Contacts of the strand formed by residues 744 - 756 (chain A) in PDB entry 4WGK
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 GLY 744 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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698A LYS* 4.4 9.9 - - - -
742A GLN 3.7 0.8 + - - -
743A PRO* 1.3 75.6 - - - +
745A ILE* 1.3 64.0 + - - -
746A TYR* 3.4 11.5 - - - -
776A GLU* 3.2 10.1 + - - +
777A VAL 2.9 32.1 + - - -
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Residues in contact with ILE 745 (chain A).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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698A LYS* 3.6 4.4 - - - +
699A TYR* 2.8 56.1 + - + +
706A TRP* 3.8 10.8 - - + -
744A GLY* 1.3 75.3 - - - -
746A TYR* 1.3 64.0 + - - +
774A ALA* 3.8 24.2 - - + -
775A PHE 3.4 10.1 - - - +
776A GLU* 4.5 19.5 - - + +
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Residues in contact with TYR 746 (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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696A VAL* 4.2 6.7 - - + -
697A GLU 3.2 17.9 - - - +
698A LYS* 3.4 36.0 - - + +
706A TRP* 3.7 3.1 - - - -
709A VAL* 4.6 11.2 - - + +
735A TRP* 3.6 28.1 - + + -
741A ALA* 4.9 1.8 - - + +
742A GLN* 2.5 37.5 + - - -
744A GLY* 3.4 25.4 - - - -
745A ILE* 1.3 73.7 - - - +
747A ARG* 1.3 60.0 + - - +
774A ALA* 3.4 4.2 - - - -
775A PHE* 2.6 63.7 + - + +
777A VAL* 3.6 23.1 - - + -
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Residues in contact with ARG 747 (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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695A THR 4.0 0.3 - - - +
696A VAL* 3.6 3.6 - - - +
697A GLU* 2.7 63.7 + - + +
706A TRP* 3.3 65.7 - - + +
746A TYR* 1.3 76.4 - - - +
748A ILE* 1.3 65.2 + - - +
749A ARG* 4.1 22.2 - - + +
771A THR* 3.9 22.9 - - + +
772A SER* 3.9 16.4 - - - +
774A ALA* 4.3 4.0 - - - -
775A PHE* 3.7 6.7 - - - -
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Residues in contact with ILE 748 (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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672A ALA* 4.4 12.3 - - + +
674A VAL* 3.7 23.3 - - + -
676A PHE* 3.6 11.9 - - + -
695A THR 3.5 5.8 - - - +
696A VAL* 4.3 15.5 - - + -
733A VAL* 3.6 37.0 - - + +
735A TRP* 4.3 19.1 - - + -
747A ARG* 1.3 78.1 - - - +
749A ARG* 1.3 69.5 + - - +
771A THR 3.8 0.2 - - - -
772A SER* 2.9 38.6 + - - +
775A PHE* 3.8 21.5 - - + -
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Residues in contact with ARG 749 (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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676A PHE* 4.3 2.2 - - - -
694A LEU* 3.2 26.5 - - - +
695A THR* 2.9 25.6 + - - +
697A GLU* 3.3 32.6 + - - +
733A VAL* 4.6 0.2 - - - +
747A ARG* 4.1 17.7 - - + +
748A ILE* 1.3 82.2 - - - +
750A TYR* 1.3 61.1 + - - +
751A PHE* 3.9 26.4 - - + -
769A GLU* 2.6 39.3 + - - +
770A GLY 3.2 5.3 + - - +
771A THR* 2.8 33.9 + - + +
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Residues in contact with TYR 750 (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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656A GLY* 4.5 4.3 - - - -
676A PHE* 3.6 45.3 - + + -
677A VAL 3.9 10.8 - - - -
679A ALA 3.6 26.5 + - - -
681A PRO* 5.9 0.3 - - - +
