Contacts of the helix formed by residues 324 - 337 (chain A) in PDB entry 1FCZ
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 ASP 324 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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322A GLU 3.6 1.0 + - - -
323A MET* 1.3 74.3 - - - +
325A ASP* 1.4 64.9 + - - +
326A THR* 3.3 4.1 + - - -
327A GLU* 3.0 35.2 + - - +
328A THR* 2.9 31.1 + - - -
364A TYR* 2.5 28.8 + - - -
368A ARG* 3.4 28.1 - - - +
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Residues in contact with ASP 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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194A SER* 4.6 1.7 + - - -
197A HIS* 3.5 20.2 + - + +
198A GLN* 4.0 32.5 + - + +
201A PHE 5.7 1.5 - - - +
203A SER* 4.0 25.6 - - - -
206A GLN* 5.7 1.0 + - - -
323A MET 5.5 0.2 - - - +
324A ASP* 1.4 76.9 - - - +
326A THR* 1.3 60.6 + - - +
328A THR* 4.4 5.8 + - - -
329A GLY* 2.9 24.8 + - - -
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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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190A ILE* 3.7 22.7 - - + +
194A SER* 2.6 33.2 + - - +
198A GLN* 4.5 0.7 + - - -
324A ASP* 3.3 9.8 + - - -
325A ASP* 1.3 79.6 - - - +
327A GLU* 1.3 57.8 + - - +
329A GLY* 3.3 1.0 + - - -
330A LEU* 2.9 38.8 + - + +
364A TYR* 3.6 36.8 + - + -
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Residues in contact with GLU 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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323A MET* 3.3 22.4 - - + +
324A ASP* 3.0 29.5 + - - +
326A THR* 1.3 72.4 - - - +
328A THR* 1.3 61.8 + - - +
330A LEU* 3.8 0.7 - - - +
331A LEU* 2.9 31.5 + - - +
361A LEU* 3.9 19.4 - - + +
364A TYR* 3.4 22.1 - - + -
365A ALA* 3.7 14.4 - - + +
368A ARG* 2.8 40.4 + - - +
369A ARG* 4.4 1.4 + - - -
379A MET* 3.5 19.2 - - + +
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Residues in contact with THR 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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197A HIS* 3.7 24.0 - - + +
273A LEU* 4.4 11.3 - - + +
274A ARG* 5.9 2.7 - - + -
277A THR* 4.0 31.1 - - + +
323A MET* 3.8 22.6 + - - +
324A ASP 2.9 17.6 + - - -
325A ASP* 3.8 7.0 + - - -
327A GLU* 1.3 76.5 - - - +
329A GLY* 1.3 58.1 + - - +
331A LEU* 3.4 1.9 + - - +
332A SER* 2.9 38.1 + - - +
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Residues in contact with GLY 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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193A VAL* 3.6 9.6 - - - -
197A HIS* 3.6 32.7 - - - -
244A PHE* 3.4 11.9 - - - -
325A ASP 2.9 13.6 + - - -
326A THR* 3.7 1.6 - - - -
328A THR* 1.3 77.6 - - - +
330A LEU* 1.3 61.1 + - - +
332A SER 3.3 1.0 + - - -
333A ALA* 3.0 19.8 + - - +
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Residues in contact with LEU 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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189A LEU* 5.4 0.2 - - + -
190A ILE* 4.6 11.0 - - + +
193A VAL* 3.7 27.8 - - + +
326A THR* 2.9 37.2 + - + +
327A GLU 3.9 2.7 - - - +
329A GLY* 1.3 76.6 - - - +
331A LEU* 1.3 62.8 + - - +
333A ALA* 3.2 3.8 + - - +
334A ILE* 2.9 29.7 + - + +
357A LEU* 4.0 20.9 - - + +
360A ALA* 4.0 24.9 - - + +
361A LEU* 3.9 39.5 - - + +
364A TYR* 4.7 2.7 - - + -
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Residues in contact with LEU 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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273A LEU* 4.3 20.6 - - + -
318A LEU* 6.0 0.4 - - + -
323A MET* 3.9 23.1 - - + -
327A GLU 2.9 23.1 + - - +
