Contacts of the helix formed by residues 364 - 381 (chain C) in PDB entry 6F0X
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 ASN 364 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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359C ILE* 5.7 3.6 - - - +
362C ILE* 3.0 15.4 + - + +
363C GLU* 1.3 76.1 - - - +
365C ASN* 1.3 56.6 + - - +
366C VAL* 4.0 11.8 - - - +
367C SER* 2.6 52.5 + - - -
368C LYS* 2.7 34.8 + - - +
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Residues in contact with ASN 365 (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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364C ASN* 1.3 76.2 - - - +
366C VAL* 1.3 67.9 + - + +
368C LYS* 3.5 11.3 + - - +
369C LEU* 3.9 13.9 + - - +
408C GLU* 5.1 2.4 - - - +
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Residues in contact with VAL 366 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
349C GLN* 6.4 2.5 - - + -
351C LEU* 5.0 14.5 - - + +
364C ASN* 3.3 12.2 + - - +
365C ASN* 1.3 80.3 - - + +
367C SER* 1.3 65.1 + - - +
369C LEU* 3.6 23.4 + - + +
370C SER* 4.4 1.9 + - - -
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Residues in contact with SER 367 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
351C LEU* 5.1 8.5 - - - -
356C LEU* 5.1 1.3 - - - +
359C ILE* 3.8 23.6 - - - -
362C ILE 2.5 28.1 + - - -
364C ASN* 2.6 36.9 + - - -
366C VAL* 1.3 74.1 - - - +
368C LYS* 1.3 64.6 + - - +
369C LEU 2.8 1.7 + - - -
370C SER* 2.9 7.6 + - - -
371C LEU* 2.8 31.6 + - - +
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Residues in contact with LYS 368 (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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363C GLU* 2.8 29.8 + - - +
364C ASN 2.7 18.5 + - - +
365C ASN* 4.0 7.2 - - - +
366C VAL 3.4 0.4 - - - -
367C SER* 1.3 73.3 + - - +
369C LEU* 1.3 62.9 + - - +
371C LEU* 3.6 12.6 - - + -
372C LEU* 2.8 39.3 + - + +
408C GLU* 5.7 4.7 - - - +
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Residues in contact with LEU 369 (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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348C GLN* 5.3 11.9 - - + +
349C GLN 5.1 11.0 - - - +
350C LEU* 6.2 2.2 - - + -
365C ASN 4.0 8.3 - - - +
366C VAL* 3.7 20.6 - - + +
367C SER 2.8 0.4 + - - -
368C LYS* 1.3 80.9 - - - +
370C SER* 1.3 62.5 + - - +
372C LEU* 3.8 3.4 - - - +
373C LEU* 3.0 21.5 + - - +
407C ILE* 3.8 24.2 - - + -
408C GLU* 2.8 35.2 + - + +
411C LEU* 4.0 23.0 - - + +
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Residues in contact with SER 370 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
328C PHE* 4.0 6.6 - - - -
332C LEU* 5.3 0.2 - - - +
349C GLN 4.7 1.4 + - - -
350C LEU* 4.3 15.8 - - - +
351C LEU* 3.9 25.5 + - - +
356C LEU* 3.9 29.5 - - - +
366C VAL 4.4 1.5 + - - -
367C SER 2.9 8.2 + - - -
369C LEU* 1.3 77.7 - - - +
371C LEU* 1.3 58.9 + - - +
373C LEU* 3.2 13.7 - - - +
374C ASN* 2.8 26.9 + - - +
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Residues in contact with LEU 371 (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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356C LEU* 4.6 13.9 - - + -
359C ILE* 5.6 0.4 - - + -
361C PHE* 4.0 42.0 - - + +
362C ILE 3.7 8.1 - - - +
363C GLU* 3.3 22.9 - - - +
367C SER* 2.8 44.3 + - - +
368C LYS* 3.6 6.5 - - + +
369C LEU 3.1 0.2 - - - -
370C SER* 1.3 76.7 - - - +
372C LEU* 1.3 66.6 + - - +
374C ASN* 3.0 12.0 + - + +
375C ASP* 2.9 28.2 + - - +
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Residues in contact with LEU 372 (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 LYS* 2.8 34.7 + - + +
369C LEU* 3.8 3.1 - - - +
371C LEU* 1.3 73.0 - - - +
373C LEU* 1.3 56.0 + - - +
375C ASP* 3.2 22.3 + - + +
376C ILE* 2.9 40.6 + - + +
379C LYS* 6.2 1.8 - - - +
408C GLU* 6.6 0.2 - - - -
411C LEU* 4.6 19.7 - - + -
412C GLN* 4.9 13.2 - - + +
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Residues in contact with LEU 373 (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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328C PHE* 3.6 26.9 - - + -
