Contacts of the helix formed by residues 585 - 604 (chain A) in PDB entry 4HXG
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 SER 585 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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39A ASN* 3.2 30.2 + - - -
41A TYR* 4.2 3.4 - - - -
584A GLY* 1.3 74.6 - - - +
586A PRO* 1.3 66.6 - - - +
587A ARG* 4.4 1.6 + - - +
588A HIS* 3.1 26.9 + - - +
589A ARG* 2.8 26.7 + - - +
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Residues in contact with PRO 586 (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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11A PHE* 3.6 20.3 - - + -
12A THR* 4.9 0.4 - - + -
34A ALA* 4.3 15.3 - - + -
35A ASN 3.5 31.0 - - - +
36A LEU* 3.7 14.6 - - + -
39A ASN* 3.1 20.9 - - - +
40A LYS 3.9 12.6 - - - +
41A TYR* 3.9 15.7 - - + +
584A GLY 3.7 1.1 - - - +
585A SER* 1.3 82.9 - - - +
587A ARG* 1.3 62.8 + - - +
589A ARG* 3.3 0.8 + - + -
590A MET* 2.9 22.2 + - - +
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Residues in contact with ARG 587 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36A LEU* 3.6 16.8 - - + +
39A ASN* 2.9 48.3 + - + +
585A SER* 5.2 1.4 + - - -
586A PRO* 1.3 77.2 - - - +
588A HIS* 1.3 63.2 + - - +
590A MET* 3.4 12.0 + - + +
591A LYS* 3.2 52.0 + - - +
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Residues in contact with HIS 588 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
573A PHE* 3.0 39.1 - + + +
575A LYS* 3.1 34.5 + - - +
576A GLY* 4.7 0.7 - - - -
580A HIS* 3.0 41.8 + - + +
584A GLY* 4.4 5.2 - - - -
585A SER* 3.1 27.4 + - - +
587A ARG* 1.3 76.1 - - - +
589A ARG* 1.3 70.4 + - - +
591A LYS* 3.1 9.0 + - - +
592A ARG* 3.0 20.8 + - + -
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Residues in contact with ARG 589 (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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11A PHE* 3.5 41.9 - - + +
16A TYR* 4.6 14.1 + - - -
34A ALA* 5.2 0.6 - - - +
41A TYR* 3.0 35.8 + - - -
398A TYR* 5.8 1.4 - - - +
580A HIS 3.7 11.7 - - - +
581A SER 2.8 26.0 + - - +
582A ILE* 3.3 29.5 + - - +
584A GLY 3.4 8.1 - - - +
585A SER 2.8 19.2 + - - +
586A PRO 3.8 3.8 - - - +
588A HIS* 1.3 75.7 - - - +
590A MET* 1.3 64.2 + - - +
592A ARG* 3.3 7.4 + - - +
593A TYR* 3.0 52.3 + - + -
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Residues in contact with MET 590 (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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8A GLU* 3.4 37.9 - - + +
9A LYS* 3.9 31.2 - - + -
11A PHE* 4.0 6.9 - - + -
36A LEU* 4.1 14.6 - - + -
586A PRO 2.9 17.1 + - - +
587A ARG* 3.7 19.5 - - + +
589A ARG* 1.3 76.1 - - - +
591A LYS* 1.3 87.5 + - + +
593A TYR* 3.1 3.8 + - - +
594A LYS* 2.9 28.2 + - + +
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Residues in contact with LYS 591 (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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573A PHE* 4.5 11.0 - - + -
587A ARG* 3.2 40.0 + - + +
588A HIS* 3.1 9.5 + - - +
590A MET* 1.3 90.8 - - + +
592A ARG* 1.3 57.1 + - - +
594A LYS* 3.8 6.0 - - - +
595A LEU* 2.8 31.7 + - - +
617A LEU* 4.2 23.6 - - + +
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Residues in contact with ARG 592 (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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397A LYS* 5.4 0.4 - - - +
