Contacts of the strand formed by residues 316 - 324 (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 ARG 316 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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265A LYS* 2.9 30.6 + - - +
266A LYS* 3.4 23.2 + - - +
267A PHE* 3.2 24.6 - - + -
268A THR* 2.8 28.4 + - - -
314A PHE 3.0 9.4 + - - +
315A GLU* 1.3 93.4 - - - +
317A VAL* 1.3 64.7 + - - +
344A GLU 3.9 2.9 - - - -
345A MET* 3.2 33.9 - - + +
346A ALA 4.2 8.5 + - - -
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Residues in contact with VAL 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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267A PHE* 3.4 5.6 - - - -
268A THR* 3.5 10.1 - - - +
270A VAL* 3.5 41.1 - - + -
306A LYS* 4.5 19.3 - - + +
309A LEU* 4.4 14.4 - - + -
310A ILE* 5.1 4.5 - - + -
314A PHE* 3.6 28.0 - - + -
316A ARG* 1.3 81.5 - - - +
318A TYR* 1.3 58.8 + - - +
343A MET* 3.0 3.3 - - - +
344A GLU* 2.7 44.4 + - + +
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Residues in contact with TYR 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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258A PHE* 3.6 20.9 - + + -
259A ARG* 3.6 40.4 + - + +
262A LEU* 3.8 23.3 - - + -
263A ALA* 5.2 1.6 - - - +
267A PHE* 3.7 32.1 - - + -
268A THR 3.5 6.3 + - - -
269A GLU* 3.5 34.6 + - + +
270A VAL* 3.0 24.2 + - - -
306A LYS* 5.8 0.9 - - - -
317A VAL* 1.3 73.7 - - - +
319A GLU* 1.3 65.3 + - - +
320A ILE* 4.5 7.0 - - + -
342A ASP 2.9 17.0 - - - +
343A MET* 3.7 11.0 - - + +
259B ARG* 4.5 1.4 + - - -
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Residues in contact with GLU 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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269A GLU* 5.3 0.9 - - - -
270A VAL* 2.7 26.4 - - + +
271A HIS* 3.3 9.5 - - + +
272A THR* 3.0 45.6 + - - +
274A LYS* 3.0 27.2 + - - -
302A PRO* 3.6 17.5 - - + +
306A LYS* 5.3 3.2 - - + +
318A TYR* 1.3 76.7 - - - +
320A ILE* 1.3 69.1 + - - +
321A GLY* 3.6 3.6 + - - +
340A GLY 3.8 1.6 - - - +
342A ASP* 2.7 39.3 + - + +
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Residues in contact with ILE 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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255A CYS* 4.5 5.2 - - + -
258A PHE* 4.4 12.8 - - + -
259A ARG* 3.0 53.6 - - + +
269A GLU* 5.1 8.5 + - - +
271A HIS* 5.5 5.7 - - - -
318A TYR* 4.5 7.3 - - + -
319A GLU* 1.3 76.1 - - - +
321A GLY* 1.3 58.2 + - - +
339A THR* 4.3 1.1 - - - +
340A GLY 3.3 7.2 - - - +
341A LEU* 3.3 32.1 - - + -
259B ARG* 5.1 0.2 - - - +
269B GLU* 5.0 0.4 - - - +
271B HIS* 3.8 28.5 - - + +
320B ILE 5.1 6.1 - - - +
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Residues in contact with GLY 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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274A LYS* 4.6 10.7 + - - -
302A PRO* 5.7 1.7 - - - +
319A GLU* 3.6 4.6 + - - +
320A ILE* 1.3 77.8 - - - +
322A PRO* 1.3 80.7 - - - +
323A VAL* 3.5 4.2 - - - +
339A THR* 4.2 3.8 - - - -
340A GLY* 3.0 26.1 + - - +
342A ASP* 5.6 0.5 - - - +
271B HIS* 6.1 0.2 - - - -
320B ILE 5.9 1.1 - - - -
322B PRO* 5.7 0.2 - - - -
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Residues in contact with PRO 322 (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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274A LYS* 3.8 26.9 + - + +
299A ALA 5.3 1.0 - - - +
302A PRO* 5.3 1.7 - - - +
321A GLY* 1.3 89.9 - - - +
323A VAL* 1.3 60.6 + - - +
324A PHE* 3.8 22.6 - - + -
337A GLU* 4.3 12.3 - - - +
338A PHE 3.4 9.4 - - - +
339A THR* 4.2 5.6 - - - -
274B LYS* 4.5 10.3 - - + -
320B ILE 6.0 0.4 - - - +
321B GLY* 5.3 2.2 - - - -
322B PRO* 3.8 36.6 - - + -
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Residues in contact with VAL 323 (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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299A ALA 4.6 3.4 - - - -
300A GLN 3.1 32.1 - - - +
301A SER* 4.0 5.4 - - - +
302A PRO* 4.5 14.8 - - + -
321A GLY 3.5 9.4 - - - +
322A PRO* 1.3 80.7 - - - +
324A PHE* 1.3 63.8 + - - +
325A ARG* 3.7 7.4 - - - +
337A GLU* 3.1 4.0 - - - -
338A PHE* 2.7 65.5 + - + +
340A GLY* 3.7 18.6 - - - +
342A ASP* 5.1 1.1 - - - +
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Residues in contact with PHE 324 (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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274A LYS* 4.3 17.5 - - + -
286A VAL* 5.5 0.5 - - - +
287A PHE* 3.6 22.9 - - + -
298A LEU* 3.7 43.5 - - + +
299A ALA 4.1 10.3 + - - +
300A GLN* 3.4 21.3 + - - +
322A PRO* 3.8 23.8 - - + -
323A VAL* 1.3 74.5 - - - +
325A ARG* 1.3 67.0 + - - +
326A ALA 4.2 0.2 - - - -
336A THR 3.2 5.6 - - - +
337A GLU* 3.2 36.3 - - + -
274B LYS* 4.1 17.0 - - + -
275B LEU* 3.6 26.2 - - + -
298B LEU* 5.4 0.9 - - + -
324B PHE* 5.0 4.9 - + - -
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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