Contacts of the helix formed by residues 858 - 873 (chain E) in PDB entry 2BT4
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 HIS 858 (chain E).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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658D HIS* 5.2 1.6 - + + +
2402D PO4 3.1 38.3 + - - +
856E SER* 3.0 16.2 + - - +
857E ASN* 1.3 89.6 - - + +
859E GLU* 1.3 66.2 + - - +
861E GLU* 3.2 23.9 + - + +
862E LEU* 3.2 16.2 + - - +
883E TYR* 3.9 3.6 - - - -
1058F HIS* 5.1 0.2 - - + -
1060F GLY* 3.6 2.3 + - - -
1061F GLU* 3.4 30.1 - - + -
1064F ASP* 3.1 22.7 + - - -
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Residues in contact with GLU 859 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
659D GLU* 4.0 3.3 - - - +
683D TYR* 3.5 26.8 + - - +
2402D PO4 4.0 4.6 + - - +
858E HIS* 1.3 71.7 - - - +
860E GLY* 1.3 62.5 + - - +
862E LEU* 3.3 5.6 + - - +
863E VAL* 3.1 20.6 + - - +
883E TYR* 3.5 30.6 + - + +
887E SER* 2.4 33.3 + - - +
889E ALA* 3.8 10.2 + - + +
890E ILE* 4.2 6.4 - - + +
1059F GLU* 3.9 2.7 - - - +
2406F TRS 2.8 44.6 + - - -
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Residues in contact with GLY 860 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
657D ASN* 3.3 27.1 + - - +
658D HIS* 3.5 18.3 + - - +
659D GLU 5.6 0.2 - - - +
683D TYR* 4.4 0.6 + - - -
2402D PO4 3.4 8.3 + - - -
858E HIS 3.3 0.4 - - - -
859E GLU* 1.3 78.7 - - - +
861E GLU* 1.3 57.6 + - - +
863E VAL* 3.4 5.7 + - - +
864E ASP* 3.0 32.1 + - - +
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Residues in contact with GLU 861 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
658D HIS* 3.4 14.5 - - + -
856E SER* 2.6 33.7 + - - +
858E HIS* 3.2 18.2 + - + +
860E GLY* 1.3 73.9 - - - +
862E LEU* 1.3 59.9 + - - +
864E ASP* 3.2 9.3 + - + +
865E TRP* 2.9 64.9 + - + +
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Residues in contact with LEU 862 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
812E LEU* 4.4 16.7 - - + +
813E ASN 3.9 20.9 - - - +
814E GLY* 3.8 17.3 - - - -
856E SER* 4.0 12.1 - - - +
858E HIS 3.2 12.6 + - - +
859E GLU 3.3 6.9 + - - +
861E GLU* 1.3 75.6 - - - +
863E VAL* 1.3 62.3 + - - +
865E TRP* 3.3 23.4 + - + +
866E ILE* 3.0 32.4 + - + +
878E ILE* 5.7 5.4 - - + -
880E PRO* 5.2 2.9 - - + +
883E TYR* 3.7 29.8 - - + -
890E ILE* 4.0 16.8 - - + -
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Residues in contact with VAL 863 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
615D PRO* 4.8 0.9 - - + -
616D ASN* 3.7 25.1 - - - +
657D ASN* 3.7 27.1 - - + +
859E GLU 3.1 14.9 + - - +
860E GLY* 3.6 9.2 - - - +
861E GLU 3.2 0.2 - - - -
862E LEU* 1.3 75.9 - - - +
864E ASP* 1.3 63.7 + - - +
866E ILE* 3.3 2.9 + - - +
867E HIS* 3.0 25.7 + - + +
889E ALA* 3.9 26.9 - - + +
890E ILE* 3.9 19.5 - - + -
893E ALA* 4.0 8.7 - - + -
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Residues in contact with ASP 864 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
657D ASN* 2.7 35.7 + - - +
658D HIS* 3.5 19.2 + - - -
860E GLY 3.0 16.9 + - - +
861E GLU* 3.4 13.3 - - + +
863E VAL* 1.3 74.6 - - - +
865E TRP* 1.3 65.5 + - + +
867E HIS* 3.2 8.8 + - - +
868E GLU* 3.1 24.6 + - - +
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Residues in contact with TRP 865 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
810E MET* 3.6 9.5 - - + +
812E LEU* 4.0 22.2 - - + +
854E ARG* 3.1 61.1 - - + +
855E GLN 3.5 23.1 - - - -
856E SER* 3.7 23.1 - - - -
861E GLU* 2.9 45.1 + - + +
862E LEU* 3.8 16.6 - - + +
863E VAL 3.2 0.4 - - - -
864E ASP* 1.3 80.3 - - + +
866E ILE* 1.3 60.2 + - - +
868E GLU* 3.3 10.0 + - - +
869E ALA* 2.9 23.0 + - - +
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Residues in contact with ILE 866 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
