Contacts of the helix formed by residues 696 - 716 (chain B) in PDB entry 2P0C
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 PRO 696 (chain B).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
694B HIS* 3.4 20.6 - - + +
695B ILE* 1.3 88.1 - - + +
697B LEU* 1.3 67.0 + - - +
698B GLN* 3.2 16.4 - - + +
699B THR* 2.9 36.3 + - + +
700B LEU* 3.1 9.8 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 697 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
694B HIS* 5.4 0.4 + - - -
695B ILE 3.8 0.6 + - - -
696B PRO* 1.3 71.4 - - - +
698B GLN* 1.3 60.0 + - - +
700B LEU* 3.1 19.8 + - + +
701B LEU* 2.8 50.0 + - + +
796B ARG* 4.9 1.8 - - - +
824B ASP 5.9 4.3 - - - +
825B CYS* 6.2 1.8 - - - -
826B LEU* 3.8 36.1 - - + +
829B LEU* 4.6 14.4 - - + -
861B LEU* 3.9 22.0 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 698 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
696B PRO* 3.6 13.3 - - + +
697B LEU* 1.3 86.7 + - - +
699B THR* 1.3 57.4 + - - +
701B LEU* 4.6 0.4 - - - -
702B LYS* 3.1 24.8 + - - +
858B LEU* 3.3 26.1 - - + +
861B LEU* 4.2 39.8 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with THR 699 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
682B TYR* 6.0 1.1 - - - +
695B ILE* 3.5 25.1 - - + -
696B PRO* 2.9 22.6 + - + +
698B GLN* 1.3 74.0 - - - +
700B LEU* 1.3 60.2 + - - +
702B LYS* 3.2 9.2 + - + +
703B PHE* 3.0 48.7 + - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 700 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
683B LEU* 3.8 28.5 - - + -
695B ILE* 3.6 24.9 - - + +
696B PRO 3.1 13.2 + - - +
697B LEU* 3.1 20.3 + - + +
699B THR* 1.3 76.7 - - - +
701B LEU* 1.3 61.4 + - - +
703B PHE* 3.3 11.2 + - + +
704B MET* 3.2 29.7 + - + +
793B ILE* 3.8 26.5 - - + +
794B ALA* 4.5 10.1 - - - +
796B ARG* 3.8 30.5 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 701 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
697B LEU* 2.8 29.9 + - + +
698B GLN 3.8 4.7 - - - +
700B LEU* 1.3 71.6 - - - +
702B LYS* 1.3 58.5 + - - +
704B MET* 3.0 15.8 + - + +
705B VAL* 2.8 32.2 + - - +
826B LEU* 5.2 0.4 - - + -
829B LEU* 3.8 37.2 - - + -
854B LEU* 4.6 8.5 - - + +
857B LEU* 4.1 18.2 - - + -
858B LEU* 3.8 30.7 - - + +
861B LEU* 3.5 31.4 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 702 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
698B GLN 3.1 15.8 + - - +
699B THR* 3.2 13.2 + - + +
701B LEU* 1.3 76.5 - - - +
703B PHE* 1.3 58.0 + - + +
705B VAL* 3.2 18.0 + - + +
706B ASP* 2.7 66.8 + - - +
709B LEU* 5.1 4.9 - - - +
736B THR* 5.9 3.0 - - - +
858B LEU* 3.8 22.4 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 703 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
679B LEU* 3.9 30.7 - - + -
682B TYR* 4.0 25.1 - + - -
683B LEU* 4.5 4.7 - - + -
695B ILE* 4.2 11.2 - - + -
699B THR* 3.0 41.6 + - + -
700B LEU* 3.3 22.7 - - + +
702B LYS* 1.3 77.4 - - + +
704B MET* 1.3 61.6 - - - +
706B ASP* 3.4 6.0 - - - +
707B ILE* 3.1 30.6 + - - +
731B LEU* 4.0 6.3 - - + -
735B MET* 3.9 20.0 - - + -
737B VAL* 3.2 28.6 - - + +
793B ILE* 4.5 5.4 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with MET 704 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
697B LEU* 6.0 0.2 - - + -
700B LEU* 3.2 18.1 + - + +
701B LEU* 3.0 17.1 + - + +
703B PHE* 1.3 72.7 - - - +
705B VAL* 1.3 55.5 + - - +
707B ILE* 3.2 5.0 + - - -
708B ALA* 2.8 35.7 + - - +
786B PHE* 3.6 6.2 - - + -
790B MET* 3.7 34.5 - - + +
793B ILE* 3.7 39.7 - - + -
794B ALA* 4.2 5.6 - - + +
829B LEU* 3.5 44.4 - - + -
854B LEU* 4.2 16.6 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 705 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
701B LEU 2.8 22.1 + - - +
702B LYS* 3.5 22.2 - - + +
704B MET* 1.3 72.7 - - - +
706B ASP* 1.3 52.3 + - - +
708B ALA* 3.2 7.7 + - - +
709B LEU* 2.8 51.2 + - + +
851B ARG* 4.6 2.2 - - + +
854B LEU* 3.8 36.1 - - + +
855B GLU* 3.8 26.2 - - + +
858B LEU* 4.4 10.3 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 706 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
648B ASN* 3.0 51.5 + - - +
702B LYS* 2.7 53.4 + - - +
703B PHE* 3.4 11.1 - - - +
705B VAL* 1.3 71.2 - - - +
707B ILE* 1.3 58.0 + - - +
709B LEU* 4.5 1.2 - - - +
710B GLY 3.0 10.2 + - - -
735B MET 4.5 1.6 - - - +
