Contacts of the helix formed by residues 633 - 654 (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 HIS 633 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
527C VAL 5.2 0.9 - - - +
530C LYS* 3.4 63.7 - - + +
630C ASN* 3.0 27.1 + - - +
632C LEU* 1.3 105.1 + - + +
634C SER* 1.3 66.4 + - - +
635C SER 3.3 2.5 - - - -
636C ASN* 3.1 13.4 + - + +
637C ALA* 3.0 22.8 + - - +
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Residues in contact with SER 634 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
531C HIS* 2.7 34.7 + - - -
629C TRP* 3.4 26.0 - - - -
630C ASN* 2.7 37.6 + - - +
633C HIS* 1.3 77.6 - - - +
635C SER* 1.3 58.1 + - - +
637C ALA* 3.1 3.9 + - - +
638C ALA* 2.9 32.1 + - - +
666C PRO* 5.2 0.5 - - - +
681C PHE* 5.1 0.6 - - - -
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Residues in contact with SER 635 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
589C TYR 2.7 27.7 + - - -
590C GLY 3.3 21.0 + - - -
591C THR* 3.5 2.9 + - - -
592C ASN* 3.7 23.7 - - - -
629C TRP* 3.5 15.7 - - - -
630C ASN 4.6 0.4 + - - -
633C HIS 3.3 1.0 - - - +
634C SER* 1.3 76.9 - - - +
636C ASN* 1.3 61.1 + - - +
638C ALA* 3.7 2.7 + - - +
639C ARG* 3.1 37.5 + - - +
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Residues in contact with ASN 636 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
527C VAL* 3.9 14.9 - - + +
571C LYS* 3.9 25.6 - - + +
592C ASN* 4.6 14.2 + - - +
632C LEU 3.6 17.8 - - - +
633C HIS* 3.1 12.9 + - + +
635C SER* 1.3 76.8 + - - +
637C ALA* 1.3 61.1 + - - +
639C ARG* 3.8 8.3 - - - +
640C TRP* 2.9 30.1 + - - +
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Residues in contact with ALA 637 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
527C VAL* 4.2 12.5 - - - +
528C MET* 3.9 17.0 - - - +
531C HIS* 3.5 31.9 - - + +
633C HIS 3.0 11.0 + - - +
634C SER 3.1 4.9 + - - +
636C ASN* 1.3 74.9 - - - +
638C ALA* 1.3 60.4 + - - +
640C TRP* 3.2 3.8 + - - +
641C ALA 3.0 24.6 + - - -
665C ARG 3.5 8.8 - - - +
666C PRO* 3.9 8.7 - - + -
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Residues in contact with ALA 638 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
589C TYR 5.4 0.2 - - - +
629C TRP* 5.6 0.9 - - + -
634C SER 2.9 17.1 + - - +
635C SER* 4.0 3.4 - - - +
637C ALA* 1.3 78.0 - - - +
639C ARG* 1.3 61.7 + - - +
641C ALA* 3.3 5.6 + - - +
642C ALA* 3.2 22.5 + - - +
666C PRO* 3.8 11.1 - - + +
681C PHE* 4.1 24.2 - - + -
682C PHE* 3.6 31.3 - - + +
684C SER* 4.9 0.2 + - - -
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Residues in contact with ARG 639 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
654B SER 3.9 15.6 + - - -
655B ARG* 4.0 15.6 + - - +
656B GLU* 5.4 1.2 - - - +
571C LYS* 3.9 29.0 - - + +
572C ALA* 2.7 54.5 + - - +
573C SER* 4.0 3.0 - - - +
574C LEU* 3.2 30.5 - - - +
577C LEU* 4.2 16.3 - - + +
590C GLY* 2.8 37.8 + - - -
591C THR* 4.9 1.8 - - - +
635C SER* 3.1 25.5 + - - +
636C ASN* 4.0 7.0 - - - +
638C ALA* 1.3 74.4 - - - +
640C TRP* 1.3 59.9 + - - +
642C ALA* 4.7 4.5 - - - +
643C GLY 3.0 12.8 + - - -
682C PHE* 4.3 9.4 - - + -
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Residues in contact with TRP 640 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
525C ASP* 3.3 24.9 - - + +
527C VAL* 4.0 28.3 - - + -
