Contacts of the helix formed by residues 448 - 468 (chain A) in PDB entry 4BSN
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 THR 448 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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447A ASP* 1.3 85.4 - - + +
449A ASP* 1.3 61.2 + - - +
450A SER 3.3 2.5 - - - -
451A ILE* 3.7 16.6 - - + -
452A ASN* 2.8 41.5 + - - +
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Residues in contact with ASP 449 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
363A THR* 4.6 16.6 - - - +
367A LYS* 3.5 24.2 + - - +
447A ASP* 2.8 19.3 + - - +
448A THR* 1.3 79.8 + - - +
450A SER* 1.3 60.4 + - - +
451A ILE 3.6 0.2 + - - -
452A ASN* 4.6 2.6 - - - +
453A LEU* 3.8 18.2 + - - +
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Residues in contact with SER 450 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
425A ALA* 4.4 8.7 - - - +
426A LYS* 4.3 7.7 - - - +
445A MET* 4.7 16.7 - - - +
446A LYS 4.6 8.7 + - - -
447A ASP* 4.5 1.0 + - - -
449A ASP* 1.3 79.4 - - - +
451A ILE* 1.3 71.6 + - - +
453A LEU* 4.0 8.9 - - - +
454A TYR* 3.7 17.5 + - - +
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Residues in contact with ILE 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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426A LYS 5.0 3.6 - - - +
428A GLU* 3.3 55.9 - - + +
445A MET 6.0 1.1 - - - +
447A ASP 3.7 21.8 - - - +
448A THR* 3.2 15.0 + - + +
450A SER* 1.3 86.3 - - - +
452A ASN* 1.3 67.2 + - - +
453A LEU 3.1 1.6 - - - -
454A TYR* 3.0 19.7 + - + +
455A LYS* 3.1 13.8 + - + +
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Residues in contact with ASN 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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448A THR* 2.8 27.6 + - - +
449A ASP* 4.6 2.9 - - - +
451A ILE* 1.3 74.7 - - - +
453A LEU* 1.3 61.3 + - - +
455A LYS* 3.5 15.9 + - - +
456A ASN* 3.2 27.9 + - - +
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Residues in contact with LEU 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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363A THR* 6.1 1.6 - - + +
366A PHE* 5.0 14.4 - - + -
367A LYS* 4.9 26.7 - - + -
370A LEU* 3.8 29.6 - - + -
425A ALA* 4.2 19.5 - - + -
449A ASP 3.8 18.1 + - - +
450A SER* 4.0 7.9 - - - +
451A ILE 3.1 0.2 - - - -
452A ASN* 1.3 78.3 - - - +
454A TYR* 1.3 63.0 + - - +
456A ASN* 3.0 8.4 + - + +
457A MET* 3.0 35.9 + - + +
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Residues in contact with TYR 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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424A MET* 3.7 28.0 - - + -
425A ALA* 3.2 26.7 - - + -
426A LYS 3.8 14.6 - - - +
427A PRO* 3.6 33.9 - - + +
428A GLU* 4.6 9.2 - - + -
429A GLU* 5.4 3.6 - - - -
450A SER 3.7 6.8 + - - +
451A ILE* 3.0 14.5 + - + +
453A LEU* 1.3 81.2 - - - +
455A LYS* 1.3 62.2 + - + +
457A MET* 3.5 6.8 + - - +
458A ARG* 3.0 47.3 + - + +
499A TRP 4.5 0.9 - - - -
503A SER* 4.6 3.3 - - - -
546A TYR* 2.1 36.5 + - - -
550A GLN* 4.8 3.1 + - - -
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Residues in contact with LYS 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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451A ILE* 3.1 13.6 + - + +
452A ASN* 3.8 18.8 - - - +
453A LEU 3.2 0.4 - - - -
454A TYR* 1.3 84.2 - - + +
456A ASN* 1.3 56.7 + - - +
