Contacts of the strand formed by residues 75 - 85 (chain C) in PDB entry 1FL7
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 LYS 75 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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67C ARG* 4.4 43.1 + - + +
68C VAL 3.1 11.0 - - - +
69C THR* 3.8 28.7 - - + +
73C GLY 3.6 5.1 + - - +
74C PHE* 1.3 75.3 - - - +
76C VAL* 1.3 65.4 + - - +
38D VAL 4.6 0.2 - - - +
39D TYR* 3.7 14.4 - - - -
40D LYS 5.6 0.3 + - - -
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Residues in contact with VAL 76 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18C PHE* 3.7 36.1 - - + -
25C ILE* 4.2 24.7 - - + -
67C ARG* 4.7 4.3 - - - +
68C VAL* 2.9 29.2 + - + +
70C VAL* 4.1 25.1 - - + -
74C PHE* 4.9 0.4 - - + -
75C LYS* 1.3 79.5 - - - +
77C GLU* 1.3 68.6 + - - +
78C ASN 3.7 0.5 + - - -
38D VAL* 3.1 18.4 - - + +
39D TYR* 3.8 12.6 - - + -
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Residues in contact with GLU 77 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25C ILE* 3.9 4.9 - - - +
65C TYR* 3.4 48.4 + - + -
66C ASN 3.4 4.9 - - - -
67C ARG* 3.5 21.2 + - - +
76C VAL* 1.3 75.1 - - - +
78C ASN* 1.3 60.0 + - - +
79C HIS* 3.2 24.8 + - - +
36D ASP* 4.1 5.0 - - - +
37D LEU 4.1 0.2 - - - -
38D VAL* 2.7 44.5 + - - +
40D LYS* 3.1 37.6 + - - +
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Residues in contact with ASN 78 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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25C ILE* 3.2 15.2 - - + -
26C LEU* 2.7 34.5 + - - +
65C TYR* 3.6 3.0 - - - -
66C ASN* 2.8 40.1 + - + +
68C VAL* 4.3 11.0 - - + +
77C GLU* 1.3 72.2 - - - +
79C HIS* 1.3 66.8 + - - +
80C THR* 3.6 4.5 - - - +
1I NAG 1.4 60.7 + - - +
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Residues in contact with HIS 79 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12C LEU* 3.6 18.1 - - + +
26C LEU* 3.1 33.4 + - - +
27C GLN* 3.3 5.5 - - - -
28C CYS* 2.8 33.7 + - - -
62C ALA* 3.4 16.9 - - + +
65C TYR* 3.7 10.3 - - + -
77C GLU* 3.2 40.8 + - + +
78C ASN* 1.3 77.2 - - - +
80C THR* 1.3 61.9 + - - +
36D ASP* 3.3 42.8 + - + -
38D VAL* 4.0 3.0 - - + +
1I NAG 3.9 2.3 + - - -
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Residues in contact with THR 80 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12C LEU* 3.3 20.4 - - - +
64C SER* 2.6 37.7 + - - -
65C TYR* 4.1 6.1 - - - -
66C ASN* 3.8 21.5 - - - +
78C ASN 3.6 9.9 - - - +
79C HIS* 1.3 79.8 - - - +
81C ALA* 1.3 62.3 + - - +
1I NAG 4.4 14.3 + - - +
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Residues in contact with ALA 81 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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12C LEU* 4.1 3.1 - - - +
28C CYS* 3.6 2.8 - - - -
62C ALA* 3.5 6.6 - - - -
63C LYS* 2.8 44.1 + - + +
64C SER* 3.7 15.8 + - - +
80C THR* 1.3 81.6 + - - +
82C CYS* 1.3 65.1 + - - +
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Residues in contact with CYS 82 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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10C CYS* 3.9 17.0 - - - +
11C THR* 3.7 15.7 - - - -
12C LEU* 3.3 28.8 - - - +
28C CYS* 2.0 54.7 - - + -
61C VAL 3.6 1.6 - - - -
63C LYS* 4.2 6.1 + - - +
81C ALA* 1.3 74.4 - - - +
83C HIS* 1.3 66.2 + - - +
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Residues in contact with HIS 83 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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63A LYS* 4.5 10.5 - - - +
83A HIS* 4.9 9.5 - - + +
10C CYS* 4.0 8.3 - - - -
59C CYS 3.4 0.3 - - - +
61C VAL* 3.0 33.1 + - + +
63C LYS* 3.7 41.4 - - + +
82C CYS* 1.3 76.7 - - - +
84C CYS* 1.3 65.5 + - - +
85C SER* 3.4 26.8 + - - -
91C LYS* 3.1 38.3 + - + +
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Residues in contact with CYS 84 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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63A LYS* 3.0 35.4 + - + +
10C CYS* 3.9 11.0 - - - +
31C CYS 3.5 10.8 - - - -
32C CYS* 2.0 51.4 - - + -
33C PHE 5.0 0.7 - - - +
58C THR* 4.2 8.3 - - - +
59C CYS 3.3 5.2 - - - -
83C HIS* 1.3 69.3 - - - +
85C SER* 1.3 63.6 + - - +
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Residues in contact with SER 85 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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83A HIS* 2.9 29.1 - - - -
84A CYS 4.5 0.5 + - - -
57C SER 5.3 0.2 - - - -
58C THR* 3.1 13.4 - - - -
59C CYS 2.7 37.4 + - - +
61C VAL* 3.7 6.3 - - - -
83C HIS* 3.4 31.8 + - - -
84C CYS* 1.3 76.6 - - - +
86C THR* 1.3 84.0 + - - -
91C LYS* 4.1 7.2 - - - +
96D VAL* 5.3 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
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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