528C MET* 3.9 28.9 - - + -
568C ARG* 2.9 49.1 + - - -
569C GLY 3.7 11.9 - - - -
570C ARG* 3.3 15.9 - - - +
571C LYS* 3.6 40.8 - - + +
636C ASN 2.9 18.9 + - - +
637C ALA 3.2 4.7 + - - +
639C ARG* 1.3 74.6 - - - +
641C ALA* 1.3 58.9 + - - +
644C SER* 2.6 55.9 + - - -
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Residues in contact with ALA 641 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
528C MET* 4.0 2.2 - - - -
637C ALA 3.0 13.1 + - - +
638C ALA* 3.3 9.6 + - - +
640C TRP* 1.3 76.0 - - - +
642C ALA* 1.3 62.5 + - - +
644C SER* 3.9 0.7 - - - -
645C VAL* 3.3 30.7 + - - +
664C VAL* 4.0 21.5 - - + +
665C ARG 4.0 9.0 - - - +
666C PRO 3.7 23.3 - - - +
684C SER* 3.5 9.9 - - - +
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Residues in contact with ALA 642 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
572C ALA* 4.0 13.9 - - + -
577C LEU* 4.4 5.8 - - + -
638C ALA 3.2 13.1 + - - +
639C ARG 4.1 0.4 - - - +
641C ALA* 1.3 80.0 - - - +
643C GLY* 1.3 62.5 + - - +
645C VAL* 4.2 1.6 - - - +
646C THR* 2.9 29.0 + - - -
682C PHE* 4.5 4.5 - - + -
684C SER* 3.4 19.4 + - - +
687C ILE* 3.7 29.6 - - + +
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Residues in contact with GLY 643 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
570C ARG* 3.2 41.0 - - - +
571C LYS 4.1 0.7 - - - -
572C ALA* 3.4 21.9 - - - +
639C ARG 3.0 10.5 + - - -
642C ALA* 1.3 76.8 - - - +
644C SER* 1.3 57.2 + - - +
646C THR* 3.9 3.1 - - - -
647C ASP* 3.3 18.0 + - - +
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Residues in contact with SER 644 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
523C ILE* 3.6 31.4 - - - +
569C GLY* 3.4 9.3 - - - -
570C ARG 3.4 12.0 + - - +
640C TRP* 2.6 42.9 + - - -
641C ALA 3.9 3.1 - - - -
643C GLY* 1.3 75.1 - - - +
645C VAL* 1.3 59.7 + - - +
646C THR 3.2 1.3 - - - -
647C ASP* 3.2 3.4 + - - +
648C LEU* 3.0 29.5 + - - +
664C VAL* 4.2 5.2 - - - -
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Residues in contact with VAL 645 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
641C ALA 3.3 17.3 + - - +
642C ALA 4.2 2.9 - - - +
644C SER* 1.3 75.8 - - - +
646C THR* 1.3 58.2 + - - +
648C LEU* 3.6 5.9 + - - +
649C ALA* 3.1 27.5 + - - +
662C ALA* 3.8 17.3 - - + -
664C VAL* 4.1 11.2 - - + -
684C SER* 4.1 15.7 - - - +
685C VAL* 4.4 8.3 - - + -
688C ALA* 3.8 16.2 - - + -
795C LEU* 4.7 8.1 - - + -
836C VAL* 4.7 5.6 - - + +
838C ALA* 3.8 31.0 - - + -
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Residues in contact with THR 646 (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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570C ARG* 3.6 18.4 - - - +
576C GLU* 3.7 12.0 + - - +
642C ALA 2.9 20.5 + - - -
643C GLY* 3.9 7.1 - - - -
644C SER 3.2 0.2 - - - -
645C VAL* 1.3 77.1 - - - +
647C ASP* 1.3 64.9 + - - +
649C ALA* 3.3 2.1 + - - +
650C PHE* 3.0 44.5 + - + -
687C ILE* 3.7 9.5 - - - +
688C ALA* 3.5 27.6 + - - +
691C GLN* 4.2 11.4 - - + -
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Residues in contact with ASP 647 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
523C ILE* 5.8 2.2 - - + +
567C LEU* 5.7 2.1 - - + +
569C GLY* 4.8 10.0 - - - +
570C ARG* 3.6 33.6 + - + +
643C GLY 3.3 15.1 + - - +
644C SER* 3.2 7.9 + - - +
