Contacts of the helix formed by residues 575 - 598 (chain A) in PDB entry 1U1H
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 PRO 575 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
574A GLN* 1.3 89.2 - - + +
576A ARG* 1.3 66.1 + - - +
577A HIS* 3.5 32.3 - - + +
578A GLU* 3.2 36.2 + - + +
579A THR* 3.3 5.2 + - - -
771A SO4 3.5 11.9 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 576 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
270A ARG* 4.9 18.5 - - - +
565A LEU* 4.0 17.4 - - + +
566A ASN* 3.9 20.2 + - - -
570A VAL* 5.2 14.6 - - + -
571A ARG 6.1 0.9 - - - +
574A GLN 3.5 2.6 + - - +
575A PRO* 1.3 68.0 - - - +
577A HIS* 1.3 55.1 + - - +
579A THR* 2.9 10.8 + - - +
580A CYS* 2.7 32.9 + - - +
612A GLY* 3.2 30.5 + - - -
614A PRO* 4.5 9.9 - - - +
623A TYR* 3.9 14.3 - - - +
626A TRP* 4.1 18.6 - - + -
771A SO4 3.0 28.8 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with HIS 577 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
575A PRO* 3.5 24.5 - - + +
576A ARG* 1.3 75.7 - - - +
578A GLU* 1.3 88.6 + - + +
580A CYS* 3.5 0.9 - - - +
581A TYR* 2.9 41.7 + + + -
622A PHE* 3.8 24.6 - + - -
626A TRP* 3.3 49.0 - + + -
771A SO4 2.8 23.9 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 578 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
574A GLN* 3.2 30.9 - - - +
575A PRO* 3.2 31.8 + - + +
576A ARG 3.1 0.4 - - - -
577A HIS* 1.3 95.2 + - + +
579A THR* 1.3 63.2 + - - +
581A TYR* 3.4 14.5 + - - +
582A GLN* 3.4 21.3 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with THR 579 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
528A ILE* 4.3 18.2 - - + -
530A GLY 6.1 0.2 - - - +
532A VAL* 5.3 3.4 - - + -
565A LEU* 3.5 22.7 - - + -
570A VAL* 4.0 13.5 - - + +
571A ARG* 4.0 10.4 + - - +
574A GLN* 2.6 33.0 + - - +
575A PRO 3.3 2.9 + - - -
576A ARG 2.9 10.1 + - - -
578A GLU* 1.3 77.4 - - - +
580A CYS* 1.3 65.3 + - - +
582A GLN* 3.0 18.7 + - + +
583A ILE* 3.2 18.5 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with CYS 580 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
561A PRO* 3.8 24.6 - - - +
562A VAL* 3.9 8.5 - - - -
565A LEU* 3.8 7.2 - - + +
576A ARG 2.7 11.8 + - - +
577A HIS 3.1 6.5 + - - +
579A THR* 1.3 74.4 - - - +
581A TYR* 1.3 56.2 + - - +
583A ILE* 3.2 13.4 + - - +
584A ALA* 2.9 25.1 + - - +
626A TRP* 3.5 33.4 - - + -
630A SER* 3.2 29.4 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 581 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
401A ALA* 6.2 4.7 - - + -
404A ALA* 5.2 13.9 - - + -
577A HIS* 2.9 35.5 + + - +
578A GLU* 3.8 9.4 - - - +
579A THR 3.1 0.4 - - - -
580A CYS* 1.3 73.0 - - - +
582A GLN* 1.3 61.9 + - + +
584A ALA* 3.1 4.0 + - - +
585A LEU* 2.8 36.8 + - + +
625A ASP* 5.3 1.4 + - - -
626A TRP* 3.3 31.4 - - + +
629A HIS* 3.2 22.9 + + - -
630A SER* 3.3 24.9 - - - -
633A ILE* 3.4 28.8 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 582 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
397A GLY* 5.6 5.1 - - - +
398A VAL* 5.6 0.5 - - - +
401A ALA* 5.2 13.5 - - + -
530A GLY 4.2 0.2 + - - -
531A ASP* 2.8 35.4 - - - +
532A VAL* 2.6 60.6 + - + +
571A ARG* 3.7 3.9 + - - +
574A GLN* 3.7 20.1 + - - +
578A GLU* 3.5 16.7 - - + +
579A THR* 3.0 9.7 + - - +
581A TYR* 1.3 77.9 - - + +
583A ILE* 1.3 61.8 + - - +
