Contacts of the helix formed by residues 577 - 596 (chain A) in PDB entry 6T2C
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 577 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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418A ILE* 4.0 21.8 - - - +
454A ILE* 4.2 19.7 - - + +
455A MET* 4.9 11.5 - - - +
458A VAL* 4.4 20.4 - - + +
459A TYR* 5.3 0.2 - - - -
574A MET 5.6 2.3 + - - +
575A GLU* 3.2 3.2 - - - -
576A MET* 1.3 74.5 - - - +
578A ARG* 1.3 58.9 + - + +
579A CYS 3.1 0.2 - - - -
580A LEU* 3.0 32.3 + - + +
581A LEU 3.4 3.5 + - - -
550B LEU* 3.6 36.7 - - + +
553B LYS* 4.2 21.2 - - - +
554B ASP* 5.4 5.5 - - - +
33V C 2.6 58.9 + - - -
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Residues in contact with ARG 578 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
571A LYS* 6.0 0.2 - - - +
572A TRP* 3.3 34.7 - - - -
575A GLU* 3.1 49.2 + - + +
576A MET 3.1 0.4 - - - -
577A ARG* 1.3 74.4 - - + +
579A CYS* 1.3 53.4 + - - +
581A LEU* 3.0 14.5 + - + +
582A GLN* 2.8 36.2 + - - +
24B TYR 4.8 6.2 + - - -
25B THR* 4.3 15.9 - - + +
508B GLU* 3.7 16.0 + - - +
509B LEU* 2.8 29.8 + - + +
510B PRO* 3.4 3.6 + - - +
511B SER* 3.1 33.5 - - - +
512B PHE 5.8 0.9 - - - +
550B LEU* 4.7 3.3 - - + +
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Residues in contact with CYS 579 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
454A ILE* 4.2 2.5 - - + -
576A MET* 3.0 23.9 + - - +
578A ARG* 1.3 76.2 - - - +
580A LEU* 1.3 62.8 + - - +
582A GLN* 3.1 11.0 + - - +
583A SER* 3.2 18.7 + - - -
636A LEU* 3.9 4.9 - - + +
639A SER* 3.3 43.8 - - - -
640A VAL* 3.8 21.1 - - + -
643A SER* 3.9 15.5 - - - -
25B THR* 4.0 12.3 - - - -
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Residues in contact with LEU 580 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
418A ILE* 3.9 41.5 - - + -
420A PHE* 4.0 14.6 - - + -
441A PHE* 3.9 6.8 - - + -
445A VAL* 4.1 23.6 - - + -
451A SER* 4.9 4.0 - - - +
454A ILE* 3.9 27.6 - - + -
577A ARG* 3.0 17.7 + - + +
579A CYS* 1.3 77.5 - - - +
581A LEU* 1.3 61.0 + - - +
583A SER* 3.9 6.8 + - - -
584A LEU* 3.9 4.0 - - - +
636A LEU* 3.8 22.2 - - + -
546B MET* 3.3 23.9 - - - +
550B LEU* 5.3 2.2 - - + -
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Residues in contact with LEU 581 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
577A ARG 3.4 2.2 + - - -
578A ARG* 3.0 19.5 + - + +
580A LEU* 1.3 79.2 - - - +
582A GLN* 1.3 65.3 + - - +
584A LEU* 3.0 17.3 + - - +
585A GLN* 3.0 11.9 + - - +
509B LEU* 4.0 18.2 - - + -
510B PRO 5.1 0.9 - - - +
512B PHE* 3.6 36.6 - - + -
543B THR* 3.6 22.9 - - + +
546B MET* 3.8 18.4 - - + +
547B ALA* 3.6 30.1 - - + +
550B LEU* 4.2 10.9 - - + +
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Residues in contact with GLN 582 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
578A ARG 2.8 19.0 + - - +
579A CYS 3.1 3.1 + - - +
581A LEU* 1.3 72.7 - - - +
583A SER* 1.3 57.5 + - - +
585A GLN* 3.0 14.6 + - - +
586A GLN* 2.9 43.1 + - + +
639A SER* 2.8 20.1 + - - +
19B SER 4.2 4.6 + - - +
22B PHE* 3.1 30.0 + - - +
23B PRO* 5.8 0.3 - - - +
24B TYR* 4.2 11.3 + - - +
25B THR* 3.3 24.9 + - + +
509B LEU* 4.5 18.4 - - + -
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Residues in contact with SER 583 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
441A PHE* 3.2 23.8 - - - -
