Contacts of the helix formed by residues 844 - 860 (chain C) 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 ASP 844 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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804C GLU 4.6 1.8 - - - -
805C GLY* 3.4 30.0 - - - +
806C HIS* 3.4 8.8 + - - +
843C HIS* 1.3 81.8 - - + +
845C LEU* 1.3 59.7 + - - +
846C THR* 2.9 16.1 + - - +
847C ALA* 2.8 36.8 + - + +
848C ILE* 3.0 31.4 + - - +
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Residues in contact with LEU 845 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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544C HIS* 4.2 17.3 - - + +
546C GLY* 3.8 14.6 - - - +
547C ARG* 4.0 13.0 - - - -
550C SER* 3.6 32.3 - - - +
843C HIS 3.1 16.2 + - - +
844C ASP* 1.3 72.6 + - - +
846C THR* 1.3 61.5 + - + +
848C ILE* 3.3 6.7 - - + +
849C CYS* 2.9 36.0 + - - +
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Residues in contact with THR 846 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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554C ARG* 4.2 8.5 + - - +
844C ASP* 2.9 16.0 + - - +
845C LEU* 1.3 77.3 - - + +
847C ALA* 1.3 56.3 + - - +
849C CYS* 3.7 6.0 - - - +
850C ASP* 3.0 39.5 + - - +
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Residues in contact with ALA 847 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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803C ALA* 4.3 11.6 - - + +
804C GLU* 3.1 30.7 - - + +
806C HIS* 4.0 7.9 - - + -
817C ALA* 5.3 0.5 - - - +
844C ASP* 2.8 26.9 + - + +
846C THR* 1.3 76.5 + - - +
848C ILE* 1.3 61.6 - - - +
850C ASP* 3.5 9.7 + - - +
851C ALA* 3.3 21.7 + - - +
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Residues in contact with ILE 848 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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547C ARG* 4.0 27.4 - - + +
551C ILE* 4.0 16.1 - - + +
800C PHE* 4.0 26.6 - - + +
806C HIS* 4.3 2.2 - - - +
839C LEU* 5.8 2.7 - - + -
841C GLY 4.9 0.4 - - - +
842C GLY* 3.5 44.0 - - - +
843C HIS 3.8 9.0 - - - +
844C ASP 3.0 16.3 + - - +
845C LEU* 3.3 23.8 - - + +
847C ALA* 1.3 74.2 - - - +
849C CYS* 1.3 61.4 + - - +
851C ALA* 3.9 1.8 + - - +
852C SER* 2.9 28.8 + - - -
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Residues in contact with CYS 849 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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550C SER* 3.3 44.6 - - - -
551C ILE* 3.7 13.0 - - - -
554C ARG* 3.3 38.7 - - + +
845C LEU* 2.9 24.9 + - - +
846C THR 3.7 2.0 - - - +
848C ILE* 1.3 75.8 - - - +
850C ASP* 1.3 65.6 + - - +
852C SER* 3.3 2.2 + - - -
853C GLU* 2.9 26.2 + - - +
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Residues in contact with ASP 850 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
554C ARG* 2.5 31.3 + - - +
558C ARG* 5.3 2.1 + - - -
817C ALA* 3.4 21.9 - - + +
846C THR* 3.0 30.0 + - - +
847C ALA* 3.6 8.6 - - - +
849C CYS* 1.3 77.3 - - - +
851C ALA* 1.3 58.0 + - - +
853C GLU* 3.4 8.0 + - - +
854C ALA* 2.8 29.6 + - - +
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Residues in contact with ALA 851 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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800C PHE* 3.3 38.8 - - + -
817C ALA* 3.8 7.1 - - - +
820C PHE* 3.7 17.7 - - + -
847C ALA 3.3 11.8 + - - +
848C ILE 4.2 0.9 - - - +
849C CYS 3.3 0.4 - - - -
850C ASP* 1.3 75.8 - - - +
852C SER* 1.3 55.7 + - - +
854C ALA* 3.4 6.1 - - - +
855C CYS* 2.6 41.6 + - - -
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Residues in contact with SER 852 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
551C ILE* 3.4 38.8 - - - +
554C ARG* 6.3 0.2 - - - -
555C LEU* 4.3 2.2 - - - -
661C PHE* 3.6 20.3 - - - -
800C PHE* 3.7 9.5 - - - -
848C ILE 2.9 21.4 + - - -
849C CYS 3.7 3.1 - - - -
851C ALA* 1.3 76.2 - - - +
853C GLU* 1.3 54.8 + - - +
855C CYS* 3.7 4.3 - - - +
856C VAL* 2.8 41.1 + - - +