399A GLU* 3.1 30.0 + - - +
465A ILE* 4.4 5.1 - - - +
488A GLU* 2.7 44.0 + - - -
541A ILE* 4.5 12.5 - - + +
573A PHE* 3.8 23.0 - - + -
580A HIS* 4.2 14.4 - - - -
581A SER* 3.6 33.9 + - - +
588A HIS* 3.0 11.7 + - + +
589A ARG* 3.5 10.3 - - - +
591A LYS* 1.3 73.8 - - - +
593A TYR* 1.3 80.0 + - - +
595A LEU* 3.0 4.3 + - + +
596A PHE* 2.7 53.1 + - - +
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Residues in contact with TYR 593 (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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8A GLU* 3.8 16.8 - - - -
11A PHE* 3.6 36.6 - + - -
398A TYR* 3.4 39.0 - + + +
399A GLU* 3.5 22.8 + - + -
402A LEU* 4.6 8.2 - - + +
581A SER 3.6 11.8 + - - -
582A ILE* 4.6 5.2 - - - +
589A ARG* 3.0 52.3 + - + -
590A MET 3.5 4.9 - - - +
592A ARG* 1.3 97.8 - - - +
594A LYS* 1.3 58.2 + - - +
596A PHE* 3.3 6.4 + + + +
597A MET* 2.8 32.3 + - - +
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Residues in contact with LYS 594 (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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8A GLU* 3.2 38.2 + - + +
590A MET* 2.9 17.1 + - + +
591A LYS* 3.8 6.7 - - - +
593A TYR* 1.3 76.6 - - - +
595A LEU* 1.3 56.7 + - - +
597A MET* 3.3 17.1 - - + +
598A GLU* 2.9 65.7 + - + +
616A ILE 3.8 17.1 + - - -
617A LEU* 4.1 24.0 - - + +
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Residues in contact with LEU 595 (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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539A LEU* 4.1 18.4 - - + -
541A ILE* 4.7 7.6 - - + -
571A ALA* 3.7 29.6 - - + -
573A PHE* 4.7 13.9 - - + -
591A LYS 2.8 19.9 + - - +
592A ARG* 3.4 4.3 - - - +
594A LYS* 1.3 75.2 - - - +
596A PHE* 1.3 66.0 + - - +
598A GLU* 4.0 1.4 - - - +
599A PHE* 3.1 25.2 + - - +
611A PHE* 3.6 31.0 - - + -
613A VAL* 3.8 17.0 - - + -
617A LEU* 4.1 14.1 - - + +
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Residues in contact with PHE 596 (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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383A PHE* 4.0 21.1 - + - -
399A GLU* 4.1 20.6 - - + -
402A LEU* 5.9 2.7 - - + -
403A MET* 3.9 31.2 - - + -
463A THR* 3.4 22.9 - - + -
486A ILE* 3.6 31.3 - - + +
488A GLU* 3.7 19.3 - - - -
539A LEU* 5.2 2.5 - - - -
541A ILE* 5.1 3.7 - - + +
592A ARG* 2.7 33.8 + - + +
593A TYR* 3.4 9.2 - - - +
595A LEU* 1.3 74.8 - - - +
597A MET* 1.3 63.7 + - - +
600A PHE* 3.5 34.9 + + - -
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Residues in contact with MET 597 (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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7A ASP* 4.5 5.2 - - + -
8A GLU* 3.5 33.0 - - - +
402A LEU* 4.2 19.5 - - + -
403A MET* 4.3 18.1 - - - +
406A LYS* 3.6 44.2 - - + +
593A TYR 2.8 16.1 + - - +
594A LYS* 3.3 30.7 - - + +
596A PHE* 1.3 78.8 - - - +
598A GLU* 1.3 66.3 + - - +
600A PHE* 3.4 3.5 + - - +
601A GLU* 3.0 30.0 + - + +
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Residues in contact with GLU 598 (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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406A LYS* 5.6 1.6 + - - -
594A LYS* 2.9 59.5 + - + +
595A LEU* 4.3 1.3 - - - +
597A MET* 1.3 79.2 - - + +
599A PHE* 1.3 60.9 + - - +
601A GLU* 3.8 16.0 - - - +