579A CYS 3.2 15.5 + - - -
580A LEU 3.9 1.6 + - - -
582A GLN* 1.3 76.3 - - - +
584A LEU* 1.3 66.5 + - - +
586A GLN* 3.0 16.8 + - - +
587A VAL* 3.0 26.0 + - - +
635A LEU* 4.0 13.0 - - - -
636A LEU* 3.9 30.8 - - - +
639A SER* 4.4 2.4 + - - -
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Residues in contact with LEU 584 (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 ARG* 5.0 5.4 - - + +
438A ARG* 4.9 4.0 - - + -
441A PHE* 3.9 35.4 - - + -
580A LEU 3.9 8.3 - - - +
581A LEU 3.0 10.8 + - - +
583A SER* 1.3 81.0 + - - +
585A GLN* 1.3 56.8 + - - +
587A VAL* 3.0 6.4 + - + +
588A GLU* 2.8 45.6 + - + +
607A PHE* 6.5 0.7 - - + -
542B ALA* 3.5 37.7 - - + +
543B THR* 4.0 10.8 - - - +
546B MET* 3.8 29.6 - - + -
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Residues in contact with GLN 585 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
581A LEU 3.0 7.0 + - - +
582A GLN* 3.0 16.7 + - - +
584A LEU* 1.3 75.3 - - - +
586A GLN* 1.3 57.8 + - - +
588A GLU* 4.3 4.7 - - - +
589A SER* 3.3 20.6 - - - -
19B SER* 4.4 7.2 + - - -
504B ASN 5.7 1.2 + - - -
505B PHE* 4.8 20.2 - - - -
509B LEU* 3.8 25.3 - - + +
537B ASN 4.6 7.9 + - - -
538B ASP* 4.3 12.7 + - - +
539B LEU* 4.1 14.5 - - + +
540B GLY 5.1 2.2 - - - +
543B THR* 3.6 32.5 + - + +
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Residues in contact with GLN 586 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
582A GLN* 2.9 40.0 + - + +
583A SER* 3.0 8.9 + - - +
585A GLN* 1.3 77.5 - - - +
587A VAL* 1.3 64.5 + - - +
589A SER* 3.0 13.7 + - - -
590A MET* 3.1 19.7 + - + +
635A LEU* 3.7 37.1 - - + +
638A LYS* 6.1 0.2 - - - +
639A SER* 4.1 8.1 + - - -
16B ASN 5.4 0.2 - - - +
17B ALA* 5.9 1.2 - - + -
19B SER* 3.3 44.6 + - - +
20B THR* 3.7 21.1 + - + +
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Residues in contact with VAL 587 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
441A PHE* 4.9 6.5 - - + -
583A SER 3.0 19.3 + - - +
584A LEU* 3.9 7.4 - - + +
586A GLN* 1.3 73.3 - - - +
588A GLU* 1.3 65.1 + - - +
590A MET* 3.0 29.7 + - + +
591A ILE* 3.2 11.5 + - + +
606A PHE* 4.7 8.2 - - + -
607A PHE* 4.4 24.9 - - + -
628A ILE* 5.0 2.9 - - + -
631A VAL* 5.1 2.9 - - + -
632A CYS* 4.1 33.7 - - - -
635A LEU* 3.9 22.7 - - + -
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Residues in contact with GLU 588 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
437A ARG* 3.5 24.7 + - + +
584A LEU* 2.8 25.6 + - + +
585A GLN* 4.3 4.9 - - - +
587A VAL* 1.3 75.0 - - - +
589A SER* 1.3 62.2 + - - +
591A ILE* 3.0 24.6 + - + +
592A GLU* 3.1 16.4 + - + +
540B GLY* 3.5 17.1 + - - -
541B PRO* 3.1 12.2 - - - +
542B ALA* 2.7 33.8 + - + +
543B THR* 2.3 31.5 + - - -
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Residues in contact with SER 589 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
585A GLN* 3.3 18.9 + - - -
586A GLN* 3.0 12.7 + - - -
588A GLU* 1.3 79.1 + - - +
590A MET* 1.3 57.5 + - - +
592A GLU* 3.0 11.8 + - - +
593A ALA* 2.8 28.2 + - - +
16B ASN 4.1 11.1 + - - -
19B SER* 4.4 8.7 + - - -
501B PHE* 5.5 2.4 - - - -
505B PHE* 4.4 10.5 - - - -
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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
----------------------------------------------------------
586A GLN* 3.1 11.5 + - - +
587A VAL* 3.0 30.6 + - + +
589A SER* 1.3 75.3 - - - +