585A LEU* 3.4 10.1 + - - +
586A ALA* 3.2 18.4 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 583 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
504A LEU* 5.1 5.8 - - + -
507A PHE* 5.3 0.9 - - + -
528A ILE* 4.3 10.3 - - + -
532A VAL* 4.6 18.4 - - + -
561A PRO* 3.5 37.0 - - + +
564A ILE* 4.2 23.8 - - + -
565A LEU* 3.9 31.2 - - + +
579A THR* 3.2 22.0 + - + +
580A CYS* 3.4 7.6 - - - +
581A TYR 3.1 0.4 - - - -
582A GLN* 1.3 75.5 - - - +
584A ALA* 1.3 64.0 + - - +
586A ALA* 3.2 6.7 + - - +
587A ILE* 3.0 30.8 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 584 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
561A PRO* 3.6 10.5 - - + +
580A CYS 2.9 13.8 + - - +
581A TYR* 3.1 10.3 + - - +
583A ILE* 1.3 77.2 - - - +
585A LEU* 1.3 57.1 + - - +
587A ILE* 3.2 3.5 + - - +
588A LYS* 2.8 30.8 + - - +
630A SER* 3.2 33.7 - - - +
633A ILE* 3.9 15.3 - - + -
634A THR* 4.0 7.2 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 585 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
397A GLY 5.2 1.1 - - - +
400A LYS* 3.6 53.8 - - + +
401A ALA* 4.0 8.5 - - - +
404A ALA* 5.9 6.3 - - + -
581A TYR* 2.8 22.8 + - + +
582A GLN* 3.6 10.5 - - - +
584A ALA* 1.3 72.7 - - - +
586A ALA* 1.3 62.0 + - - +
588A LYS* 3.0 34.7 - - + +
589A ASP* 3.5 11.3 + - - +
633A ILE* 3.9 20.6 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 586 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
504A LEU* 4.1 12.6 - - + -
532A VAL* 4.7 2.9 - - + -
533A SER* 4.0 9.9 - - - +
534A ARG* 3.6 41.4 - - + +
538A MSE 5.1 1.0 - - - +
582A GLN 3.2 9.2 + - - +
583A ILE* 3.2 10.3 + - - +
585A LEU* 1.3 76.6 - - - +
587A ILE* 1.3 66.5 + - + +
589A ASP* 3.3 21.1 + - - +
590A GLU* 3.7 3.8 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 587 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
500A PHE* 5.3 4.7 - - + -
504A LEU* 5.1 7.4 - - + -
538A MSE 4.3 19.1 - - + -
558A LEU* 3.9 30.3 - - + -
559A THR 4.1 19.7 - - - +
561A PRO* 4.8 4.0 - - + -
564A ILE* 4.2 14.8 - - + -
583A ILE* 3.0 25.2 + - + +
584A ALA* 3.7 6.3 - - - +
586A ALA* 1.3 75.1 - - + +
588A LYS* 1.3 67.8 + - - +
589A ASP 3.0 0.9 + - - -
590A GLU* 3.1 6.6 + - + +
591A VAL* 3.1 20.5 + - - +
604A ILE* 5.5 2.2 - - + -
634A THR* 4.0 22.9 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 588 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
400A LYS* 6.0 5.4 - - - +
584A ALA 2.8 13.6 + - - +
585A LEU* 3.0 37.2 - - + +
587A ILE* 1.3 76.8 - - - +
589A ASP* 1.3 63.6 + - - +
591A VAL* 3.6 2.8 + - - +
592A GLU* 2.9 64.3 + - - +
633A ILE* 2.9 27.8 - - + +
634A THR* 3.2 15.4 + - - +
635A ASN* 5.2 0.9 - - - -
636A CYS* 4.7 16.2 - - - +
637A GLY* 4.7 2.4 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 589 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
534A ARG* 3.3 39.4 + - - +
585A LEU 3.9 12.9 - - - +
586A ALA* 3.3 12.1 + - - +
587A ILE 3.0 0.4 - - - -
588A LYS* 1.3 79.1 - - - +
590A GLU* 1.3 55.0 + - - +
592A GLU* 2.9 15.0 + - - +
593A ASP* 2.7 36.8 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 590 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
534A ARG* 2.7 27.8 + - - +
537A ALA* 3.0 5.5 - - - +
538A MSE 2.5 63.1 + - + -
539A THR* 3.0 30.0 + - - -
540A VAL* 3.7 7.8 + - - +
558A LEU* 4.1 13.9 - - + +
