Contacts of the helix formed by residues 301 - 321 (chain A) in PDB entry 4C02
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 301 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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300A LEU* 1.3 77.3 - - - +
302A THR* 1.3 64.4 + - - +
303A VAL* 4.0 14.5 - - - +
304A SER* 2.6 35.7 + - - -
305A CYS* 3.1 20.6 + - - +
418A MET* 3.8 2.9 - - - +
419A VAL* 5.6 3.4 - - - -
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Residues in contact with THR 302 (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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301A ASP* 1.3 72.5 - - - +
303A VAL* 1.3 69.5 + - + +
304A SER 3.2 0.2 + - - -
305A CYS* 3.4 1.6 + - - +
306A LEU* 3.0 38.1 + - + +
418A MET* 3.4 23.1 - - + +
419A VAL 4.6 3.8 + - - -
466A THR* 3.8 19.7 - - + +
1511A EDO 2.6 36.9 + - - +
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Residues in contact with VAL 303 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
301A ASP* 4.0 14.6 - - - +
302A THR* 1.3 81.5 - - + +
304A SER* 1.3 58.0 + - - +
306A LEU* 3.5 5.7 + - - +
307A ARG* 2.9 56.9 + - - +
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Residues in contact with SER 304 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
294A TYR* 5.8 2.2 - - - -
300A LEU* 4.4 13.9 - - - -
301A ASP* 2.6 31.3 + - - -
303A VAL* 1.3 74.6 - - - +
305A CYS* 1.3 68.5 + - - +
307A ARG* 3.7 14.5 + - - +
308A ILE* 2.9 34.3 + - - +
348A GLY 5.8 0.7 - - - -
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Residues in contact with CYS 305 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
300A LEU* 4.0 15.0 - - + +
301A ASP 3.1 17.7 + - - +
302A THR 3.6 4.3 - - - +
304A SER* 1.3 77.3 - - - +
306A LEU* 1.3 63.5 + - + +
308A ILE* 3.2 2.9 + - - +
309A VAL* 3.1 24.6 + - - +
414A VAL* 4.1 16.4 - - - -
415A ALA* 4.5 5.4 - - - -
418A MET* 3.7 37.0 - - + -
470A LEU* 3.9 24.5 - - - -
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Residues in contact with LEU 306 (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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302A THR* 3.0 29.9 + - + +
303A VAL* 3.9 5.2 - - - +
305A CYS* 1.3 73.9 - - + +
307A ARG* 1.3 60.9 + - - +
309A VAL* 3.6 7.2 - - + +
310A LEU* 2.9 36.4 + - + +
466A THR* 3.8 33.0 - - + +
470A LEU* 4.3 18.8 - - + -
495A LEU* 4.5 8.0 - - + +
498A ILE* 4.0 21.5 - - + +
499A ASP* 3.9 35.2 - - + +
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Residues in contact with ARG 307 (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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303A VAL* 2.9 45.5 + - - +
304A SER* 3.7 14.2 + - - +
305A CYS 3.3 0.2 - - - -
306A LEU* 1.3 77.1 - - - +
308A ILE* 1.3 63.2 - - - +
310A LEU* 4.1 4.8 - - - +
311A SER* 3.0 26.9 + - - -
347A ASN 3.6 16.5 + - - -
348A GLY* 3.5 33.4 - - - +
349A GLN* 3.9 15.0 - - + +
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Residues in contact with ILE 308 (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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291A LEU* 4.0 19.7 - - + -
294A TYR* 4.4 14.4 - - + -
295A LEU* 5.2 0.2 - - + -
300A LEU* 4.0 31.9 - - + -
304A SER* 2.9 23.5 + - - +
305A CYS 3.6 3.8 - - - +
306A LEU 3.2 0.2 - - - -
307A ARG* 1.3 75.9 - - - +
309A VAL* 1.3 63.4 + - - +
311A SER* 2.8 23.4 + - - -
312A ILE* 3.1 22.6 + - + +
344A VAL* 5.7 2.2 - - + -