736B THR* 3.5 11.4 - - - +
737B VAL* 2.7 38.1 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 707 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
648B ASN 5.6 0.2 - - - -
679B LEU* 4.0 11.9 - - + -
703B PHE 3.1 16.8 + - - +
704B MET* 3.7 5.4 - - - +
706B ASP* 1.3 72.3 - - - +
708B ALA* 1.3 60.1 + - - +
710B GLY* 3.1 1.9 + - - -
711B MET* 2.8 30.6 + - + +
724B LEU* 4.0 16.2 - - + -
729B CYS* 3.6 20.9 - - - -
737B VAL* 3.7 16.6 - - + -
739B VAL* 3.8 21.8 - - + +
786B PHE* 3.6 22.7 - - + -
789B THR* 4.2 6.1 - - + -
793B ILE* 3.8 26.0 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 708 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
704B MET 2.8 20.5 + - - +
705B VAL* 3.5 5.4 - - - +
707B ILE* 1.3 71.6 - - - +
709B LEU* 1.3 52.5 + - - +
711B MET* 3.2 6.2 + - - +
712B GLU* 2.7 35.9 + - - +
786B PHE* 3.6 20.5 - - + -
847B PHE* 4.3 7.4 - - + +
850B LEU* 4.9 0.7 - - + -
851B ARG* 3.7 32.5 - - + +
854B LEU* 4.2 5.2 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 709 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
646B HIS* 3.9 17.3 + - + +
648B ASN* 3.4 24.9 - - - +
702B LYS* 5.1 3.1 - - - +
705B VAL* 2.8 38.9 + - + +
706B ASP* 3.6 3.8 - - - +
708B ALA* 1.3 70.8 - - - +
710B GLY* 1.3 62.0 + - - +
712B GLU* 3.4 9.9 + - - +
713B TYR* 3.0 23.4 + - - +
851B ARG* 3.7 33.1 - - + +
855B GLU* 4.4 8.1 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 710 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
646B HIS* 4.4 0.9 - - - -
648B ASN* 3.4 29.3 - - - +
649B VAL* 3.5 19.9 - - - +
706B ASP 3.0 11.3 + - - -
707B ILE 3.1 2.9 + - - -
709B LEU* 1.3 76.1 - - - +
711B MET* 1.3 61.0 + - - +
713B TYR 3.5 1.2 + - - -
714B LEU* 3.2 21.1 + - - +
739B VAL* 4.6 5.4 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with MET 711 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
707B ILE* 2.8 25.1 + - + +
708B ALA 3.7 0.7 - - - +
710B GLY* 1.3 70.3 - - - +
712B GLU* 1.3 60.2 + - - +
714B LEU* 3.3 12.3 + - + +
715B SER* 2.9 31.1 + - - -
719B PHE 5.7 0.9 - - - +
721B HIS* 3.7 45.1 - - + +
724B LEU* 3.9 19.5 - - + -
739B VAL* 4.1 14.1 - - + -
782B ASP* 3.9 11.4 - - + +
847B PHE* 3.5 53.5 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 712 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
6B MG 2.8 27.3 - - - -
708B ALA 2.7 19.8 + - - +
709B LEU* 3.6 11.6 - - - +
711B MET* 1.3 68.2 - - - +
713B TYR* 1.3 67.0 + - - +
715B SER* 3.6 2.7 - - - -
716B ASN* 2.9 34.4 + - - +
847B PHE* 3.8 16.9 - - + +
848B SER* 3.1 22.6 - - - +
851B ARG* 2.8 48.2 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 713 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
643B ASP 3.8 4.3 + - - -
644B PHE* 3.7 25.8 - + + -
645B SER* 3.1 36.8 + - - -
646B HIS* 3.5 31.9 - + + -
649B VAL* 4.0 13.7 - - + -
709B LEU 3.0 12.7 + - - +
710B GLY 3.5 9.0 - - - +
711B MET 3.3 0.2 - - - -
712B GLU* 1.3 78.8 - - - +
714B LEU* 1.3 67.9 + - + +
716B ASN* 3.5 6.0 + - - +
717B ARG* 3.0 75.0 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 714 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
644B PHE* 3.5 42.4 - - + -
649B VAL* 4.3 11.9 - - + -
710B GLY 3.2 11.2 + - - +
711B MET* 3.3 21.7 + - + +
712B GLU 3.3 0.2 - - - -
713B TYR* 1.3 78.6 - - + +
715B SER* 1.3 66.4 + - - +
717B ARG* 3.1 11.7 + - - +
719B PHE* 3.0 43.2 + - + +
721B HIS* 4.4 6.3 - - + -
739B VAL* 4.2 13.9 - - + -
742B PHE* 4.0 32.5 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with SER 715 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
711B MET* 2.9 18.9 + - - -
712B GLU* 3.6 7.2 - - - -
714B LEU* 1.3 72.7 - - - +
716B ASN* 1.3 56.9 + - - +
717B ARG 3.0 4.7 - - - -
718B ASN* 2.7 32.3 + - - +
719B PHE 4.8 4.3 - - - -
779B SER* 4.0 20.1 - - - -
846B THR* 6.1 0.5 - - - -
847B PHE* 3.9 22.5 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ASN 716 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
6B MG 2.9 28.1 - - - -
712B GLU* 2.9 26.7 + - - +
713B TYR* 4.8 1.6 - - - +
714B LEU 3.3 0.2 - - - -
715B SER* 1.3 76.2 - - - +
717B ARG* 1.3 78.8 + - - +
718B ASN* 3.4 6.4 + - - -
848B SER* 5.7 0.7 - - - -
----------------------------------------------------------
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