Contacts of the helix formed by residues 808 - 822 (chain A) in PDB entry 3BWT
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 THR 808 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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766A ILE* 3.4 27.9 - - + +
770A ALA* 4.6 10.5 - - + +
775A TYR* 4.2 25.1 - - + +
778A THR* 4.8 0.7 - - + -
804A LYS* 2.8 24.0 + - - -
805A ILE* 2.9 4.8 + - - -
807A LYS* 1.3 78.5 + - - +
809A ALA* 1.3 67.1 + - - +
810A ILE* 4.5 3.6 - - + -
811A VAL* 2.7 37.3 + - + +
812A SER* 3.0 9.7 + - - -
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Residues in contact with ALA 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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807A LYS 3.7 4.8 + - - -
808A THR* 1.3 70.8 - - - +
810A ILE* 1.3 65.7 + - + +
811A VAL 3.2 0.5 + - - -
812A SER* 3.2 22.9 + - - -
813A GLU* 4.6 3.8 + - - +
851A GLN* 3.9 20.3 - - - +
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Residues in contact with ILE 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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775A TYR* 3.4 58.1 - - + +
778A THR* 4.9 0.2 - - + -
779A HIS* 3.2 33.9 + - + +
808A THR* 2.9 6.8 + - + +
809A ALA* 1.3 76.4 - - + +
811A VAL* 1.3 70.3 + - + +
814A PRO* 4.6 7.8 - - - +
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Residues in contact with VAL 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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778A THR* 4.1 17.0 - - + -
779A HIS* 4.1 16.4 - - + -
782A VAL* 3.8 28.8 - - + +
805A ILE* 3.6 24.8 - - + +
808A THR* 2.7 40.6 + - + +
810A ILE* 1.3 85.0 - - + +
812A SER* 1.3 69.3 + - - +
813A GLU 3.3 2.8 + - - -
814A PRO* 3.3 17.1 - - + +
815A MET 3.6 7.3 + - - -
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Residues in contact with SER 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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805A ILE 3.7 9.9 - - - -
806A LEU* 3.3 22.9 + - - +
808A THR 3.0 15.2 + - - -
809A ALA* 3.2 17.0 + - - -
811A VAL* 1.3 79.7 - - - +
813A GLU* 1.3 59.7 + - - +
815A MET* 3.2 5.0 + - - +
816A ILE* 3.0 30.0 + - - +
847A ILE* 3.9 9.0 - - - -
851A GLN* 3.3 25.4 + - - -
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Residues in contact with GLU 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 ALA 4.6 3.3 + - - +
812A SER* 1.3 75.1 - - - +
814A PRO* 1.3 68.5 - - + +
816A ILE* 3.7 10.5 - - + +
817A LEU* 2.8 37.7 + - + +
851A GLN* 3.4 41.1 - - + +
852A ASN* 3.2 32.2 + - + +
855A LEU* 3.9 13.2 - - + +
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Residues in contact with PRO 814 (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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782A VAL* 5.1 6.3 - - + -
786A LYS* 3.5 29.4 + - + +
810A ILE 4.6 5.8 - - - +
811A VAL* 3.3 23.1 - - + +
813A GLU* 1.3 93.4 - - + +
815A MET* 1.3 57.6 + - - +
817A LEU* 3.2 13.5 - - + +
818A GLU* 3.0 22.9 + - - +
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Residues in contact with MET 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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782A VAL* 4.7 6.0 - - + +
785A LEU 4.9 0.4 - - - -
786A LYS* 4.0 30.5 - - + +
789A ALA* 3.5 31.2 - - - -
802A ILE* 3.9 25.1 - - + -
805A ILE* 3.9 37.7 - - + -
806A LEU* 3.6 23.8 - - + -
811A VAL 3.6 8.6 + - - +
812A SER 3.2 9.7 + - - +
