Contacts of the strand formed by residues 77 - 91 (chain C) in PDB entry 3EO1
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 CYS 77 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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48C CYS* 3.8 2.5 - - - -
75C SER 3.3 5.7 + - - -
76C PRO* 1.3 73.2 - - - +
78C CYS* 1.3 58.5 + - - +
79C VAL 3.8 0.3 + - - -
111C CYS* 3.1 4.9 - - - -
112C SER 2.8 31.6 + - - +
77F CYS* 2.0 50.3 - - + -
78F CYS* 3.9 13.6 + - - +
79F VAL* 3.7 14.7 - - + +
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Residues in contact with CYS 78 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
15C CYS* 2.0 56.3 - - + -
16C CYS 3.7 5.2 - - - -
44C CYS* 3.5 32.1 - - - +
45C SER* 3.7 13.5 - - - +
46C GLY 4.0 11.4 + - - +
48C CYS* 4.0 1.1 - - - -
77C CYS* 1.3 73.0 - - - +
79C VAL* 1.3 66.1 + - - +
80C PRO* 4.9 0.2 - - - +
109C CYS* 4.3 2.0 - - - -
110C LYS 3.4 4.3 - - - -
77F CYS* 4.1 12.0 - - - +
112F SER 4.8 0.3 - - - +
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Residues in contact with VAL 79 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78C CYS* 1.3 77.8 - - - +
80C PRO* 1.3 75.8 - - + +
109C CYS* 2.8 15.5 - - - -
110C LYS* 2.9 36.0 + - - +
112C SER* 3.7 30.5 - - - +
77F CYS* 3.7 5.6 - - + -
79F VAL* 3.5 28.5 - - + -
112F SER* 3.1 37.2 - - - +
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Residues in contact with PRO 80 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44C CYS* 4.1 6.5 - - + +
78C CYS 4.9 0.2 - - - +
79C VAL* 1.3 86.7 - - + +
81C GLN* 1.3 61.6 + - - +
83C LEU* 3.2 32.6 - - + +
106C VAL* 3.6 20.6 - - + -
108C SER 3.6 1.6 - - - +
109C CYS* 3.1 13.4 - - - -
110C LYS* 4.1 8.8 + - - -
56F THR* 5.5 1.1 - - - +
58F HIS* 5.0 8.7 - - + +
59F SER* 5.3 2.2 - - - +
112F SER* 3.6 29.5 + - - +
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Residues in contact with GLN 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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1C ALA* 5.9 3.3 - - - -
2C LEU 6.0 0.2 + - - -
53C SER* 5.2 2.8 + - - -
55C ASP* 5.4 0.7 - - - +
79C VAL 3.2 1.4 + - - -
80C PRO* 1.3 74.0 - - - +
82C ASP* 1.3 87.3 + - - +
83C LEU* 4.9 1.1 - - - -
108C SER* 3.1 17.7 + - - +
109C CYS 4.0 9.4 - - - +
110C LYS* 3.7 43.7 + - + +
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Residues in contact with ASP 82 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
81C GLN* 1.3 102.3 + - - +
83C LEU* 1.3 65.8 + - - +
84C GLU* 6.1 0.2 - - + -
106C VAL* 3.4 1.9 - - - +
107C LYS* 2.6 39.0 + - + -
108C SER* 2.7 33.8 + - - +
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Residues in contact with LEU 83 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
80C PRO* 3.2 39.5 - - + +
81C GLN 4.9 0.9 - - - -
82C ASP* 1.3 81.4 + - - +
84C GLU* 1.3 66.2 + - - +
85C PRO* 4.8 0.3 - - - +
103C ASN* 3.4 53.2 - - + +
105C VAL 3.0 12.6 - - - +
106C VAL* 4.3 4.9 - - + -
56F THR* 3.6 24.0 - - + +
58F HIS* 4.4 6.5 - - + -
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Residues in contact with GLU 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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82C ASP* 6.1 0.2 - - + -
83C LEU* 1.3 79.5 - - - +
85C PRO* 1.3 76.9 - - + +
103C ASN 4.6 2.9 - - - -
104C MET 3.2 7.6 + - - -
105C VAL* 2.8 36.1 + - + +
107C LYS* 3.1 54.4 + - + +
21L TYR* 5.0 3.6 + - - -
