Contacts of the helix formed by residues 82 - 96 (chain E) in PDB entry 2FL0
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 HIS 82 (chain E).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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35E TRP* 4.1 4.9 - - - -
80E GLY 3.7 0.2 - - - -
81E GLU* 1.3 83.4 - - + +
83E THR* 1.3 67.3 + - - +
84E LYS* 3.5 20.7 + - + +
85E GLU* 2.9 52.3 + - + +
86E MET* 2.9 23.8 + - - +
88E GLU* 5.4 1.1 - - - -
146E LEU* 6.2 2.0 - - - +
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Residues in contact with THR 83 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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32E TYR* 4.0 6.4 - - + -
35E TRP* 4.2 6.2 - - - -
37E LEU* 3.8 12.0 - - - +
40E LEU* 3.9 20.4 - - + -
82E HIS* 1.3 71.0 - - - +
84E LYS* 1.3 65.9 + - - +
86E MET* 3.0 14.2 + - - +
87E LEU* 2.8 44.4 + - + +
141E ILE* 4.8 3.1 - - + -
146E LEU* 5.0 4.5 - - - -
149E TYR* 4.3 10.1 - - + -
150E LEU* 3.3 30.5 - - + +
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Residues in contact with LYS 84 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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82E HIS* 3.4 17.8 + - + +
83E THR* 1.3 79.3 - - - +
85E GLU* 1.3 61.6 + - - +
87E LEU* 3.3 5.5 + - - +
88E GLU* 3.1 48.6 + - - +
138E LEU* 4.4 10.8 - - + -
141E ILE* 4.2 34.5 - - + +
142E ASP* 4.6 18.2 + - - -
146E LEU* 5.1 10.9 - - + +
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Residues in contact with GLU 85 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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79E ILE 4.5 4.2 - - - +
80E GLY* 4.0 11.5 - - - -
81E GLU* 3.6 24.6 + - - +
82E HIS* 2.9 42.6 + - + +
84E LYS* 1.3 78.4 - - - +
86E MET* 1.3 57.9 + - - +
88E GLU* 3.2 16.2 + - + +
89E CYS* 2.9 40.3 + - - -
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Residues in contact with MET 86 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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28E HIS* 3.7 55.4 + - + +
31E MET* 3.9 14.6 - - + -
32E TYR* 3.3 48.5 - - + +
35E TRP* 3.5 33.0 - - + -
80E GLY* 3.8 13.2 - - - -
82E HIS 2.9 19.4 + - - +
83E THR 3.0 3.8 + - - +
85E GLU* 1.3 74.0 - - - +
87E LEU* 1.3 63.9 + - - +
89E CYS* 3.8 2.2 - - - +
90E ASP* 3.2 29.6 + - - +
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Residues in contact with LEU 87 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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32E TYR* 3.4 13.0 - - + +
40E LEU* 5.1 2.2 - - + -
44E GLU* 5.4 2.5 - - - +
83E THR* 2.8 52.4 + - + +
84E LYS* 3.7 7.6 - - - +
86E MET* 1.3 75.7 - - - +
88E GLU* 1.3 59.1 + - - +
90E ASP* 3.2 7.5 + - - +
91E LEU* 2.9 29.0 + - - +
133E TRP* 4.1 18.4 - - + -
134E LEU* 3.9 25.7 - - + +
137E GLN* 4.3 21.5 - - + -
138E LEU* 3.9 20.6 - - + +
141E ILE* 4.9 6.1 - - + -
149E TYR* 5.0 5.4 - - + +
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Residues in contact with GLU 88 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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82E HIS* 5.4 1.2 - - - -
84E LYS* 3.1 33.4 + - - +
85E GLU* 3.2 23.2 + - + +
87E LEU* 1.3 75.3 - - - +
89E CYS* 1.3 52.8 + - - +
91E LEU* 3.0 8.0 + - - +
92E LYS* 2.7 48.1 + - - +
138E LEU* 4.0 19.7 - - + +
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Residues in contact with CYS 89 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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24E GLN* 3.3 9.8 - - - +
28E HIS* 4.3 2.9 - - - +
78E LEU* 3.2 47.0 - - + +
79E ILE 4.2 3.4 - - - -
80E GLY* 4.1 14.6 - - - -
85E GLU* 2.9 27.5 + - - +