458A ARG* 3.3 27.2 - - - +
459A GLU* 3.0 30.7 + - + +
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Residues in contact with ASN 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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367A LYS* 6.2 1.8 - - - +
370A LEU* 3.7 20.8 - - + +
371A GLU* 4.1 19.8 + - - -
374A ASN* 3.0 31.9 - - - +
452A ASN* 3.2 18.8 + - - +
453A LEU* 3.0 11.9 + - - +
455A LYS* 1.3 76.3 - - - +
457A MET* 1.3 63.2 + - - +
459A GLU* 3.3 10.1 + - - +
460A THR* 3.0 29.4 + - - -
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Residues in contact with MET 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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366A PHE* 3.6 29.6 - - + -
370A LEU* 3.5 19.5 - - + -
420A MET* 3.7 31.4 - - - +
423A ARG* 3.7 22.9 - - + +
424A MET* 3.6 31.8 - - + +
425A ALA 4.0 6.5 - - - -
453A LEU* 3.0 30.9 + - + +
454A TYR* 3.8 3.6 - - - +
456A ASN* 1.3 75.4 - - - +
458A ARG* 1.3 58.5 + - - +
460A THR* 3.8 2.4 - - - -
461A LEU* 2.9 32.6 + - - +
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Residues in contact with ARG 458 (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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424A MET* 3.5 10.5 - - + +
428A GLU* 5.7 2.4 + - - -
429A GLU* 5.7 1.6 + - - -
454A TYR* 3.0 35.8 + - + +
455A LYS* 3.3 26.1 - - - +
456A ASN 3.2 0.2 - - - -
457A MET* 1.3 77.6 - - - +
459A GLU* 1.3 58.4 + - - +
461A LEU* 3.4 2.1 + - - +
462A VAL* 3.0 37.8 + - + +
503A SER* 3.8 34.0 + - - +
505A SER* 5.7 4.8 + - - -
550A GLN* 5.6 10.7 + - - +
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Residues in contact with GLU 459 (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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374A ASN* 3.4 20.1 + - - +
378A ALA* 5.6 0.2 - - - +
455A LYS* 3.0 20.1 + - + +
456A ASN* 3.7 10.1 - - - +
458A ARG* 1.3 79.4 - - - +
460A THR* 1.3 61.6 + - - +
462A VAL* 3.2 9.5 + - + +
463A TYR* 3.1 60.4 + - + +
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Residues in contact with THR 460 (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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370A LEU* 4.7 4.3 - - - +
373A TRP* 3.5 27.4 - - + +
374A ASN* 3.2 24.4 + - - +
377A ALA* 4.0 2.9 - - + -
420A MET* 3.7 27.1 - - + -
456A ASN* 3.0 19.0 + - - -
457A MET* 3.8 4.9 - - - -
459A GLU* 1.3 76.2 - - - +
461A LEU* 1.3 57.3 + - - +
463A TYR* 3.3 12.2 + - - +
464A LEU* 3.1 42.1 + - + +
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Residues in contact with LEU 461 (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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417A ARG* 4.5 13.2 - - + +
420A MET* 3.8 28.0 - - + +
421A VAL* 4.2 19.7 - - + -
424A MET* 4.3 8.3 - - + -
457A MET 2.9 18.8 + - - +
458A ARG* 3.8 4.3 - - - +
460A THR* 1.3 74.8 - - - +
462A VAL* 1.3 56.9 + - - +
464A LEU* 4.4 7.6 - - + -
465A THR* 2.5 43.7 + - - +
472A THR* 5.7 2.0 - - + -
476A MET* 5.4 0.4 - - + -
500A ALA* 4.1 18.6 - - + -
503A SER* 3.8 21.1 - - - +
504A ILE* 3.6 18.4 - - + -
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Residues in contact with VAL 462 (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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458A ARG* 3.0 28.2 + - + +
459A GLU* 3.2 12.1 + - + +
461A LEU* 1.3 74.5 - - - +
463A TYR* 1.3 74.9 + - + +
465A THR* 3.2 6.3 + - - -