813A GLU 3.2 0.4 - - - -
814A PRO* 1.3 77.2 - - - +
816A ILE* 1.3 66.1 - - - +
818A GLU* 3.1 4.0 + - - +
819A ILE* 3.0 25.4 + - + +
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Residues in contact with ILE 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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806A LEU* 3.5 17.0 - - + -
812A SER* 3.0 18.1 + - - +
813A GLU* 3.3 12.1 + - + +
815A MET* 1.3 74.2 - - - +
817A LEU* 1.3 58.0 + - - +
819A ILE* 3.4 9.7 + - + +
820A LEU* 2.9 36.4 + - + +
844A ALA* 4.0 20.0 - - + +
847A ILE* 3.9 29.4 - - + -
848A SER* 4.1 8.7 - - - -
855A LEU* 4.2 19.3 - - + -
859A LEU* 4.1 24.5 - - + -
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Residues in contact with LEU 817 (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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813A GLU* 2.8 22.6 + - + +
814A PRO* 3.2 14.1 - - + +
816A ILE* 1.3 75.3 - - - +
818A GLU* 1.3 55.3 + - - +
820A LEU* 3.1 4.3 + - + +
821A ASN* 2.8 64.9 + - - +
854A TYR* 5.4 3.1 - - + +
855A LEU* 4.2 19.3 - - + -
858A ARG* 4.2 15.9 - - - +
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Residues in contact with GLU 818 (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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786A LYS* 3.2 63.1 + - + +
787A PRO* 4.2 11.1 - - - +
789A ALA* 3.9 9.6 - - + +
790A ILE* 5.6 0.7 - - - +
814A PRO 3.0 6.8 + - - +
815A MET 3.1 8.5 + - - +
817A LEU* 1.3 73.8 - - - +
819A ILE* 1.3 60.3 + - - +
821A ASN* 4.9 1.9 - - - +
822A ASN* 2.6 65.1 + - + +
823A GLY 3.4 3.8 + - - -
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Residues in contact with ILE 819 (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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789A ALA* 4.0 16.2 - - + -
790A ILE* 4.4 15.9 - - + -
793A SER* 4.3 16.8 - - - +
802A ILE* 4.7 2.0 - - + -
806A LEU* 4.6 11.0 - - + -
815A MET* 3.0 28.3 + - + +
816A ILE* 3.6 10.5 - - - +
818A GLU* 1.3 76.9 - - - +
820A LEU* 1.3 59.3 + - - +
823A GLY* 3.3 19.6 - - - -
824A GLY 3.4 2.9 + - - -
828A ILE* 4.2 17.8 - - + +
831A LEU* 4.1 22.2 - - + -
840A VAL* 4.6 12.8 - - + -
841A LEU* 5.6 1.1 - - + -
844A ALA* 5.1 9.9 - - + -
859A LEU* 5.0 8.3 - - + -
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Residues in contact with LEU 820 (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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816A ILE* 2.9 14.4 + - + +
817A LEU* 3.1 8.3 + - - +
819A ILE* 1.3 78.0 - - - +
821A ASN* 1.3 61.0 + - - +
824A GLY* 3.5 16.5 + - - -
828A ILE* 4.4 3.8 - - + -
855A LEU* 3.5 30.1 - - + +
858A ARG* 3.4 62.7 + - + +
859A LEU* 3.4 38.1 - - + +
862A ILE* 4.2 16.3 - - + +
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Residues in contact with ASN 821 (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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817A LEU* 2.8 46.5 + - - +
818A GLU* 4.3 1.8 - - - +
820A LEU* 1.3 74.6 - - - +
822A ASN* 1.3 71.6 + - - +
823A GLY 3.3 1.6 + - - -
824A GLY* 4.1 4.9 + - - -
858A ARG* 2.3 38.6 + - - +
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Residues in contact with ASN 822 (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 ILE* 4.8 4.9 - - - +
818A GLU* 2.6 46.8 + - + +
821A ASN* 1.3 81.7 - - - +
823A GLY* 1.3 58.8 + - - +
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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