by residues 71 - 92 (chain B) in PDB entry 4ETO
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 71 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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16B PHE* 3.8 4.3 - - - -
27B PHE 4.6 1.3 - - - +
28B LYS* 3.9 30.5 - - + -
65B ASN* 4.4 12.8 + - - -
67B ASP* 5.1 0.6 - - - +
69B GLU 3.9 1.2 - - - -
70B VAL* 1.3 77.7 - - - +
72B PHE* 1.3 65.2 + - - +
73B GLN* 3.3 10.8 + - - +
74B GLU* 2.9 45.5 + - - +
75B TYR* 2.9 21.0 + - - +
101B CA 4.3 0.2 - - - -
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Residues in contact with PHE 72 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
83A ALA* 3.5 27.6 - - + -
84A MET* 3.7 14.4 - - + -
87A ASN* 3.5 32.3 - - + +
91A GLU* 5.0 1.8 - - - +
12B MET* 4.5 1.1 - - + -
13B VAL* 3.8 39.7 - - + -
16B PHE* 3.6 39.3 - + + -
27B PHE 4.4 1.6 + - - +
71B ASP* 1.3 77.2 - - - +
73B GLN* 1.3 57.3 + - - +
75B TYR* 3.2 23.7 + + - +
76B CYS* 2.9 52.0 + - - -
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Residues in contact with GLN 73 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84A MET* 3.3 29.9 - - + +
71B ASP* 3.3 10.1 + - - +
72B PHE* 1.3 79.1 - - - +
74B GLU* 1.3 57.7 - - + +
76B CYS* 3.1 4.6 + - - +
77B VAL* 3.0 27.7 + - - +
1911P ASN* 3.1 33.6 + - - +
1914P VAL* 3.7 12.2 - - + +
1915P SER* 2.9 28.8 + - - +
1918P LYS* 2.6 31.8 + - - -
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Residues in contact with GLU 74 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62B LEU* 3.3 28.8 - - - +
63B ASP* 3.9 0.7 - - - -
64B SER* 3.0 27.3 + - - +
65B ASN* 3.1 15.9 + - - +
69B GLU 3.1 5.5 - - - +
70B VAL* 3.3 9.9 - - + -
71B ASP* 2.9 37.6 + - - +
73B GLN* 1.3 75.9 - - + +
75B TYR* 1.3 57.8 - - - +
77B VAL* 3.3 5.2 + - - +
78B PHE* 2.9 27.2 + - - +
101B CA 2.4 31.9 - - - -
1911P ASN* 3.9 10.9 + - - +
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Residues in contact with TYR 75 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
5A LEU* 3.7 13.0 - - + +
12B MET* 2.8 34.0 + - + -
15B THR* 3.9 0.9 - - - -
16B PHE* 3.5 39.5 + + + -
29B LEU* 4.3 9.4 - - + -
34B LEU* 5.9 1.8 - - + -
37B LEU* 3.9 27.4 - - + -
70B VAL* 3.6 10.7 - - + +
71B ASP 2.9 13.3 + - - +
72B PHE* 3.4 22.0 - + - +
74B GLU* 1.3 75.0 - - - +
76B CYS* 1.3 64.3 + - - +
78B PHE* 3.2 15.9 + + - +
79B LEU* 2.9 59.3 + - + +
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Residues in contact with CYS 76 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
80A SER* 3.5 29.1 + - - +
83A ALA* 4.1 7.0 - - - -
84A MET* 4.3 2.9 - - - -
12B MET* 4.0 19.2 - - + +
72B PHE* 2.9 52.3 + - - -
73B GLN* 3.1 8.9 + - - +
75B TYR* 1.3 76.4 - - - +
77B VAL* 1.3 60.8 + - + +
79B LEU* 3.3 7.0 + - - +
80B SER* 2.8 32.7 + - - -
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Residues in contact with VAL 77 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
80A SER* 5.0 0.2 - - - -
62B LEU* 6.1 2.2 - - + -
73B GLN 3.0 13.2 + - - +
74B GLU 3.6 8.5 - - - +
76B CYS* 1.3 71.6 - - + +
78B PHE* 1.3 65.9 + - - +
80B SER* 3.2 7.7 + - - -
81B CYS* 2.9 27.3 + - - -
1908P ASP* 3.9 12.6 - - - +
1910P MET* 3.7 23.3 - - + -
1911P ASN* 3.5 46.2 - - - +
1914P VAL* 3.9 22.2 - - + -
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Residues in contact with PHE 78 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34B LEU* 5.1 3.6 - - + -
37B LEU* 5.5 1.6 - - + -
38B LEU* 3.3 35.4 - - + -
42B LEU* 3.7 14.1 - - + -
58B LEU* 4.3 23.8 - - + -
62B LEU* 3.7 38.8 - - + +
74B GLU 2.9 14.6 + - - +
75B TYR* 3.3 20.2 - + - +
77B VAL* 1.3 76.3 - - - +
79B LEU* 1.3 70.9 + - + +
81B CYS* 3.1 12.1 + - + +
82B ILE* 3.1 41.7 + - + +
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Residues in contact with LEU 79 (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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5A LEU* 4.0 25.1 - - + -
9A LEU* 3.5 23.4 - - + +
12A MET* 5.3 4.0 - - + -
12B MET* 3.8 34.5 - - + -
42B LEU* 4.2 17.3 - - + -
75B TYR* 2.9 55.0 + - + +
76B CYS 3.8 6.5 - - - +
78B PHE* 1.3 80.4 - - + +
80B SER* 1.3 57.4 + - - +
82B ILE* 3.2 9.3 + - + +
83B ALA* 2.8 25.7 + - - +
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Residues in contact with SER 80 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12A MET* 5.5 4.1 - - - +
76A CYS* 3.5 20.7 + - - +
80A SER* 3.0 17.7 + - - -
12B MET* 6.0 0.5 - - - +
76B CYS 2.8 23.9 + - - -
77B VAL* 3.5 3.6 - - - -
79B LEU* 1.3 73.1 - - - +
81B CYS* 1.3 58.2 + - - +
83B ALA* 3.5 7.9 + - - +
84B MET* 2.9 36.4 + - - +
1910P MET* 3.4 26.0 - - - +
