Contacts of the helix formed by residues 426 - 444 (chain A) in PDB entry 4OWW
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 HIS 426 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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422A SER* 2.8 26.9 + - - +
425A PRO* 1.3 96.4 + - + +
427A PRO* 1.3 66.6 - - - +
428A ALA* 3.1 3.8 - - + -
429A ILE* 3.1 37.0 + - + +
430A THR 3.7 0.2 + - - -
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Residues in contact with PRO 427 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
422A SER 3.4 1.3 - - - +
423A MET* 3.3 40.0 - - + +
424A LYS 4.0 0.9 - - - +
425A PRO 3.6 7.4 - - - +
426A HIS* 1.3 84.7 - - - +
428A ALA* 1.3 60.0 + - + +
429A ILE 3.2 0.4 - - - -
430A THR* 3.4 3.6 + - - +
431A ALA* 3.0 29.5 + - - +
480A LYS* 3.8 23.6 - - + +
481A LEU* 5.1 0.2 - - - +
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Residues in contact with ALA 428 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
426A HIS* 3.1 2.7 + - + +
427A PRO* 1.3 80.2 - - + +
429A ILE* 1.3 61.7 + - + +
431A ALA* 3.7 5.7 - - - +
432A THR* 2.9 32.2 + - - +
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Residues in contact with ILE 429 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
376A GLY* 5.9 2.5 - - - +
379A LEU* 4.7 15.5 - - + -
380A THR* 4.8 20.0 - - + -
418A VAL* 3.9 19.7 - - + -
422A SER* 3.8 19.3 - - - +
426A HIS* 3.1 29.1 + - + +
428A ALA* 1.3 77.8 - - + +
430A THR* 1.3 66.3 + - - +
432A THR* 3.1 27.0 - - + +
433A LEU* 3.1 16.9 + - + +
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Residues in contact with THR 430 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
419A MET* 2.6 41.7 + - + +
422A SER* 3.4 4.5 - - - -
423A MET* 3.1 35.0 + - + -
426A HIS 3.7 0.8 + - - -
427A PRO 3.4 8.2 + - - -
428A ALA 3.4 0.2 - - - -
429A ILE* 1.3 77.9 - - - +
431A ALA* 1.3 58.9 + - - +
433A LEU* 3.4 1.7 + - - +
434A LEU* 2.9 49.0 + - + +
475A LEU* 3.9 13.7 - - + -
481A LEU* 4.6 0.2 - - + -
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Residues in contact with ALA 431 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
427A PRO 3.0 18.2 + - - +
428A ALA* 3.7 6.5 - - - +
429A ILE 3.2 0.2 - - - -
430A THR* 1.3 77.6 - - - +
432A THR* 1.3 56.6 + - - +
435A ASP* 2.9 31.4 + - - +
481A LEU* 4.3 9.6 - - + -
482A ASP 6.1 0.4 - - - +
485A LEU* 3.6 27.2 - - + +
90C PHE* 4.1 18.1 - - + +
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Residues in contact with THR 432 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
379A LEU* 6.4 0.9 - - + -
392A LYS* 3.1 35.7 + - - +
428A ALA 2.9 16.9 + - - +
429A ILE* 3.1 29.6 - - + +
431A ALA* 1.3 75.7 - - - +
433A LEU* 1.3 63.1 + - + +
436A PHE* 2.9 13.0 + - - +
90C PHE* 2.7 29.0 + - - +
91C GLY* 4.1 0.9 + - - -
92C ASN* 2.8 25.0 + - - +
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Residues in contact with LEU 433 (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 LEU* 4.3 9.4 - - + -
392A LYS* 3.9 28.0 - - + -
395A LEU* 4.2 20.0 - - + -
396A PHE* 3.6 22.1 - - + -
415A ALA 4.6 0.9 - - - +
418A VAL* 3.5 32.3 - - + -
419A MET* 3.6 28.3 - - + -
429A ILE* 3.1 24.0 + - + +
432A THR* 1.3 82.2 - - + +
434A LEU* 1.3 60.3 - - - +
436A PHE* 3.3 3.1 + - - +
437A MET* 2.9 30.1 + - - +
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Residues in contact with LEU 434 (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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419A MET* 3.6 20.9 - - - -
430A THR* 2.9 35.6 + - + +
431A ALA 3.9 3.1 - - - +
433A LEU* 1.3 77.2 - - - +
435A ASP* 1.3 60.6 + - - +
437A MET* 3.4 15.8 + - + +
438A CYS* 3.3 27.9 + - - -
475A LEU* 4.5 10.1 - - + +
476A PHE* 3.5 32.3 - - + -
481A LEU* 3.6 34.8 - - + -
485A LEU* 4.2 12.6 - - + -
489A LEU* 4.0 9.2 - - + -
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Residues in contact with ASP 435 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
431A ALA 2.9 18.4 + - - +
434A LEU* 1.3 74.3 - - - +
436A PHE* 1.3 64.8 + - - +
438A CYS* 3.5 2.6 + - - +
439A ARG* 2.9 49.2 + - - +
484A GLU* 5.6 0.2 - - - +
485A LEU* 3.9 9.3 - - + +
488A MET* 3.9 12.9 - - - +
88C SER* 2.6 31.0 + - - -
90C PHE* 3.7 25.7 - - + +
92C ASN* 2.9 17.5 + - - +
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Residues in contact with PHE 436 (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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389A SER* 4.1 3.8 - - - -
392A LYS* 3.8 19.5 - - + -
393A LEU* 3.5 31.6 - - + -
396A PHE* 3.5 32.5 - + + -
432A THR 2.9 19.1 + - - +
433A LEU* 3.6 8.1 - - - +
434A LEU 3.3 0.2 - - - -