348A GLY 3.8 16.4 - - - +
350A CYS* 3.8 22.2 - - - -
414A VAL* 4.1 14.6 - - + -
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Residues in contact with VAL 309 (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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305A CYS* 3.1 20.7 + - - +
306A LEU* 3.6 10.8 - - + +
308A ILE* 1.3 76.9 - - + +
310A LEU* 1.3 66.1 + - - +
312A ILE* 3.3 9.6 + - + +
313A ALA* 3.1 22.9 + - - +
407A PHE* 3.8 6.2 - - + -
410A VAL* 6.3 0.2 - - + -
411A LEU* 3.4 33.0 - - + -
414A VAL* 3.8 29.4 - - + -
470A LEU* 4.5 7.0 - - + -
495A LEU* 3.7 28.4 - - + +
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Residues in contact with LEU 310 (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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306A LEU* 2.9 19.7 + - + +
307A ARG* 4.1 4.3 - - - +
309A VAL* 1.3 80.0 - - - +
311A SER* 1.3 57.4 + - - +
313A ALA* 3.3 1.7 + - - +
314A SER* 2.9 28.3 + - - -
492A LYS* 3.6 28.0 - - + +
495A LEU* 4.0 22.2 - - + +
496A THR* 3.4 35.9 - - + +
499A ASP* 4.9 9.9 - - + -
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Residues in contact with SER 311 (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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261A ASN* 3.4 37.3 - - - +
307A ARG 3.0 16.1 + - - -
308A ILE 2.8 17.3 + - - -
310A LEU* 1.3 78.0 - - - +
312A ILE* 1.3 62.9 + - - +
314A SER* 3.3 2.3 + - - -
315A GLY 3.1 17.8 + - - -
349A GLN* 3.6 13.6 - - - -
350A CYS* 2.8 27.8 + - - +
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Residues in contact with ILE 312 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
261A ASN* 5.4 0.4 - - - -
291A LEU* 3.9 20.2 - - + -
308A ILE* 3.1 33.7 + - + +
309A VAL* 3.8 9.0 - - + +
310A LEU 3.3 0.2 - - - -
311A SER* 1.3 75.7 - - - +
313A ALA* 1.3 57.1 + - - +
315A GLY 3.2 1.6 + - - -
316A LEU* 2.9 28.4 + - + +
337A LEU* 5.1 5.6 - - + -
342A ILE* 4.0 26.9 - - + -
350A CYS* 4.0 16.8 - - + -
352A ILE* 3.6 18.1 - - + +
407A PHE* 3.6 25.1 - - + -
410A VAL* 4.2 8.5 - - + -
414A VAL* 5.1 1.6 - - + -
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Residues in contact with ALA 313 (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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309A VAL 3.1 12.9 + - - +
310A LEU 3.3 8.3 + - - +
312A ILE* 1.3 77.4 - - - +
314A SER* 1.3 56.6 + - - +
316A LEU* 3.8 2.9 - - - +
317A ALA* 2.8 32.7 + - - +
407A PHE* 3.7 25.5 - - + -
488A ALA* 4.3 5.1 - - - +
491A ILE* 4.1 0.7 - - + -
492A LYS* 4.0 28.9 - - - +
495A LEU* 4.1 7.0 - - + -
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Residues in contact with SER 314 (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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259A HIS* 3.6 11.6 + - - -
261A ASN* 3.5 19.0 + - - -
310A LEU* 2.9 19.2 + - - -
311A SER* 3.6 2.0 - - - -
312A ILE 3.3 0.2 - - - -
313A ALA* 1.3 76.0 - - - +
315A GLY* 1.3 59.1 + - - +
317A ALA* 3.9 1.6 - - - +
318A HIS* 3.0 28.9 + - - +
492A LYS* 3.5 35.9 + - - +
1500A FLC 4.6 1.9 - - - +
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Residues in contact with GLY 315 (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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259A HIS* 4.3 6.3 - - - -
261A ASN* 3.7 30.9 - - - +
262A ILE* 4.1 3.2 - - - +
311A SER 3.1 10.1 + - - -
312A ILE 3.7 3.4 - - - -
314A SER* 1.3 78.3 - - - +
