Contacts of the helix formed by residues 432 - 450 (chain C) in PDB entry 5Q14
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 GLN 432 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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430C ASN* 3.1 15.1 - - - +
431C PRO* 1.3 92.6 - - + +
433C HIS* 1.3 59.2 + - - +
434C PHE 3.4 2.0 - - - -
435C ALA* 3.2 18.2 + - + +
436C CYS* 2.9 40.3 + - - -
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Residues in contact with HIS 433 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
379C LEU* 3.3 43.1 + - + +
385C GLU* 3.1 34.6 + - - -
423C CYS* 3.2 33.7 + - + +
427C GLN* 3.3 32.7 + - + -
430C ASN* 3.2 32.8 + - - +
431C PRO 3.4 0.6 - - - -
432C GLN* 1.3 76.4 - - - +
434C PHE* 1.4 62.6 + - - +
436C CYS* 3.3 6.6 + - - +
437C LEU* 3.1 32.6 + - + +
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Residues in contact with PHE 434 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
416C LEU* 3.8 25.4 - - + -
419C LEU* 3.9 19.5 - - + -
420C GLN* 3.6 63.9 - - + +
423C CYS* 3.8 26.7 - - + +
431C PRO 4.8 4.7 + - - +
432C GLN 3.4 0.4 - - - -
433C HIS* 1.4 77.7 + - - +
435C ALA* 1.3 63.6 + - - +
437C LEU* 3.1 6.0 + - - +
438C LEU* 3.1 55.1 + - + +
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Residues in contact with ALA 435 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
431C PRO 5.3 1.5 + - - +
432C GLN* 3.2 24.2 + - + +
434C PHE* 1.3 80.8 - - + +
436C CYS* 1.4 56.3 + - - +
438C LEU* 3.3 11.1 + - - +
439C GLY* 3.0 25.6 + - - -
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Residues in contact with CYS 436 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
379C LEU* 3.6 22.2 - - + -
430C ASN* 5.2 4.7 - - - -
432C GLN* 2.9 34.9 + - - -
433C HIS* 3.4 9.2 - - - +
435C ALA* 1.4 74.6 - - - +
437C LEU* 1.4 59.1 + - - +
439C GLY* 3.2 3.5 + - - -
440C ARG* 3.0 36.4 + - - +
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Residues in contact with LEU 437 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
379C LEU* 3.8 23.1 - - + -
381C MET* 3.7 39.0 - - + -
385C GLU* 4.4 4.9 - - - +
389C LEU* 4.1 16.1 - - + +
419C LEU* 3.8 26.9 - - + -
423C CYS* 3.6 25.4 - - - -
433C HIS* 3.1 25.9 + - + +
434C PHE* 3.1 7.6 + - - +
436C CYS* 1.4 76.2 - - - +
438C LEU* 1.3 61.5 + - - +
440C ARG* 3.1 20.8 + - + +
441C LEU* 3.4 10.6 + - - +
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Residues in contact with LEU 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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389C LEU* 5.2 0.7 - - + -
392C ILE* 5.1 1.6 - - + -
416C LEU* 3.7 28.9 - - + -
419C LEU* 5.1 5.2 - - + -
434C PHE* 3.1 49.1 + - + +
435C ALA* 3.7 10.5 - - - +
437C LEU* 1.3 75.5 - - - +
439C GLY* 1.3 60.9 + - - +
441C LEU* 3.2 32.0 + - + +
442C THR* 3.6 8.8 + - - -
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Residues in contact with GLY 439 (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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435C ALA 3.0 14.3 + - - -
436C CYS* 3.2 5.6 + - - -
438C LEU* 1.3 74.2 - - - +
440C ARG* 1.4 63.8 + - - +
442C THR* 3.1 12.0 + - - -
443C GLU* 3.1 20.3 + - - +
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Residues in contact with ARG 440 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
372C PHE* 4.1 4.0 - - + -
375C SER* 2.8 51.2 + - - +
376C ILE* 3.7 30.3 - - + -
379C LEU* 3.4 25.0 - - + +
389C LEU* 4.9 3.4 - - + -
436C CYS* 3.0 22.8 + - - +
437C LEU* 3.1 12.8 + - + +
439C GLY* 1.4 73.1 - - - +
441C LEU* 1.3 64.9 + - + +
443C GLU* 2.7 39.1 + - - +
444C LEU* 2.8 32.0 + - + +
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Residues in contact with LEU 441 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
330C GLU* 4.6 2.6 - - - +
389C LEU* 3.6 33.0 - - + -
392C ILE* 3.7 29.6 - - + +
393C VAL* 3.4 36.1 - - + +
396C SER* 5.7 1.8 - - - +
437C LEU 3.4 9.4 + - - +
438C LEU* 3.2 17.2 + - + +
439C GLY 3.2 0.8 - - - -
440C ARG* 1.3 75.0 - - + +
442C THR* 1.3 62.8 + - - +
444C LEU* 3.4 16.0 - - + +
445C ARG* 3.4 26.9 + - - +