435A ASP* 1.3 75.1 - - - +
437A MET* 1.3 58.9 + - - +
439A ARG* 3.1 4.9 + - - +
440A ILE* 2.9 60.8 + - + +
92C ASN* 3.3 19.9 - - - +
95C LEU* 3.5 26.9 - - + -
96C PRO* 4.0 12.8 - - + -
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Residues in contact with MET 437 (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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396A PHE* 4.0 20.9 - - + -
399A TRP* 4.1 22.7 - - + -
419A MET* 4.7 9.2 - - - -
433A LEU 2.9 17.3 + - - +
434A LEU* 3.5 12.3 - - + +
436A PHE* 1.3 80.8 - - - +
438A CYS* 1.3 63.2 + - - +
440A ILE* 3.3 22.3 - - + +
441A ILE* 3.3 13.3 - - - +
456A VAL* 4.0 21.5 - - + -
460A LEU* 4.6 6.3 - - + -
476A PHE* 3.9 16.4 - - + -
489A LEU* 3.9 21.3 - - + -
493A PHE* 3.7 24.9 - - + -
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Residues in contact with CYS 438 (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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434A LEU 3.3 10.8 + - - -
435A ASP 4.0 2.5 - - - +
436A PHE 3.3 0.2 - - - -
437A MET* 1.3 80.6 - - - +
439A ARG* 1.3 62.6 + - - +
441A ILE* 3.6 4.1 + - - +
442A PRO* 3.3 18.0 - - - +
485A LEU* 5.5 0.4 - - - -
488A MET* 3.9 35.4 - - + +
489A LEU* 3.5 35.2 - - - -
492A LYS* 3.3 35.2 + - + +
493A PHE* 4.2 9.6 - - - -
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Residues in contact with ARG 439 (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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435A ASP* 2.9 44.1 + - - +
436A PHE 3.9 2.2 - - - +
438A CYS* 1.3 74.4 - - - +
440A ILE* 1.3 66.1 + - - +
441A ILE 3.1 2.8 + - - -
442A PRO* 3.3 5.6 - - - +
443A ASN* 2.8 28.6 + - - +
484A GLU* 4.7 10.5 + - - -
488A MET* 3.8 22.4 - - + +
86C GLN* 2.9 43.9 + - - +
87C ASP* 3.1 41.3 + - - -
88C SER* 3.6 14.5 - - - +
89C ALA 4.8 0.2 - - - +
90C PHE* 6.0 0.2 - - - -
92C ASN* 4.7 5.4 - - - -
95C LEU* 3.7 11.9 - - + -
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Residues in contact with ILE 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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393A LEU* 4.0 12.6 - - + -
396A PHE* 5.8 2.2 - - + -
400A LEU* 4.0 22.2 - - + -
436A PHE* 2.9 47.2 + - + +
437A MET* 3.3 19.7 - - + +
439A ARG* 1.3 77.1 - - - +
441A ILE* 1.3 65.0 + - + +
444A PHE* 2.9 46.9 + - + +
452A VAL* 4.4 1.1 - - - +
456A VAL* 5.4 2.0 - - + -
95C LEU* 4.1 9.6 - - + +
96C PRO 3.7 22.9 - - - +
97C VAL* 4.3 8.7 - - + -
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Residues in contact with ILE 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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437A MET 3.3 17.5 - - - +
438A CYS 3.8 3.1 - - - +
439A ARG 3.1 1.2 - - - -
440A ILE* 1.3 79.9 - - + +
442A PRO* 1.3 67.7 - - + +
444A PHE* 4.5 1.2 + - - +
445A TYR 5.3 1.0 + - - -
449A GLU* 3.8 12.3 - - + +
452A VAL* 3.7 21.2 - - + +
453A ARG* 3.8 51.4 - - + +
456A VAL* 3.8 27.8 - - + -
492A LYS* 4.3 9.9 - - - +
493A PHE* 3.5 33.9 - - + -
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Residues in contact with PRO 442 (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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438A CYS 3.3 16.6 - - - +
439A ARG* 3.3 10.3 - - - +
441A ILE* 1.3 92.8 - - + +
443A ASN* 1.3 66.7 + - - +
444A PHE 3.8 0.2 - - - -
445A TYR 5.1 0.2 - - - -
446A PRO* 3.5 31.4 - - - +
449A GLU* 3.4 31.9 - - + +
492A LYS* 3.7 13.5 - - - +
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Residues in contact with ASN 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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439A ARG* 2.8 24.7 + - - +
440A ILE 3.2 2.2 + - - +
442A PRO* 1.3 90.1 - - - +
444A PHE* 1.3 67.7 + - - +
445A TYR 3.3 2.3 + - - -
446A PRO* 3.7 3.7 - - - +
84C ILE* 3.3 21.6 - - + +
86C GLN* 3.4 25.7 + - - +
95C LEU* 4.0 8.7 - - + -
97C VAL* 3.3 8.6 - - + +
100C ARG* 2.8 40.0 + - - +
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Residues in contact with PHE 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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259A GLN* 3.7 20.2 - - - -
292A LEU* 4.0 11.0 - - + -
393A LEU* 4.2 12.6 - - + -
397A TYR* 3.6 23.3 - + - -
400A LEU* 3.8 28.9 - - + -
401A PHE* 4.0 25.8 - + - -
440A ILE* 2.9 31.3 + - + +
441A ILE 5.1 0.2 - - - +
442A PRO 3.8 0.2 - - - -
443A ASN* 1.3 72.5 - - - +
445A TYR* 1.3 68.3 + - + +
446A PRO* 4.4 0.2 - - - +
452A VAL* 4.4 12.3 - - + -
96C PRO 4.5 4.9 - - - -
97C VAL* 3.6 10.2 - - - +
98C LEU* 3.0 56.7 + - + +
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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