Contacts of the strand formed by residues 337 - 346 (chain A) in PDB entry 1ASZ
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 337 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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322A PRO* 4.3 6.9 - - + +
323A VAL 3.1 7.4 - - - +
324A PHE* 3.2 29.4 - - + -
335A MET* 3.5 14.4 - - - +
336A THR* 1.3 86.4 - - + +
338A PHE* 1.3 64.2 + - - +
549A PRO 5.9 0.2 - - - -
550A ARG* 4.2 10.8 + - + +
272B THR 4.6 0.9 - - - +
273B PRO* 3.4 18.9 - - + +
274B LYS* 3.0 31.4 + - - +
275B LEU* 3.2 33.5 + - + +
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Residues in contact with PHE 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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322A PRO* 3.4 2.9 - - - +
323A VAL* 2.7 73.1 + - + +
325A ARG* 4.0 15.5 - - + -
335A MET* 4.0 7.4 - - + -
336A THR 5.1 0.2 - - - -
337A GLU* 1.3 79.3 - - - +
339A THR* 1.3 68.7 + - - +
340A GLY* 4.2 7.2 - - - -
527A ILE 5.1 0.2 - - - -
528A GLY* 4.4 5.2 - - - -
530A GLU* 2.9 19.1 - - - +
701A ATP 3.2 82.6 - + + +
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Residues in contact with THR 339 (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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251A GLN* 5.4 0.4 - - - +
320A ILE* 4.3 1.7 - - - +
321A GLY* 4.1 12.3 - - - -
322A PRO* 4.2 4.9 - - - -
338A PHE* 1.3 75.8 - - - +
340A GLY* 1.3 63.5 + - - +
529A LEU* 3.0 35.5 + - + +
530A GLU* 2.9 27.5 + - - +
271B HIS* 3.1 48.1 + - + +
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Residues in contact with GLY 340 (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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319A GLU 4.4 0.2 - - - -
320A ILE* 3.3 4.9 - - - +
321A GLY 3.0 34.6 + - - -
323A VAL* 3.7 14.8 - - - +
338A PHE* 3.7 9.9 + - - -
339A THR* 1.3 74.7 - - - +
341A LEU* 1.3 64.3 + - - +
342A ASP* 4.0 7.0 - - - -
527A ILE 3.4 10.8 - - - -
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Residues in contact with LEU 341 (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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254A VAL* 4.6 18.2 - - + +
255A CYS* 4.4 11.2 - - - -
258A PHE* 3.6 43.5 - - + -
319A GLU 4.1 1.8 - - - -
320A ILE* 3.3 44.4 - - + +
340A GLY* 1.3 75.0 - - - +
342A ASP* 1.3 61.9 + - - +
525A GLY 4.2 0.5 - - - +
526A GLY* 3.5 1.4 - - - -
527A ILE* 2.8 56.6 + - + +
529A LEU* 4.6 16.8 - - + +
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Residues in contact with ASP 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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258A PHE* 3.7 3.4 - - - -
301A SER* 5.1 3.5 - - - -
302A PRO* 3.3 34.8 - - + +
303A GLN* 5.0 0.7 + - - -
306A LYS* 3.5 30.4 + - + +
318A TYR* 2.9 8.9 - - - +
319A GLU* 2.7 40.6 + - - +
321A GLY 5.6 0.5 - - - +
340A GLY* 4.0 6.2 - - - -
341A LEU* 1.3 84.9 + - - +
343A MET* 1.3 60.9 + - - +
525A GLY 3.9 4.9 - - - -
526A GLY* 4.0 12.9 - - - -
527A ILE 5.0 0.2 - - - +
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Residues in contact with MET 343 (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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258A PHE* 4.7 7.4 - - + -
262A LEU* 4.3 16.6 - - + -
267A PHE* 3.5 31.6 - - + -
306A LYS* 3.4 13.6 + - - -
317A VAL 3.0 13.0 - - - +
318A TYR* 3.7 9.2 - - + +
342A ASP* 1.3 77.4 - - - +
344A GLU* 1.3 70.2 + - - +
345A MET* 4.8 8.5 - - + -
354A VAL* 4.8 4.0 - - + -
357A THR* 4.6 8.5 - - + -
358A LEU* 3.6 36.3 - - + -
523A ALA 4.8 0.7 - - - +
524A GLY* 3.8 20.0 - - - -
525A GLY 3.6 18.0 + - - +
527A ILE* 6.4 0.7 - - + -
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Residues in contact with GLU 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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267A PHE* 3.8 3.4 - - - -
303A GLN* 4.2 0.2 + - - -
306A LYS* 3.8 29.3 + - + +
307A GLN* 3.3 19.5 - - - +
310A ILE* 3.6 26.2 - - + +
315A GLU 4.1 0.5 - - - +
316A ARG* 3.9 0.5 - - - -
317A VAL* 2.7 33.3 + - + +
343A MET* 1.3 79.3 - - - +
345A MET* 1.3 64.5 + - - +
485A ARG* 2.7 45.0 + - - -
522A HIS* 3.3 12.2 - - + -
523A ALA 3.7 7.0 - - - -
524A GLY* 3.3 6.2 - - - -
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Residues in contact with MET 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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265A LYS* 5.2 1.8 - - + -
267A PHE* 3.8 27.1 - - + -
310A ILE* 4.6 0.9 - - - -
315A GLU 3.6 5.4 - - - -
316A ARG* 3.2 40.8 - - + +
343A MET* 4.8 4.0 - - + -
344A GLU* 1.3 78.1 - - - +
346A ALA* 1.3 65.5 + - - +
347A PHE* 3.9 1.9 + - - -
353A GLU* 4.8 2.5 - - - +
354A VAL* 3.6 34.8 - - + +
357A THR* 3.7 22.7 - - + +
522A HIS* 2.7 13.3 - - - +
523A ALA 2.7 46.4 + - - +
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Residues in contact with ALA 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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310A ILE* 4.3 6.5 - - + +
315A GLU* 2.9 44.4 + - - +
316A ARG* 4.2 10.0 + - - -
345A MET* 1.3 83.4 - - - +
347A PHE* 1.3 60.2 + - - +
348A GLU* 5.5 0.9 - - - -
520A PRO* 4.2 13.0 - - + -
521A PRO 3.0 12.6 - - - +
522A HIS* 3.7 6.9 - - + +
112B ARG* 3.9 9.2 + - - +
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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