Contacts of the helix formed by residues 717 - 737 (chain B) in PDB entry 4OL0
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 CYS 717 (chain B).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
678B ALA* 5.8 4.7 - - - -
681B LEU* 4.1 17.5 - - + -
711B TYR* 3.6 44.4 - - + +
714B GLU* 3.4 21.1 - - - +
715B GLU 3.2 3.6 - - - -
716B GLY* 1.3 79.9 - - - +
718B ARG* 1.3 65.4 + - - +
719B GLN 3.2 2.2 - - - -
720B GLY* 3.0 5.0 + - - +
721B LEU* 2.9 28.6 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 718 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
712B GLY* 3.0 26.7 + - - +
713B MET* 3.0 32.7 + - - +
714B GLU 3.5 10.8 - - - +
715B GLU* 4.1 15.9 - - - +
716B GLY 3.6 2.9 - - - +
717B CYS* 1.3 77.5 - - - +
719B GLN* 1.3 58.1 + - - +
721B LEU* 3.3 9.7 + - - +
722B LEU* 2.8 29.8 + - - +
759B PHE* 4.9 0.5 - - - -
762B ARG 3.4 4.9 + - - -
763B SER* 3.0 32.9 + - - +
764B PRO* 5.1 1.4 - - - +
766B THR* 3.8 26.6 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 719 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
716B GLY* 4.8 6.8 - - - +
717B CYS 3.2 1.0 - - - +
718B ARG* 1.3 76.9 - - - +
720B GLY* 1.3 58.7 + - - +
722B LEU* 3.1 21.3 + - - +
723B ASP* 2.8 62.4 + - - +
766B THR* 5.3 2.3 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 720 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
682B GLN* 5.3 11.8 + - - -
685B VAL* 5.0 5.2 - - - +
716B GLY 4.9 2.8 + - - -
717B CYS* 3.0 8.5 + - - -
719B GLN* 1.3 78.8 - - - +
721B LEU* 1.3 58.0 + - - +
723B ASP* 3.3 12.4 + - - +
724B MET* 2.8 27.7 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 721 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
681B LEU* 5.4 9.4 - - + -
685B VAL* 5.5 1.3 - - + -
707B LEU* 4.5 13.9 - - + -
708B VAL* 4.3 17.7 - - + -
711B TYR* 3.9 38.1 - - + +
712B GLY* 4.0 9.6 - - - +
717B CYS* 2.9 24.0 + - + +
718B ARG* 3.6 7.0 - - - +
720B GLY* 1.3 74.7 - - - +
722B LEU* 1.3 59.5 + - - +
724B MET* 3.2 31.3 + - + +
725B LEU* 2.8 24.6 + - - +
759B PHE* 3.4 22.0 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 722 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
718B ARG 2.8 14.2 + - - +
719B GLN* 3.4 25.4 - - - +
721B LEU* 1.3 76.6 - - - +
723B ASP* 1.3 59.0 + - - +
725B LEU* 3.1 3.7 + - + +
726B GLN* 2.8 47.0 + - + +
759B PHE* 3.5 21.4 - - + -
766B THR* 3.7 32.8 - - + +
767B LEU* 4.8 0.4 - - - -
770B SER* 3.6 32.3 - - - +
772B VAL* 4.4 5.2 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 723 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
719B GLN* 2.8 48.1 + - - +
720B GLY* 3.4 10.9 - - - +
722B LEU* 1.3 77.8 - - - +
724B MET* 1.3 56.2 + - - +
726B GLN* 3.3 12.9 + - - +
727B ALA* 2.8 31.5 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with MET 724 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
685B VAL* 3.5 46.0 - - + +
688B MET* 4.6 9.0 - - + +
689B VAL* 4.3 7.6 - - + -
704B GLY* 4.2 23.3 - - - +
707B LEU* 3.8 20.6 - - + -
708B VAL* 5.4 1.3 - - - -
720B GLY 2.8 13.9 + - - +
721B LEU* 3.3 28.9 - - + +
723B ASP* 1.3 74.8 - - - +
725B LEU* 1.3 57.7 + - - +
727B ALA* 3.1 6.8 + - - +
728B LEU* 2.8 53.1 + - + +
755B LEU* 5.3 5.6 - - - -
759B PHE* 6.2 0.4 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 725 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
721B LEU 2.8 15.8 + - - +
722B LEU* 3.1 8.7 + - + +
724B MET* 1.3 75.5 - - - +
726B GLN* 1.3 59.3 + - - +
728B LEU* 3.1 5.7 + - + -
729B CYS* 2.8 52.4 + - - -
752B LEU* 4.9 4.7 - - + -
755B LEU* 3.3 35.4 - - + -
756B ALA* 5.4 4.3 - - - +
759B PHE* 3.4 37.7 - - + -
767B LEU* 3.9 20.6 - - + -
772B VAL* 4.2 9.9 - - + -
776B ILE* 4.3 7.9 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 726 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
722B LEU* 2.8 32.8 + - + +
723B ASP* 3.7 10.8 - - - +
725B LEU* 1.3 73.2 - - - +
727B ALA* 1.3 62.5 + - - +
729B CYS* 3.5 7.5 + - - +
730B ILE* 3.7 20.8 + - - +
770B SER* 3.8 26.3 - - - +
771B GLN* 4.0 12.7 - - - +
772B VAL* 3.6 33.7 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 727 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
689B VAL* 3.5 32.9 - - + +
723B ASP 2.8 18.8 + - - +
724B MET* 3.4 4.7 - - - +
726B GLN* 1.3 79.6 - - - +
728B LEU* 1.3 60.6 + - - +
730B ILE* 3.8 8.2 + - - +
731B PRO* 3.2 19.2 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 728 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