466A HIS* 3.0 48.8 + - + +
503A SER 3.3 23.1 - - - +
504A ILE* 4.9 7.9 - - - +
505A SER 5.4 3.8 - - - +
506A GLY 6.3 0.4 - - - -
507A ALA* 4.8 4.0 - - + -
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Residues in contact with TYR 463 (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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374A ASN* 4.3 4.9 - - - -
377A ALA* 3.7 22.7 - - + +
378A ALA* 3.7 33.4 - - + +
381A TYR* 3.6 41.1 - + + -
382A ARG* 5.3 3.3 + - - -
459A GLU* 3.1 53.5 + - + +
460A THR* 3.5 7.9 - - - +
462A VAL* 1.3 83.8 - - + +
464A LEU* 1.3 63.1 + - - +
466A HIS* 3.1 10.2 + - - +
467A LEU* 3.1 25.6 + - - +
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Residues in contact with LEU 464 (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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376A LEU* 4.7 3.4 - - + -
377A ALA* 3.7 17.7 - - + -
413A LEU* 4.4 13.0 - - + +
416A VAL* 3.6 42.0 - - + +
417A ARG* 2.9 39.6 + - + +
420A MET* 4.4 6.1 - - + -
460A THR* 3.1 31.3 + - + +
461A LEU* 3.9 9.0 - - + +
462A VAL 3.3 0.2 - - - -
463A TYR* 1.3 76.3 - - - +
465A THR* 1.3 59.6 + - - +
467A LEU* 3.3 33.8 - - + +
468A ASP 3.5 1.6 + - - -
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Residues in contact with THR 465 (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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387A SER* 3.9 0.9 + - - -
461A LEU* 2.5 26.3 + - - +
462A VAL* 3.5 5.4 - - - -
464A LEU* 1.3 74.3 - - - +
466A HIS* 1.3 65.4 + - - +
467A LEU 3.1 0.2 - - - -
468A ASP 3.2 21.0 - - - -
469A TYR* 3.3 6.8 + - - +
472A THR* 3.7 27.7 - - + +
504A ILE* 3.3 30.7 - - + +
507A ALA* 3.7 25.1 - - + +
508A MET* 4.5 11.7 - - + -
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Residues in contact with HIS 466 (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 TYR* 4.0 33.0 + + + -
385A PRO* 3.3 28.0 - - + +
387A SER* 2.5 24.5 + - - -
406A ARG* 3.8 1.0 + - - -
462A VAL* 3.0 34.7 + - + +
463A TYR* 3.1 10.1 + - - +
465A THR* 1.3 73.8 - - - +
467A LEU* 1.3 58.8 + - - +
506A GLY 4.1 6.5 + - - -
507A ALA* 3.4 40.1 + - + +
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Residues in contact with LEU 467 (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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377A ALA 5.1 0.2 - - - +
380A LEU* 3.6 43.3 - - + +
381A TYR* 4.1 9.2 - - + -
384A SER 4.3 0.7 - - - +
387A SER* 3.2 8.7 - - - -
388A THR 3.4 0.9 + - - +
406A ARG* 3.0 52.8 + - - +
413A LEU* 4.0 20.4 - - + -
417A ARG* 3.8 9.9 - - - +
463A TYR 3.1 17.3 + - - +
464A LEU* 3.3 35.7 - - + +
465A THR 3.1 0.2 - - - -
466A HIS* 1.3 79.0 - - - +
468A ASP* 1.3 62.4 + - - +
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Residues in contact with ASP 468 (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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387A SER* 3.6 6.6 - - - -
388A THR 2.9 26.9 - - - +
389A SER 3.8 5.5 + - - +
417A ARG* 3.6 19.5 + - - +
464A LEU 3.5 4.0 + - - +
465A THR 3.2 4.8 + - - +
467A LEU* 1.3 82.9 - - - +
469A TYR* 1.3 61.9 + - - +
470A VAL* 3.1 26.0 + - - +
471A ASP* 4.0 16.2 + - + +
472A THR* 2.9 24.3 + - - -
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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
------------------------------------------------------------
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