Contacts of the helix formed by residues 591 - 607 (chain A) in PDB entry 6FWF
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 ARG 591 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
584A SER* 4.5 12.6 - - - +
585A GLU 5.5 6.5 - - - +
588A LYS 4.6 6.7 - - - +
589A ARG 3.0 8.0 + - - +
590A LEU* 1.3 73.1 - - - +
592A TRP* 1.3 84.2 + - + +
593A PRO* 3.5 3.5 - - - +
594A LEU* 3.7 18.6 + - - +
595A MET* 4.0 9.4 + - + +
665A ASP* 3.0 36.9 + - - -
669A THR* 5.7 6.1 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with TRP 592 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
589A ARG 4.2 3.4 - - - -
591A ARG* 1.3 91.7 - - + +
593A PRO* 1.4 80.3 - - + +
594A LEU 3.2 2.2 - - - -
595A MET* 2.8 28.3 + - + +
596A CYS 2.8 10.7 + - - -
651A LEU* 3.7 25.9 - - + +
655A ARG* 3.3 42.1 - - + +
660A ASN 5.5 1.8 - - - -
663A PHE* 3.4 38.1 - + + -
665A ASP* 3.2 32.3 - - + -
668A MET* 3.6 35.7 - - + +
672A PHE* 3.6 21.9 - + + -
----------------------------------------------------------
Back to top of page
Residues in contact with PRO 593 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
589A ARG 4.9 0.7 - - - +
590A LEU* 4.0 26.7 - - + -
591A ARG 3.5 14.6 - - - +
592A TRP* 1.4 111.4 - - + +
594A LEU* 1.3 55.1 + - - +
596A CYS* 3.2 11.7 - - + +
597A PHE* 2.8 52.9 + - + -
648A GLY* 5.4 4.5 - - - +
651A LEU* 5.0 12.3 - - + -
652A LEU* 6.6 0.4 - - + -
655A ARG* 5.5 5.4 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 594 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
509A PHE* 6.1 5.2 - - + -
577A HIS* 4.2 31.0 - - + +
580A TYR 5.4 1.1 - - - +
581A GLN* 3.6 37.7 - - + +
590A LEU* 5.6 4.6 - - + +
591A ARG 3.7 12.6 + - - +
592A TRP 3.2 0.4 - - - -
593A PRO* 1.3 77.7 - - - +
595A MET* 1.3 59.6 + - + +
597A PHE* 4.2 13.6 - - + +
598A VAL* 2.8 39.9 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with MET 595 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
581A GLN* 3.4 34.5 - - - +
591A ARG* 4.1 12.1 - - + +
592A TRP* 2.8 18.6 + - + +
594A LEU* 1.3 71.1 - - - +
596A CYS* 1.3 63.3 + - - +
598A VAL* 3.3 21.4 - - + +
599A ALA* 3.7 9.4 + - - +
672A PHE* 4.0 24.0 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with CYS 596 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
592A TRP 2.8 7.7 + - - +
593A PRO* 3.2 15.2 + - + +
595A MET* 1.3 76.5 - - - +
597A PHE* 1.3 69.3 + - + +
599A ALA* 3.1 8.1 + - - +
600A VAL* 2.8 28.6 + - - +
644A PHE* 3.8 32.7 - - - +
647A LEU* 4.7 5.4 - - - -
648A GLY* 4.3 10.8 - - - -
651A LEU* 4.5 12.3 - - - -
668A MET* 6.2 0.2 - - - -
672A PHE* 3.5 26.8 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 597 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
505A PHE* 5.7 9.9 - + - -
509A PHE* 5.6 13.0 - + - -
577A HIS* 5.4 7.3 - - - +
590A LEU* 6.5 0.2 - - + -
593A PRO* 2.8 39.6 + - + +
594A LEU* 3.1 16.5 + - + +
596A CYS* 1.3 74.0 - - + +
598A VAL* 1.3 60.1 + - - +
600A VAL* 3.5 15.3 - - + +
601A ALA* 2.8 31.2 + - - +
644A PHE 4.9 1.3 - - - -
645A LEU* 4.2 22.4 - - + -
648A GLY* 4.1 29.8 - - - -
649A PHE* 4.6 15.5 - + - -
652A LEU* 6.4 2.7 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 598 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
574A ALA* 5.5 6.1 - - + +
577A HIS* 3.8 35.4 - - + -
578A TRP* 4.8 15.7 + - + +
581A GLN* 3.9 19.7 - - - +
594A LEU* 2.8 26.7 + - + +
595A MET* 3.3 28.3 - - + +
597A PHE* 1.3 70.8 - - - +
599A ALA* 1.3 55.8 + - + +
601A ALA* 3.4 5.6 + - - +
602A PHE* 2.8 35.7 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 599 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
595A MET 3.8 9.6 - - - +
