Contacts of the helix formed by residues 337 - 360 (chain A) in PDB entry 5FLZ
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 SER 337 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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336A ASP* 1.3 84.5 + - - +
338A GLU* 1.3 61.1 + - - +
339A GLU* 4.3 4.1 + - - +
340A ASP* 3.7 22.9 - - - -
341A LYS* 2.8 32.6 + - - +
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Residues in contact with GLU 338 (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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336A ASP* 5.7 0.3 - - - +
337A SER* 1.3 73.5 + - - +
339A GLU* 1.3 59.5 + - + +
341A LYS* 3.1 33.0 + - - +
342A ASN* 2.9 38.8 + - - +
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Residues in contact with GLU 339 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
337A SER* 3.3 3.9 + - - +
338A GLU* 1.3 78.4 - - - +
340A ASP* 1.4 67.0 + - - +
342A ASN* 3.1 36.0 + - - +
343A LEU* 3.0 47.3 + - + +
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Residues in contact with ASP 340 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
334A ASP 4.0 12.0 - - - +
335A CYS* 3.8 23.4 - - - +
336A ASP 3.6 14.2 - - - +
337A SER* 3.5 17.6 + - - +
338A GLU 3.4 0.4 - - - -
339A GLU* 1.4 79.3 - - - +
341A LYS* 1.3 62.3 + - - +
343A LEU* 3.6 13.7 + - - +
344A LEU* 3.2 21.3 + - - +
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Residues in contact with LYS 341 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
335A CYS 3.7 11.1 + - - +
336A ASP* 5.8 1.1 - - - +
337A SER 2.8 17.8 + - - +
338A GLU* 3.1 48.4 + - - +
339A GLU 3.2 0.2 - - - -
340A ASP* 1.3 78.1 - - - +
342A ASN* 1.4 61.1 + - - +
344A LEU* 3.1 10.7 + - + +
345A PHE* 2.8 60.4 + - + -
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Residues in contact with ASN 342 (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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338A GLU* 2.9 28.4 + - - +
339A GLU* 3.1 26.9 + - - +
341A LYS* 1.4 85.4 - - - +
343A LEU* 1.3 63.9 + - - +
345A PHE* 3.0 25.4 + - - +
346A LYS* 3.2 13.0 + - - +
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Residues in contact with LEU 343 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
339A GLU* 3.0 42.8 + - + +
340A ASP* 3.7 12.8 - - - +
342A ASN* 1.3 81.1 - - - +
344A LEU* 1.3 59.9 + - - +
346A LYS* 3.4 7.6 + - + +
347A MET* 3.2 46.6 + - + +
391A GLU* 5.4 7.2 - - - +
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Residues in contact with LEU 344 (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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326A ILE* 6.1 7.9 - - + -
331A LEU* 6.1 3.4 - - + -
332A LEU* 5.2 10.3 - - + -
335A CYS* 3.7 42.8 - - + +
340A ASP 3.2 11.9 + - - +
341A LYS* 3.1 15.9 + - + +
343A LEU* 1.3 75.8 - - - +
345A PHE* 1.4 68.1 + - + +
347A MET* 3.1 16.2 + - + +
348A LEU* 2.9 34.2 + - + +
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Residues in contact with PHE 345 (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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326A ILE* 5.4 12.3 - - + -
341A LYS* 2.8 60.5 + - + -
342A ASN* 3.0 18.5 + - - +
344A LEU* 1.4 83.4 - - + +
346A LYS* 1.4 57.5 + - - +
348A LEU* 3.2 20.8 + - + +
349A ARG* 2.9 39.7 + - - +
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Residues in contact with LYS 346 (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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342A ASN 3.2 8.6 + - - +
