Contacts of the helix formed by residues 845 - 863 (chain A) in PDB entry 2AA2
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 MET 845 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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201A AS4 3.7 47.3 - - + -
766A LEU* 3.9 13.0 - - + -
769A LEU* 4.7 9.2 - - + -
829A PHE* 5.7 0.9 - - + -
843A SER* 3.2 23.0 + - - +
844A ALA* 1.3 79.1 - - - +
846A TYR* 1.3 65.0 + - - +
847A GLU 3.4 2.7 - - - -
848A LEU* 3.2 35.3 + - + -
849A CYS* 3.0 26.5 + - - -
852A MET* 3.9 20.9 - - + -
941A PHE* 3.7 17.5 - - + -
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Residues in contact with TYR 846 (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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837A GLU* 2.8 30.5 + - - -
840A MET* 3.5 43.1 + - + +
841A HIS* 3.3 41.1 - + - +
844A ALA 3.7 1.8 - - - -
845A MET* 1.3 76.9 - - - +
847A GLU* 1.3 68.0 + - + +
849A CYS* 3.1 5.8 + - - +
850A GLN* 2.9 48.7 + - + +
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Residues in contact with GLU 847 (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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845A MET 3.4 1.0 - - - -
846A TYR* 1.3 87.0 - - + +
848A LEU* 1.3 64.9 + - + +
850A GLN* 3.4 7.1 + - - +
851A GLY* 3.1 18.2 + - - -
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Residues in contact with LEU 848 (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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201A AS4 4.6 0.9 - - + -
845A MET* 3.2 34.2 + - + +
846A TYR 3.1 0.8 - - - -
847A GLU* 1.3 81.4 - - + +
849A CYS* 1.3 62.0 + - - +
851A GLY* 3.0 12.0 + - - +
852A MET* 3.1 20.4 + - - +
934A LEU* 4.4 5.7 - - + +
937A ASP* 3.8 32.5 - - + +
938A LEU* 3.8 21.1 - - + -
941A PHE* 3.5 44.9 - - + -
985A BOG 5.3 0.7 - - - +
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Residues in contact with CYS 849 (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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827A LEU* 3.6 17.2 - - + +
829A PHE* 4.7 3.1 - - - -
835A PHE* 4.4 10.5 - - - -
840A MET* 3.4 37.0 - - + -
843A SER* 4.2 8.1 - - - -
845A MET* 3.0 36.7 + - - -
846A TYR 3.4 4.7 - - - +
848A LEU* 1.3 77.3 - - - +
850A GLN* 1.3 58.1 + - - +
852A MET* 3.2 12.5 + - - +
853A HIS* 2.8 30.1 + - - +
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Residues in contact with GLN 850 (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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837A GLU* 2.7 29.5 + - - -
840A MET* 3.5 10.5 - - + +
846A TYR* 2.9 46.7 + - + +
847A GLU* 3.7 10.5 - - - +
848A LEU 3.3 0.2 - - - -
849A CYS* 1.3 76.4 - - - +
851A GLY* 1.3 57.5 + - - +
853A HIS* 3.6 13.1 + - - +
854A GLN* 2.9 50.3 + - + +
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Residues in contact with GLY 851 (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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847A GLU 3.1 10.3 + - - -
848A LEU 3.0 9.3 + - - -
850A GLN* 1.3 77.7 - - - +
852A MET* 1.3 59.4 + - - +
854A GLN* 3.4 17.1 + - - +
855A ILE* 3.5 16.6 + - - +
934A LEU* 3.9 18.6 - - - +
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Residues in contact with MET 852 (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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201A AS4 3.9 17.5 - - + -
811A SER* 3.8 22.7 - - - -
814A LEU* 3.7 34.1 - - + -
815A SER* 2.9 26.4 + - - +
827A LEU* 4.3 4.0 - - + -
829A PHE* 4.4 8.5 - - + -
845A MET* 3.9 21.1 - - + -
848A LEU 3.1 8.9 + - - +
849A CYS* 3.8 23.1 - - - +
851A GLY* 1.3 73.5 - - - +
853A HIS* 1.3 65.9 + - - +
855A ILE* 3.3 7.0 + - - -
856A SER* 3.4 3.6 + - - -
934A LEU* 4.0 21.5 - - + -
938A LEU* 4.0 10.3 - - + -
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Residues in contact with HIS 853 (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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824A SER 3.0 28.2 + - - -
825A GLN 4.3 8.8 + - - -
826A PHE* 4.8 9.6 - - - -
827A LEU* 3.9 18.3 - - + +
837A GLU* 5.6 2.0 + - - -
840A MET* 5.0 7.0 - - + -
849A CYS 2.8 17.8 + - - +
850A GLN* 3.6 22.8 + - - +
852A MET* 1.3 75.0 - - - +
854A GLN* 1.3 66.7 + - - +
856A SER* 2.9 21.5 + - - -
857A LEU* 2.9 41.4 + - + +
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Residues in contact with GLN 854 (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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850A GLN* 2.9 39.0 + - + +
