Contacts of the helix formed by residues 601 - 619 (chain A) in PDB entry 4WGK
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 601 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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437A VAL* 3.6 21.5 - - + -
439A LEU* 3.6 37.7 - - + +
445A SER* 3.0 29.4 + - - -
446A LYS 3.7 17.5 + - - +
447A THR* 4.1 5.6 - - + -
498A CYS 5.7 0.7 - - - -
583A TYR* 3.9 27.9 - + - +
598A TYR 4.8 0.4 + - - -
599A GLY 3.2 1.4 - - - -
600A PRO* 1.3 93.0 + - + +
602A THR* 1.3 64.6 + - - +
603A LEU 3.3 2.7 - - - -
604A SER* 3.4 8.5 + - - -
605A ALA* 3.0 25.3 + - - +
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Residues in contact with THR 602 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
432A MET* 4.3 2.0 - - + -
447A THR* 4.3 9.6 - - - +
579A TYR 5.3 0.4 - - - +
580A ILE* 4.0 13.5 - - + -
596A THR* 3.4 16.2 - - + +
597A ILE 5.6 0.4 - - - +
598A TYR* 3.1 38.0 - - + +
599A GLY 2.6 24.1 + - - -
600A PRO 3.4 1.4 - - - -
601A HIS* 1.3 77.5 - - - +
603A LEU* 1.3 62.7 + - - +
605A ALA* 3.4 3.5 + - - +
606A TYR* 3.2 46.3 + - + -
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Residues in contact with LEU 603 (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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541A PHE* 3.6 31.0 - - + -
545A SER* 3.6 34.3 - - - +
548A ARG* 4.1 18.4 - - - +
580A ILE* 3.9 8.0 - - + +
581A THR 3.4 17.2 + - - +
582A THR* 3.6 28.0 - - + -
583A TYR 5.0 2.0 - - - +
600A PRO 4.9 1.5 + - - +
601A HIS* 3.3 0.6 - - - +
602A THR* 1.3 77.1 - - - +
604A SER* 1.3 61.9 + - - +
606A TYR* 3.1 3.7 + - - +
607A ILE* 2.9 44.9 + - + +
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Residues in contact with SER 604 (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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437A VAL* 4.2 20.7 - - - +
438A TRP 5.6 2.5 - - - -
439A LEU* 4.2 15.9 - - - +
583A TYR* 5.6 6.1 - - - +
601A HIS* 3.4 14.7 + - - +
603A LEU* 1.3 79.6 - - - +
605A ALA* 1.3 60.8 + - - +
607A ILE* 4.0 9.9 - - - +
608A GLN* 3.1 23.6 + - - +
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Residues in contact with ALA 605 (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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432A MET* 4.0 11.4 - - + -
435A VAL* 3.8 12.6 - - + -
437A VAL* 3.6 20.4 - - + +
447A THR* 3.7 14.6 - - + -
601A HIS 3.0 17.5 + - - +
602A THR 3.5 5.4 - - - +
604A SER* 1.3 77.1 - - - +
606A TYR* 1.3 57.7 + - - +
608A GLN* 3.3 6.1 + - - +
609A LEU* 2.8 35.0 + - - +
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Residues in contact with TYR 606 (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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432A MET* 3.6 33.7 - - + +
522A VAL* 3.8 9.3 - - + +
524A VAL* 4.1 17.7 - - + -
538A PRO* 3.6 24.5 - - + +
541A PHE* 3.8 21.3 - + + -
549A LEU* 4.0 15.0 - - + -
577A THR* 3.8 10.4 + - - -
580A ILE* 3.6 18.4 - - + -
598A TYR* 4.0 6.2 - - - -
602A THR* 3.2 35.9 + - + -
603A LEU 3.1 6.8 + - - +
605A ALA* 1.3 77.2 - - - +
607A ILE* 1.3 56.4 + - - +
609A LEU* 4.2 2.5 - - + -
610A PHE* 2.7 57.2 + + + -
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Residues in contact with ILE 607 (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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548A ARG* 3.9 27.8 - - + +
549A LEU* 4.1 21.3 - - + +
552A ALA* 3.6 26.9 - - + -
553A VAL* 5.3 0.6 - - - +
603A LEU* 2.9 45.0 + - + +
604A SER* 4.0 9.2 - - - +
606A TYR* 1.3 73.8 - - - +
608A GLN* 1.3 56.7 + - - +
610A PHE* 4.2 0.2 - - - +
611A ARG* 2.9 44.8 + - - +
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Residues in contact with GLN 608 (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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435A VAL* 4.1 15.1 - - - +
436A THR 3.2 26.5 + - - +
437A VAL* 3.6 4.4 - - - +
438A TRP* 3.5 27.8 + - - +
604A SER 3.1 16.2 + - - +
605A ALA 3.4 4.4 + - - +
607A ILE* 1.3 80.8 - - - +
609A LEU* 1.3 67.4 + - + +
611A ARG* 3.5 17.8 + - - +
612A ASN* 3.2 22.3 + - - +
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Residues in contact with LEU 609 (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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428A GLN* 4.7 8.7 - - - +
430A VAL* 3.7 44.9 - - + -
432A MET* 3.7 19.1 - - - -
435A VAL* 4.7 13.0 - - + -
524A VAL* 4.3 20.0 - - + -
605A ALA 2.8 27.1 + - - +
606A TYR* 3.1 7.2 + - + +
608A GLN* 1.3 80.1 - - + +
610A PHE* 1.3 56.1 + - - +
612A ASN* 3.3 8.9 + - + +
613A LEU* 3.1 32.2 + - - +
