Contacts of the helix formed by residues 690 - 703 (chain B) in PDB entry 2AN3
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 ASP 690 (chain B).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
688B SER* 3.2 2.0 - - - -
689B PRO* 1.3 86.9 - - - +
691B LEU* 1.3 65.6 + - - +
692B ALA* 3.3 12.0 + - - +
693B SER* 2.9 33.3 + - - -
694B PHE* 2.9 20.5 + - - +
696B ARG* 4.7 2.8 + - - -
732B VAL* 3.7 14.4 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 691 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
690B ASP* 1.3 75.3 - - - +
692B ALA* 1.3 58.5 + - - +
694B PHE* 3.1 20.8 + - + +
695B GLN* 2.9 30.3 + - + +
732B VAL* 3.7 10.1 - - + +
734B VAL* 4.2 22.4 - - + -
738B GLU* 3.9 43.1 - - + +
742B ALA* 5.5 2.9 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 692 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
690B ASP* 3.2 12.3 + - - +
691B LEU* 1.3 78.4 - - - +
693B SER* 1.3 57.3 + - - +
695B GLN* 3.5 7.9 + - - +
696B ARG* 3.1 47.6 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with SER 693 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
520B GLN* 4.9 4.9 + - - +
660B HIS* 3.6 17.8 + - - -
688B SER* 3.7 2.9 - - - -
689B PRO* 3.2 30.1 - - - +
690B ASP* 2.9 22.4 + - - -
692B ALA* 1.3 73.4 - - - +
694B PHE* 1.3 56.1 + - - +
696B ARG* 3.2 22.0 + - - +
697B ALA* 2.8 35.5 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 694 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
684B LEU* 3.6 30.0 - - + +
685B GLU* 3.7 39.3 - - + -
688B SER* 3.4 12.5 + - - -
690B ASP 2.9 11.7 + - - +
691B LEU* 3.2 26.9 - - + +
693B SER* 1.3 76.8 - - - +
695B GLN* 1.3 59.0 + - - +
697B ALA* 3.4 3.3 + - - +
698B LEU* 2.9 35.9 + - + +
713B LEU* 4.7 15.0 - - + -
732B VAL* 4.7 4.5 - - + -
734B VAL* 4.8 6.1 - - + -
739B VAL* 4.7 22.7 - - + -
742B ALA* 3.9 28.0 - - + -
743B LEU* 6.6 0.2 - - + -
773B PHE* 4.9 4.0 - + - -
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 695 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
691B LEU* 2.9 15.7 + - + +
692B ALA* 3.5 12.3 - - - +
694B PHE* 1.3 78.6 - - + +
696B ARG* 1.3 66.4 + - + +
698B LEU* 3.2 7.0 + - - +
699B ASP* 3.0 36.1 + - - +
742B ALA* 3.2 36.3 - - + +
745B ARG* 3.4 31.7 - - + +
746B SER* 3.0 24.8 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 696 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
516B SER* 3.8 29.9 - - - +
520B GLN* 5.1 5.7 - - - +
660B HIS* 6.3 0.2 - - - +
690B ASP* 4.7 3.0 + - - -
692B ALA* 3.1 40.0 + - - +
693B SER* 3.2 27.5 + - - +
695B GLN* 1.3 76.5 - - + +
697B ALA* 1.3 65.0 + - - +
699B ASP* 3.0 11.6 + - - +
700B HIS* 2.9 47.3 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 697 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
659B VAL* 3.6 28.2 - - + +
660B HIS* 4.4 5.8 + - - +
684B LEU* 3.7 22.2 - - + -
688B SER* 4.1 9.6 - - - +
693B SER 2.8 21.6 + - - +
694B PHE* 3.6 4.9 - - - +
696B ARG* 1.3 73.0 - - - +
698B LEU* 1.3 62.8 + - - +
700B HIS* 3.3 4.9 + - - +
701B ILE* 3.1 27.4 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 698 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
684B LEU* 4.0 15.2 - - + +
694B PHE* 2.9 25.7 + - + +
695B GLN* 3.4 6.7 - - - +
697B ALA* 1.3 78.0 - - - +
699B ASP* 1.3 55.3 + - - +
701B ILE* 3.3 22.0 - - + +
702B THR* 2.6 38.5 + - - +
711B LEU* 4.1 18.4 - - + -
713B LEU* 4.9 3.8 - - + -
742B ALA* 3.6 34.8 - - + +
743B LEU* 3.9 16.2 - - + +
746B SER* 3.3 20.2 - - - +
748B TYR* 4.3 1.1 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 699 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
695B GLN* 3.0 31.4 + - - +
696B ARG* 3.0 11.7 + - - +
698B LEU* 1.3 74.8 - - - +
700B HIS* 1.3 68.0 + - + +
702B THR* 3.3 15.7 + - - -
703B THR* 3.3 18.3 + - - +
745B ARG 4.6 1.7 - - - +
746B SER* 2.6 36.8 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with HIS 700 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
520B GLN* 5.7 1.1 - - - -
659B VAL 2.7 29.5 + - - +
660B HIS* 3.1 26.7 - - - -
661B GLN 3.4 16.2 - - - +
662B PRO* 3.9 24.2 - - + +
664B PRO* 3.5 13.0 - - + +
696B ARG* 2.9 43.6 + - + +
697B ALA 3.4 2.5 - - - +
698B LEU 3.2 0.2 - - - -
699B ASP* 1.3 81.2 - - + +
701B ILE* 1.3 57.7 + - - +
703B THR* 2.7 28.8 + - + -
704B LEU* 4.3 0.5 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 701 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
578B ILE* 3.8 31.0 - - + -
659B VAL* 3.7 27.8 - - + -
664B PRO* 4.4 6.5 - - + -
678B LEU* 3.5 21.5 - - + +
680B SER* 5.2 4.3 - - - -
684B LEU* 4.2 16.2 - - + -
697B ALA 3.1 10.9 + - - +
698B LEU* 3.3 29.6 - - + +
700B HIS* 1.3 77.9 - - - +
702B THR* 1.3 61.0 - - - +
703B THR 3.0 0.4 - - - -
704B LEU* 2.9 35.2 + - + +
711B LEU* 4.7 11.9 - - + -
713B LEU* 5.4 0.9 - - + -
748B TYR* 5.0 0.2 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with THR 702 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
678B LEU* 4.6 2.5 - - - -
698B LEU* 2.6 24.6 + - - +
699B ASP* 3.4 10.3 - - - -
700B HIS 3.2 0.6 - - - -
701B ILE* 1.3 76.9 - - - +
703B THR* 1.3 58.9 + - - +
704B LEU 3.1 0.9 - - - -
705B LEU* 3.2 8.1 + - - +
746B SER* 4.0 16.2 - - - +
748B TYR* 2.7 47.1 + - + +
779B LYS* 2.9 37.5 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with THR 703 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
662B PRO 3.9 13.3 + - - +
663B GLN* 5.3 0.5 - - - -
664B PRO* 4.4 1.7 - - - +
673B LEU* 5.8 1.7 - - - +
674B PRO* 5.0 4.9 - - - +
699B ASP 3.3 16.6 - - - +
700B HIS* 2.7 20.4 + - - +
702B THR* 1.3 77.3 - - - +
704B LEU* 1.3 64.6 + - - +
705B LEU 3.3 3.4 + - - +
779B LYS* 4.5 5.1 + - - +
----------------------------------------------------------
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