591A ILE* 1.3 58.5 + - - +
593A ALA* 3.0 10.8 + - - +
594A GLU* 2.9 28.2 + - - +
606A PHE* 4.6 15.0 - - + -
614A TRP* 4.1 32.5 - - + -
628A ILE* 5.4 1.3 - - + -
631A VAL* 4.9 10.8 - - + -
635A LEU* 4.9 6.5 - - + -
8B ILE* 5.0 4.0 - - + -
12B VAL* 4.5 11.9 - - + -
16B ASN* 4.4 13.0 + - + +
17B ALA* 3.8 31.2 - - + -
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Residues in contact with ILE 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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437A ARG* 3.9 37.5 - - + +
587A VAL 3.2 6.1 + - - +
588A GLU* 3.0 20.1 + - - +
590A MET* 1.3 75.7 - - - +
592A GLU* 1.3 57.8 + - - +
594A GLU* 3.0 7.8 + - - +
595A SER* 2.9 32.2 + - - +
602A MET* 4.0 22.7 - - - +
603A THR* 4.2 5.8 - - - +
606A PHE* 3.6 30.7 - - + -
607A PHE* 3.7 33.9 - - + -
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Residues in contact with GLU 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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437A ARG* 4.4 15.6 + - - +
588A GLU* 3.1 13.5 + - + +
589A SER* 3.0 11.3 + - - +
591A ILE* 1.3 76.2 - - - +
593A ALA* 1.3 58.4 + - - +
595A SER* 3.0 23.2 + - - +
596A ALA* 3.3 15.1 + - - +
501B PHE* 4.5 12.5 - - + -
538B ASP 5.3 1.4 - - - +
540B GLY* 5.3 4.5 - - - -
541B PRO* 4.2 11.3 - - - +
238C THR* 2.4 36.7 + - - +
239C CYS* 4.2 13.6 - - - -
240C TRP* 3.0 29.3 + - - -
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Residues in contact with ALA 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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589A SER* 2.8 14.3 + - - +
590A MET* 3.0 10.9 + - - +
592A GLU* 1.3 77.5 - - - +
594A GLU* 1.3 56.6 + - - +
595A SER 3.4 0.2 - - - -
596A ALA* 4.3 4.1 + - - +
597A VAL* 4.1 16.3 - - - +
16B ASN* 3.4 47.0 + - + +
501B PHE* 4.0 23.2 - - + -
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Residues in contact with GLU 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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590A MET 2.9 11.7 + - - +
591A ILE* 3.0 8.2 + - - +
593A ALA* 1.3 74.4 - - - +
595A SER* 1.3 61.1 + - - +
596A ALA 3.3 2.7 - - - -
597A VAL* 3.9 9.8 + - + +
598A LYS* 3.5 27.4 + - + +
602A MET* 3.3 41.1 - - + +
605A PRO 5.2 0.3 - - - +
606A PHE* 3.6 28.7 - - + -
11B LYS* 5.6 3.1 + - - -
16B ASN* 5.5 1.3 - - - +
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Residues in contact with SER 595 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
437A ARG* 5.2 3.1 + - - -
591A ILE* 2.9 20.8 + - - +
592A GLU* 3.0 11.2 + - - -
594A GLU* 1.3 78.1 - - - +
596A ALA* 1.3 57.3 + - - +
597A VAL 3.5 0.2 - - - -
599A GLU* 3.1 26.7 + - - +
600A LYS 3.3 23.8 + - - -
601A ASP* 4.6 1.0 - - - -
602A MET* 3.6 13.1 + - - +
135C PHE* 5.2 9.6 - - - +
136C TYR 4.7 3.6 - - - +
239C CYS* 4.3 17.0 - - - -
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Residues in contact with ALA 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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592A GLU 3.3 11.4 + - - +
593A ALA 4.3 3.3 + - - +
594A GLU 3.3 0.8 - - - -
595A SER* 1.3 79.6 - - - +
597A VAL* 1.3 63.9 + - + +
598A LYS 3.6 0.7 - - - -
599A GLU* 4.5 9.3 - - - +
501B PHE* 4.4 31.6 - - + -
136C TYR 4.9 8.5 - - - +
239C CYS* 4.8 9.6 - - + -
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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