Contacts of the helix formed by residues 810 - 831 (chain A) in PDB entry 2ITQ
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 810 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
808A ASN 3.7 4.9 + - - -
809A ILE* 1.3 75.3 - - - +
811A SER* 1.3 66.5 + - - -
812A GLN* 3.2 4.0 - - - -
813A TYR* 3.0 24.5 + - - +
814A LEU* 3.3 12.3 + - - +
981A ILE* 4.1 3.6 - - - -
984A ASP* 3.6 20.2 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with SER 811 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
810A GLY* 1.3 71.6 - - - -
812A GLN* 1.3 56.1 + - - +
814A LEU* 3.4 1.4 + - - +
815A LEU* 2.9 34.8 + - - +
975A PRO* 2.9 32.6 - - - +
976A GLN* 4.0 2.6 + - - +
979A LEU* 3.7 31.6 - - - -
981A ILE* 3.7 10.1 - - - +
984A ASP* 3.1 27.2 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 812 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
810A GLY 3.2 1.2 + - - -
811A SER* 1.3 80.8 + - - +
813A TYR* 1.3 69.4 + - + +
815A LEU* 4.1 1.1 - - - +
816A ASN* 3.0 61.4 + - - +
972A ALA* 2.8 29.6 + - - +
975A PRO* 3.3 23.8 - - + +
984A ASP* 5.0 0.6 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 813 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
801A TYR* 5.9 0.9 - + - -
809A ILE* 4.0 16.6 - - + -
810A GLY* 3.0 18.2 + - - +
812A GLN* 1.3 88.1 - - + +
814A LEU* 1.3 66.2 + - - +
816A ASN* 3.2 6.5 + - - +
817A TRP* 2.8 45.4 + + + +
848A PRO* 3.3 44.0 - - + +
849A GLN* 3.8 18.8 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 814 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
802A VAL* 4.9 3.1 - - + -
809A ILE* 3.7 9.0 - - + -
810A GLY 3.3 9.0 + - - +
811A SER 3.9 1.6 - - - +
813A TYR* 1.3 74.3 - - - +
815A LEU* 1.3 64.0 + - - +
817A TRP* 3.4 31.4 + - + +
818A CYS* 3.2 28.6 + - - -
907A LEU* 4.2 25.0 - - + +
908A MET* 4.3 9.6 - - - -
910A PHE* 4.2 15.5 - - + -
938A ILE* 3.8 28.7 - - + -
979A LEU* 3.8 15.0 - - + -
981A ILE* 3.9 18.2 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 815 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
811A SER 2.9 18.2 + - - +
812A GLN* 4.3 2.0 - - - +
814A LEU* 1.3 75.7 - - - +
816A ASN* 1.3 63.3 + - - +
818A CYS* 3.3 5.3 + - - +
819A VAL* 3.0 27.8 + - - +
908A MET* 4.3 6.3 - - + -
943A VAL* 4.7 6.7 - - + -
968A PHE* 3.9 28.3 - - + +
971A MET* 3.5 36.6 - - + +
972A ALA* 4.0 16.6 - - + +
975A PRO* 3.7 27.4 - - + +
978A TYR* 4.4 4.5 - - + -
979A LEU* 3.9 23.1 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ASN 816 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
812A GLN* 3.0 46.5 + - - +
813A TYR* 3.2 6.9 + - - +
815A LEU* 1.3 72.6 - - - +
817A TRP* 1.3 70.6 + - + +
819A VAL* 3.2 8.0 + - - +
820A GLN* 2.9 39.7 + - - +
849A GLN* 5.8 1.1 - - - +
972A ALA* 3.6 19.9 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with TRP 817 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
798A LEU* 3.9 18.6 - - + -
801A TYR* 4.1 30.3 - + - -
802A VAL* 3.9 16.4 - - + -
