Contacts of the helix formed by residues 770 - 781 (chain B) in PDB entry 3ZNS
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 770 (chain B).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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768B PRO* 3.7 1.6 + - - -
769B MET* 1.3 74.8 - - - +
771B ASP* 1.3 67.4 + - - -
772B PRO* 4.5 1.1 - - - -
773B GLU* 2.7 18.2 + - - +
774B TYR* 3.1 28.7 + - - -
814B HIS* 4.0 20.4 - - - -
815B VAL* 4.2 5.8 - - - -
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Residues in contact with ASP 771 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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770B GLY* 1.3 68.2 - - - -
772B PRO* 1.3 69.9 - - + +
773B GLU 3.1 0.2 + - - -
774B TYR* 3.3 0.5 + - - +
775B LEU* 2.8 36.8 + - - +
814B HIS 4.3 3.7 + - - -
815B VAL* 3.3 4.0 - - - -
816B SER* 2.6 51.9 + - - -
819B CYS* 3.3 19.4 - - - +
871B GLY 5.9 0.2 - - - -
872B TRP* 2.7 34.0 + - + +
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Residues in contact with PRO 772 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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770B GLY* 3.6 3.8 - - - -
771B ASP* 1.3 95.1 - - + +
773B GLU* 1.3 71.3 + - - +
775B LEU* 4.1 8.0 - - + +
776B ALA* 3.1 28.6 + - - +
779B ARG* 4.9 1.6 + - - -
871B GLY 3.7 22.4 - - - +
872B TRP* 5.3 2.4 - - - +
874B GLN* 3.5 31.9 - - + +
875B LYS 3.9 8.7 - - - +
876B PRO* 3.9 6.1 - - - +
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Residues in contact with GLU 773 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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761B TRP* 3.5 17.1 - - + -
768B PRO 3.4 5.6 - - - +
769B MET* 3.7 12.6 - - + -
770B GLY* 2.7 36.4 + - - +
771B ASP 3.1 0.4 - - - -
772B PRO* 1.3 87.5 - - - +
774B TYR* 1.3 62.9 + - + +
776B ALA* 3.5 3.8 + - - +
777B ALA 3.0 21.3 + - - -
875B LYS 4.0 1.4 - - - +
876B PRO* 3.3 13.0 - - + +
877B ASN* 2.9 41.4 + - - +
880B ALA* 3.4 30.3 - - + -
884B LEU* 4.9 0.3 - - - +
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Residues in contact with TYR 774 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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706B TRP* 4.7 15.0 + - + -
708B VAL* 4.9 3.5 - - - +
729B LEU* 4.1 33.0 + - + +
730B HIS* 4.9 0.5 + - - -
761B TRP* 3.3 30.2 + + - -
769B MET* 4.7 4.5 - - + -
770B GLY 3.1 21.9 + - - +
771B ASP 4.1 2.5 - - - +
773B GLU* 1.3 77.7 - - + +
775B LEU* 1.3 64.6 + - - +
777B ALA* 3.2 6.8 + - - +
778B PHE* 3.1 27.6 + - - +
802B ALA* 4.0 9.2 - - + +
813B TYR* 3.5 27.2 - + - -
815B VAL* 3.7 24.0 - - + -
819B CYS* 4.2 10.5 - - - -
820B PHE* 6.0 0.9 - + - -
823B MET* 4.0 31.4 - - + -
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Residues in contact with LEU 775 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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771B ASP 2.8 21.5 + - - +
772B PRO* 4.1 6.3 - - + +
774B TYR* 1.3 75.0 - - - +
776B ALA* 1.3 57.4 + - - +
778B PHE* 3.3 6.2 + - - +
779B ARG* 2.9 47.0 + - + +
819B CYS* 4.2 17.0 - - - +
822B TYR* 3.6 33.2 - - + -
823B MET* 5.3 4.0 - - + -
826B GLN* 4.3 7.1 + - - +
872B TRP* 3.4 50.9 - - + +
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Residues in contact with ALA 776 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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772B PRO 3.1 21.0 + - - +
773B GLU 3.6 4.7 - - - +
774B TYR 3.3 0.2 - - - -
775B LEU* 1.3 75.6 - - - +
777B ALA* 1.3 57.0 + - - +
779B ARG* 3.3 25.4 + - - +
780B ILE* 2.9 40.5 + - + +
876B PRO* 3.9 20.0 - - + -
880B ALA* 6.4 0.2 - - + -
884B LEU* 4.1 13.7 - - + -
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Residues in contact with ALA 777 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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729B LEU* 3.4 31.0 - - + -
759B VAL* 4.5 2.9 - - + -
761B TRP* 3.9 13.0 - - + -
773B GLU 3.0 14.7 + - - +
774B TYR 3.2 6.7 + - - +
776B ALA* 1.3 74.6 - - - +
778B PHE* 1.3 57.4 - - - +
781B VAL* 3.0 14.0 + - - +
782B VAL* 2.9 25.3 + - + +
884B LEU* 4.0 18.3 - - + +
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Residues in contact with PHE 778 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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704B VAL* 4.7 2.5 - - + -
706B TRP* 4.3 9.6 - + - -
729B LEU* 4.5 15.3 - - + -
774B TYR 3.1 15.7 + - - +
775B LEU* 3.6 9.9 - - - +
776B ALA 3.3 0.2 - - - -
777B ALA* 1.3 75.9 - - - +
779B ARG* 1.3 64.6 + - - +
780B ILE 3.5 0.3 + - - -
782B VAL* 3.7 29.6 - - + -
783B MET* 3.1 39.9 + - + +
784B PRO* 3.6 0.2 - - - +
823B MET* 3.5 59.2 - - + -
826B GLN* 3.5 35.0 - - + +
827B LEU* 3.9 22.0 - - + -
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Residues in contact with ARG 779 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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772B PRO 4.9 1.8 + - - -
775B LEU* 2.9 38.5 + - + +
776B ALA* 3.5 25.8 - - - +
778B PHE* 1.3 78.1 - - + +
780B ILE* 1.3 67.4 + - + +
783B MET* 5.1 1.5 - - - +
784B PRO* 3.3 19.4 - - - +
826B GLN* 5.5 3.8 - - - +
876B PRO* 4.8 10.1 - - - +
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Residues in contact with ILE 780 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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776B ALA* 2.9 25.7 + - + +
779B ARG* 1.3 90.3 - - + +
781B VAL* 1.3 67.7 + - + +
784B PRO* 3.5 7.9 - - - +
876B PRO* 6.3 0.9 - - + -
884B LEU* 4.1 18.8 - - + -
888B ILE* 3.9 28.7 - - + -
898B MET* 3.1 21.9 - - + +
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Residues in contact with VAL 781 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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727B ILE* 5.2 2.2 - - + -
757B VAL* 4.1 5.8 - - + -
759B VAL* 4.0 24.5 - - + -
777B ALA 3.0 12.0 + - - +
780B ILE* 1.3 91.2 - - + +
782B VAL* 1.3 70.2 + - + +
783B MET 3.5 1.6 - - - -
784B PRO* 3.5 0.8 - - - +
785B ILE* 3.2 42.1 + - + +
884B LEU* 3.8 25.4 - - + -
887B VAL* 4.0 24.7 - - + -
888B ILE* 4.7 4.7 - - + -
898B MET* 4.5 10.3 - - - -
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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