86E MET 3.8 5.8 - - - +
88E GLU* 1.3 76.5 - - - +
90E ASP* 1.3 58.8 + - - +
92E LYS* 3.5 11.1 + - - +
93E LEU* 3.0 23.2 + - - +
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Residues in contact with ASP 90 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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24E GLN* 2.9 19.2 - - - +
25E TYR* 3.0 27.0 + - + +
28E HIS* 3.1 20.4 - - - -
32E TYR* 5.2 1.0 + - - -
44E GLU* 3.0 27.1 - - - +
86E MET 3.2 11.5 + - - +
87E LEU* 3.2 8.9 + - - +
88E GLU 3.1 0.8 - - - -
89E CYS* 1.3 74.7 - - - +
91E LEU* 1.3 66.5 + - - +
93E LEU* 3.3 2.0 + - - +
94E GLU* 2.9 28.4 + - - +
134E LEU* 3.7 19.6 - - + +
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Residues in contact with LEU 91 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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87E LEU 2.9 13.5 + - - +
88E GLU* 3.5 8.5 - - - +
90E ASP* 1.3 75.8 - - - +
92E LYS* 1.3 64.3 + - - +
94E GLU* 3.2 2.8 + - - +
95E GLN* 3.0 48.1 + - - +
131E ILE* 3.5 36.1 - - + +
134E LEU* 3.6 19.7 - - + +
135E GLU* 3.7 20.2 - - + +
138E LEU* 3.7 25.1 - - + -
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Residues in contact with LYS 92 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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78E LEU* 3.6 22.9 - - + -
88E GLU* 2.7 29.1 + - - +
89E CYS* 3.5 8.9 - - - +
91E LEU* 1.3 76.4 - - - +
93E LEU* 1.3 57.8 + - - +
95E GLN* 3.1 11.1 + - - +
96E ALA* 2.9 34.9 + - + +
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Residues in contact with LEU 93 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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17E ASN* 5.0 10.1 - - + +
20E ILE* 4.2 25.6 - - + -
21E ALA* 4.0 21.3 - - + +
24E GLN* 4.1 22.0 - - - +
25E TYR* 3.6 16.4 - - - +
76E LYS 5.4 1.8 - - - +
78E LEU* 4.7 10.3 - - + -
89E CYS 3.0 19.0 + - - +
90E ASP* 3.6 4.3 - - - +
91E LEU 3.3 0.2 - - - -
92E LYS* 1.3 77.9 - - - +
94E GLU* 1.3 66.5 + - + +
95E GLN 3.3 0.7 + - - -
96E ALA* 3.6 6.8 + - + -
97E GLY* 3.5 16.6 + - - -
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Residues in contact with GLU 94 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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25E TYR* 2.9 27.5 + - + +
51E GLU* 2.9 6.9 - - - +
90E ASP 2.9 14.9 + - - +
91E LEU 3.7 3.1 - - - +
93E LEU* 1.3 79.0 - - - +
95E GLN* 1.3 61.0 - - - +
97E GLY* 4.0 2.2 - - - -
98E LEU* 3.7 16.5 + - - +
127E GLU* 2.5 31.1 - - - +
130E HIS* 3.3 12.3 + - + -
131E ILE* 3.5 26.3 - - + +
134E LEU* 4.1 13.5 - - + -
1614E FE2 1.8 27.3 - - - -
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Residues in contact with GLN 95 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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91E LEU* 3.0 50.3 + - + +
92E LYS* 3.7 7.2 - - - +
94E GLU* 1.3 78.1 - - - +
96E ALA* 1.3 53.6 + - - +
97E GLY 2.7 14.3 + - - -
98E LEU* 3.1 7.5 + - + +
99E PRO* 3.0 22.3 - - - +
131E ILE* 4.0 18.6 - - + +
135E GLU* 4.2 12.7 + - - -
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Residues in contact with ALA 96 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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17E ASN* 4.9 1.6 - - - +
92E LYS* 2.9 22.2 + - + +
93E LEU* 3.9 8.3 - - + +
95E GLN* 1.3 73.9 - - - +
97E GLY* 1.3 54.7 + - - +
99E PRO* 4.2 8.3 - - - +
100E ASP* 3.8 12.6 - - - +
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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
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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