316A LEU* 1.3 56.8 + - - +
318A HIS* 3.3 2.9 + - - +
319A LEU* 3.0 31.4 + - - +
352A ILE* 3.8 6.5 - - - -
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Residues in contact with LEU 316 (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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312A ILE* 2.9 17.2 + - + +
313A ALA* 3.9 4.0 - - - +
315A GLY* 1.3 73.9 - - - +
317A ALA* 1.3 61.3 + - - +
319A LEU* 3.3 14.7 + - + +
320A HIS* 2.9 62.7 + - + +
334A HIS* 4.9 4.0 - - + -
337A LEU* 4.0 24.0 - - + -
352A ILE* 3.5 9.3 - - + +
403A ASP* 3.9 15.0 - - + +
404A ILE* 4.1 17.3 - - + -
407A PHE* 3.8 30.1 - - + -
488A ALA* 4.0 4.0 - - + -
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Residues in contact with ALA 317 (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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313A ALA 2.8 18.7 + - - +
314A SER* 3.9 5.2 - - - +
316A LEU* 1.3 77.0 - - - +
318A HIS* 1.3 62.1 + - - +
320A HIS* 3.2 2.7 + - - -
321A ILE* 3.0 41.1 + - + +
488A ALA* 3.6 11.1 - - + +
489A LEU* 3.9 33.2 - - + +
492A LYS* 4.7 4.9 - - + -
1500A FLC 5.2 2.2 - - + +
1506A FLC 4.5 0.7 - - - -
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Residues in contact with HIS 318 (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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256A MET* 5.0 5.7 + - - +
257A LEU* 4.8 3.1 - - + -
258A ARG 4.3 7.3 + - - -
259A HIS* 3.4 35.3 - + + +
262A ILE* 3.8 17.9 - - + -
314A SER 3.0 18.8 + - - +
315A GLY 3.6 4.7 - - - +
316A LEU 3.2 0.2 - - - -
317A ALA* 1.3 74.2 - - - +
319A LEU* 1.3 61.1 + - - +
321A ILE* 3.7 4.0 + - - +
323A ILE* 4.2 9.8 - - + +
329A LYS* 2.8 52.0 + - + +
1500A FLC 2.8 34.9 + - - +
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Residues in contact with LEU 319 (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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257A LEU* 4.4 8.5 - - + -
262A ILE* 3.8 22.0 - - + -
315A GLY 3.0 19.1 + - - +
316A LEU* 3.5 15.5 - - + +
318A HIS* 1.3 76.1 - - - +
320A HIS* 1.3 55.9 + - + +
329A LYS* 2.8 21.6 + - - +
332A ILE* 2.8 60.4 + - + +
334A HIS* 4.4 17.9 - - + -
352A ILE* 4.3 31.2 - - + -
355A LEU* 4.6 13.0 - - + -
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Residues in contact with HIS 320 (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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316A LEU* 2.9 34.8 + - + +
317A ALA* 3.8 1.1 - - - +
319A LEU* 1.3 77.7 - - + +
321A ILE* 1.3 58.4 + - - +
322A GLU 3.7 0.3 + - - -
331A ALA* 3.2 19.7 - - - +
332A ILE 3.1 20.4 - - - -
333A ALA* 4.2 0.4 - - - -
396A PHE* 4.2 0.3 - - - -
400A LYS* 3.4 67.2 + - + +
403A ASP* 2.8 31.4 + - + -
404A ILE* 4.3 8.6 - - + +
488A ALA* 3.9 13.5 + - - +
1506A FLC 3.7 16.6 - - - +
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Residues in contact with ILE 321 (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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317A ALA 3.0 17.3 + - - +
318A HIS* 3.7 4.1 + - - +
319A LEU 3.3 0.8 - - - -
320A HIS* 1.3 77.9 - - - +
322A GLU* 1.3 75.1 + - - +
323A ILE* 3.8 14.8 + - + +
329A LYS* 2.7 31.5 + - - +
330A PRO 3.9 0.2 - - - +
331A ALA* 4.1 1.1 - - - -
489A LEU* 4.1 21.8 - - + -
1500A FLC 3.4 33.7 - - + +
1506A FLC 2.8 45.1 - - - +
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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