812E LEU* 3.5 20.0 - - + -
862E LEU* 3.0 21.1 + - + +
863E VAL* 3.3 6.7 + - - +
865E TRP* 1.3 73.2 - - - +
867E HIS* 1.3 66.6 + - + +
869E ALA* 3.6 6.0 - - - +
870E ARG* 2.9 22.9 + - - +
876E ILE* 4.1 3.6 - - + -
878E ILE* 4.5 5.2 - - + -
890E ILE* 3.9 28.9 - - + -
893E ALA* 3.5 42.0 - - + +
894E LEU* 3.9 20.4 - - + -
897E CYS* 3.7 13.1 - - - -
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Residues in contact with HIS 867 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
616D ASN* 2.7 32.1 + - - -
618D ASN* 3.3 38.7 + - - +
619D LEU* 3.6 26.6 - - + +
657D ASN* 3.7 19.8 + - - -
863E VAL* 3.0 21.1 + - + +
864E ASP* 3.2 8.5 + - - +
866E ILE* 1.3 77.6 - - - +
868E GLU* 1.3 63.8 + - - +
870E ARG* 3.4 19.4 + - - +
871E LEU* 3.6 14.4 + - - +
893E ALA* 4.6 4.5 - - + -
896E THR* 4.3 7.6 - - - -
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Residues in contact with GLU 868 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
810E MET* 4.5 2.0 - - - -
854E ARG* 2.8 44.4 + - - -
864E ASP 3.1 11.5 + - - +
865E TRP* 3.6 13.1 - - - +
866E ILE 3.1 0.4 - - - -
867E HIS* 1.3 79.5 - - - +
869E ALA* 1.3 62.4 + - - +
871E LEU* 3.1 5.1 + - - -
872E ASN* 3.0 44.6 + - - +
873E HIS* 4.1 9.1 - - + -
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Residues in contact with ALA 869 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
810E MET* 3.9 18.0 - - + +
865E TRP 2.9 13.7 + - - +
866E ILE* 3.3 8.5 + - - +
868E GLU* 1.3 76.8 - - - +
870E ARG* 1.3 64.6 + - - +
871E LEU 2.9 1.6 + - - -
873E HIS* 2.9 41.2 + - + +
876E ILE* 3.8 30.3 - - + -
900E LEU* 4.4 4.5 - - + +
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Residues in contact with ARG 870 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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619D LEU* 3.8 24.3 - - - +
622D GLN* 2.9 51.4 + - - +
623D ARG* 4.9 5.9 - - - +
866E ILE 2.9 13.0 + - - +
867E HIS* 3.4 13.2 - - - +
868E GLU 3.2 0.2 - - - -
869E ALA* 1.3 77.2 - - - +
871E LEU* 1.3 79.5 + - + +
873E HIS 5.1 1.6 - - - +
896E THR* 2.9 44.7 + - - +
897E CYS* 3.7 18.4 - - - -
898E ASP* 5.1 2.6 + - - +
900E LEU* 4.4 9.8 - - - +
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Residues in contact with LEU 871 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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622D GLN* 5.7 1.1 - - - +
802E ARG* 2.8 25.9 + - - -
867E HIS 4.1 11.0 - - - +
868E GLU* 3.1 7.0 + - - +
869E ALA 3.0 0.6 - - - -
870E ARG* 1.3 105.9 - - + +
872E ASN* 1.3 68.6 + - - +
873E HIS 3.8 0.7 - - - -
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Residues in contact with ASN 872 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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802E ARG* 3.7 23.8 + - - +
807E ALA* 3.6 13.9 - - - +
808E PRO* 4.0 6.6 - - - +
868E GLU* 3.0 37.8 + - - +
871E LEU* 1.3 94.5 - - - +
873E HIS* 1.3 79.8 + - + +
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Residues in contact with HIS 873 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
802E ARG* 4.1 9.8 + - - +
807E ALA* 4.0 4.5 - - - -
808E PRO* 3.1 32.4 - - + +
810E MET* 3.3 39.1 - - + +
852E ASP* 2.9 27.6 + - + +
868E GLU* 4.1 11.7 - - + -
869E ALA* 2.9 29.1 + - + +
870E ARG 5.1 1.2 - - - +
871E LEU 5.3 0.3 - - - -
872E ASN* 1.3 100.3 + - + +
874E CYS* 1.3 62.0 + - - +
875E GLY 3.3 12.3 - - - +
900E LEU* 3.5 14.7 - - + +
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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
------------------------------------------------------------
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) + - + + + + + -
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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