646C THR* 1.3 78.3 - - - +
648C LEU* 1.3 62.4 + - - +
650C PHE* 3.3 8.9 + - - +
651C LYS* 3.2 51.2 + - - +
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Residues in contact with LEU 648 (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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521C GLY* 4.6 6.3 - - - -
522C LEU 5.1 0.2 - - - +
523C ILE* 4.4 15.0 - - + +
567C LEU* 5.3 5.1 - - + +
644C SER 3.0 16.8 + - - +
645C VAL* 3.8 4.0 - - - +
647C ASP* 1.3 74.3 - - - +
649C ALA* 1.3 64.8 + - - +
651C LYS* 3.3 6.5 + - - +
652C VAL* 3.1 25.9 + - + +
657C LEU* 3.7 26.9 - - + -
660C GLY* 3.8 17.9 - - - -
661C PHE 3.6 26.7 - - - +
662C ALA* 3.8 23.1 - - + +
836C VAL* 3.8 17.9 - - + -
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Residues in contact with ALA 649 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
645C VAL 3.1 19.6 + - - +
646C THR 3.3 5.4 + - - +
648C LEU* 1.3 76.2 - - - +
650C PHE* 1.3 52.7 + - - +
652C VAL 3.5 0.7 + - - -
653C ALA* 2.8 35.1 + - - +
688C ALA* 4.3 4.0 - - + -
692C LEU* 3.9 21.9 - - + +
793C LEU* 3.7 5.8 - - + +
795C LEU* 4.1 23.8 - - + -
836C VAL* 4.0 13.2 - - + +
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Residues in contact with PHE 650 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
570C ARG* 5.9 1.6 - - - -
646C THR* 3.0 26.4 + - + +
647C ASP* 3.5 14.6 - - - +
649C ALA* 1.3 76.4 - - - +
651C LYS* 1.3 53.8 - - + +
653C ALA* 3.0 6.7 + - - +
654C SER* 2.8 44.0 + - - +
691C GLN* 3.4 37.7 - - + -
692C LEU* 3.3 31.9 - - + -
695C GLN* 3.7 29.4 - - + -
697C LYS* 4.8 9.6 - - + -
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Residues in contact with LYS 651 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
567C LEU* 3.3 41.5 - - + -
647C ASP* 3.2 38.0 + - - +
648C LEU* 3.3 6.9 + - - +
650C PHE* 1.3 76.7 - - + +
652C VAL* 1.3 58.6 + - - +
654C SER* 3.5 2.5 + - - +
656C GLU* 2.8 55.3 + - - +
657C LEU* 3.0 30.8 + - + -
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Residues in contact with VAL 652 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
648C LEU* 3.1 20.3 + - + +
649C ALA 3.9 1.3 - - - +
651C LYS* 1.3 73.0 - - - +
653C ALA* 1.3 64.6 + - - +
655C ARG* 3.3 11.4 + - - +
657C LEU* 3.5 19.3 - - + +
658C LYS 3.7 19.1 - - - +
659C ASN* 3.7 25.1 - - - +
660C GLY 4.1 0.4 - - - +
793C LEU* 4.0 3.8 - - + -
834C ALA* 3.9 27.1 - - + +
835C VAL 4.1 3.1 - - - +
836C VAL* 3.6 27.8 - - + -
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Residues in contact with ALA 653 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
649C ALA 2.8 23.0 + - - +
650C PHE* 3.3 7.2 - - - +
652C VAL* 1.3 75.7 - - - +
654C SER* 1.3 57.0 + - - +
655C ARG* 3.2 9.1 + - - +
692C LEU* 4.6 4.0 - - + -
697C LYS* 3.9 41.5 - - + +
698C ALA* 5.5 0.9 - - + -
793C LEU* 3.8 15.7 - - + +
834C ALA* 5.8 0.2 - - - -
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Residues in contact with SER 654 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
650C PHE* 2.8 27.3 + - - +
651C LYS* 3.9 4.7 - - - -
652C VAL 3.3 0.6 - - - -
653C ALA* 1.3 73.0 - - - +
655C ARG* 1.3 78.4 + - - +
656C GLU* 3.0 21.1 + - - +
697C LYS* 6.0 0.9 - - - +
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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