809A ILE* 3.9 18.4 - - + -
813A TYR* 2.8 34.3 + + + +
814A LEU* 3.5 33.4 - - + +
816A ASN* 1.3 78.7 - - + +
818A CYS* 1.3 64.7 + - - +
820A GLN* 3.0 10.8 + - - +
821A ILE* 2.9 32.6 + - + +
845A VAL* 5.8 0.9 - - + -
848A PRO* 2.9 29.2 + - + -
849A GLN* 4.8 2.0 - - - +
851A VAL* 3.5 37.9 - - + +
907A LEU* 4.3 15.0 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with CYS 818 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
814A LEU 3.2 16.3 + - - -
815A LEU 3.4 8.7 - - - +
816A ASN 3.2 0.2 - - - -
817A TRP* 1.3 79.2 - - - +
819A VAL* 1.3 61.1 + - - +
821A ILE* 3.7 5.1 + - - -
822A ALA* 3.2 12.6 + - - +
900A TYR* 2.4 27.9 + - - +
904A VAL* 4.0 18.6 - - - -
907A LEU* 4.2 10.3 - - - -
908A MET* 3.7 24.5 - - - -
968A PHE* 3.6 27.6 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 819 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
815A LEU 3.0 17.7 + - - +
816A ASN* 3.5 10.5 - - - +
818A CYS* 1.3 75.9 - - - +
820A GLN* 1.3 60.0 + - + +
822A ALA* 3.1 7.5 + - - +
823A LYS* 2.9 52.7 + - - +
965A ILE* 4.4 12.1 - - + +
968A PHE* 3.7 34.3 - - + +
969A SER* 3.9 13.0 - - - +
972A ALA* 4.6 4.3 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 820 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
773A HIS* 3.4 44.7 - - + +
816A ASN* 2.9 34.8 + - - +
817A TRP* 3.6 6.9 - - - +
819A VAL* 1.3 77.8 - - + +
821A ILE* 1.3 62.7 + - - +
823A LYS* 3.3 5.8 + - + +
824A GLY 3.0 17.3 + - - -
849A GLN 3.1 22.6 + - - +
850A HIS* 3.6 2.9 - - - +
851A VAL* 2.9 40.3 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 821 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
798A LEU* 4.3 16.8 - - + -
817A TRP* 2.9 26.4 + - + +
818A CYS* 4.6 1.8 - - - +
820A GLN* 1.3 76.8 - - - +
822A ALA* 1.3 57.0 + - - +
824A GLY 3.2 0.7 + - - -
825A MET* 3.0 31.6 + - + +
838A LEU* 4.3 13.5 - - + -
843A VAL* 4.2 23.6 - - + -
851A VAL* 4.2 5.8 - - + -
853A ILE* 3.5 20.8 - - + +
900A TYR* 3.6 27.8 - - + -
903A THR* 4.7 8.7 - - + -
904A VAL* 6.4 0.9 - - + -
907A LEU* 4.2 20.4 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 822 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
818A CYS 3.2 19.1 + - - +
819A VAL* 3.1 6.7 + - - +
821A ILE* 1.3 75.4 - - - +
823A LYS* 1.3 58.9 + - - +
825A MET* 3.3 1.6 + - - +
826A ASN* 2.8 30.5 + - - +
900A TYR* 3.7 18.4 - - + +
961A PHE* 3.9 10.6 - - + +
964A LEU* 4.3 6.3 - - + -
965A ILE* 3.7 28.9 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 823 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
771A ASN* 4.4 4.6 + - - +
773A HIS* 3.7 27.0 + - + +
819A VAL* 2.9 35.8 + - + +
820A GLN* 3.4 9.9 - - + +
822A ALA* 1.3 73.8 - - - +
824A GLY* 1.3 65.6 + - - +
826A ASN* 3.4 1.7 + - - +
827A TYR* 3.0 24.1 + - - +
965A ILE* 3.8 30.5 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 824 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
771A ASN* 4.1 6.1 - - - -
773A HIS* 3.8 19.6 - - - +
774A VAL* 4.1 3.1 - - - +
