Contacts of the helix formed by residues 414 - 437 (chain C) in PDB entry 1EJI
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 LEU 414 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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330C GLN* 3.3 32.5 - - + +
334C ASN* 3.3 10.3 - - - -
412C GLY 3.3 20.0 - - - +
413C LEU* 1.3 73.2 - - - +
415C GLU* 1.3 75.4 + - - +
416C GLU* 3.4 13.9 - - - +
417C ASP* 2.8 17.3 + - - +
418C PHE* 2.9 19.9 + - - -
11D ASP* 4.1 23.6 - - - +
15D TRP* 4.3 12.8 - - + +
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Residues in contact with GLU 415 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
330C GLN* 3.2 21.6 + - - +
333C ALA* 3.9 21.8 - - + +
334C ASN* 3.3 6.4 + - - +
337C ALA* 3.9 25.1 - - + +
414C LEU* 1.3 80.0 - - - +
416C GLU* 1.3 67.2 + - + +
418C PHE* 2.9 14.2 + - - +
419C GLN* 3.0 25.3 + - - +
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Residues in contact with GLU 416 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
414C LEU* 3.4 13.6 - - - +
415C GLU* 1.3 76.9 - - + +
417C ASP* 1.3 68.9 + - - +
419C GLN* 3.3 19.0 + - - +
420C LYS* 3.2 36.2 + - - +
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Residues in contact with ASP 417 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
412C GLY 4.8 0.2 - - - +
413C LEU* 3.4 26.3 - - + -
414C LEU* 2.8 32.3 + - - +
416C GLU* 1.3 78.5 - - - +
418C PHE* 1.3 58.3 + - - +
420C LYS* 3.1 27.5 + - - +
421C VAL* 2.9 31.6 + - - +
472C PHE* 3.8 6.6 - - + -
476C PHE* 4.0 20.3 - - - -
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Residues in contact with PHE 418 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
50C LEU* 4.2 11.7 - - + -
334C ASN* 3.2 55.6 - - + +
337C ALA* 4.5 4.5 - - + -
338C LEU* 3.8 29.9 - - + +
405C THR* 3.7 31.4 - - + -
408C LEU* 3.8 34.8 - - + -
409C THR* 3.9 2.5 - - - -
413C LEU* 3.9 16.4 - - + -
414C LEU 2.9 11.8 + - - +
415C GLU* 2.9 11.2 + - - +
417C ASP* 1.3 73.6 - - - +
419C GLN* 1.3 60.1 + - - +
421C VAL* 3.3 14.3 - - + +
422C ALA* 2.9 23.9 + - - +
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Residues in contact with GLN 419 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
337C ALA* 4.7 9.8 - - + +
341C ALA* 4.4 19.4 - - + +
344C GLU* 5.7 1.2 - - - +
415C GLU* 3.0 22.0 + - - +
416C GLU* 3.4 26.1 - - - +
417C ASP 3.1 0.2 - - - -
418C PHE* 1.3 76.4 - - - +
420C LYS* 1.3 65.6 + - + +
421C VAL 3.0 1.8 - - - -
422C ALA* 2.9 18.8 + - - +
423C HIS* 3.0 13.3 + - - +
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Residues in contact with LYS 420 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
416C GLU* 3.3 25.4 - - - +
417C ASP* 3.1 21.5 + - - +
419C GLN* 1.3 76.6 - - + +
421C VAL* 1.3 62.3 + - - +
423C HIS* 3.4 9.0 + - - +
424C PHE* 3.1 32.8 + - + -
472C PHE* 4.1 26.9 - - + -
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Residues in contact with VAL 421 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48C LEU* 4.3 16.6 - - + -
50C LEU* 4.0 35.0 - - + -
338C LEU* 4.9 2.7 - - + -
408C LEU* 4.6 2.9 - - + -
413C LEU* 4.3 8.3 - - + -
417C ASP 2.9 21.0 + - - +
418C PHE* 3.3 23.8 - - + +
419C GLN 3.0 0.2 - - - -
420C LYS* 1.3 74.3 - - - +
422C ALA* 1.3 67.7 + - - +
424C PHE* 2.9 21.8 + - - +
425C ILE* 3.0 18.6 + - + +
472C PHE* 3.9 20.2 - - + -
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Residues in contact with ALA 422 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