343A LEU* 3.6 8.7 - - + +
344A LEU 3.2 0.2 - - - -
345A PHE* 1.4 79.6 - - - +
347A MET* 1.3 86.1 + - + +
349A ARG* 3.3 10.6 + - + +
350A THR* 3.3 46.2 + - - -
391A GLU 5.7 0.4 - - - -
394A VAL* 4.1 13.1 - - - +
395A ASP* 4.4 20.7 + - - +
398A TYR* 4.4 13.7 - - - +
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Residues in contact with MET 347 (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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286A TRP* 5.2 2.3 + - - -
287A LEU* 5.9 0.9 - - - +
343A LEU* 3.2 40.4 + - + +
344A LEU* 3.1 19.3 + - + +
346A LYS* 1.3 97.8 - - + +
348A LEU* 1.3 60.0 + - - +
350A THR* 3.5 9.9 + - - +
351A GLY* 3.2 15.2 + - - -
391A GLU* 4.0 28.0 - - + +
394A VAL* 3.7 28.0 - - + +
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Residues in contact with LEU 348 (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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286A TRP* 5.4 10.3 - - + +
301A THR* 4.1 26.9 - - + +
325A PHE* 6.5 0.4 - - + -
326A ILE* 5.5 6.5 - - + -
344A LEU* 2.9 17.6 + - + +
345A PHE* 3.3 25.6 - - + +
347A MET* 1.3 74.0 - - - +
349A ARG* 1.3 57.5 + - - +
351A GLY* 3.0 4.2 + - - +
352A ILE* 2.8 56.4 + - + +
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Residues in contact with ARG 349 (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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345A PHE* 2.9 22.4 + - - +
346A LYS* 3.4 15.0 - - + +
348A LEU* 1.3 76.9 - - - +
350A THR* 1.4 62.0 + - - +
352A ILE* 3.4 24.2 + - - +
353A LEU* 3.1 23.5 + - + +
398A TYR* 5.8 5.8 - - + -
673A GLN* 6.2 2.2 - - - +
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Residues in contact with THR 350 (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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287A LEU* 4.0 24.7 - - + -
346A LYS* 3.3 28.8 + - - -
347A MET* 3.6 10.1 - - - -
348A LEU 3.3 0.2 - - - -
349A ARG* 1.4 74.2 - - - +
351A GLY* 1.3 63.3 + - - +
353A LEU* 3.3 9.0 + - - +
354A LEU* 3.1 29.0 + - + +
394A VAL* 4.3 10.3 - - + +
398A TYR* 3.4 40.3 - - + +
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Residues in contact with GLY 351 (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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286A TRP* 3.2 45.4 - - - -
287A LEU* 5.6 2.0 - - - +
347A MET 3.2 5.8 + - - -
348A LEU 3.0 9.1 + - - -
350A THR* 1.3 78.2 - - - +
352A ILE* 1.3 62.6 + - - +
354A LEU* 3.3 8.1 + - - +
355A LYS 3.2 17.2 + - - -
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Residues in contact with ILE 352 (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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286A TRP* 4.6 4.7 - - + -
323A GLN* 6.4 1.8 - - + -
324A TYR* 5.6 11.2 - - + +
348A LEU* 2.8 49.4 + - + +
349A ARG* 3.4 24.2 + - - +
351A GLY* 1.3 72.3 - - - +
353A LEU* 1.3 63.9 + - - +
355A LYS* 3.2 31.9 + - - +
356A VAL* 3.1 31.3 + - + +
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Residues in contact with LEU 353 (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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349A ARG* 3.1 14.8 + - + +
350A THR* 3.5 8.3 - - - +
351A GLY 3.2 0.2 - - - -
352A ILE* 1.3 76.3 - - - +
354A LEU* 1.3 55.6 + - + +
356A VAL* 3.5 7.0 + - + +
357A VAL* 3.1 28.4 + - + +
398A TYR* 3.8 26.9 - - + -
401A ALA* 3.8 15.3 - - + +
402A ASN* 3.7 31.4 - - + +
405A PHE* 4.3 35.2 - - + -
