Contacts of the helix formed by residues 355 - 373 (chain A) in PDB entry 6TXA
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 GLU 355 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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329A PHE* 6.2 0.2 - - - -
330A ASP 5.4 0.7 - - - +
333A ARG* 3.0 45.6 + - - +
334A PHE* 4.3 21.3 + - + +
337A PHE* 4.2 27.1 - - + +
351A ALA* 4.5 11.9 - - + -
352A ARG* 3.0 16.0 + - + +
354A LYS* 1.3 80.8 - - + +
356A VAL* 1.3 64.7 + - - +
357A GLY 3.1 3.1 - - - -
358A ASN* 2.9 40.5 + - + +
359A LEU* 3.0 17.9 + - + +
520A PHE* 4.8 0.2 - - - -
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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 ARG 4.0 2.2 + - - -
353A ASP 3.3 17.9 + - - +
354A LYS 3.2 2.6 - - - +
355A GLU* 1.3 76.1 - - - +
357A GLY* 1.3 66.3 + - - +
359A LEU* 3.3 3.9 + - - +
360A TYR* 3.1 24.7 + - + -
515A ILE* 3.8 15.9 - - + -
520A PHE* 3.6 34.3 - - + -
532A ILE* 4.1 13.5 - - + +
537A VAL* 3.7 36.1 - - + -
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Residues in contact with GLY 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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354A LYS 4.0 4.3 + - - -
355A GLU 3.1 1.0 - - - -
356A VAL* 1.3 85.0 - - - +
358A ASN* 1.3 62.4 + - - +
360A TYR* 3.2 8.6 + - - +
361A ASP* 3.0 27.5 + - - +
537A VAL* 4.7 11.7 - - - -
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Residues in contact with ASN 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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329A PHE* 4.0 14.9 - - + -
333A ARG* 3.6 15.8 - - - +
354A LYS 4.9 2.4 + - - -
355A GLU* 2.9 45.0 + - - +
357A GLY* 1.3 75.3 - - - +
359A LEU* 1.3 59.1 + - + +
361A ASP* 3.4 14.2 + - - +
362A MET* 2.9 25.3 + - - +
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Residues in contact with LEU 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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308A ILE* 3.7 26.9 - - + -
329A PHE* 4.9 4.5 - - + -
334A PHE* 3.5 37.0 - - + -
351A ALA* 4.1 3.1 - - + -
355A GLU* 3.0 13.0 + - + +
356A VAL* 3.6 8.1 - - - +
358A ASN* 1.3 77.0 - - + +
360A TYR* 1.3 65.6 + - - +
362A MET* 3.2 19.5 + - - +
363A PHE* 3.3 19.8 - - - -
515A ILE* 3.8 13.2 - - + -
518A VAL* 4.0 18.2 - - + -
520A PHE* 3.7 30.3 - - + -
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Residues in contact with TYR 360 (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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356A VAL* 3.1 36.7 + - + -
357A GLY* 3.2 6.5 + - - +
359A LEU* 1.3 75.0 - - - +
361A ASP* 1.3 59.2 + - - +
363A PHE* 3.3 8.0 + - - +
364A HIS* 3.1 24.7 + - - +
507A TYR* 4.2 18.8 + + - -
513A ASN* 3.0 33.7 + - - -
515A ILE* 3.6 39.3 - - + +
516A ASP* 4.7 0.9 + - - -
533A THR 4.3 1.9 - - - -
534A LYS* 3.5 22.1 + - + -
537A VAL* 4.1 10.8 - - + -
541A LEU* 3.7 47.8 - - + -
542A PRO* 5.1 0.7 - - + -
545A PHE* 4.3 8.5 - + - -
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Residues in contact with ASP 361 (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 ASN* 4.3 20.0 - - - +
329A PHE* 5.3 1.6 - - + -
357A GLY 3.0 16.9 + - - +
358A ASN* 3.6 17.5 - - - +
360A TYR* 1.3 77.7 - - - +
362A MET* 1.3 58.0 + - - +
364A HIS* 3.5 13.3 - - + +
365A THR* 2.9 33.7 + - - -
541A LEU* 5.7 2.8 - - - +
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Residues in contact with MET 362 (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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308A ILE* 4.1 20.0 - - + -
312A LYS* 3.6 29.4 - - + -
313A TRP* 3.8 27.4 - - - -
316A PHE* 3.6 17.7 - - + -
329A PHE* 3.6 36.3 - - + -
358A ASN 2.9 7.7 + - - +
359A LEU* 3.2 15.6 + - - +
361A ASP* 1.3 77.8 - - - +
363A PHE* 1.3 90.2 + - + +
365A THR* 3.4 6.4 + - - -
366A ARG* 3.0 25.3 + - - +
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Residues in contact with PHE 363 (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 ASN 3.5 23.3 - - - -
307A GLY* 5.0 0.4 - - - -
308A ILE* 3.8 15.7 - - + -
312A LYS* 4.4 12.6 - - - -
359A LEU 3.3 19.1 - - - -
360A TYR* 3.3 3.9 + - - +
362A MET* 1.3 99.9 - - + +
364A HIS* 1.3 61.7 + - - +
366A ARG* 3.4 16.5 + - - +
367A ASN* 3.0 28.1 + - - +
507A TYR* 3.4 59.8 - + + -
508A GLY* 5.4 1.8 - - - -
514A PRO* 3.7 19.1 - - + -
515A ILE* 3.8 18.8 - - + -
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Residues in contact with HIS 364 (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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360A TYR 3.1 14.1 + - - +