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Residues in contact with THR 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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438C LEU 3.6 7.5 + - - -
439C GLY* 3.1 12.9 + - - -
441C LEU* 1.3 75.6 - - - +
443C GLU* 1.3 62.5 + - - +
445C ARG* 3.2 26.3 + - + +
446C THR* 3.9 7.1 + - - +
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Residues in contact with GLU 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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371C SER* 5.3 1.6 + - - -
372C PHE* 3.5 33.3 + - + +
375C SER* 4.2 1.0 + - - -
439C GLY 3.1 12.4 + - - +
440C ARG* 2.7 45.3 + - - +
442C THR* 1.3 74.5 - - - +
444C LEU* 1.3 60.5 + - - +
446C THR* 2.7 30.7 + - - +
447C PHE* 4.0 8.5 - - + -
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Residues in contact with LEU 444 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
330C GLU* 3.3 47.9 - - + +
333C PHE* 3.9 17.0 - - + -
334C LEU* 4.1 15.7 - - + +
372C PHE* 3.6 29.6 - - + -
393C VAL* 4.0 14.4 - - + -
440C ARG* 2.8 16.1 + - + +
441C LEU* 3.4 30.7 - - + +
443C GLU* 1.3 72.0 - - - +
445C ARG* 1.4 63.1 + - - +
447C PHE* 3.1 29.0 + - + +
448C ASN 4.3 0.2 + - - -
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Residues in contact with ARG 445 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
330C GLU* 3.4 20.1 + - - +
396C SER* 3.7 30.7 + - - -
398C ASP* 4.1 36.7 + - - +
399C ARG* 3.5 22.2 - - - +
441C LEU* 3.4 17.2 + - - +
442C THR* 3.2 15.5 + - + +
444C LEU* 1.4 76.8 - - - +
446C THR* 1.3 59.6 + - + +
447C PHE 3.1 0.4 - - - -
448C ASN* 3.1 18.8 + - - +
449C HIS* 3.2 21.4 + - + +
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Residues in contact with THR 446 (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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442C THR 3.9 6.0 + - - +
443C GLU* 2.7 27.9 + - - +
444C LEU 3.2 0.2 - - - -
445C ARG* 1.3 75.7 - - + +
447C PHE* 1.3 63.7 + - - +
448C ASN 3.3 0.6 + - - -
449C HIS* 3.6 38.9 + - + +
450C HIS* 4.2 8.8 + - - +
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Residues in contact with PHE 447 (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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329C VAL* 4.4 4.4 - - + +
330C GLU* 5.9 0.9 - - + -
333C PHE* 4.0 26.9 - + + -
365C TYR 4.9 0.7 - - - -
368C PRO* 3.6 28.5 - - + -
369C MET* 3.5 44.4 - - + -
372C PHE* 3.7 35.9 - + + -
443C GLU* 4.0 12.3 - - + -
444C LEU* 3.1 31.3 + - + +
446C THR* 1.3 79.7 - - - +
448C ASN* 1.4 61.9 + - - +
449C HIS 3.3 0.2 - - - -
450C HIS 3.8 1.7 + - - -
451C HIS* 3.4 24.1 + - - +
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Residues in contact with ASN 448 (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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326C GLY 4.3 10.6 + - - +
329C VAL* 3.6 24.9 - - - +
330C GLU* 2.7 36.9 + - - +
399C ARG* 4.5 2.2 - - - +
445C ARG* 3.1 15.5 + - - +
447C PHE* 1.4 74.9 - - - +
449C HIS* 1.3 69.4 + - + +
450C HIS 3.3 0.9 + - - -
451C HIS* 3.6 15.1 + - - +
452C ALA 5.2 0.3 + - - -
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Residues in contact with HIS 449 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
445C ARG* 3.2 23.7 + - + +
446C THR* 3.6 36.7 - - + +
447C PHE 3.3 0.4 - - - -
448C ASN* 1.3 83.3 - - + +
450C HIS* 1.3 81.1 + + + +
453C GLU* 4.4 6.4 - - - +
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Residues in contact with HIS 450 (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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365C TYR* 3.7 25.3 + + + -
446C THR 4.2 7.3 + - - +
447C PHE 3.8 4.1 + - - -
448C ASN 3.3 0.2 - - - -
449C HIS* 1.3 97.6 + - + +
451C HIS* 1.3 63.7 + - - +
452C ALA 3.4 2.5 - - - -
453C GLU* 2.8 32.4 + - - +
454C MET* 2.9 25.0 + - - +
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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
------------------------------------------------------------
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