596A CYS* 3.1 10.7 + - - +
598A VAL* 1.3 79.1 - - + +
600A VAL* 1.3 61.0 + - - +
602A PHE* 3.8 9.4 - - + -
603A TRP* 2.8 48.8 + - + +
640A GLY 4.6 0.7 - - - -
644A PHE* 4.8 9.2 - - + -
672A PHE* 6.0 1.8 - - + -
676A ASN* 4.5 16.4 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 600 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
570A LEU* 6.2 0.7 - - + -
596A CYS 2.8 26.2 + - - +
597A PHE* 3.2 17.7 + - + +
599A ALA* 1.3 71.7 - - - +
601A ALA* 1.3 58.1 + - - +
603A TRP* 3.7 1.4 - - - +
604A ASN* 2.8 33.5 + - + +
640A GLY 4.1 6.5 - - - -
641A VAL* 3.6 30.4 - - + +
644A PHE* 3.5 26.2 - - + -
645A LEU* 3.7 27.1 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 601 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
570A LEU* 3.6 44.6 - - + +
573A GLU* 4.8 9.9 - - - +
574A ALA* 5.2 6.5 - - + -
577A HIS* 5.3 4.3 - - + -
597A PHE 2.8 19.7 + - - +
598A VAL* 3.8 4.9 - - - +
600A VAL* 1.3 71.6 - - - +
602A PHE* 1.3 56.0 + - - +
604A ASN* 3.2 1.4 + - - +
605A MET* 2.8 34.7 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 602 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
574A ALA* 5.3 6.6 - - + +
578A TRP* 5.2 15.7 - + + +
598A VAL 2.8 22.5 + - - +
599A ALA* 3.3 8.3 - - + +
601A ALA* 1.3 70.9 - - - +
603A TRP* 1.3 94.4 + + - +
605A MET* 3.2 20.1 + - + +
606A ILE* 2.8 55.7 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with TRP 603 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
599A ALA* 2.8 36.5 + - + +
602A PHE* 1.3 101.7 - + - +
604A ASN* 1.3 54.7 + - - +
606A ILE* 3.6 20.6 - - + -
607A GLY* 2.8 25.8 + - - -
608A ALA 4.3 0.2 + - - -
636A ALA* 3.6 38.6 - - + +
640A GLY* 3.1 32.3 - - - +
641A VAL* 3.5 9.5 - - - +
644A PHE* 4.7 1.6 - + - -
676A ASN* 3.7 20.4 + - + +
679A LEU* 3.7 29.8 - - + +
680A VAL* 4.4 18.8 - - + -
683A ILE* 3.6 28.5 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ASN 604 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
498A GLU* 4.1 23.0 + - - -
567A LEU* 3.6 42.5 - - - +
570A LEU* 3.7 19.2 - - + +
600A VAL* 2.8 26.8 + - - +
601A ALA* 3.2 8.5 + - - +
603A TRP* 1.3 71.1 - - - +
605A MET* 1.3 64.2 + - - +
608A ALA* 4.5 2.2 - - - +
609A GLY 4.0 2.4 + - - -
641A VAL* 3.5 26.8 - - + +
642A TYR* 6.0 0.4 - - - -
1001A HEM 4.6 7.1 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with MET 605 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
567A LEU 3.9 17.9 + - - +
568A VAL* 5.0 12.1 - - + +
570A LEU 5.0 2.0 - - - +
571A GLY* 3.5 37.0 - - - +
574A ALA* 5.1 7.2 - - + -
578A TRP* 6.1 4.7 - - + -
601A ALA 2.8 12.6 + - - +
602A PHE* 3.5 24.2 - - + +
604A ASN* 1.3 76.2 - - - +
606A ILE* 1.3 69.6 + - + +
609A GLY* 3.5 6.2 + - - -
610A VAL* 3.3 30.4 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 606 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
602A PHE* 2.8 68.8 + - + +
603A TRP* 3.4 25.1 + - + +
605A MET* 1.3 81.8 - - + +
607A GLY* 1.3 63.4 + - - +
608A ALA 3.1 1.2 + - - -
610A VAL* 3.2 12.5 - - + +
611A PHE* 3.1 50.2 + - + +
636A ALA* 5.4 1.3 - - + -
683A ILE* 5.8 2.5 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 607 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
603A TRP 2.8 19.8 + - - -
606A ILE* 1.3 77.2 - - - +
608A ALA* 1.3 50.6 + - - +
611A PHE* 3.3 14.6 - - - +
633A HIS* 2.8 34.0 + - - -
636A ALA* 4.2 24.9 + - - -
637A ALA* 3.9 6.9 - - - +
----------------------------------------------------------
Back to top of page
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) + - + + + + + -
------------------------------------------------------------
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