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Residues in contact with GLU 853 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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554C ARG* 3.4 19.6 + - + -
555C LEU* 3.8 14.7 - - + +
558C ARG* 2.8 60.1 + - + +
560C LEU* 3.5 18.2 - - + +
849C CYS 2.9 16.5 + - - +
850C ASP* 3.5 5.9 - - - +
852C SER* 1.3 76.6 - - - +
854C ALA* 1.3 52.7 + - - +
857C ALA* 2.7 39.3 + - + +
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Residues in contact with ALA 854 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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817C ALA* 3.2 32.8 - - + +
818C LYS* 4.5 5.4 - - + +
821C GLY* 3.7 9.8 - - - +
850C ASP 2.8 21.5 + - - +
851C ALA 3.4 3.1 - - - +
853C GLU* 1.3 75.6 - - - +
855C CYS* 1.3 57.3 + - - +
857C ALA* 3.5 6.3 + - - +
858C ALA* 3.0 29.6 + - - +
864C VAL* 6.0 0.3 - - - +
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Residues in contact with CYS 855 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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661C PHE* 5.9 3.4 - - + -
706C TRP* 4.2 2.0 - - - -
800C PHE* 3.8 28.7 - - + -
820C PHE* 3.9 14.6 - - - -
821C GLY* 4.2 2.5 - - - -
824C THR* 3.3 29.7 - - - +
837C LEU* 3.9 19.3 - - + -
851C ALA 2.6 26.4 + - - +
852C SER* 3.7 5.2 - - - +
854C ALA* 1.3 74.0 - - - +
856C VAL* 1.3 51.8 + - + +
858C ALA* 3.3 3.6 + - - +
859C LEU* 2.7 36.8 + - + +
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Residues in contact with VAL 856 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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520C THR* 5.3 1.1 - - + -
522C LEU* 4.0 13.7 - - + -
555C LEU* 3.9 12.8 - - + -
560C LEU* 3.4 28.7 - - + -
564C CYS* 4.6 10.5 - - - -
661C PHE* 3.5 32.8 - - + -
852C SER 2.8 23.5 + - - +
853C GLU 3.7 2.5 - - - +
855C CYS* 1.3 69.1 - - - +
857C ALA* 1.3 60.1 + - - +
859C LEU* 3.0 10.2 + - + +
860C LEU* 2.9 42.4 + - + +
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Residues in contact with ALA 857 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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560C LEU* 4.5 12.1 - - + -
853C GLU* 2.7 24.2 + - + +
854C ALA* 3.7 7.0 - - - +
856C VAL* 1.3 73.5 - - - +
858C ALA* 1.3 61.4 + - - +
860C LEU* 3.2 20.1 + - - +
862C ASN* 3.1 35.6 + - + +
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Residues in contact with ALA 858 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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821C GLY* 3.3 28.9 - - - +
824C THR* 4.4 1.6 - - - -
825C GLN* 4.3 11.5 - - + +
828C MET* 3.2 17.0 - - - +
854C ALA 3.0 15.7 + - - +
855C CYS 3.6 4.3 - - - +
857C ALA* 1.3 75.0 - - - +
859C LEU* 1.3 57.7 + - - +
861C GLY* 3.0 17.2 + - - -
862C ASN* 3.5 21.1 + - - +
864C VAL* 5.3 4.9 - - + -
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Residues in contact with LEU 859 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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520C THR* 2.9 16.7 + - + -
658C LYS* 4.3 2.1 + - - +
659C ASN* 2.8 47.2 + - + +
660C GLY* 3.2 35.4 - - - +
661C PHE* 3.9 14.1 - - + -
824C THR* 3.2 31.2 - - + -
828C MET* 3.7 16.0 - - + +
835C VAL* 4.8 4.3 - - + -
837C LEU* 4.5 11.9 - - + -
855C CYS 2.7 17.5 + - - +
856C VAL* 3.0 13.6 + - + +
858C ALA* 1.3 73.6 - - - +
860C LEU* 1.3 56.8 + - - +
861C GLY 3.2 1.7 + - - -
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Residues in contact with LEU 860 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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520C THR* 3.4 20.2 - - - +
560C LEU* 4.0 29.6 - - + +
563C GLN* 3.9 34.1 - - + +
564C CYS* 3.4 22.4 - - - -
658C LYS* 4.9 3.7 + - - -
856C VAL* 2.9 34.6 + - + +
857C ALA* 3.5 8.7 - - - +
858C ALA 3.2 0.8 - - - -
859C LEU* 1.3 75.8 - - - +
861C GLY* 1.3 57.3 + - - +
862C ASN* 3.6 1.8 - - + -
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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