338C LEU* 3.8 8.9 - - + +
341C ALA* 3.7 23.3 - - + -
342C LEU* 3.5 29.3 - - + +
345C LEU* 4.4 4.7 - - + -
418C PHE 2.9 13.6 + - - +
419C GLN 2.9 9.8 + - - +
421C VAL* 1.3 76.0 - - - +
423C HIS* 1.3 56.9 + - - +
425C ILE* 3.1 8.5 + - - +
426C HIS* 2.9 26.7 + - - +
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Residues in contact with HIS 423 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
345C LEU* 4.5 9.8 - - + +
419C GLN 3.0 10.3 + - - +
420C LYS* 3.6 11.2 - - - +
421C VAL 3.1 0.2 - - - -
422C ALA* 1.3 74.2 - - - +
424C PHE* 1.3 61.5 + - + +
426C HIS* 3.0 26.2 + + - +
427C ARG* 2.8 73.8 + - + +
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Residues in contact with PHE 424 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48C LEU* 4.2 13.5 - - + -
382C ILE* 4.3 19.7 - - + +
420C LYS* 3.1 30.0 + - + -
421C VAL* 2.9 12.9 + - - +
423C HIS* 1.3 76.0 - - + +
425C ILE* 1.3 58.1 + - + +
427C ARG* 3.3 16.9 - - - +
428C GLY* 3.0 22.9 + - - -
465C LEU* 3.8 15.4 - - + +
468C GLU* 3.5 50.5 - - + -
469C VAL* 3.7 21.1 - - + -
472C PHE* 3.5 33.2 - + + -
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Residues in contact with ILE 425 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
50C LEU* 3.6 31.2 - - + -
338C LEU* 4.5 6.1 - - + -
342C LEU* 4.9 6.1 - - + -
347C TYR* 6.2 0.9 - - + -
361C MSE 4.3 22.4 - - + -
377C LEU* 4.0 17.6 - - + +
382C ILE* 4.8 11.2 - - + -
403C LEU* 4.1 20.9 - - + -
421C VAL* 3.0 20.9 + - + +
422C ALA* 3.3 13.5 - - - +
424C PHE* 1.3 73.8 - - - +
426C HIS* 1.3 66.9 + - - +
428C GLY* 2.9 11.3 + - - -
429C ILE* 2.9 25.4 + - + +
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Residues in contact with HIS 426 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
342C LEU* 5.5 0.4 - - - +
345C LEU* 3.3 53.8 + - + +
347C TYR* 2.8 38.6 + + + +
422C ALA 2.9 6.4 + - - +
423C HIS* 3.0 23.5 + + - +
425C ILE* 1.3 76.4 - - - +
427C ARG* 1.3 59.1 + - - +
428C GLY 3.2 0.2 + - - -
429C ILE 3.3 0.5 + - - -
430C GLU* 2.8 51.5 + - + +
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Residues in contact with ARG 427 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
423C HIS* 2.8 61.1 + - + +
424C PHE* 3.3 21.2 - - - +
426C HIS* 1.3 76.6 - - + +
428C GLY* 1.3 57.3 + - - +
430C GLU* 3.0 11.7 - - - +
431C LEU* 3.0 26.3 + - - +
464C THR* 6.2 1.2 - - - +
465C LEU* 3.7 37.3 - - + +
468C GLU* 2.5 34.2 + - - +
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Residues in contact with GLY 428 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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376C VAL* 3.8 8.9 - - - +
377C LEU* 3.9 16.8 - - - -
380C CYS* 5.7 0.7 - - - -
424C PHE 3.0 9.6 + - - -
425C ILE 2.9 9.2 + - - -
427C ARG* 1.3 74.7 - - - +
429C ILE* 1.3 65.6 + - - -
431C LEU* 3.0 8.6 + - - +
432C THR* 2.9 22.3 + - - -
465C LEU* 4.0 12.1 - - - +
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Residues in contact with ILE 429 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
347C TYR* 3.4 43.3 - - + +
361C MSE 4.4 6.3 - - - -
363C LEU* 4.3 20.0 - - + -
366C LYS* 5.6 2.7 - - + -
368C THR* 4.2 13.7 - - + -
373C ALA* 4.9 4.7 - - + -
377C LEU* 4.8 11.0 - - + -
401C LEU* 4.5 5.6 - - + -
425C ILE* 2.9 28.0 + - + +
428C GLY* 1.3 74.2 - - - +
430C GLU* 1.3 63.9 + - - +
432C THR* 2.9 12.5 + - - -