688B MET* 4.6 5.2 - - + -
689B VAL* 4.0 23.3 - - + +
692B TYR* 3.5 35.4 - - + -
700B PHE* 4.6 14.8 - - + +
701B LEU* 4.0 22.9 - - + -
704B GLY* 5.4 0.2 - - - -
724B MET* 2.8 47.4 + - + +
725B LEU* 3.7 4.3 - - + +
727B ALA* 1.3 72.5 - - - +
729B CYS* 1.3 59.1 + - - +
730B ILE 3.3 0.2 - - - -
731B PRO* 3.3 13.3 - - - +
732B THR* 2.7 26.4 + - - -
755B LEU* 4.4 13.5 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with CYS 729 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
725B LEU* 2.8 48.0 + - - +
726B GLN* 3.9 7.9 - - - +
727B ALA 3.3 0.6 - - - -
728B LEU* 1.3 71.8 - - - +
730B ILE* 1.3 59.8 + - + +
732B THR* 3.4 5.9 - - - -
733B PHE* 2.8 59.4 + - + -
752B LEU* 4.3 10.5 - - - -
772B VAL* 4.6 8.3 - - + -
776B ILE* 3.9 22.2 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 730 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
693B HIS* 6.3 1.8 - - + -
726B GLN 3.7 17.7 + - - +
727B ALA* 4.2 6.3 - - - +
729B CYS* 1.3 78.3 - - + +
731B PRO* 1.3 67.0 - - + +
733B PHE* 3.7 7.8 - - + +
734B GLN* 2.9 53.0 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with PRO 731 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
692B TYR* 3.6 17.5 - - + -
693B HIS* 4.4 25.1 - - + -
696B GLN* 3.7 28.3 - - + +
727B ALA 3.2 16.2 - - - +
728B LEU 3.3 9.4 - - - +
730B ILE* 1.3 97.7 - - + +
732B THR* 1.3 52.4 + - - +
734B GLN* 3.3 15.3 + - - +
735B LEU* 2.7 34.7 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with THR 732 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
692B TYR* 2.9 21.3 + - - +
701B LEU* 4.0 8.0 - - + +
728B LEU 2.7 19.7 + - - -
729B CYS* 3.3 12.1 + - - -
731B PRO* 1.3 74.9 - - - +
733B PHE* 1.3 62.5 + - + +
735B LEU* 2.9 9.2 + - - +
736B LEU* 2.8 32.9 + - + +
748B THR* 3.7 25.6 - - + -
752B LEU* 4.0 29.3 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 733 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
729B CYS* 2.8 43.6 + - + +
730B ILE* 3.7 7.6 - - + +
732B THR* 1.3 77.5 - - + +
734B GLN* 1.3 56.2 + - + +
736B LEU* 3.2 3.2 + - + +
737B GLU* 2.8 44.9 + - - +
752B LEU* 4.3 17.9 - - + -
772B VAL* 5.3 2.7 - - + -
775B PRO* 3.8 23.8 - - + -
776B ILE* 3.8 29.2 - - + -
779B TRP* 3.3 44.7 - + + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 734 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
693B HIS* 5.4 6.1 + - - -
730B ILE* 2.9 35.5 + - + +
731B PRO* 3.5 16.6 - - - +
733B PHE* 1.3 75.7 - - + +
735B LEU* 1.3 62.9 + - - +
737B GLU* 3.4 27.9 + - - +
738B GLN* 3.7 19.1 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 735 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
692B TYR* 4.9 0.7 - - - +
696B GLN* 3.7 41.3 - - + +
731B PRO 2.7 17.9 + - - +
732B THR* 2.9 8.0 + - - +
734B GLN* 1.3 76.2 - - - +
736B LEU* 1.3 61.7 + - + +
737B GLU 3.4 0.5 + - - -
738B GLN* 3.5 21.0 + - + +
741B GLY* 4.1 1.2 - - - -
745B HIS* 3.7 42.4 + - + +
748B THR* 3.7 33.7 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 736 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
732B THR* 2.8 32.7 + - + +
733B PHE* 3.6 2.7 - - + +
735B LEU* 1.3 74.7 - - + +
737B GLU* 1.3 62.9 + - - +
738B GLN 3.2 3.6 + - - +
741B GLY* 3.2 37.0 - - - +
742B LEU* 4.2 15.0 + - + +
745B HIS* 4.1 15.0 - - + +
748B THR* 4.1 19.7 - - + -
749B VAL* 4.3 8.5 - - + -
752B LEU* 4.5 13.0 - - + -
753B PHE* 6.1 0.7 - - + -
779B TRP* 3.5 45.1 - - + -
783B SER* 5.4 1.1 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 737 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
733B PHE* 2.8 32.4 + - - +
734B GLN* 3.7 21.1 - - - +
735B LEU 3.2 0.6 - - - -
736B LEU* 1.3 73.2 - - - +
738B GLN* 1.3 69.1 + - - +
779B TRP* 3.7 19.6 + - + -
----------------------------------------------------------
Back to top of page
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
------------------------------------------------------------
Atomic class I II III IV V VI VII VIII
------------------------------------------------------------
I (Hydrophilic) + + + - + + + +
II (Acceptor) + - + - + + + -
III (Donor) + + - - + + - +
IV (Hydrophobic) - - - + + + + +
V (Aromatic) + + + + + + + +
VI (Neutral) + + + + + + + +
VII (Neutral-donor) + + - + + + - +
VIII (Neutral-acceptor) + - + + + + + -
------------------------------------------------------------
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