Contacts of the strand formed by residues 436 - 457 (chain A) in PDB entry 1PO3
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 TYR 436 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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418A MET* 5.2 5.2 - - + -
419A ARG 3.0 18.8 - - - +
420A TYR* 3.7 31.6 - + + -
421A TYR* 3.6 3.2 + - - -
434A SER 3.3 2.6 + - - -
435A PRO* 1.3 75.1 - - + +
437A ASP* 1.3 58.0 + - - +
438A ARG 4.2 4.9 - - - +
439A ASP* 3.8 29.2 + - + -
479A ILE* 3.3 34.6 - - + +
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Residues in contact with ASP 437 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
374A ARG* 4.2 8.1 + - - +
419A ARG* 2.5 63.5 + - - +
421A TYR* 3.5 23.4 - - + +
436A TYR* 1.3 71.9 - - - +
438A ARG* 1.3 60.6 + - - +
479A ILE* 4.9 8.4 - - - +
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Residues in contact with ARG 438 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
380A ARG* 3.7 16.8 - - - +
417A GLU* 4.8 6.7 - - - +
418A MET* 2.8 11.5 - - - +
419A ARG* 2.8 65.2 + - + +
436A TYR* 3.4 6.0 + - - -
437A ASP* 1.3 83.9 - - - +
439A ASP* 1.3 62.8 + - - +
440A THR* 4.5 16.6 - - + -
477A ASN* 6.2 1.6 - - - +
479A ILE* 4.7 3.3 - - - +
573A ASP* 2.8 38.1 + - - -
742A FLC 2.9 36.6 + - - -
743A FLC 4.8 4.4 + - - -
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Residues in contact with ASP 439 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
416A HIS* 3.5 15.9 + - - -
417A GLU 3.6 3.6 - - - -
418A MET* 3.7 22.7 - - + +
436A TYR* 3.8 29.9 + - + -
438A ARG* 1.3 75.7 - - - +
440A THR* 1.3 68.2 + - - +
441A ARG* 4.2 6.8 + - - -
477A ASN* 4.0 7.2 + - - +
478A ALA* 3.0 41.6 + - + +
479A ILE* 4.1 8.0 + - + +
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Residues in contact with THR 440 (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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416A HIS* 2.9 25.1 - - - -
417A GLU* 3.0 46.6 + - + +
438A ARG* 4.5 12.8 - - + -
439A ASP* 1.3 79.8 + - - +
441A ARG* 1.3 82.8 + - - +
475A GLN* 2.5 32.8 + - - +
476A ASN 3.3 11.6 + - - -
477A ASN* 4.4 6.1 - - - +
478A ALA* 4.5 0.4 - - - +
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Residues in contact with ARG 441 (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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415A THR 3.3 15.3 - - - +
416A HIS* 3.9 30.1 + - + -
417A GLU* 4.4 0.2 - - - -
439A ASP* 4.2 13.5 + - - -
440A THR* 1.3 84.1 + - - +
442A SER* 1.3 58.6 + - - +
474A TYR* 3.8 8.8 - - + +
475A GLN 3.6 0.3 - - - -
476A ASN* 2.7 45.1 + - + +
478A ALA* 4.5 13.9 - - - +
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Residues in contact with SER 442 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
414A SER* 3.9 0.3 - - - -
415A THR* 3.1 33.8 + - - +
417A GLU* 3.8 2.8 + - - -
440A THR* 3.8 1.4 + - - -
441A ARG* 1.3 75.2 - - - +
443A GLY* 1.3 59.2 + - - +
474A TYR* 3.1 22.0 + - - -
475A GLN* 3.3 26.4 + - - +
520A TYR* 3.2 46.5 - - - +
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Residues in contact with GLY 443 (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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413A GLU 3.1 13.7 - - - -
414A SER* 4.3 0.9 - - - -
442A SER* 1.3 79.8 - - - +
444A THR* 1.3 69.9 + - - -
473A SER* 3.1 0.7 - - - -
474A TYR* 2.7 51.4 + - - -
520A TYR* 3.1 6.7 - - - -
