Contacts of the strand formed by residues 363 - 372 (chain A) in PDB entry 1ORZ
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 ILE 363 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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263A ILE* 4.6 10.3 - - + -
270A ILE* 4.3 10.8 - - + -
326A HIS* 4.6 1.1 - - - -
327A MET 3.1 1.3 - - - +
328A TYR* 4.7 0.2 - - - -
329A LEU* 2.9 25.1 + - + +
331A LEU* 3.1 35.0 - - + -
350A ALA* 4.2 9.6 - - + -
354A ALA* 4.5 14.1 - - + -
356A VAL* 5.4 2.0 - - + +
358A VAL* 3.2 31.9 - - + -
361A GLU 3.7 6.1 - - - +
362A PRO* 1.4 78.3 - - - +
364A PRO* 1.3 73.7 - - + +
365A ILE* 2.9 36.2 + - + +
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Residues in contact with PRO 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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263A ILE* 3.6 11.9 - - + +
264A TYR* 3.1 24.7 + - + +
322A LYS* 4.8 11.4 - - + -
324A LYS* 4.6 14.4 - - + +
326A HIS* 3.2 47.6 - - + +
328A TYR* 5.7 1.3 - - + -
354A ALA* 4.7 14.4 - - + +
356A VAL* 4.7 11.4 - - + -
362A PRO 3.6 8.7 - - - +
363A ILE* 1.3 90.4 - - + +
365A ILE* 1.3 57.8 + - - +
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Residues in contact with ILE 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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260A PRO 3.0 9.9 - - - +
261A SER* 2.8 56.3 - - - +
262A GLY 3.0 3.8 - - - +
263A ILE* 4.6 1.6 - - + -
270A ILE* 3.3 19.3 - - + -
275A ARG* 5.2 0.7 - - - +
310A ILE* 4.6 0.2 - - - +
326A HIS* 3.5 2.8 - - - +
327A MET* 3.0 50.5 + - + +
329A LEU* 3.4 23.3 - - + -
363A ILE* 2.9 32.7 + - + +
364A PRO* 1.3 73.9 - - - +
366A ILE* 1.4 67.0 + - - +
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Residues in contact with ILE 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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260A PRO 3.2 3.6 - - - -
262A GLY* 2.6 36.4 + - - +
263A ILE 4.0 3.4 - - - +
264A TYR* 3.2 64.6 - - + +
314A ILE* 4.1 20.4 - - + -
325A ASP 4.0 5.2 - - - +
326A HIS* 5.1 0.4 - - - -
365A ILE* 1.4 75.7 - - - +
367A PRO* 1.3 88.9 - - + +
368A THR* 5.1 4.3 - - - -
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Residues in contact with PRO 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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258A PHE* 4.4 10.4 - - + -
259A HIS 2.8 13.5 - - - +
260A PRO 3.6 2.0 - - - +
307A SER* 2.9 36.6 - - - +
310A ILE* 3.0 38.6 - - + -
311A THR* 4.6 9.4 - - - +
314A ILE* 5.6 0.7 - - + -
366A ILE* 1.3 105.3 - - + +
368A THR* 1.4 58.7 + - - +
490A VAL* 4.9 6.5 - - + +
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Residues in contact with THR 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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228A SER* 2.8 38.1 + - - -
229A CYS* 3.5 3.6 - - - -
230A THR* 3.1 30.1 - - + +
258A PHE* 3.8 6.5 - - - -
259A HIS* 2.6 39.4 + - + +
262A GLY* 3.5 23.3 - - - +
267A GLY* 4.5 8.7 - - - +
366A ILE* 4.2 7.2 - - - -
367A PRO* 1.4 74.0 - - - +
369A VAL* 1.4 57.1 + - - +
370A HIS 3.0 0.3 + - - -
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Residues in contact with VAL 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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223A GLY* 3.9 15.0 - - - +
226A TYR* 3.4 35.2 - - + -
228A SER 3.4 5.1 + - - +
229A CYS* 2.9 34.3 - - + +
230A THR* 3.1 20.8 + - - +
231A SER* 4.5 0.5 + - - -
256A VAL* 4.4 8.1 - - + -
257A GLN 4.1 0.9 - - - -
258A PHE* 2.9 38.1 - - + +
368A THR* 1.4 74.7 + - - +
370A HIS* 1.4 59.5 + - - +
485A GLN* 5.8 0.7 - - - +
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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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62A HIS* 5.4 6.5 + - - -
223A GLY* 5.7 1.7 - - - -
230A THR* 3.4 19.9 + - - -
231A SER* 3.9 12.8 + - - -
256A VAL* 5.7 0.2 - - - -
257A GLN* 2.8 21.5 + - - +
259A HIS* 3.5 37.4 - + + +
269A LEU* 3.6 30.4 - - + +
368A THR 3.0 1.8 + - - -
369A VAL* 1.4 74.9 - - - +
371A TYR* 1.4 87.7 + + + +
405A GLU* 5.0 3.6 - - - +
416A ARG* 3.4 25.4 + - - -
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Residues in contact with TYR 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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256A VAL* 3.7 5.4 - - - +
257A GLN* 2.9 18.6 + - + +
370A HIS* 1.4 98.2 - + + +
372A ASN* 1.3 74.2 + - - +
373A MET* 2.7 45.4 - - + +
404A GLY 3.9 4.2 + - - -
405A GLU* 2.8 62.1 + - + -
407A ALA 4.9 1.4 + - - -
412A HIS* 3.6 32.6 + + - -
416A ARG* 3.5 20.4 - - - +
421A SER* 3.4 24.4 + - - -
424A ASP* 4.5 1.4 + - - -
425A LEU* 5.7 0.2 - - - +
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Residues in contact with ASN 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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221A GLY* 5.1 3.4 - - - -
222A TYR* 5.1 16.9 - - + +
223A GLY 5.9 1.6 - - - +
240A ASN* 5.2 6.5 + - - -
253A LEU* 4.4 11.3 + - - +
255A PHE 3.4 5.6 + - - -
256A VAL* 2.9 37.7 - - + +
371A TYR* 1.3 87.8 - - - +
373A MET* 1.3 62.1 + - - +
374A GLY* 3.0 35.1 + - - +
405A GLU* 3.1 31.6 + - + +
543A THR* 5.5 1.8 + - - -
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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