Contacts of the strand formed by residues 324 - 333 (chain F) in PDB entry 6IWQ
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 ILE 324 (chain F).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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317F PRO* 3.3 39.0 - - + +
318F ILE* 3.6 21.8 - - - +
320F LYS* 5.6 2.0 - - + -
321F ASP* 3.1 37.1 + - + +
322F ARG 4.3 1.9 - - - +
323F THR* 1.3 79.2 - - - +
325F CYS* 1.3 67.9 + - - +
326F THR* 4.1 3.4 - - - +
394F ILE* 4.3 6.4 - - - +
429F LYS* 3.5 26.2 - - + +
431F LEU* 3.8 30.7 - - + -
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Residues in contact with CYS 325 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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324F ILE* 1.3 74.6 - - - +
326F THR* 1.3 61.4 + - - +
387F MET* 3.8 29.4 - - - -
392F PHE* 3.9 11.0 - - - -
393F ALA 3.3 17.3 - - - -
394F ILE* 3.5 22.9 - - + -
423F ILE* 3.7 21.1 - - + -
429F LYS 2.8 12.2 + - - +
430F LEU* 3.3 6.6 - - + +
431F LEU* 2.9 26.5 + - - -
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Residues in contact with THR 326 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
314F LEU* 3.2 47.9 + - + +
317F PRO* 3.3 20.4 - - - +
318F ILE* 4.0 6.6 - - - +
324F ILE* 4.1 2.5 + - - +
325F CYS* 1.3 74.0 + - - +
327F VAL* 1.3 64.5 + - - +
328F PRO* 4.5 0.2 - - - +
392F PHE* 3.3 4.9 - - - +
393F ALA* 2.7 45.8 + - - +
431F LEU* 3.4 4.9 + - - +
433F VAL* 3.3 24.2 - - + +
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Residues in contact with VAL 327 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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314F LEU* 4.1 3.4 - - - -
326F THR* 1.3 77.2 - - - +
328F PRO* 1.3 78.9 - - + +
330F ILE* 4.9 9.6 - - + -
387F MET* 3.7 22.0 - - + -
388F ALA* 5.4 2.5 - - + +
389F GLY 6.0 0.4 - - - +
391F LEU 3.5 15.9 - - - +
392F PHE* 4.1 8.3 - - + -
430F LEU* 3.5 29.2 - - + -
431F LEU 2.8 7.2 + - - +
432F PHE* 3.5 28.2 - - + -
433F VAL* 2.9 24.9 + - - +
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Residues in contact with PRO 328 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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300F LEU* 5.8 1.1 - - + -
314F LEU* 3.5 26.0 - - + -
327F VAL* 1.3 105.2 - - + +
329F LEU* 1.3 65.1 + - - +
330F ILE* 3.4 6.4 + - - +
391F LEU* 3.8 27.8 - - + +
392F PHE* 4.4 2.9 - - - -
432F PHE* 5.6 1.6 - - - -
433F VAL 4.1 2.5 - - - +
436F SER* 3.2 20.9 - - - +
438F VAL* 3.7 32.5 - - + -
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Residues in contact with LEU 329 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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328F PRO* 1.3 74.8 - - - +
330F ILE* 1.3 60.2 + - - +
331F ASP* 3.8 2.2 + - - +
349F ASP* 5.3 1.8 - - - +
350F GLY 5.5 3.8 - - - +
351F TYR* 3.7 27.6 - - + -
382F TYR* 3.9 19.5 - - + +
432F PHE* 4.2 21.1 - - + -
433F VAL 3.7 6.9 + - - +
434F PRO* 3.7 17.3 - - + +
436F SER 3.0 10.0 + - - +
437F ARG* 3.4 42.0 - - + +
438F VAL 3.1 24.1 + - - -
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Residues in contact with ILE 330 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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327F VAL* 4.9 8.1 - - + -
328F PRO 3.5 15.0 - - - +
329F LEU* 1.3 71.0 - - - +
331F ASP* 1.3 65.5 + - - +
343F GLN* 3.1 37.2 + - - +
388F ALA* 4.3 25.1 - - + -
389F GLY 5.6 0.4 - - - +
390F GLY* 5.4 1.6 - - - +
391F LEU* 3.8 41.1 - - + +
438F VAL 3.3 8.5 - - - +
440F HIS* 3.9 21.8 - - + +
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Residues in contact with ASP 331 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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192F LEU* 2.7 36.8 - - + +
329F LEU* 4.5 4.8 - - - +
330F ILE* 1.3 80.2 + - - +
332F VAL* 1.3 63.4 + - - +
340F ILE* 3.9 8.7 - - + -
341F ILE 3.8 2.9 - - - +
342F PRO* 3.6 9.7 - - - +
343F GLN 4.4 0.7 + - - -
437F ARG* 2.9 42.9 + - - +
438F VAL 2.7 14.0 + - - +
439F GLY* 3.2 3.8 - - - +
440F HIS* 2.8 28.9 + - - +
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Residues in contact with VAL 332 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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331F ASP* 1.3 73.0 - - - +
333F ILE* 1.3 66.0 + - - +
334F ASN* 5.3 0.9 - - - -
340F ILE* 3.3 3.6 - - - -
341F ILE* 2.6 60.9 + - + +
342F PRO 4.2 2.2 - - - +
343F GLN* 3.8 31.0 - - + +
440F HIS 3.7 4.3 - - - +
442F TYR* 4.0 36.8 - - + -
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Residues in contact with ILE 333 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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187F ARG* 4.5 2.5 - - - +
304F CYS 4.6 0.7 - - - -
305F GLU* 3.8 35.4 - - + +
332F VAL* 1.3 72.8 - - - +
334F ASN* 1.3 74.6 + - - +
335F GLY 3.2 0.2 + - - -
338F TYR* 3.9 26.2 - - + +
339F GLU 3.7 3.1 - - - -
340F ILE* 3.7 17.0 - - + -
439F GLY* 3.6 34.1 - - - +
440F HIS 2.7 15.4 + - - +
441F ILE* 3.3 24.4 - - + -
442F TYR* 3.1 23.2 + - - +
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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
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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