Contacts of the helix formed by residues 430 - 444 (chain C) in PDB entry 1UES
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 LYS 430 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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425C GLU 4.0 9.4 + - - +
426C PHE* 2.9 42.1 + - + +
429C GLY* 1.3 78.4 + - - +
431C HIS* 1.3 60.6 + - - +
432C LEU 3.5 0.9 - - - -
433C LYS* 3.8 3.4 - - - +
434C THR* 2.9 35.3 + - - +
769D ASN* 3.4 39.3 - - - +
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Residues in contact with HIS 431 (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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426C PHE* 2.8 33.2 + - + -
427C HIS* 3.3 19.5 - - + +
430C LYS* 1.3 71.2 - - - +
432C LEU* 1.3 63.9 + - - +
434C THR* 3.1 7.2 + - - -
435C TYR* 3.0 39.4 + - + -
561C HIS* 3.5 21.9 + + + +
760D GLU* 3.5 24.0 - - - -
764D TYR* 2.6 33.7 + + - -
769D ASN* 3.5 28.7 - - + +
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Residues in contact with LEU 432 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
405C LEU* 3.4 19.7 - - + -
406C ILE* 4.0 7.4 - - + +
427C HIS* 3.0 13.7 + - - +
428C HIS* 3.4 26.0 + - + +
431C HIS* 1.3 73.2 - - - +
433C LYS* 1.3 65.0 + - - +
435C TYR* 3.1 9.8 + - + -
436C VAL* 3.0 31.4 + - + +
471C THR* 3.9 25.4 - - + +
474C HIS* 3.7 37.9 - - + -
475C ASN* 3.9 12.8 - - - +
478C PHE* 4.0 6.3 - - + -
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Residues in contact with LYS 433 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
405C LEU* 3.7 22.0 - - + +
428C HIS 3.4 6.2 + - - +
429C GLY 3.2 28.9 - - - +
430C LYS* 3.8 4.5 - - - +
431C HIS 3.3 0.8 - - - -
432C LEU* 1.3 78.8 - - - +
434C THR* 1.3 58.3 + - - +
436C VAL* 3.7 4.2 - - - +
437C ASP* 2.9 58.4 + - - +
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Residues in contact with THR 434 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49A GLU* 6.0 3.4 - - - +
430C LYS* 2.9 23.8 + - - +
431C HIS* 3.5 6.5 - - - -
432C LEU 3.1 0.2 - - - -
433C LYS* 1.3 76.0 - - - +
435C TYR* 1.3 61.6 + - + +
437C ASP* 4.4 6.3 - - + -
438C ASN* 2.7 52.5 + - - +
769D ASN* 5.0 5.4 + - - -
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Residues in contact with TYR 435 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
431C HIS* 3.0 39.7 + - + -
432C LEU* 3.1 12.5 + - + +
434C THR* 1.3 78.7 - - + +
436C VAL* 1.3 57.0 + - - +
438C ASN* 5.2 1.6 - - - -
439C LEU* 2.9 30.5 + - - +
467C ASN* 3.3 30.8 - - - +
470C GLN* 3.0 45.9 + - + -
471C THR* 3.6 16.3 + - - +
474C HIS* 3.5 27.1 - + - -
559C TRP* 3.8 20.6 - - - -
561C HIS* 4.2 5.5 - + - -
719D PHE* 4.1 13.0 - + - -
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Residues in contact with VAL 436 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
403C HIS* 3.3 37.9 - - + +
404C GLU* 4.0 21.3 - - - +
405C LEU* 4.2 8.3 - - - +
432C LEU* 3.0 25.2 + - + +
433C LYS* 3.7 5.4 - - - +
435C TYR* 1.3 77.3 - - - +
437C ASP* 1.3 63.9 + - - +
439C LEU* 3.2 6.6 + - - +
440C ASN* 2.9 30.2 + - - +
471C THR* 3.9 28.9 - - + +
475C ASN* 6.0 0.2 - - - +
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Residues in contact with ASP 437 (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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1A MET 6.1 0.2 - - - -
2A THR* 4.1 13.8 + - - -
433C LYS* 2.9 52.3 + - - +
434C THR* 3.9 6.2 - - + +
436C VAL* 1.3 79.2 - - - +
438C ASN* 1.3 68.1 + - - +