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Residues in contact with CYS 81 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62B LEU* 6.6 0.4 - - - -
77B VAL* 2.9 29.1 + - - +
78B PHE* 3.1 13.7 + - + +
80B SER* 1.3 74.1 - - - +
82B ILE* 1.3 59.9 + - + +
84B MET* 3.3 22.0 + - + +
85B MET* 2.9 31.7 + - + +
1908P ASP* 4.6 7.0 - - - -
1910P MET* 4.6 9.2 - - - -
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Residues in contact with ILE 82 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9A LEU* 3.8 17.3 - - + -
42B LEU* 3.9 21.8 - - + -
45B PHE* 3.8 44.4 - - + -
78B PHE* 3.1 48.3 + - + +
79B LEU* 3.6 13.0 - - + +
81B CYS* 1.3 71.7 - - + +
83B ALA* 1.3 67.3 + - - +
85B MET* 3.2 16.7 + - + +
86B CYS* 2.9 22.1 + - - -
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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
----------------------------------------------------------
9A LEU* 4.1 8.2 - - + +
12A MET* 4.2 17.7 - - + -
13A VAL* 3.7 15.9 - - + +
72A PHE* 3.4 19.7 - - + -
76A CYS* 4.1 9.2 - - - -
79B LEU 2.8 19.8 + - - +
80B SER 3.7 5.6 - - - +
82B ILE* 1.3 75.6 - - - +
84B MET* 1.3 56.6 + - - +
86B CYS* 3.3 3.3 + - - -
87B ASN* 2.8 29.6 + - - +
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Residues in contact with MET 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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72A PHE* 3.9 23.3 - - + -
73A GLN* 4.0 30.3 - - + +
76A CYS* 4.2 4.0 - - - -
80B SER 2.9 14.9 + - - +
81B CYS* 3.6 35.7 - - + +
83B ALA* 1.3 72.4 - - - +
85B MET* 1.3 65.9 - - - +
87B ASN* 3.3 3.8 + - - +
88B GLU* 3.2 26.4 + - - +
1910P MET* 4.0 25.1 - - + -
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Residues in contact with MET 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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45B PHE* 5.3 14.6 - - - +
81B CYS* 2.9 16.3 + - + +
82B ILE* 3.3 18.4 - - + +
84B MET* 1.3 76.3 - - - +
86B CYS* 1.3 63.0 + - - +
88B GLU* 3.3 24.9 + - - +
89B PHE* 3.7 18.0 - - + -
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Residues in contact with CYS 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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9A LEU* 6.0 3.6 - - - -
13A VAL* 4.5 13.8 - - + +
45B PHE* 3.3 38.6 - - - -
82B ILE* 2.9 22.1 + - - +
83B ALA* 3.9 4.7 - - - +
85B MET* 1.3 81.0 - - - +
87B ASN* 1.3 64.4 + - - +
89B PHE* 3.0 21.5 + - - +
90B PHE* 3.2 9.5 + - - +
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Residues in contact with ASN 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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13A VAL* 4.0 8.0 - - + +
17A HIS* 2.7 31.7 + - - -
72A PHE* 3.4 39.2 - - + +
83B ALA 2.8 18.4 + - - +
84B MET 3.6 6.4 + - - +
85B MET 3.2 0.4 - - - -
86B CYS* 1.3 79.1 - - - +
88B GLU* 1.3 64.3 + - - +
90B PHE* 3.0 6.4 + - - +
91B GLU* 2.9 49.2 + - - +
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Residues in contact with GLU 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 MET 3.2 16.3 + - - +
85B MET* 3.4 13.9 - - - +
86B CYS 3.2 0.4 - - - -
87B ASN* 1.3 77.3 - - - +
89B PHE* 1.3 62.9 + - + +
91B GLU* 3.5 7.1 + - - +
92B GLY* 3.0 27.5 + - - +
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Residues in contact with PHE 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 MET* 3.7 22.4 - - + -
86B CYS* 3.0 12.9 + - - +
87B ASN 3.0 0.8 - - - -
88B GLU* 1.3 81.9 - - + +
90B PHE* 1.3 65.9 + - - +
92B GLY* 3.7 7.8 + - - -
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Residues in contact with PHE 90 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13A VAL* 4.3 15.7 - - + -
14A SER* 4.9 13.2 - - - -
17A HIS* 3.5 45.8 - + + -
27A PHE* 5.5 2.7 - + - -
86B CYS 3.2 9.3 + - - +
87B ASN* 3.0 17.5 + - - +
89B PHE* 1.3 79.3 - - - +
91B GLU* 1.3 63.8 + - - +
92B GLY* 4.6 0.2 - - - -
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Residues in contact with GLU 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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17A HIS* 3.8 14.4 - - + -
27A PHE* 3.6 69.7 - - + +
72A PHE* 4.6 4.0 - - - +
87B ASN* 2.9 40.2 + - - +
88B GLU* 4.0 6.2 - - - +
90B PHE* 1.3 77.9 - - - +
92B GLY* 1.3 69.4 + - - +
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Residues in contact with GLY 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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27A PHE* 5.8 1.2 - - - -
88B GLU 3.0 16.7 + - - +
89B PHE* 3.7 7.1 + - - -
90B PHE 3.4 2.6 - - - -
91B GLU* 1.3 86.0 - - - +
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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