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Residues in contact with LEU 354 (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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286A TRP 3.4 20.6 - - - +
287A LEU* 3.0 31.9 - - + +
288A THR 3.8 15.5 - - - +
289A GLN* 4.6 0.8 - - - -
290A GLY* 3.6 13.7 + - - +
350A THR* 3.1 29.5 + - + +
351A GLY* 3.6 10.1 - - - +
352A ILE 3.2 0.2 - - - -
353A LEU* 1.3 75.2 - - - +
355A LYS* 1.4 60.1 + - - +
357A VAL* 3.2 18.2 + - + +
358A ARG* 3.1 17.3 + - - +
397A CYS* 4.5 4.0 - - - -
401A ALA* 3.3 33.7 - - + -
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Residues in contact with LYS 355 (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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286A TRP* 3.8 9.9 - - + -
290A GLY* 3.6 23.5 - - - +
321A ASP 5.8 0.2 + - - -
322A THR* 4.9 6.2 + - - +
323A GLN* 4.3 12.1 - - - +
324A TYR* 3.4 57.2 - - + +
351A GLY 3.2 13.0 + - - +
352A ILE* 3.2 36.6 + - - +
354A LEU* 1.4 72.5 - - - +
356A VAL* 1.3 63.0 + - + +
358A ARG* 3.1 6.2 + - - +
359A ALA* 3.0 24.9 + - - +
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Residues in contact with VAL 356 (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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352A ILE* 3.1 27.7 + - + +
353A LEU* 3.8 8.7 - - + +
355A LYS* 1.3 78.7 - - - +
357A VAL* 1.4 57.1 + - - +
359A ALA* 3.2 8.1 + - + +
360A SER* 2.7 30.9 + - - +
405A PHE* 4.1 23.8 - - + -
572A ILE* 3.9 43.5 - - + -
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Residues in contact with VAL 357 (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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353A LEU* 3.1 22.8 + - + +
354A LEU* 3.2 20.6 + - + +
356A VAL* 1.4 71.8 - - - +
358A ARG* 1.3 66.2 + - - +
360A SER* 3.1 22.3 - - - -
365A THR* 3.4 21.3 - - + +
367A PRO* 5.5 9.4 - - + -
401A ALA* 4.3 19.1 - - + +
404A ILE* 5.2 10.5 - - + -
405A PHE* 4.0 26.7 - - + +
408A LEU* 6.0 3.6 - - + -
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Residues in contact with ARG 358 (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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289A GLN* 3.0 58.9 + - - +
290A GLY 4.5 3.6 - - - +
291A ILE* 4.1 21.5 - - + +
354A LEU 3.1 10.1 + - - +
355A LYS* 3.1 12.1 + - - +
357A VAL* 1.3 78.4 - - + +
359A ALA* 1.4 60.3 + - - +
361A LEU* 3.2 35.5 + - - +
365A THR* 2.9 28.7 + - - +
366A ILE* 4.0 11.9 - - - +
367A PRO* 3.9 7.5 - - - +
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Residues in contact with ALA 359 (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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321A ASP 6.2 0.2 - - - +
355A LYS 3.0 12.2 + - - +
356A VAL* 3.2 15.0 + - - +
358A ARG* 1.4 69.8 - - - +
360A SER* 1.3 52.6 - - - +
361A LEU* 2.9 16.3 + - - +
362A GLN* 3.6 12.5 + - - +
569A PRO* 6.0 2.9 - - + +
572A ILE* 5.1 12.1 - - + -
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Residues in contact with SER 360 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
356A VAL* 2.7 17.4 + - - +
357A VAL* 3.1 17.9 + - - -
358A ARG 3.1 0.4 - - - -
359A ALA* 1.3 71.9 - - - +
361A LEU* 1.4 46.9 + - - -
362A GLN* 3.1 10.2 + - - +
363A ILE* 2.7 33.3 + - - +
365A THR* 3.7 8.8 - - - +
405A PHE* 4.2 13.0 - - - -
408A LEU* 4.1 22.8 - - - +
409A PHE* 5.1 3.2 - - - -
569A PRO* 5.8 8.7 - - - +
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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