Contacts of the strand formed by residues 324 - 334 (chain A) 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 A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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317A PRO* 3.3 39.5 - - + +
318A ILE* 3.6 21.4 - - - +
320A LYS* 5.6 2.2 - - + -
321A ASP* 3.1 34.3 + - + +
322A ARG 4.3 1.7 - - - +
323A THR* 1.3 79.7 - - - +
325A CYS* 1.3 67.2 + - - +
326A THR* 4.1 2.9 - - - +
394A ILE* 4.3 6.4 - - - +
429A LYS* 3.5 26.5 - - + +
431A LEU* 3.8 33.0 - - + -
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Residues in contact with CYS 325 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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324A ILE* 1.3 76.1 - - - +
326A THR* 1.3 62.3 + - - +
387A MET* 3.8 28.5 - - - -
392A PHE* 3.9 11.2 - - - -
393A ALA 3.3 17.3 - - - -
394A ILE* 3.5 23.3 - - + -
423A ILE* 3.7 20.4 - - + -
429A LYS 2.8 11.2 + - - +
430A LEU* 3.3 8.1 - - + +
431A LEU* 2.9 25.8 + - - -
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Residues in contact with THR 326 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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314A LEU* 3.2 47.7 + - + +
317A PRO* 3.3 20.8 - - - +
318A ILE* 4.0 6.6 - - - +
324A ILE* 4.1 2.3 + - - +
325A CYS* 1.3 73.7 + - - +
327A VAL* 1.3 64.5 + - - +
328A PRO* 4.5 0.3 - - - +
392A PHE* 3.3 5.0 - - - +
393A ALA* 2.7 45.4 + - - +
431A LEU* 3.4 4.8 + - - +
433A VAL* 3.3 23.9 - - + +
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Residues in contact with VAL 327 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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314A LEU* 4.1 3.8 - - - -
326A THR* 1.3 75.9 - - - +
328A PRO* 1.3 78.1 - - - +
330A ILE* 4.9 8.7 - - + -
387A MET* 3.7 22.4 - - + -
388A ALA* 5.4 2.2 - - + +
389A GLY 6.1 0.4 - - - +
391A LEU 3.4 16.6 - - - +
392A PHE* 4.1 8.1 - - + -
430A LEU* 3.5 28.9 - - + -
431A LEU 2.8 7.2 + - - +
432A PHE* 3.5 27.2 - - + -
433A VAL* 2.9 25.3 + - - +
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Residues in contact with PRO 328 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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300A LEU* 5.8 1.3 - - + -
314A LEU* 3.5 26.9 - - + -
327A VAL* 1.3 105.6 - - + +
329A LEU* 1.3 64.9 + - - +
330A ILE* 3.4 6.8 + - - +
391A LEU* 3.7 28.0 - - + +
392A PHE* 4.4 2.0 - - - +
432A PHE* 5.6 1.2 - - - -
433A VAL 4.1 2.5 - - - +
436A SER* 3.2 20.4 - - - +
438A VAL* 3.7 32.5 - - + -
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Residues in contact with LEU 329 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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328A PRO* 1.3 72.8 - - - +
330A ILE* 1.3 61.2 + - - +
331A ASP* 3.8 1.8 + - - +
350A GLY 5.2 3.4 - - - +
351A TYR* 3.9 28.0 - - + -
352A ALA 5.5 0.4 - - - +
382A TYR* 3.9 18.2 - - + +
432A PHE* 4.2 22.0 - - + -
433A VAL 3.7 6.9 + - - +
434A PRO* 3.7 20.0 - - + +
436A SER 3.0 10.7 + - - +
437A ARG* 3.4 42.2 - - + +
438A VAL 3.1 23.6 + - - -
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Residues in contact with ILE 330 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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327A VAL* 4.9 5.2 - - + -
328A PRO* 3.5 14.8 - - + +
329A LEU* 1.3 71.8 - - - +
331A ASP* 1.3 65.7 + - - +
343A GLN* 3.1 36.1 + - - +
364A ARG* 5.7 0.2 + - - -
388A ALA* 4.2 24.7 - - + -
389A GLY 5.6 0.2 - - - +
390A GLY 5.6 0.9 - - - +
391A LEU* 3.9 40.4 - - + +
438A VAL 3.3 9.0 - - - +
440A HIS* 3.9 24.9 - - + -
442A TYR* 4.5 9.6 - - - +
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Residues in contact with ASP 331 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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192A LEU* 3.1 22.3 - - - +
329A LEU* 4.5 5.4 - - - +
330A ILE* 1.3 79.3 + - - +
332A VAL* 1.3 61.7 + - - +
340A ILE* 3.9 15.2 - - + +
341A ILE 3.8 6.1 - - - +
342A PRO* 3.6 8.9 - - - +
343A GLN 4.4 0.7 + - - -
437A ARG* 2.9 48.4 + - - +
438A VAL 2.7 13.6 + - - +
439A GLY* 3.2 3.7 - - - +
440A HIS* 2.8 28.9 + - - +
442A TYR* 4.4 1.9 - - - -
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Residues in contact with VAL 332 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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331A ASP* 1.3 72.1 - - - +
333A ILE* 1.3 66.9 + - - +
334A ASN* 4.8 1.6 - - - +
340A ILE* 3.3 3.6 - - - -
341A ILE* 2.6 60.7 + - + +
342A PRO 4.2 1.8 - - - +
343A GLN* 3.9 28.3 - - + +
442A TYR* 2.6 47.1 - - + -
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Residues in contact with ILE 333 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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304A CYS 4.7 0.7 - - - -
305A GLU* 3.5 37.2 - - + +
332A VAL* 1.3 75.5 - - - +
334A ASN* 1.3 74.6 + - - +
335A GLY 3.2 3.5 + - - -
338A TYR* 3.9 26.0 - - + +
339A GLU 3.7 2.9 - - - -
340A ILE* 3.7 18.4 - - + -
439A GLY* 3.6 33.0 - - - +
440A HIS* 2.9 13.4 + - - +
441A ILE* 3.4 25.4 - - + -
442A TYR* 3.2 18.2 + - - -
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Residues in contact with ASN 334 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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332A VAL* 3.8 5.1 + - - -
333A ILE* 1.3 69.5 - - - +
335A GLY* 1.3 58.7 + - - +
336A ASN* 2.5 40.2 + - - +
337A THR* 3.1 21.1 + - - +
338A TYR* 2.9 33.7 + - - +
339A GLU* 3.1 40.8 + - - +
341A ILE* 4.1 7.6 - - + +
442A TYR* 6.0 0.4 - - - -
444A LEU* 5.0 2.3 - - - +
549C MET* 6.3 0.8 - - - +
561C PRO* 4.8 6.5 - - - +
633C HIS* 5.9 0.6 - - - -
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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