820A GLN 3.0 11.5 + - - -
821A ILE 3.2 0.4 + - - -
823A LYS* 1.3 74.8 - - - +
825A MET* 1.3 58.0 + - - +
827A TYR* 3.2 6.1 + - - +
828A LEU* 2.9 31.0 + - - +
853A ILE* 3.6 20.9 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with MET 825 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
821A ILE* 3.0 19.8 + - + +
824A GLY* 1.3 73.6 - - - +
826A ASN* 1.3 65.4 + - - +
827A TYR 3.0 0.9 - - - -
828A LEU* 3.1 20.6 + - + +
829A GLU* 2.9 23.0 + - - +
833A LEU 5.7 0.2 - - - +
835A HIS* 3.9 15.9 - - + -
838A LEU* 3.8 24.2 - - + -
853A ILE* 3.4 24.5 - - + -
896A ASP* 3.6 27.8 - - + +
961A PHE* 3.1 51.6 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ASN 826 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
822A ALA 2.8 18.3 + - - +
823A LYS 3.8 2.9 - - - +
825A MET* 1.3 75.5 - - - +
827A TYR* 1.3 57.5 + - - +
829A GLU* 3.2 12.6 + - - +
830A ASP* 3.0 40.4 + - - +
961A PHE* 3.7 12.5 - - + +
962A ARG* 3.5 30.1 + - - +
965A ILE* 3.8 20.7 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 827 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
768A SER 4.0 1.7 + - - -
769A VAL* 3.3 20.1 - - + -
770A ASP* 2.7 42.7 + - - +
771A ASN* 3.5 37.5 - - + +
774A VAL* 4.3 2.2 - - + -
823A LYS 3.0 16.8 + - - +
824A GLY 3.6 3.8 - - - +
826A ASN* 1.3 75.5 - - - +
828A LEU* 1.3 79.0 + - + +
829A GLU 3.1 1.3 - - - -
830A ASP* 3.1 16.6 + - + +
831A ARG* 3.0 47.1 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 828 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
769A VAL* 3.9 27.8 - - + -
774A VAL* 4.1 11.2 - - + -
824A GLY 2.9 16.2 + - - +
825A MET* 3.6 33.4 - - + +
827A TYR* 1.3 85.0 - - + +
829A GLU* 1.3 60.1 + - - +
831A ARG* 3.2 7.3 + - + +
833A LEU* 2.7 58.5 + - + +
835A HIS* 4.1 8.5 - - + -
853A ILE* 4.7 4.3 - - + -
856A PHE* 3.8 27.8 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 829 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
825A MET 2.9 12.5 + - - +
826A ASN* 3.3 15.3 - - - +
828A LEU* 1.3 75.9 - - - +
830A ASP* 1.3 55.4 + - - +
832A ARG* 2.7 29.6 + - - +
893A HIS* 3.3 49.3 + - + +
894A GLN* 4.7 6.9 - - - +
960A LYS* 5.0 9.0 - - - +
961A PHE* 3.5 32.6 + - + +
962A ARG 5.4 0.2 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 830 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
826A ASN* 3.0 31.0 + - - +
827A TYR* 3.4 18.4 - - + +
829A GLU* 1.3 76.5 - - - +
831A ARG* 1.3 58.1 + - + +
832A ARG* 3.0 14.7 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 831 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
698A ALA* 6.1 2.8 - - - +
700A ASN* 4.2 15.3 + - - +
768A SER* 3.3 32.7 + - - +
769A VAL* 5.4 4.0 - - + +
827A TYR* 3.0 49.1 + - + +
828A LEU* 3.2 7.6 + - - +
829A GLU 3.1 0.6 + - - -
830A ASP* 1.3 75.0 + - + +
832A ARG* 1.3 73.3 + - - +
833A LEU* 3.1 7.0 + - + +
861A LEU* 3.1 40.3 - - + +
----------------------------------------------------------
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