433C LEU* 2.9 39.8 + - + +
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Residues in contact with GLU 430 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
347C TYR* 4.6 0.8 + - - -
426C HIS* 2.8 35.5 + - + +
427C ARG* 3.0 18.2 - - - +
429C ILE* 1.3 78.0 - - - +
431C LEU* 1.3 61.4 + - - +
433C LEU* 3.3 8.8 + - - +
434C GLN* 3.2 39.4 + - - +
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Residues in contact with LEU 431 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
376C VAL* 4.4 18.6 - - + -
380C CYS* 4.9 5.8 - - - -
427C ARG 3.0 7.5 + - - +
428C GLY 3.2 9.4 - - - +
430C GLU* 1.3 78.2 - - - +
432C THR* 1.3 67.1 + - - +
434C GLN* 3.1 17.3 + - + +
435C ILE* 3.0 38.0 + - + +
452C LEU* 5.2 2.7 - - + -
458C ILE* 4.5 15.3 - - + +
461C ALA* 4.2 13.9 - - + +
462C VAL* 4.1 33.2 - - + +
465C LEU* 4.9 7.9 - - + -
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Residues in contact with THR 432 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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368C THR* 3.5 25.8 - - - +
372C ARG* 4.0 8.1 - - + -
373C ALA* 3.8 13.1 - - + +
376C VAL* 3.2 22.7 - - - +
428C GLY 2.9 12.0 + - - -
429C ILE* 2.9 14.7 + - - -
431C LEU* 1.3 76.3 - - - +
433C LEU* 1.3 65.0 + - - +
435C ILE* 2.9 12.0 - - - +
436C GLN* 2.9 26.0 + - - +
448C PHE* 3.6 22.0 - - + -
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Residues in contact with LEU 433 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
366C LYS* 3.2 31.0 - - + +
368C THR* 3.8 17.9 - - + -
429C ILE* 2.9 38.8 + - + +
430C GLU* 3.5 11.4 - - - +
432C THR* 1.3 72.7 - - - +
434C GLN* 1.3 52.9 + - + +
436C GLN* 3.0 21.4 + - - +
437C SER* 2.4 46.7 + - - -
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Residues in contact with GLN 434 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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430C GLU* 3.3 33.2 + - + +
431C LEU* 3.1 18.7 + - + +
433C LEU* 1.3 74.4 - - + +
435C ILE* 1.3 56.7 + - - +
436C GLN 2.7 15.0 + - - -
437C SER* 2.9 22.8 + - - +
438C HIS* 4.1 6.2 + - - +
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Residues in contact with ILE 435 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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376C VAL* 4.9 1.8 - - + -
431C LEU* 3.0 24.8 + - + +
432C THR* 2.9 26.9 - - - +
434C GLN* 1.3 75.4 - - - +
436C GLN* 1.3 54.7 + - - +
438C HIS* 4.8 3.1 + - - +
439C MSE 3.2 26.1 - - - +
448C PHE* 3.4 42.4 - - + +
451C LYS* 4.1 12.7 - - + +
452C LEU* 4.4 6.5 - - + +
458C ILE* 3.3 40.2 - - + -
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Residues in contact with GLN 436 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
366C LYS 4.0 0.2 + - - -
367C GLY* 3.7 22.4 + - - +
368C THR* 3.4 19.1 + - - +
372C ARG* 3.4 28.3 - - - +
432C THR* 2.9 16.7 + - - +
433C LEU* 3.3 31.2 - - - +
434C GLN 2.7 1.6 + - - -
435C ILE* 1.3 78.0 - - - +
437C SER* 1.3 56.5 + - - +
438C HIS 3.0 12.0 + - - -
439C MSE 3.4 23.5 + - + +
448C PHE* 4.0 11.0 - - + -
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Residues in contact with SER 437 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
433C LEU* 2.4 38.1 + - - -
434C GLN* 2.9 7.2 + - - +
436C GLN* 1.3 67.8 - - - +
438C HIS* 1.3 74.5 + - - +
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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