Contacts of the strand formed by residues 526 - 533 (chain C) in PDB entry 2O2C
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 SER 526 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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102C ASP 4.3 1.6 - - - +
103C TYR* 4.7 0.3 - - - -
105C LYS* 3.0 38.9 + - - +
457C CYS* 3.2 13.2 - - - +
459C PHE* 4.2 11.9 - - - -
484C THR* 3.4 37.2 + - - +
487C LEU* 4.4 6.3 - - - -
524C ARG 4.1 1.0 + - - -
525C PRO* 1.3 77.6 - - - +
527C ASN* 1.3 67.6 + - - +
528C THR* 4.4 1.6 + - - -
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Residues in contact with ASN 527 (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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101C LEU* 4.2 9.9 - - + -
102C ASP 3.4 6.1 - - - +
103C TYR* 3.4 26.0 - - - +
106C SER* 5.6 1.0 - - - -
373C LEU* 3.5 22.7 + - + +
376C VAL* 4.0 24.1 - - - +
389C HIS* 4.9 5.7 - - - -
456C PRO* 6.3 0.4 - - - +
457C CYS 2.8 6.1 + - - +
458C ASP* 3.0 26.3 + - - +
459C PHE* 2.8 30.3 + - - +
526C SER* 1.3 77.5 - - - +
528C THR* 1.3 61.6 + - - +
529C LEU* 4.1 2.9 - - + -
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Residues in contact with THR 528 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
597B LEU* 3.6 41.9 - - + +
100C PHE* 3.4 4.0 - - - +
101C LEU* 3.6 1.7 - - - +
102C ASP* 2.8 44.5 + - - +
105C LYS* 4.5 2.6 + - - -
459C PHE* 3.4 3.4 - - - +
480C PHE* 3.6 29.2 - - + -
484C THR* 3.6 27.5 + - - +
526C SER* 4.2 1.3 + - - -
527C ASN* 1.3 71.2 - - - +
529C LEU* 1.3 66.0 + - - +
530C LEU* 4.0 0.7 - - + +
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Residues in contact with LEU 529 (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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99C LEU* 3.9 18.8 - - + -
100C PHE 3.2 4.7 - - - +
101C LEU* 4.0 27.8 - - + -
373C LEU* 5.0 5.6 - - + -
458C ASP* 4.6 11.9 - - + +
459C PHE 2.7 12.0 + - - +
460C ILE* 3.3 23.8 - - + +
461C GLY 2.9 27.0 + - - +
480C PHE* 3.8 2.3 - - - -
527C ASN* 5.4 1.3 - - + -
528C THR* 1.3 75.2 - - - +
530C LEU* 1.3 59.1 + - - +
531C ILE* 5.6 0.7 - - - -
542C ILE* 6.1 0.7 - - + -
545C MET* 3.6 38.6 - - + -
546C TYR* 3.5 25.1 - - + +
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Residues in contact with LEU 530 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
597B LEU* 4.2 33.2 - - + +
600B MET* 4.1 17.7 - - + -
601B PHE 4.8 0.9 - - - +
98C PHE* 3.6 3.7 - - + -
100C PHE* 2.8 54.5 + - + +
461C GLY 3.4 18.8 - - - +
463C ILE* 3.9 33.9 - - + -
477C MET* 4.0 11.4 - - + -
480C PHE* 3.8 22.4 - - + -
481C PHE* 4.6 5.8 - - + -
528C THR* 4.0 1.1 - - + -
529C LEU* 1.3 75.0 - - - +
531C ILE* 1.3 62.1 + - - +
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Residues in contact with ILE 531 (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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91C LEU* 5.7 0.7 - - + -
97C ASN* 4.2 3.8 - - - +
98C PHE* 3.3 23.8 - - - +
99C LEU* 3.9 22.4 - - + -
398C LEU* 6.1 1.1 - - + -
460C ILE* 5.5 4.3 - - + -
461C GLY 3.0 16.3 + - - +
462C ALA* 3.4 10.7 - - + -
463C ILE* 3.0 28.6 + - - +
529C LEU* 5.6 0.9 - - + -
530C LEU* 1.3 76.9 - - - +
532C LYS* 1.3 61.9 + - - +
533C SER 3.6 22.2 - - - +
534C LEU* 3.9 26.9 - - + +
538C ALA* 4.0 11.0 - - + +
542C ILE* 4.0 18.4 - - + -
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Residues in contact with LYS 532 (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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604B LEU* 4.5 29.4 - - + +
95C ASP* 3.0 30.6 + - + +
96C GLU* 4.0 22.4 + - - +
97C ASN* 3.0 20.3 + - + +
98C PHE* 3.9 23.9 + - + -
463C ILE* 3.3 6.9 + - + +
464C GLN* 2.8 61.7 + - + +
531C ILE* 1.3 72.3 - - - +
533C SER* 1.3 62.7 + - - +
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Residues in contact with SER 533 (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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95C ASP* 4.3 4.5 + - - -
97C ASN* 3.0 25.3 + - - +
462C ALA* 4.1 3.6 - - - -
464C GLN* 3.9 26.7 + - - -
466C GLN* 3.8 17.0 + - - -
531C ILE* 3.4 7.3 - - - +
532C LYS* 1.3 83.1 - - - +
534C LEU* 1.3 59.7 + - - +
535C THR* 3.1 22.2 + - - +
538C ALA* 3.3 7.1 - - - +
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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