Contacts of the helix formed by residues 800 - 816 (chain A) in PDB entry 3OPY
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 ASN 800 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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798A PRO* 4.7 8.1 + - - +
799A ILE* 1.3 76.9 - - - +
801A LEU* 1.4 54.4 + - - +
802A GLN* 2.8 32.3 + - - +
803A THR* 2.8 34.7 + - - +
804A VAL* 2.7 35.3 + - - +
838A TYR* 3.8 16.6 - - + +
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Residues in contact with LEU 801 (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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800A ASN* 1.4 73.8 + - - +
802A GLN* 1.4 54.0 + - - +
804A VAL* 4.1 5.9 - - + +
805A GLN* 2.8 48.0 + - + +
838A TYR* 3.5 25.3 + - + +
846A ILE* 5.8 5.8 - - + -
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Residues in contact with GLN 802 (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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800A ASN* 2.8 21.2 + - - +
801A LEU* 1.4 70.1 - - - +
803A THR* 1.4 65.3 - - + +
805A GLN* 3.2 16.1 + - - +
806A GLU* 3.0 48.9 + - - +
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Residues in contact with THR 803 (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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793A TYR* 5.6 0.3 - - - -
798A PRO* 3.4 19.1 - - + +
799A ILE* 3.4 10.9 - - - +
800A ASN* 2.8 47.0 + - - +
802A GLN* 1.4 76.3 - - + +
804A VAL* 1.4 55.5 + - - +
806A GLU* 3.2 17.7 + - - +
807A ASP* 2.9 37.5 + - - +
983A ARG* 5.4 0.2 + - - -
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Residues in contact with VAL 804 (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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793A TYR* 5.4 2.0 - - - +
799A ILE* 4.0 14.6 - - + -
800A ASN 2.7 24.0 + - - +
801A LEU* 4.1 7.9 - - + +
803A THR* 1.4 68.2 + - - +
805A GLN* 1.3 56.0 + - + +
807A ASP* 3.1 13.1 + - - +
808A ILE* 2.8 39.4 + - + +
838A TYR* 4.0 13.2 - - + -
843A ILE* 3.9 27.8 - - + -
846A ILE* 3.6 37.2 - - + -
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Residues in contact with GLN 805 (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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801A LEU* 2.8 40.4 + - + +
802A GLN* 3.5 15.3 + - - +
804A VAL* 1.3 75.5 - - + +
806A GLU* 1.4 52.4 + - - +
808A ILE* 3.4 9.4 + - + +
809A GLU* 2.8 34.3 + - - +
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Residues in contact with GLU 806 (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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802A GLN* 3.0 48.9 + - - +
803A THR* 3.3 17.1 - - - +
805A GLN* 1.4 72.8 - - - +
807A ASP* 1.4 58.8 + - - +
809A GLU* 3.1 15.6 + - - +
810A LEU* 3.0 28.1 + - - +
983A ARG* 4.7 13.0 + - - +
986A ILE* 5.6 2.3 - - - +
987A ARG* 3.8 21.6 + - - +
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Residues in contact with ASP 807 (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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791A ALA* 3.6 5.5 - - - +
793A TYR* 2.8 43.0 + - - +
803A THR* 2.9 28.7 + - - +
804A VAL* 3.4 8.8 + - + +
806A GLU* 1.4 72.4 - - - +
808A ILE* 1.4 62.9 + - + +
810A LEU* 3.3 4.7 + - - +
811A LEU* 3.1 22.7 + - - +
828A PHE* 4.0 15.2 - - + -
983A ARG* 2.8 38.5 + - - +
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Residues in contact with ILE 808 (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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804A VAL* 2.8 27.4 + - + +
805A GLN* 3.7 9.6 - - + +
807A ASP* 1.4 72.6 - - + +
809A GLU* 1.4 50.7 + - - +
811A LEU* 3.3 8.5 + - + +
812A THR* 2.7 50.5 + - - +
828A PHE* 5.9 0.7 - - + -
846A ILE* 3.9 20.2 - - + -
847A ILE* 3.7 42.8 - - + -
850A ALA* 3.6 24.5 - - + -
851A GLY 5.6 0.4 - - - +
855A PHE* 5.1 2.2 - - + -
