Contacts of the strand formed by residues 756 - 764 (chain A) in PDB entry 1WBB
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 ILE 756 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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615A PRO* 4.6 2.0 - - + -
749A ALA* 4.5 7.9 - - + -
750A LEU 3.6 9.9 - - - +
751A GLU* 4.6 5.2 - - + -
752A HIS* 4.4 1.8 - - - -
755A THR* 1.3 87.9 + - - +
757A ALA* 1.3 69.7 + - - +
758A PHE* 4.0 31.5 - - + -
771A TYR* 4.1 35.9 - - + -
774A ALA* 4.2 18.8 - - + +
775A VAL* 5.0 3.4 - - + +
778A LEU* 4.2 37.2 - - + +
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Residues in contact with ALA 757 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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749A ALA* 3.4 9.4 - - - +
750A LEU* 3.1 38.8 + - + +
752A HIS* 4.1 13.9 + - + +
756A ILE* 1.3 75.1 - - - +
758A PHE* 1.3 61.9 + - - +
759A MET* 3.7 15.6 + - - +
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Residues in contact with PHE 758 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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615A PRO* 3.9 21.5 - - + -
616A ASN 3.1 25.4 - - - -
617A MET* 3.2 44.0 - - + +
618A GLY* 3.9 8.7 - - - -
748A ASP 4.4 2.7 - - - -
749A ALA* 4.9 0.2 - - - +
756A ILE* 4.0 33.7 - - + -
757A ALA* 1.3 75.1 - - - +
759A MET* 1.3 60.7 + - - +
760A HIS* 3.4 29.6 + - + +
775A VAL* 4.7 6.3 - - + -
778A LEU* 4.2 22.0 - - + -
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Residues in contact with MET 759 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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597A ILE* 3.6 17.0 - - - +
748A ASP* 3.3 29.7 + - + +
749A ALA* 4.2 2.2 - - - -
750A LEU* 3.7 42.6 - - + -
757A ALA* 4.3 11.0 - - - +
758A PHE* 1.3 74.0 - - - +
760A HIS* 1.3 70.7 + - - +
761A SER* 3.2 16.6 + - - +
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Residues in contact with HIS 760 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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594A GLU* 4.7 9.3 + - - -
597A ILE* 3.5 15.4 - - + +
599A ASN* 2.9 21.5 + - - -
617A MET 3.9 8.1 - - - -
618A GLY 3.4 24.8 + - - -
747A LEU* 4.2 5.8 - - - -
748A ASP 4.0 3.2 + - - -
758A PHE* 3.4 38.5 + - + +
759A MET* 1.3 77.6 - - - +
761A SER* 1.3 56.6 + - - +
1801A ADP 3.4 74.2 + + + +
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Residues in contact with SER 761 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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597A ILE* 4.2 9.4 - - - -
598A ALA 5.5 0.2 - - - -
599A ASN* 3.3 7.9 - - - -
746A HIS 3.6 0.4 - - - +
747A LEU* 4.4 3.8 - - - +
748A ASP* 3.3 41.0 + - - +
759A MET* 3.8 14.5 - - - +
760A HIS* 1.3 76.0 - - - +
762A VAL* 1.3 64.6 + - - +
763A GLN* 3.5 16.4 + - - +
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Residues in contact with VAL 762 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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599A ASN* 3.0 21.3 + - + +
600A PRO* 4.6 16.3 - - + +
623A TYR* 3.3 54.7 - - + +
745A VAL* 3.8 32.3 - - + -
746A HIS 3.5 6.7 - - - +
747A LEU* 4.2 13.7 - - + -
761A SER* 1.3 69.8 - - - +
763A GLN* 1.3 72.7 + - - +
764A ASP* 5.8 0.2 - - - +
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Residues in contact with GLN 763 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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745A VAL* 3.2 8.9 - - - +
746A HIS* 3.1 56.1 + - + +
748A ASP* 4.0 17.7 + - + -
761A SER* 3.9 24.3 + - - +
762A VAL* 1.3 91.2 + - - +
764A ASP* 1.3 65.3 + - - +
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Residues in contact with ASP 764 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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607A ARG* 3.3 28.2 + - - -
744A ASN 3.9 3.5 - - - +
745A VAL* 3.7 7.1 - - - +
746A HIS* 3.6 9.9 - - - -
762A VAL* 5.8 0.2 - - - +
763A GLN* 1.3 74.9 - - - +
765A GLY* 1.3 67.2 + - - +
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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