Contacts of the strand formed by residues 71 - 78 (chain C) in PDB entry 2C47
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 TYR 71 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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62C LEU* 4.2 12.3 - - + -
63C GLY 3.3 13.0 - - - +
64C LYS* 4.3 4.5 - - + +
69C ASN 3.9 4.0 + - - -
70C GLU* 1.3 77.6 - - - +
72C VAL* 1.3 65.5 + - - +
121C LEU* 3.9 31.0 + - + +
256D LYS* 4.9 7.6 - - - -
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Residues in contact with VAL 72 (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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46C PHE* 4.2 16.2 - - + -
62C LEU* 3.6 10.2 - - - +
63C GLY* 2.9 46.2 + - - +
64C LYS* 3.8 4.0 - - - +
65C ASN* 4.6 4.7 - - + +
70C GLU* 4.2 8.7 - - + +
71C TYR* 1.3 80.4 - - - +
73C ALA* 1.3 59.8 + - - +
74C ILE* 4.0 7.4 - - + -
106C TYR* 4.3 19.3 - - + -
118C VAL* 3.6 24.2 - - + -
119C LEU 3.4 13.7 - - - +
120C GLU* 5.2 0.7 - - - -
121C LEU* 4.0 10.5 - - - +
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Residues in contact with ALA 73 (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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52C ILE* 4.6 2.5 - - + -
60C LEU* 4.2 19.1 - - + -
61C ARG 3.5 5.6 - - - +
72C VAL* 1.3 74.3 - - - +
74C ILE* 1.3 63.2 + - - +
75C LYS 4.2 0.2 - - - -
118C VAL* 4.0 0.5 - - - +
119C LEU* 2.8 43.6 + - + +
120C GLU 4.3 1.3 - - - +
121C LEU* 4.1 18.7 - - + +
1300C 5ID 4.2 18.8 - - + +
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Residues in contact with ILE 74 (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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46C PHE* 4.6 4.7 - - + -
47C ARG 3.7 23.8 - - - +
48C VAL* 4.0 23.8 - - + -
59C GLU 3.9 0.2 - - - +
60C LEU* 3.5 4.0 - - - -
61C ARG* 2.8 45.7 + - - +
63C GLY* 3.8 9.6 - - - -
72C VAL* 4.0 14.4 - - + -
73C ALA* 1.3 79.2 - - - +
75C LYS* 1.3 64.2 + - - +
76C LEU* 3.8 5.0 + - + +
111C CSD 4.2 12.6 - - - +
116C ALA* 3.9 27.1 - - + -
117C MET 3.5 6.1 - - - +
118C VAL* 4.1 15.5 - - + -
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Residues in contact with LYS 75 (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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59C GLU 3.5 13.2 - - - +
60C LEU* 4.1 15.6 - - + +
73C ALA 4.2 0.6 - - - -
74C ILE* 1.3 71.7 - - - +
76C LEU* 1.3 63.1 + - - +
86C LEU* 4.6 15.1 - - + +
89C GLU* 5.4 6.5 - - - +
115C ASN 4.0 0.2 - - - +
116C ALA* 3.3 4.7 - - - +
117C MET* 2.9 51.3 + - + +
119C LEU* 4.3 8.7 - - + +
1300C 5ID 6.2 1.3 - - + -
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Residues in contact with LEU 76 (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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59C GLU* 3.0 36.9 + - + +
61C ARG* 5.6 7.0 - - + -
74C ILE* 3.8 6.7 + - + +
75C LYS* 1.3 77.3 - - - +
77C GLU* 1.3 60.7 + - - +
78C PRO* 4.5 2.7 - - - +
86C LEU* 5.3 1.3 - - - -
114C TYR* 4.3 19.1 - - + -
115C ASN 3.4 7.0 - - - +
116C ALA* 5.3 2.5 - - + -
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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
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76C LEU* 1.3 74.1 - - - +
78C PRO* 1.4 81.6 - - + +
81C SER* 4.3 7.9 + - - +
83C ALA 3.9 2.9 - - - +
84C PRO* 3.2 20.2 - - - +
85C GLN* 2.7 29.7 + - - +
86C LEU* 3.3 34.9 + - + +
87C HIS* 4.5 3.1 + - - -
108C PHE* 5.4 0.7 - - - -
114C TYR* 3.3 4.5 - - - -
115C ASN* 2.7 51.6 + - + +
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Residues in contact with PRO 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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76C LEU 4.5 2.5 - - - +
77C GLU* 1.4 92.1 - - + +
79C ILE* 1.3 65.8 + - - +
80C LYS* 4.4 5.4 - - + +
81C SER* 3.1 30.4 + - - +
113C LYS 3.9 8.7 - - - +
114C TYR* 4.3 7.1 - - + -
115C ASN* 5.3 1.0 + - - -
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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