361A ASP* 3.5 18.2 - - + +
363A PHE* 1.3 74.5 - - - +
365A THR* 1.3 58.4 + - - +
367A ASN* 3.1 9.2 + - - +
368A SER* 2.7 48.0 + - - -
507A TYR* 3.8 16.3 + - - +
542A PRO* 6.0 1.4 - - - +
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Residues in contact with THR 365 (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 PHE* 4.1 16.6 - - + -
327A ASN* 3.9 22.7 - - - +
328A ASN* 4.0 30.1 + - - +
329A PHE* 4.7 2.6 - - + +
361A ASP 2.9 19.6 + - - -
362A MET* 3.4 7.1 - - - -
364A HIS* 1.3 78.5 - - - +
366A ARG* 1.3 57.8 + - - +
368A SER* 3.3 7.7 + - - -
369A LEU* 2.9 41.0 + - + +
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Residues in contact with ARG 366 (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 LYS* 3.7 29.9 - - - +
315A TYR* 3.5 26.7 + - + +
316A PHE* 3.8 15.3 - - + -
362A MET 3.0 13.1 + - - +
363A PHE* 3.4 19.3 + - - +
364A HIS 3.2 0.2 - - - -
365A THR* 1.3 76.3 - - - +
367A ASN* 1.3 64.7 + - - +
369A LEU* 3.2 6.1 + - - +
370A HIS* 3.0 43.6 + - + -
374A TYR* 4.7 0.2 - - - -
506A ASP* 3.3 29.5 + - - -
507A TYR* 4.1 3.6 - - - +
508A GLY* 3.7 24.2 - - - +
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Residues in contact with ASN 367 (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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363A PHE 3.0 13.8 + - - +
364A HIS* 3.6 8.3 + - - +
366A ARG* 1.3 79.9 - - - +
368A SER* 1.3 59.2 + - - +
370A HIS* 3.3 7.7 + - - +
371A ARG* 2.9 45.8 + - - +
505A MET* 3.5 30.4 - - - +
506A ASP 4.4 10.2 + - - +
507A TYR* 4.3 18.7 - - + -
547A GLU* 5.2 4.3 + - - +
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Residues in contact with SER 368 (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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364A HIS* 2.7 29.8 + - - -
365A THR* 3.5 9.4 - - - -
367A ASN* 1.3 79.4 - - - +
369A LEU* 1.3 56.9 + - - +
371A ARG* 3.3 6.0 + - - +
372A ARG* 2.9 63.5 + - - +
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Residues in contact with LEU 369 (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 PHE* 3.9 28.9 - - + -
319A ASP* 5.5 0.2 - - + -
320A CYS* 3.8 30.7 - - - +
323A LEU* 4.3 19.3 - - + -
325A ILE* 4.2 20.2 - - + -
365A THR* 2.9 27.6 + - + +
366A ARG 3.2 5.6 + - - +
368A SER* 1.3 73.9 - - - +
370A HIS* 1.3 60.3 + - - +
372A ARG* 4.8 2.2 - - - +
373A ALA* 2.9 26.5 + - - +
374A TYR* 3.1 39.2 + - + +
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Residues in contact with HIS 370 (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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315A TYR* 4.9 3.4 + - - -
366A ARG* 3.0 52.7 + - + +
367A ASN* 3.5 10.1 - - - +
368A SER 3.3 0.2 - - - -
369A LEU* 1.3 76.5 - - - +
371A ARG* 1.3 63.2 + - - +
374A TYR* 3.5 32.0 + + + +
375A GLN* 2.8 57.6 + - + +
505A MET* 3.7 20.4 - - + -
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Residues in contact with ARG 371 (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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367A ASN* 2.9 26.7 + - - +
368A SER* 3.3 7.2 + - - +
370A HIS* 1.3 78.8 - - - +
372A ARG* 1.3 64.8 + - + +
375A GLN* 4.5 10.5 - - - +
376A HIS* 4.5 2.6 + - - -
459A GLU* 4.4 10.9 + - - -
461A GLN* 5.0 3.4 + - - +
505A MET* 3.4 19.6 - - + +
547A GLU* 2.9 30.1 + - - -
549A LEU* 3.5 38.7 - - + +
551A ARG* 5.0 6.2 + - - +
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Residues in contact with ARG 372 (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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157A PHE* 3.7 9.0 - - + -
325A ILE* 3.5 47.7 - - + +
326A GLN 4.9 2.8 + - - -
368A SER* 2.9 38.6 + - - +
369A LEU* 4.4 2.2 - - - +
371A ARG* 1.3 80.9 - - + +
373A ALA* 1.3 57.5 + - - +
376A HIS* 3.7 23.6 - - - -
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Residues in contact with ALA 373 (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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150A LEU* 5.6 0.2 - - + -
153A GLY* 5.6 5.0 - - - -
157A PHE* 3.7 24.0 - - + -
323A LEU* 3.7 32.5 - - + -
325A ILE* 4.5 5.4 - - + -
369A LEU 2.9 12.3 + - - +
372A ARG* 1.3 78.6 - - - +
374A TYR* 1.3 71.5 + - + +
375A GLN 3.3 2.2 - - - -
376A HIS* 3.0 18.6 + - - +
379A GLY* 5.6 1.2 - - - -
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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