331C TYR* 4.0 28.9 - - + -
332C LEU* 3.7 22.7 - - + -
335C LEU* 4.4 13.9 - - + -
350C LEU* 5.1 2.2 - - + -
369C LEU 3.0 14.9 + - - +
370C SER* 3.2 16.6 - - - +
372C LEU* 1.3 76.6 - - - +
374C ASN* 1.3 62.7 + - - +
376C ILE* 3.0 25.8 + - + +
377C SER* 2.9 21.4 + - - -
411C LEU* 4.3 15.0 - - + +
414C LEU* 5.2 2.0 - - + -
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Residues in contact with ASN 374 (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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324C ALA* 5.7 1.6 - - - +
328C PHE* 4.3 13.2 - - + +
353C LEU* 3.9 24.0 - - + +
356C LEU* 5.2 2.4 - - + +
361C PHE* 4.4 15.6 - - - -
370C SER 2.8 16.1 + - - +
371C LEU* 3.3 14.1 - - + +
373C LEU* 1.3 73.2 - - - +
375C ASP* 1.3 59.2 + - - +
377C SER* 3.1 6.4 + - - -
378C ARG* 2.8 69.2 + - - +
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Residues in contact with ASP 375 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
371C LEU* 2.9 16.2 + - - +
372C LEU* 3.3 27.4 + - + +
373C LEU 3.1 0.2 - - - -
374C ASN* 1.3 76.3 + - - +
376C ILE* 1.3 66.5 + - - +
378C ARG* 3.1 15.4 + - - +
379C LYS* 3.0 32.3 + - + +
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Residues in contact with ILE 376 (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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331C TYR* 3.5 27.6 - - + +
372C LEU* 2.9 28.7 + - + +
373C LEU* 3.0 31.0 - - + +
375C ASP* 1.3 75.2 - - - +
377C SER* 1.3 49.7 + - - -
379C LYS* 3.1 23.4 - - - +
380C SER* 2.2 39.7 + - - +
411C LEU* 4.0 37.2 - - + +
414C LEU* 3.9 15.9 - - + -
415C SER* 4.6 7.0 - - - -
418C VAL* 4.9 3.8 - - + -
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Residues in contact with SER 377 (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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324C ALA* 3.9 17.7 - - - -
327C ILE* 3.4 24.7 - - - +
328C PHE* 3.4 21.5 + - - +
331C TYR* 4.0 4.7 - - - -
373C LEU 2.9 11.9 + - - -
374C ASN* 3.4 13.9 - - - -
376C ILE* 1.3 75.7 - - - +
378C ARG* 1.3 57.1 + - - +
380C SER* 2.5 29.9 + - - -
381C GLU* 3.0 13.0 + - - +
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Residues in contact with ARG 378 (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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324C ALA* 4.9 19.8 - - + +
353C LEU* 5.4 6.7 - - - +
357C GLU* 5.6 3.2 + - - -
361C PHE* 4.7 13.5 - - - -
374C ASN* 2.8 59.0 + - - +
375C ASP* 3.1 14.9 + - - +
377C SER* 1.3 71.8 - - - +
379C LYS* 1.3 58.4 + - - +
381C GLU* 4.3 9.0 + - - +
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Residues in contact with LYS 379 (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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372C LEU* 6.2 1.8 - - - +
375C ASP* 3.0 15.4 + - + +
376C ILE* 3.1 32.5 - - - +
378C ARG* 1.3 76.2 - - - +
380C SER* 1.3 60.6 + - - +
381C GLU 3.4 2.6 - - - +
415C SER* 2.0 46.0 + - - +
418C VAL* 5.2 7.0 - - + -
419C ASP* 4.3 15.0 + - - +
422C PHE* 3.1 25.3 - - - -
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Residues in contact with SER 380 (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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327C ILE* 3.6 21.6 - - - +
331C TYR* 3.8 10.4 + - - -
376C ILE* 2.2 38.9 + - - +
377C SER* 2.5 18.5 + - - -
379C LYS* 1.3 72.1 - - - +
381C GLU* 1.3 62.6 + - - -
382C GLY 3.5 0.5 + - - -
383C LEU* 3.3 26.5 + - - +
388C LEU* 4.8 4.0 - - - -
418C VAL* 3.9 20.0 - - - +
422C PHE* 4.1 0.4 - - - -
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Residues in contact with GLU 381 (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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321C PRO* 6.2 1.8 - - + -
322C PRO 3.7 14.5 - - - +
323C SER* 3.5 15.4 - - - -
324C ALA* 3.1 33.8 + - - +
327C ILE* 3.5 13.7 - - + -
377C SER 3.0 9.1 + - - +
378C ARG* 4.6 7.4 - - - +
379C LYS 3.4 4.0 - - - +
380C SER* 1.3 79.4 - - - +
382C GLY* 1.3 61.7 + - - +
422C PHE* 3.7 10.2 - - - -
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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