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Residues in contact with PRO 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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83C LEU 4.8 0.4 - - - +
84C GLU* 1.3 100.1 - - + +
86C LEU* 1.3 64.3 + - - +
87C THR 4.2 0.7 - - - +
100C GLN* 3.5 36.8 - - + +
101C LEU 2.9 18.6 - - - +
102C SER* 4.3 8.5 - - - +
103C ASN 4.8 0.2 - - - -
104C MET* 4.5 0.2 - - - -
105C VAL* 4.7 4.7 - - - +
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Residues in contact with LEU 86 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24C PHE* 3.9 14.6 - - + -
36C PRO* 5.1 5.8 - - + -
39C TYR* 3.4 48.0 - - + -
40C TYR 5.2 0.4 - - - +
85C PRO* 1.3 78.1 - - - +
87C THR* 1.3 72.4 + - - +
88C ILE* 2.9 29.7 - - + +
101C LEU* 2.8 19.3 + - - +
104C MET* 3.9 25.6 - - + -
105C VAL* 4.3 7.9 - - + -
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Residues in contact with THR 87 (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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36C PRO* 4.2 8.8 - - - +
85C PRO* 4.2 0.6 - - - +
86C LEU* 1.3 79.5 - - - +
88C ILE* 1.3 66.7 + - - +
98C VAL* 3.4 31.0 - - + -
99C GLU 3.2 11.7 - - - +
100C GLN* 4.1 19.5 + - - +
35L GLU* 2.9 44.2 + - + -
36L PRO* 5.7 0.9 - - - -
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Residues in contact with ILE 88 (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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24C PHE* 4.8 3.6 - - + -
32C TRP* 3.4 40.4 - - + -
33C VAL* 4.1 17.0 - - + -
35C GLU 3.7 10.5 - - - +
36C PRO* 4.5 1.3 - - + -
86C LEU* 2.9 35.2 - - + +
87C THR* 1.3 76.2 - - - +
89C LEU* 1.3 62.4 + - - +
90C TYR* 3.6 17.5 - - + -
98C VAL* 3.3 26.4 - - - +
99C GLU 2.9 16.0 + - - +
101C LEU* 3.8 26.2 - - + -
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Residues in contact with LEU 89 (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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34C HIS* 2.8 51.3 + - + +
35C GLU* 2.9 24.2 + - + +
88C ILE* 1.3 76.8 - - - +
90C TYR* 1.3 61.1 + - - +
91C TYR* 4.9 8.5 - - + +
96C PRO* 4.4 11.9 - - + -
97C LYS 3.3 25.4 - - - +
98C VAL* 3.4 23.1 - - + -
89L LEU* 6.1 0.2 - - + -
98L VAL* 4.1 35.4 - - + -
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Residues in contact with TYR 90 (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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52B ILE* 4.8 0.2 - - + -
57B ILE* 3.5 31.0 - - + +
103B VAL* 4.1 20.4 - - + -
32C TRP* 3.6 30.3 - + + +
33C VAL* 4.3 2.5 - - - -
34C HIS* 4.2 5.6 - - - +
88C ILE* 3.6 23.8 - - + -
89C LEU* 1.3 75.0 - - - +
91C TYR* 1.3 63.8 + - - +
92C VAL* 3.6 27.5 - - + +
97C LYS* 3.1 60.3 + - + +
99C GLU* 4.0 30.5 + - + +
101C LEU* 5.7 0.2 - - + -
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Residues in contact with TYR 91 (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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102B LEU* 4.9 12.6 - - + +
103B VAL* 4.1 18.9 + - - +
104B LEU 4.9 0.2 + - - -
32C TRP 4.6 4.4 + - - +
34C HIS* 3.2 47.9 - + + +
89C LEU* 4.9 10.2 - - + +
90C TYR* 1.3 78.0 - - - +
92C VAL* 1.3 61.2 + - - +
93C GLY 3.5 14.4 + - - +
94C ARG* 4.0 7.0 - - - -
95C THR 3.1 27.6 - - - -
96C PRO* 3.4 38.0 - - + +
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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
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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