602A ARG* 2.8 63.7 + - - +
611A PHE* 4.0 5.4 - - + -
616A ILE* 3.7 23.3 - - + -
617A LEU* 6.0 0.7 - - + -
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Residues in contact with PHE 599 (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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484A ALA* 4.7 3.1 - - + -
485A GLY 3.8 9.4 - - - -
486A ILE* 3.8 18.4 - - + -
537A PRO 4.0 12.3 - - - -
538A LEU 3.8 5.2 - - - -
539A LEU* 3.6 46.0 - - + -
569A TYR* 3.6 30.3 - + - -
595A LEU 3.1 17.2 + - - +
596A PHE 4.1 3.4 - - - +
598A GLU* 1.3 76.3 - - - +
600A PHE* 1.3 58.0 + + - +
602A ARG 3.1 0.5 + - - -
603A LYS* 2.6 68.2 + - + +
611A PHE* 3.5 30.6 - + + -
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Residues in contact with PHE 600 (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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381A ILE* 3.6 35.0 - - + -
403A MET* 4.2 8.7 - - + -
408A TYR* 3.2 11.7 + - + +
461A GLY* 4.4 11.0 - - - -
462A ILE 4.1 7.2 - - - -
463A THR* 4.0 11.0 - - - -
484A ALA* 4.5 14.6 - - + -
486A ILE* 3.4 36.8 - - + -
596A PHE* 3.5 31.9 + + - +
597A MET 3.4 7.3 + - - +
598A GLU 3.4 0.2 - - - -
599A PHE* 1.3 80.2 - + - +
601A GLU* 1.3 63.8 + - - +
604A LEU* 3.0 54.3 + - + +
605A LYS 3.2 4.7 + - - -
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Residues in contact with GLU 601 (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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403A MET* 5.3 0.2 - - + -
406A LYS* 4.0 24.7 + - - -
408A TYR* 2.8 30.1 + - + +
597A MET 3.0 22.3 + - - +
598A GLU* 3.4 26.9 - - - +
600A PHE* 1.3 79.3 - - - +
602A ARG* 1.3 60.7 + - + +
605A LYS* 3.0 33.9 + - - +
606A LYS* 3.5 23.9 + - - +
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Residues in contact with ARG 602 (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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598A GLU* 2.8 42.5 + - - +
599A PHE 4.2 0.7 - - - +
601A GLU* 1.3 81.4 - - + +
603A LYS* 1.3 63.3 + - + +
606A LYS 3.1 19.7 - - - +
607A TYR* 3.2 0.2 - - - -
608A GLU* 2.9 60.2 + - + +
611A PHE* 4.0 11.7 - - + -
616A ILE* 3.7 46.9 + - - +
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Residues in contact with LYS 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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483A LYS* 3.9 9.9 - - - +
484A ALA* 3.8 17.3 - - + +
537A PRO* 4.3 6.7 - - + -
567A GLU* 2.8 25.7 + - - +
569A TYR* 3.5 9.0 + - - -
599A PHE* 2.6 55.3 + - + +
602A ARG* 1.3 84.0 - - + +
604A LEU* 1.3 57.8 + - - +
607A TYR* 3.6 33.8 + - + +
608A GLU 2.8 22.8 + - - -
610A GLY 3.0 28.0 + - - +
611A PHE* 4.3 12.8 - - - -
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Residues in contact with LEU 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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379A PRO* 4.5 2.9 - - + -
380A VAL 3.7 20.4 - - - +
381A ILE* 4.0 5.4 - - + -
408A TYR* 3.9 19.7 - - + -
459A ARG* 3.2 28.7 - - + +
460A ILE 3.5 17.5 - - - +
461A GLY* 3.3 26.9 - - - +
483A LYS* 4.2 9.9 - - + +
484A ALA* 4.2 10.3 - - + -
600A PHE* 3.0 38.2 + - + +
602A ARG 3.7 1.0 - - - -
603A LYS* 1.3 79.7 - - - +
605A LYS* 1.3 70.5 + - - +
606A LYS* 3.5 1.9 - - - +
607A TYR* 4.9 1.3 + - - +
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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