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Residues in contact with THR 444 (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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174A TYR* 4.1 15.7 - - + -
175A GLY 4.6 0.9 + - - -
411A LEU 4.0 0.4 - - - +
412A ASN* 3.3 11.2 + - - +
413A GLU* 2.9 39.4 + - + -
443A GLY* 1.3 76.3 + - - -
445A GLU* 1.3 68.3 + - - +
446A ALA 4.2 1.8 - - - +
471A ILE* 3.8 17.5 - - + -
472A GLU 3.1 8.7 - - - +
473A SER* 3.1 21.9 + - - +
474A TYR* 4.2 4.1 - - - -
520A TYR* 2.4 33.6 + - - -
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Residues in contact with GLU 445 (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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410A TYR* 3.4 36.6 + - + +
411A LEU 3.6 3.4 - - - -
412A ASN* 4.3 7.9 - - - +
444A THR* 1.3 74.3 - - - +
446A ALA* 1.3 59.0 + - - +
447A HIS* 3.9 19.5 + - + +
470A HIS 3.5 3.8 - - - +
472A GLU* 2.9 46.2 + - + +
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Residues in contact with ALA 446 (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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174A TYR* 3.1 52.5 + - + +
409A ARG 3.3 7.8 - - - +
410A TYR* 3.5 2.5 - - - -
411A LEU* 3.0 33.0 + - - +
444A THR* 4.2 1.1 - - + -
445A GLU* 1.3 76.4 - - - +
447A HIS* 1.3 62.8 + - - +
448A ALA 4.0 0.2 - - - -
469A GLU* 4.5 0.2 - - - +
470A HIS 3.5 2.7 - - - -
471A ILE* 3.9 11.4 - - + -
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Residues in contact with HIS 447 (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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408A TYR* 2.9 24.5 + - + +
409A ARG 3.9 2.2 - - - -
410A TYR* 3.3 28.9 - + - -
445A GLU* 3.9 25.5 + - + +
446A ALA* 1.3 73.7 - - - +
448A ALA* 1.3 59.9 + - - +
449A TRP* 3.8 21.5 + + + +
468A PHE 3.6 1.4 - - - +
469A GLU* 3.2 3.1 - - - -
470A HIS* 2.7 64.2 + + + -
472A GLU* 5.6 1.1 - - - -
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Residues in contact with ALA 448 (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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174A TYR* 4.6 4.0 - - - +
408A TYR* 2.8 24.2 - - - -
409A ARG* 3.1 28.4 + - + +
446A ALA 3.9 0.2 + - - -
447A HIS* 1.3 73.4 - - - +
449A TRP* 1.3 64.3 + - - +
450A TYR* 4.6 2.0 - - + -
467A ARG* 3.3 23.3 - - - +
468A PHE 3.1 4.3 - - - -
469A GLU* 3.3 26.2 - - + +
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Residues in contact with TRP 449 (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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407A GLY 3.5 7.6 - - - +
408A TYR* 3.6 44.6 - + + -
447A HIS* 3.8 23.5 + + + +
448A ALA* 1.3 74.7 - - - +
450A TYR* 1.3 61.7 + - - +
466A MET 4.1 0.4 - - - +
467A ARG* 3.2 3.5 - - - +
468A PHE* 2.5 77.9 + + + +
470A HIS* 5.3 1.4 - - - +
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Residues in contact with TYR 450 (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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201A VAL* 2.7 36.1 - - + +
202A ARG* 3.4 33.7 - - + -
388A GLU* 2.9 34.4 + - - +
390A ARG* 4.0 9.4 - - + -
405A GLY 5.7 1.1 - - - -
406A VAL* 3.6 6.1 - - - +
407A GLY* 2.9 66.8 + - - +
408A TYR 3.8 11.4 + - - -
409A ARG* 4.3 6.5 - - + -
448A ALA 4.6 0.4 - - - -
449A TRP* 1.3 82.2 - - - +
451A LEU* 1.3 63.3 + - - +
452A ASP* 5.9 1.1 - - - -