586A ALA 3.7 1.4 + - - -
587A ILE* 3.1 9.3 + - - +
589A ASP* 1.3 77.6 - - - +
591A VAL* 1.3 57.4 + - - +
593A ASP* 3.5 1.5 - - - +
594A LEU* 2.8 38.7 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 591 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
558A LEU* 3.5 19.3 - - + -
587A ILE 3.1 15.5 + - - +
588A LYS 3.8 6.3 - - - +
590A GLU* 1.3 74.7 - - - +
592A GLU* 1.3 61.3 + - + +
594A LEU* 3.0 5.4 + - - -
595A GLU* 2.8 24.4 + - - +
602A ILE* 3.3 30.5 - - + +
604A ILE* 4.4 4.9 - - + -
634A THR* 3.6 28.0 - - + +
635A ASN* 4.1 20.4 - - + -
638A VAL* 4.9 7.9 - - + -
644A ILE* 4.6 5.6 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 592 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
588A LYS* 2.9 49.6 + - + +
589A ASP* 2.9 13.9 + - - +
591A VAL* 1.3 80.5 - - + +
593A ASP* 1.3 58.7 + - - +
595A GLU* 3.7 14.4 - - - +
596A LYS* 3.1 39.9 + - - +
634A THR 5.4 0.7 - - - +
635A ASN* 5.7 1.5 - - - -
637A GLY* 3.5 32.2 + - - +
638A VAL* 5.4 1.3 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 593 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
534A ARG* 3.3 34.8 + - - +
537A ALA* 4.2 11.4 + - - +
540A VAL* 3.6 20.1 - - + +
589A ASP* 2.7 19.6 + - - +
590A GLU 3.5 5.2 - - - +
592A GLU* 1.3 73.2 - - - +
594A LEU* 1.3 61.3 + - - +
595A GLU 3.2 0.2 - - - -
596A LYS* 3.4 14.9 + - - +
597A GLY* 2.9 25.1 + - - -
----------------------------------------------------------
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
----------------------------------------------------------
539A THR* 4.1 4.0 - - + -
540A VAL* 4.0 23.8 - - + +
543A SER* 3.8 31.2 - - - +
556A GLY* 4.5 8.1 - - - -
558A LEU* 3.9 32.8 - - + -
590A GLU* 2.8 28.3 + - - +
591A VAL* 3.0 5.4 + - - +
593A ASP* 1.3 78.7 - - - +
595A GLU* 1.3 58.3 + - - +
597A GLY* 3.2 3.0 + - - +
598A GLY 3.2 4.3 + - - -
599A ILE* 2.9 41.6 + - + +
602A ILE* 3.8 24.9 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 595 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
591A VAL 2.8 15.7 + - - +
592A GLU* 3.7 13.5 - - - +
594A LEU* 1.3 75.2 - - - +
596A LYS* 1.3 66.9 + - + +
598A GLY* 3.1 14.7 + - - -
599A ILE 3.7 10.2 - - - +
602A ILE* 4.2 5.1 - - + +
637A GLY 4.1 5.2 - - - +
638A VAL* 2.9 16.6 - - + +
639A GLN* 2.7 40.3 + - + +
642A THR* 2.4 29.7 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 596 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
592A GLU* 3.1 25.7 + - - +
593A ASP* 4.0 13.9 + - - +
594A LEU 3.4 0.2 - - - -
595A GLU* 1.3 77.8 - - + +
597A GLY* 1.3 61.3 + - - +
598A GLY* 3.3 0.9 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 597 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
540A VAL* 4.9 12.3 - - - -
544A ALA* 5.0 8.3 - - - +
593A ASP 2.9 18.2 + - - -
594A LEU* 3.6 3.6 - - - -
595A GLU 3.1 0.6 - - - -
596A LYS* 1.3 78.7 - - - +
598A GLY* 1.3 56.6 + - - +
599A ILE* 3.5 11.5 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 598 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
547A GLN* 5.2 8.6 - - - +
595A GLU 3.1 8.4 + - - -
596A LYS 3.1 5.3 - - - -
597A GLY* 1.3 79.8 - - - +
599A ILE* 1.3 68.2 + - - +
600A GLY* 2.9 5.9 + - - -
----------------------------------------------------------
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