Contacts of the strand formed by residues 711 - 721 (chain A) in PDB entry 2HWK
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 LEU 711 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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673A LYS* 3.9 16.5 + - - +
674A TYR 3.4 9.9 - - - +
675A ASP 4.5 0.2 - - - +
677A ILE* 3.6 31.0 - - + +
707A ALA 3.6 12.8 - - - +
708A CYS* 3.7 6.4 + - - +
709A LEU 3.6 1.0 - - - -
710A HIS* 1.3 79.1 - - - +
712A ASN* 1.3 70.9 + - - +
713A PRO* 3.9 1.0 - - - +
715A GLY* 4.3 1.6 - - - -
716A THR 3.7 21.3 - - - +
717A CYS* 4.1 12.8 - - + +
740A PHE* 3.5 39.0 - - + -
764A TYR* 3.9 29.6 - - + -
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Residues in contact with ASN 712 (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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633A THR* 4.2 2.4 + - - -
673A LYS* 3.3 25.1 + - - +
674A TYR* 2.8 30.1 + - - +
675A ASP* 2.7 30.2 + - - +
711A LEU* 1.3 81.2 - - - +
713A PRO* 1.3 84.9 - - + +
714A GLY 3.2 0.3 + - - -
715A GLY* 2.8 15.5 + - - -
764A TYR* 4.0 2.5 - - - -
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Residues in contact with PRO 713 (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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673A LYS* 6.0 1.8 - - + -
711A LEU 4.4 1.6 - - - +
712A ASN* 1.3 93.1 - - + +
714A GLY* 1.3 62.6 + - - +
715A GLY 3.2 0.2 + - - -
764A TYR* 3.9 10.3 - - + +
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Residues in contact with GLY 714 (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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713A PRO* 1.3 72.0 - - - +
715A GLY* 1.3 66.8 + - - +
716A THR* 4.7 1.6 + - - -
741A LYS* 4.7 7.9 + - - -
762A ILE* 5.3 1.2 - - - +
763A GLY* 3.8 12.6 + - - -
764A TYR 2.8 26.7 + - - -
765A ASP* 5.5 2.0 - - - +
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Residues in contact with GLY 715 (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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675A ASP* 3.2 20.9 - - - -
711A LEU* 4.3 7.2 - - - -
712A ASN* 2.8 17.4 + - - -
713A PRO 3.1 1.6 + - - -
714A GLY* 1.3 82.9 - - - +
716A THR* 1.3 60.4 + - - -
740A PHE* 3.8 2.3 - - - -
763A GLY 3.1 5.0 + - - -
764A TYR* 3.1 24.4 + - - +
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Residues in contact with THR 716 (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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629A LEU* 4.6 14.2 - - + +
630A LYS 4.7 6.0 + - - -
675A ASP 2.7 12.6 + - - -
676A ILE* 3.3 12.4 - - + -
677A ILE 3.0 24.4 + - - +
711A LEU* 3.7 7.2 - - - +
714A GLY 4.7 1.0 + - - -
715A GLY* 1.3 74.7 - - - -
717A CYS* 1.3 62.1 + - - +
718A VAL* 3.8 24.7 - - + -
760A VAL* 4.5 2.0 - - + -
761A PHE 3.2 12.3 - - - +
762A ILE* 3.7 30.9 - - + +
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Residues in contact with CYS 717 (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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677A ILE* 3.6 7.4 - - - +
679A VAL* 4.7 3.6 - - - -
704A THR* 4.0 28.9 - - - -
707A ALA* 4.1 22.2 - - + -
708A CYS* 5.5 1.8 - - - -
711A LEU* 4.1 9.4 - - + -
716A THR* 1.3 73.9 - - - +
718A VAL* 1.3 69.7 + - - +
736A ILE* 5.7 1.1 - - - -
740A PHE* 4.0 22.0 - - + -
759A PHE 3.7 0.3 - - - +
761A PHE* 2.8 50.3 + - + +
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Residues in contact with VAL 718 (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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625A PHE* 4.3 7.0 - - + -
629A LEU* 4.0 19.5 - - + -
676A ILE* 5.4 0.7 - - + -
677A ILE 2.8 13.4 + - - +
678A PHE* 3.3 30.9 - - + -
679A VAL* 2.7 34.5 + - - +
716A THR* 3.8 17.7 - - + -
717A CYS* 1.3 79.7 - - - +
719A SER* 1.3 60.5 - - - +
758A LEU* 4.1 20.4 - - + -
759A PHE 3.3 7.6 - - - +
760A VAL* 3.9 18.4 - - + -
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Residues in contact with SER 719 (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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678A PHE* 4.8 0.2 - - - -
679A VAL* 3.7 12.6 - - - +
696A HIS* 4.8 0.5 + - - -
700A LEU* 4.0 4.7 - - - +
704A THR* 2.9 41.3 + - - +
717A CYS* 5.0 0.4 - - - -
718A VAL* 1.3 77.9 - - - +
720A ILE* 1.3 76.8 + - - +
758A LEU* 3.4 6.1 - - - -
759A PHE* 2.9 46.9 + - - +
761A PHE* 5.4 0.9 - - - -
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Residues in contact with ILE 720 (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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622A PHE* 4.0 9.2 - - + -
678A PHE* 4.1 3.6 - - + -
679A VAL* 3.2 10.9 + - - +
680A ASN* 3.6 24.0 - - - +
681A VAL 3.3 28.0 - - - +
682A ARG* 3.6 33.9 - - + +
696A HIS* 3.1 14.4 + - - -
700A LEU* 4.3 2.1 - - - +
719A SER* 1.3 88.2 + - - +
721A GLY* 1.3 62.3 + - - +
722A TYR* 3.7 22.2 - - + +
756A GLU* 4.3 14.8 - - + +
757A VAL 3.5 5.4 - - - -
758A LEU* 4.0 16.1 - - + +
759A PHE* 4.5 0.2 - - - -
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Residues in contact with GLY 721 (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 HIS* 3.9 12.3 - - - -
720A ILE* 1.3 79.9 - - - +
722A TYR* 1.3 74.5 + - - -
723A GLY 3.6 1.3 - - - -
756A GLU* 3.5 1.0 - - - +
757A VAL* 2.8 33.7 + - - -
759A PHE* 3.8 16.6 - - - -
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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