851A GLY* 3.5 11.9 - - - +
852A MET 3.2 0.2 - - - -
853A HIS* 1.3 78.8 + - - +
855A ILE* 1.3 62.8 + - + +
857A LEU* 3.1 30.7 + - - +
858A GLN* 3.1 33.7 + - - +
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Residues in contact with ILE 855 (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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812A PHE* 4.8 1.8 - - + -
815A SER* 3.4 21.8 - - - +
851A GLY 3.5 13.9 + - - +
852A MET 3.3 1.9 + - - +
853A HIS 3.2 0.6 - - - -
854A GLN* 1.3 77.6 - - + +
856A SER* 1.3 63.0 + - - +
858A GLN* 3.0 32.5 + - - +
859A PHE* 3.0 36.3 + - + -
927A LEU* 4.3 11.7 - - + -
930A SER* 4.2 20.2 - - - +
931A MET* 4.2 19.7 - - + +
934A LEU* 4.0 18.4 - - + -
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Residues in contact with SER 856 (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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815A SER* 3.1 39.5 + - - -
818A SER* 3.6 13.5 - - - -
824A SER* 2.8 33.5 + - - -
827A LEU* 4.6 1.0 - - - +
852A MET 3.4 4.9 + - - -
853A HIS* 2.9 16.7 + - - -
855A ILE* 1.3 80.7 - - - +
857A LEU* 1.3 60.6 + - - +
859A PHE* 3.1 18.4 + - - +
860A VAL 3.3 2.8 + - - -
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Residues in contact with LEU 857 (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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824A SER* 4.0 16.4 - - - +
853A HIS* 2.9 47.3 + - + +
854A GLN* 3.1 38.3 + - - +
856A SER* 1.3 76.1 - - - +
858A GLN* 1.3 59.2 + - + +
860A VAL* 3.3 8.2 + - + +
861A ARG* 3.1 25.3 + - - +
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Residues in contact with GLN 858 (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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854A GLN* 3.1 22.7 + - - +
855A ILE* 3.0 25.3 + - - +
857A LEU* 1.3 76.3 - - + +
859A PHE* 1.3 61.1 + - - +
860A VAL 3.1 0.2 - - - -
861A ARG* 3.7 7.5 - - + -
862A LEU* 2.8 39.2 + - + +
927A LEU* 3.6 36.4 - - + +
930A SER* 5.0 2.9 + - - -
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Residues in contact with PHE 859 (chain A).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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812A PHE* 3.6 33.2 - + - -
815A SER* 3.6 20.4 - - - -
816A TRP* 3.4 37.0 - + + -
819A TYR* 3.5 28.2 - + + -
855A ILE* 3.0 35.7 + - + -
856A SER* 3.1 8.3 + - - +
858A GLN* 1.3 78.6 - - - +
860A VAL* 1.3 52.0 + - - +
862A LEU* 4.8 0.4 - - + -
863A GLN* 2.7 29.5 + - - -
864A LEU* 3.0 40.3 + - + -
869A TYR* 5.0 0.4 - + - -
872A MET* 5.4 0.2 - - + -
927A LEU* 4.1 15.7 - - + -
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Residues in contact with VAL 860 (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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819A TYR* 3.6 18.4 - - + -
823A ASN* 4.1 10.1 - - + +
824A SER* 3.3 33.4 - - - +
856A SER 3.3 1.7 + - - +
857A LEU* 3.5 11.2 - - + +
858A GLN 3.1 0.2 - - - -
859A PHE* 1.3 75.8 - - - +
861A ARG* 1.3 66.1 + - - +
863A GLN* 2.6 33.1 + - - +
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Residues in contact with ARG 861 (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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857A LEU 3.1 13.1 + - - +
858A GLN* 3.3 8.9 + - + +
860A VAL* 1.3 81.1 - - - +
862A LEU* 1.3 62.3 + - + +
863A GLN* 4.9 2.8 - - - +
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Residues in contact with LEU 862 (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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858A GLN* 2.8 23.6 + - + +
859A PHE* 4.1 3.4 - - - +
861A ARG* 1.3 79.4 - - + +
863A GLN* 1.3 68.9 + - - +
864A LEU* 4.2 8.3 - - + +
920A ARG* 2.6 37.4 + - - +
923A GLN* 3.7 45.3 - - + +
924A LEU* 4.1 19.7 - - + -
927A LEU* 3.8 26.7 - - + -
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Residues in contact with GLN 863 (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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819A TYR* 3.5 14.1 + - - -
859A PHE 2.7 11.6 + - - -
860A VAL* 2.6 36.5 + - - +
861A ARG 4.9 2.5 - - - +
862A LEU* 1.3 80.0 - - - +
864A LEU* 1.3 66.7 + - - +
865A THR* 3.5 8.5 + - - +
920A ARG* 3.4 6.2 + - - -
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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