328A THR* 3.8 3.8 - - - +
330A LEU* 1.3 72.1 - - - +
332A SER* 1.3 63.0 + - - +
334A ILE* 3.3 6.2 + - + +
335A CYS* 3.0 30.1 + - - -
361A LEU* 4.0 18.1 - - + +
379A MET* 3.5 33.7 - - + +
380A LEU* 4.4 4.3 - - + -
382A LYS* 4.6 10.1 - - + -
383A ILE* 3.9 26.9 - - + +
386A LEU* 5.9 1.6 - - + -
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Residues in contact with SER 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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197A HIS* 4.7 6.2 + - - -
244A PHE* 4.0 17.3 - - - -
270A ILE* 3.7 24.6 - - - +
273A LEU* 3.6 17.2 - - - +
274A ARG* 5.4 2.4 + - - +
328A THR* 2.9 25.4 + - - +
329A GLY* 3.5 6.2 - - - -
331A LEU* 1.3 77.0 - - - +
333A ALA* 1.3 57.2 + - - +
335A CYS* 3.3 10.3 + - - +
336A LEU* 3.0 27.7 + - - +
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Residues in contact with ALA 333 (chain A).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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193A VAL* 4.3 2.5 - - + -
244A PHE* 4.1 2.4 - - + -
248A LEU* 3.8 34.3 - - + -
329A GLY 3.0 13.8 + - - +
330A LEU 3.5 8.3 - - - +
332A SER* 1.3 77.2 - - - +
334A ILE* 1.3 56.0 + - - +
336A LEU* 3.3 1.2 + - - +
337A ILE* 2.8 35.7 + - - +
357A LEU* 3.8 25.6 - - + -
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Residues in contact with ILE 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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330A LEU 2.9 20.6 + - - +
331A LEU* 3.6 6.1 - - - +
333A ALA* 1.3 74.2 - - - +
335A CYS* 1.3 63.6 + - - +
337A ILE 3.5 5.9 - - - +
338A CYS* 4.2 1.6 - - - +
354A GLN* 3.1 36.4 + - + +
357A LEU* 3.8 35.4 - - + +
358A LEU* 3.9 28.3 - - + +
361A LEU* 3.7 28.5 - - + -
380A LEU* 4.5 3.1 - - + -
383A ILE* 3.6 21.5 - - + -
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Residues in contact with CYS 335 (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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266A ALA* 4.2 3.6 - - + -
269A ASP* 5.2 5.8 - - + -
270A ILE* 4.6 11.7 - - + -
273A LEU* 5.2 1.8 - - - -
331A LEU* 3.0 26.3 + - - -
332A SER* 3.5 11.0 - - - +
333A ALA 3.3 0.2 - - - -
334A ILE* 1.3 78.2 - - - +
336A LEU* 1.3 60.2 + - - +
338A CYS* 3.9 5.9 - - - +
341A ARG* 3.1 26.8 + - - +
383A ILE* 3.7 35.9 - - + -
386A LEU* 4.0 24.7 - - - -
387A ARG* 5.2 0.5 + - - -
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Residues in contact with LEU 336 (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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241A ILE* 5.8 0.7 - - + -
244A PHE* 5.2 3.8 - - + -
245A ALA* 3.5 31.0 - - + -
248A LEU* 3.9 19.5 - - + -
251A PHE* 4.0 10.8 - - + -
262A LEU* 3.5 53.2 - - + +
263A LEU* 3.9 18.6 - - + +
266A ALA* 3.7 12.6 - - + +
267A CYS 5.6 0.2 - - - +
270A ILE* 4.0 13.5 - - + -
332A SER 3.0 16.2 + - - +
333A ALA* 3.7 2.9 - - - +
335A CYS* 1.3 80.3 - - - +
337A ILE* 1.3 63.0 + - + +
338A CYS* 3.1 8.3 + - - +
341A ARG* 4.9 1.4 + - - -
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Residues in contact with ILE 337 (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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248A LEU* 3.7 31.9 - - + -
249A PRO 5.0 3.1 - - - +
251A PHE* 4.3 17.3 - - + -
254A LEU* 5.8 0.2 - - + -
262A LEU* 4.5 3.1 - - + -
333A ALA 2.8 18.1 + - - +
334A ILE 3.5 1.7 - - - +
336A LEU* 1.3 82.3 - - + +
338A CYS* 1.3 59.7 + - - +
350A VAL* 3.7 30.3 - - + +
353A LEU* 3.7 29.4 - - + -
354A GLN* 3.0 36.7 + - - +
357A LEU* 4.0 16.8 - - + -
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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