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Residues in contact with PHE 610 (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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524A VAL* 3.8 29.2 - - + -
525A GLN 3.4 27.8 - - - -
526A ILE* 3.4 26.9 - - + +
535A THR* 3.9 17.5 - - - -
536A ALA 3.4 20.4 - - - -
537A ILE* 4.1 12.1 - - + -
538A PRO* 4.8 2.2 - - + -
549A LEU* 3.8 17.7 - - + -
553A VAL* 3.8 18.2 - - + +
606A TYR* 2.7 46.0 + + + +
607A ILE 4.2 1.1 - - - +
609A LEU* 1.3 71.5 - - - +
611A ARG* 1.3 65.6 + - - +
613A LEU* 3.3 8.3 + - + -
614A ALA* 3.0 20.3 + - - +
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Residues in contact with ARG 611 (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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552A ALA* 3.8 25.8 + - + +
553A VAL* 4.3 3.5 - - + +
556A GLU* 2.8 49.2 + - + +
607A ILE* 2.9 39.6 + - - +
608A GLN* 3.7 16.2 + - - +
610A PHE* 1.3 75.8 - - - +
612A ASN* 1.3 58.2 + - - +
614A ALA* 3.2 6.7 + - - +
615A LYS* 2.9 27.7 + - - +
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Residues in contact with ASN 612 (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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428A GLN* 4.3 11.3 + - - +
608A GLN 3.2 11.1 + - - +
609A LEU* 3.4 13.4 - - + +
610A PHE 3.2 0.4 - - - -
611A ARG* 1.3 78.1 - - - +
613A LEU* 1.3 59.6 + - - +
615A LYS* 3.2 18.4 + - - +
616A ALA* 2.9 28.3 + - - +
625A LEU* 3.4 26.7 - - - +
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Residues in contact with LEU 613 (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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426A ALA* 4.1 16.9 - - + +
428A GLN* 3.7 30.7 - - + +
524A VAL* 3.5 44.2 - - + +
525A GLN* 3.5 16.4 - - - +
526A ILE* 3.7 13.0 - - + -
609A LEU 3.1 14.4 + - - +
610A PHE* 3.5 14.4 - - + +
612A ASN* 1.3 81.5 - - - +
614A ALA* 1.3 62.4 + - - +
616A ALA* 3.2 9.2 + - - +
617A ILE* 3.1 27.2 + - - +
625A LEU* 4.4 10.8 - - + -
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Residues in contact with ALA 614 (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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526A ILE* 3.7 4.2 - - + +
553A VAL* 4.0 13.9 - - + +
556A GLU* 4.2 7.2 - - + -
557A PHE* 3.5 47.7 - - + -
610A PHE 3.0 13.4 + - - +
611A ARG* 3.5 9.4 - - - +
613A LEU* 1.3 75.6 - - - +
615A LYS* 1.3 58.7 + - - +
617A ILE* 3.2 2.3 + - - -
618A ALA* 3.0 26.2 + - - +
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Residues in contact with LYS 615 (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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556A GLU* 3.4 21.9 + - - +
560A HIS* 3.6 37.7 - - + +
611A ARG 2.9 9.2 + - - +
612A ASN* 3.2 22.1 + - - +
614A ALA* 1.3 77.6 - - - +
616A ALA* 1.3 52.5 + - - +
618A ALA* 4.0 1.3 - - - -
619A THR* 2.7 48.8 + - + +
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Residues in contact with ALA 616 (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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612A ASN* 2.9 12.2 + - - +
613A LEU 3.2 8.5 + - - +
615A LYS* 1.3 76.7 - - - +
617A ILE* 1.3 62.9 + - - +
620A ASP 3.1 1.0 + - - -
621A THR* 2.8 41.6 + - - +
622A VAL* 3.4 17.1 + - + +
625A LEU* 3.6 35.7 - - + -
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Residues in contact with ILE 617 (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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424A ALA* 3.7 24.1 - - + +
425A SER* 4.3 7.0 - - - +
426A ALA* 3.6 27.4 - - + +
526A ILE* 3.9 36.8 - - + +
528A THR* 4.2 12.8 - - + +
557A PHE* 4.2 14.6 - - + -
562A MET* 4.5 8.0 - - + +
613A LEU 3.1 15.1 + - - +
614A ALA 3.6 6.5 - - - +
616A ALA* 1.3 77.6 - - - +
618A ALA* 1.3 63.2 + - - +
620A ASP* 3.3 14.2 + - - +
622A VAL* 4.1 8.4 - - + +
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Residues in contact with ALA 618 (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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557A PHE* 4.2 7.9 - - + +
560A HIS* 3.6 38.6 - - + +
562A MET* 3.7 26.5 - - + +
614A ALA 3.0 16.2 + - - +
615A LYS 4.0 2.0 - - - +
617A ILE* 1.3 80.1 - - - +
619A THR* 1.3 60.9 + - - +
620A ASP* 3.2 2.7 + - - +
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Residues in contact with THR 619 (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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560A HIS* 3.5 35.4 - - + +
615A LYS* 2.7 32.1 + - + +
616A ALA 3.7 0.2 + - - -
618A ALA* 1.3 74.8 - - - +
620A ASP* 1.3 68.0 + - - +
621A THR* 2.9 32.3 + - - +
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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