440C ASN* 3.3 9.7 + - - +
441C LYS* 2.9 47.7 + - - +
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Residues in contact with ASN 438 (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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44A ILE* 3.8 39.3 - - + +
49A GLU* 5.3 2.9 + - - +
434C THR* 2.7 44.1 + - - +
435C TYR* 5.2 1.4 - - - -
437C ASP* 1.3 73.1 - - - +
439C LEU* 1.3 64.8 + - - +
441C LYS* 3.2 8.8 + - - +
442C LEU* 2.9 30.7 + - - +
467C ASN* 3.1 32.8 + - - +
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Residues in contact with LEU 439 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
403C HIS* 3.8 30.3 - - + +
435C TYR 2.9 19.2 + - - +
436C VAL* 3.2 5.1 + - - +
438C ASN* 1.3 77.7 - - - +
440C ASN* 1.3 62.4 + - - +
442C LEU* 3.8 3.4 - - - -
443C ILE* 3.1 46.9 + - + +
453C LEU* 3.7 29.6 - - + -
456C ILE* 4.4 4.5 - - + -
464C ILE* 3.8 29.2 - - + +
467C ASN* 4.0 8.0 - - + +
468C ALA* 3.9 14.6 - - + +
471C THR* 4.6 6.7 - - - +
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Residues in contact with ASN 440 (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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401C MET 4.5 0.2 - - - +
402C THR* 3.9 17.0 - - - +
403C HIS* 2.8 60.1 + - - +
436C VAL* 2.9 24.6 + - - +
437C ASP* 3.7 9.7 + - - +
438C ASN 3.3 0.2 - - - -
439C LEU* 1.3 77.0 - - - +
441C LYS* 1.3 63.4 + - + +
443C ILE* 3.6 14.8 - - - +
444C ILE* 3.6 19.7 - - - +
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Residues in contact with LYS 441 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1A MET 2.8 33.4 + - - +
2A THR* 3.2 29.9 + - + +
37A ASP 5.1 0.2 - - - +
40A ASN* 3.8 38.0 + - + +
41A LYS* 3.1 30.3 - - - +
43A ILE* 5.8 1.4 - - - +
44A ILE* 4.1 17.9 - - + +
437C ASP* 2.9 34.7 + - - +
438C ASN* 3.7 10.0 + - - +
440C ASN* 1.3 77.4 - - + +
442C LEU* 1.3 59.6 + - - +
444C ILE* 3.8 12.8 - - - +
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Residues in contact with LEU 442 (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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41A LYS* 4.1 22.3 + - + +
44A ILE* 3.6 29.8 - - + -
438C ASN 2.9 21.5 + - - +
439C LEU* 3.9 3.6 - - - +
441C LYS* 1.3 74.0 - - - +
443C ILE* 1.3 61.7 + - - +
444C ILE 3.2 5.5 + - - +
446C THR* 3.4 13.3 - - - +
463C GLY* 4.0 8.1 - - - +
464C ILE* 3.3 37.3 - - + +
467C ASN* 3.6 25.1 - - - +
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Residues in contact with ILE 443 (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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401C MET 5.0 0.7 - - - +
403C HIS* 4.1 27.1 - - + +
439C LEU* 3.1 34.5 + - + +
440C ASN* 3.6 12.3 - - - +
442C LEU* 1.3 75.7 - - - +
444C ILE* 1.3 67.0 + - + +
445C GLY 3.1 0.7 + - - -
446C THR* 2.8 30.5 + - - +
448C PHE* 3.5 39.0 - - + +
449C GLU* 3.5 24.3 - - - +
456C ILE* 4.7 2.2 - - + -
464C ILE* 4.1 12.3 - - + -
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Residues in contact with ILE 444 (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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37A ASP* 3.9 38.4 - - + +
41A LYS* 2.8 44.9 + - - +
440C ASN 3.6 16.1 + - - +
441C LYS* 3.8 9.2 - - - +
442C LEU 3.2 1.6 - - - -
443C ILE* 1.3 78.9 - - + +
445C GLY* 1.3 63.4 + - - +
446C THR* 3.4 4.7 + - - +
449C GLU* 4.7 4.0 - - - -
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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