693A PHE* 3.3 12.0 - + - -
719A PHE* 3.5 32.9 - + - -
731A ALA* 3.4 19.1 - - + +
733A VAL* 4.8 2.5 - - + -
749A ARG* 1.3 76.0 - - - +
751A PHE* 1.3 83.0 + - - +
752A GLY* 4.2 5.8 - - - -
753A HIS 5.3 0.2 + - - -
768A PHE* 3.4 32.9 - + - -
769A GLU* 3.3 6.4 - - - +
770A GLY 2.8 36.3 + - - +
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Residues in contact with PHE 751 (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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690A HIS* 2.9 26.8 + - + +
692A THR* 3.7 20.2 - - + +
693A PHE* 2.7 36.7 + - - +
694A LEU 4.1 1.1 - - - -
695A THR* 3.6 38.6 - - + -
697A GLU* 4.9 1.1 - - - -
749A ARG* 3.9 35.7 - - + -
750A TYR* 1.3 78.5 - - - +
752A GLY* 1.3 58.7 + - - +
768A PHE 3.9 4.0 - - - +
769A GLU* 3.6 38.8 - - + -
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Residues in contact with GLY 752 (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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684A SER* 3.7 8.7 - - - -
690A HIS* 3.9 0.6 - - - -
693A PHE* 4.8 2.5 - - - -
750A TYR* 4.2 8.5 - - - -
751A PHE* 1.3 74.8 - - - +
753A HIS* 1.3 71.4 + - - -
767A SER* 3.7 1.2 - - - -
768A PHE* 3.2 48.8 + - - +
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Residues in contact with HIS 753 (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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679A ALA* 3.1 10.3 - - - +
680A ASN 3.7 3.0 + - - +
681A PRO* 6.2 0.2 - - - +
683A ASN* 3.0 28.4 + - + +
684A SER* 2.6 37.3 + - - +
690A HIS* 3.4 28.9 - + + -
752A GLY* 1.3 75.4 - - - -
754A ASN* 1.3 58.6 + - - +
765A ILE* 3.7 22.2 - - + -
766A LEU 3.2 22.0 - - - +
767A SER* 3.5 24.1 - - - -
768A PHE* 3.4 6.3 - - - -
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Residues in contact with ASN 754 (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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647A ASP* 4.2 0.9 - - + -
655A PHE* 3.6 37.0 - - + -
679A ALA* 3.7 14.1 - - + -
683A ASN* 3.9 2.7 - - - -
753A HIS* 1.3 75.3 - - - +
755A ARG* 1.3 59.4 + - - +
756A LYS* 3.5 38.6 + - - +
764A VAL 3.8 0.5 - - - +
765A ILE* 3.6 4.5 - - - -
766A LEU* 3.0 48.6 + - - +
767A SER 4.6 1.4 - - - +
768A PHE* 3.6 11.9 - - + +
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Residues in contact with ARG 755 (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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644A SER* 2.8 30.3 + - - -
645A ILE 3.7 19.7 - - - +
646A VAL* 3.2 26.3 - - + +
647A ASP* 3.0 24.5 + - - +
682A LYS* 6.5 0.7 - - - +
683A ASN* 4.0 15.3 + - - +
754A ASN* 1.3 73.7 + - - +
756A LYS* 1.3 71.3 + - - +
757A GLN* 4.5 8.1 + - - +
763A ALA* 3.7 26.1 - - - +
764A VAL 3.6 5.8 - - - +
765A ILE* 3.9 23.5 - - + +
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Residues in contact with LYS 756 (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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646A VAL* 4.3 9.9 - - + -
647A ASP 5.6 1.8 - - - +
655A PHE* 5.0 7.6 - - - -
754A ASN* 3.5 23.7 + - - +
755A ARG* 1.3 82.5 - - - +
757A GLN* 1.3 64.7 + - - +
762A PRO 3.6 0.6 - - - +
763A ALA* 3.9 1.0 - - - -
764A VAL* 3.1 39.5 + - + +
766A LEU* 3.9 23.9 - - + +
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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