466A MET 3.4 5.2 - - - -
467A ARG* 3.7 24.7 - - + -
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Residues in contact with LEU 451 (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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201A VAL* 4.6 1.9 + - - -
404A VAL* 4.2 17.0 - - + -
405A GLY 3.2 18.2 - - - +
406A VAL* 3.8 22.7 - - + -
450A TYR* 1.3 76.4 - - - +
452A ASP* 1.3 64.4 + - - +
464A PRO 4.3 0.2 - - - +
465A GLY* 3.2 1.9 - - - -
466A MET* 2.8 41.2 + - + +
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Residues in contact with ASP 452 (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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200A ALA* 2.6 33.1 - - - +
201A VAL* 4.7 2.5 - - + +
202A ARG* 5.6 0.7 - - - +
403A GLU 4.5 2.3 - - - +
404A VAL* 3.5 4.2 - - - +
405A GLY* 2.8 38.5 + - - +
450A TYR* 5.9 1.1 - - - -
451A LEU* 1.3 78.9 - - - +
453A ASP* 1.3 64.2 + - - +
454A LYS 4.9 0.2 + - - -
463A THR* 4.1 17.2 - - + +
464A PRO 3.6 7.2 - - - -
465A GLY* 3.8 12.3 - - - -
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Residues in contact with ASP 453 (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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402A HIS* 3.3 14.7 + - - +
403A GLU 3.4 9.6 + - - -
404A VAL* 3.0 37.1 + - + +
452A ASP* 1.3 79.3 - - - +
454A LYS* 1.3 65.8 + - - +
455A ILE* 2.6 37.6 + - + +
463A THR* 3.5 3.1 - - - +
464A PRO* 3.2 28.4 + - + +
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Residues in contact with LYS 454 (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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95A ASN* 5.9 1.2 + - - -
401A ALA 3.4 1.6 - - - +
402A HIS* 3.3 4.5 - - - -
403A GLU* 2.8 75.7 + - + +
452A ASP* 4.1 1.0 + - - -
453A ASP* 1.3 70.7 - - - +
455A ILE* 1.3 60.4 + - - +
456A ASP* 4.0 18.7 + - - +
461A THR* 3.7 18.8 - - + -
463A THR* 3.4 27.8 - - + +
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Residues in contact with ILE 455 (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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400A SER* 4.1 5.6 - - - -
401A ALA 3.2 1.1 - - - -
402A HIS* 3.2 39.3 - - + +
453A ASP* 2.6 48.5 - - - +
454A LYS* 1.3 73.0 - - - +
456A ASP* 1.3 72.3 + - - +
457A ILE* 4.8 8.8 - - + +
460A TRP 3.6 0.5 - - - +
461A THR* 3.0 7.3 - - - +
462A ILE* 2.8 51.1 + - + +
464A PRO* 4.2 8.5 - - + -
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Residues in contact with ASP 456 (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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399A PRO 4.0 0.4 - - - +
400A SER* 3.1 7.8 - - - -
401A ALA* 2.7 52.4 + - + +
403A GLU* 5.9 0.3 - - - +
454A LYS* 4.0 20.5 - - - +
455A ILE* 1.3 75.4 - - - +
457A ILE* 1.3 65.8 + - - +
460A TRP 3.3 2.9 - - - +
461A THR* 3.2 27.9 + - - +
500A HIS* 5.5 0.2 - - - -
620B LYS* 5.3 3.8 - - + +
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Residues in contact with ILE 457 (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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399A PRO* 3.2 42.6 - - + +
400A SER* 4.3 7.4 - - - +
455A ILE* 4.8 9.4 - - + +
456A ASP* 1.3 77.9 - - - +
458A GLY* 1.3 59.5 + - - +
459A ASN 3.1 0.2 + - - -
460A TRP* 2.7 61.0 + - + +
462A ILE* 5.5 8.1 - - + -
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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