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Residues in contact with GLU 809 (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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805A GLN 2.8 18.4 + - - +
806A GLU* 3.1 17.0 + - - +
808A ILE* 1.4 73.3 - - - +
810A LEU* 1.4 51.3 + - - +
812A THR* 3.3 7.2 + - - -
813A ARG* 2.8 46.5 + - + +
986A ILE* 4.2 20.1 - - + +
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Residues in contact with LEU 810 (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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790A LEU* 3.7 30.1 - - + +
806A GLU 3.0 13.1 + - - +
807A ASP 3.3 8.3 + - - +
809A GLU* 1.4 74.7 - - - +
811A LEU* 1.4 53.5 + - - +
813A ARG* 3.2 3.5 + - - -
814A THR* 2.8 49.8 + - - +
981A SER* 4.8 0.2 - - - +
982A GLY* 3.6 26.7 - - - +
983A ARG* 3.5 49.4 - - + +
986A ILE* 3.8 28.2 - - + +
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Residues in contact with LEU 811 (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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766A THR* 3.6 14.6 - - + +
790A LEU* 3.6 24.4 - - + +
807A ASP 3.1 13.2 + - - +
808A ILE* 3.5 10.8 - - + +
810A LEU* 1.4 75.0 - - - +
812A THR* 1.3 57.1 + - - +
814A THR* 3.3 1.1 + - - -
815A TYR* 3.0 65.9 + - + -
826A LYS* 4.4 1.1 - - + -
828A PHE* 3.8 20.4 - - + -
847A ILE* 3.6 34.1 - - + -
855A PHE* 3.7 20.9 - - + -
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Residues in contact with THR 812 (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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808A ILE* 2.7 39.8 + - - +
809A GLU* 3.5 8.2 - - - -
811A LEU* 1.3 73.1 - - - +
813A ARG* 1.3 61.3 + - - +
815A TYR* 3.4 1.7 + - - +
816A GLU* 3.2 40.8 + - - +
851A GLY* 5.8 2.7 + - - -
854A ARG* 4.8 19.0 - - - +
855A PHE* 3.9 16.8 - - - -
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Residues in contact with ARG 813 (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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809A GLU* 2.8 29.0 + - + +
810A LEU 3.8 3.4 - - - +
812A THR* 1.3 73.8 - - - +
814A THR* 1.3 59.2 + - - +
816A GLU* 3.8 25.0 + - + +
817A GLU* 3.2 36.0 + - - +
985A SER 5.2 0.8 + - - -
986A ILE* 3.8 46.2 + - + +
989A THR* 5.1 19.6 + - - +
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Residues in contact with THR 814 (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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265A TRP* 5.8 6.6 - - + -
790A LEU* 4.0 15.1 - - + +
810A LEU* 2.8 37.9 + - - +
811A LEU* 3.7 6.3 - - - +
812A THR 3.2 0.2 - - - -
813A ARG* 1.3 71.0 - - - +
815A TYR* 1.3 66.6 + - + +
816A GLU 3.3 1.2 + - - -
817A GLU* 3.4 23.7 + - - +
818A ASP* 3.6 7.9 + - + +
826A LYS* 4.4 25.1 - - + -
982A GLY* 5.1 3.6 + - - -
986A ILE* 5.4 1.6 - - - +
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Residues in contact with TYR 815 (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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765A ARG* 2.9 63.0 + - + +
766A THR* 3.7 7.6 + - - -
811A LEU* 3.0 51.1 + - + +
812A THR 4.0 3.4 - - - +
814A THR* 1.3 77.1 - - + +
816A GLU* 1.3 55.9 + - - +
817A GLU 3.1 5.8 + - - -
818A ASP* 3.5 24.5 + - + +
824A SER* 5.8 5.4 - - - -
825A GLY* 4.2 7.1 - - - -
826A LYS* 3.6 26.1 + - + -
854A ARG* 6.1 2.0 - - - -
855A PHE* 4.3 17.7 - + + -
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Residues in contact with GLU 816 (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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812A THR* 3.2 32.4 + - - +
813A ARG* 3.8 22.8 - - + +
814A THR 3.3 0.6 - - - -
815A TYR* 1.3 73.7 - - - +
817A GLU* 1.3 64.7 + - - +
854A ARG* 5.4 7.6 + - - -
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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