Contacts of the strand formed by residues 182 - 189 (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 TYR 182 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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53A ILE* 2.9 30.9 - - + +
54A SER* 2.6 23.2 + - - +
55A LYS* 3.6 4.8 + - - +
179A PHE* 3.2 48.0 - + + -
180A ILE* 2.8 34.1 - - + -
181A GLU* 1.3 75.3 - - - +
183A PHE* 1.3 60.8 + - - +
184A ALA 4.0 0.7 + - - -
199A ALA* 4.4 3.1 - - + -
200A TYR 3.3 6.3 - - - +
201A ASN* 2.9 49.5 + - + -
202A GLN* 4.3 1.6 - - - -
208A HIS* 6.2 3.1 - - + -
210A PHE* 4.6 11.7 - + - -
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Residues in contact with PHE 183 (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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55A LYS* 3.5 39.7 - - + -
182A TYR* 1.3 72.2 - - - +
184A ALA* 1.4 78.0 + - - +
185A LEU* 3.4 20.0 + - + +
199A ALA* 3.0 3.9 - - - -
200A TYR* 2.6 42.3 + - + +
202A GLN* 2.9 24.8 + - - +
238A ASP* 3.2 33.2 - - + -
528A VAL* 4.0 11.0 - - + -
531A LEU* 4.1 22.2 - - + -
532A GLU* 4.1 10.8 - - + -
535A ASN* 4.2 7.9 - - - -
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Residues in contact with ALA 184 (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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30A ILE* 4.3 26.7 - - + -
53A ILE* 4.6 5.5 - - + +
55A LYS* 5.5 0.8 - - - +
182A TYR 4.0 2.4 + - - -
183A PHE* 1.4 90.7 - - - +
185A LEU* 1.4 63.7 + - - +
197A VAL* 4.5 8.3 - - + -
198A ILE 3.4 10.5 - - - +
199A ALA* 3.9 4.7 - - + +
238A ASP* 5.2 0.9 - - - +
242A MET* 3.7 25.5 - - + +
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Residues in contact with LEU 185 (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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183A PHE* 3.8 21.1 - - + +
184A ALA* 1.4 72.3 - - - +
186A ASP* 1.4 72.7 + - + +
198A ILE* 2.9 24.7 + - + +
199A ALA* 4.6 2.5 - - - -
200A TYR* 4.5 9.6 - - + -
207A ILE* 3.8 31.4 - - + -
242A MET* 3.2 16.7 - - - +
457A SER 4.5 5.8 - - - +
458A ILE* 4.8 0.9 - - - -
460A ASN* 4.2 18.1 - - - +
461A LEU* 4.1 21.8 - - + -
531A LEU* 3.4 33.7 - - + -
535A ASN* 5.2 2.4 - - - +
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Residues in contact with ASP 186 (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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184A ALA 3.9 0.2 - - - -
185A LEU* 1.4 95.0 - - - +
187A LEU* 1.3 63.1 + - - +
197A VAL* 2.7 22.2 - - - +
198A ILE 3.3 9.0 + - - -
241A ALA 5.6 0.2 - - - -
242A MET* 4.1 16.0 - - - +
245A ARG* 3.6 32.8 + - + +
456A GLU* 4.9 0.6 - - - +
457A SER* 2.9 42.7 + - - +
460A ASN* 3.1 18.9 + - - +
534A GLN* 5.5 2.6 + - - -
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Residues in contact with LEU 187 (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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30A ILE* 4.5 12.3 - - + -
186A ASP* 1.3 77.6 - - - +
188A LEU* 1.3 61.6 + - - +
189A THR* 4.6 3.1 + - - +
194A VAL* 4.1 20.9 - - + -
196A GLY 4.1 2.7 - - - +
197A VAL* 3.0 26.7 - - + -
215A THR* 4.7 7.4 - - + -
217A ILE* 5.7 3.8 - - + -
242A MET* 4.4 29.3 + - + +
243A VAL* 5.2 4.5 - - + -
246A ALA* 4.5 24.4 - - + +
400A LEU* 3.9 35.4 - - + -
456A GLU* 4.0 9.0 - - - +
457A SER* 2.8 14.4 + - - -
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Residues in contact with LEU 188 (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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186A ASP 3.8 0.4 + - - -
187A LEU* 1.3 76.4 - - - +
189A THR* 1.3 62.3 + - - +
194A VAL* 3.7 3.5 - - - -
195A VAL* 3.0 30.8 + - - +
196A GLY 3.3 13.1 + - - +
197A VAL* 4.0 9.8 - - - +
198A ILE* 4.7 2.2 - - + -
209A ARG* 3.6 29.8 - - + -
211A ARG* 6.6 0.2 - - - -
449A LEU* 2.9 46.4 - - + -
453A LEU* 2.7 36.3 - - + +
454A GLY* 3.0 11.2 - - - -
456A GLU* 4.7 0.4 - - + -
457A SER* 3.5 10.8 - - - +
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Residues in contact with THR 189 (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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187A LEU* 4.0 4.4 + - - +
188A LEU* 1.3 79.2 - - - +
190A HIS* 1.3 77.0 + - - +
192A GLY* 3.6 9.6 - - - +
193A GLU 3.0 22.4 + - - +
194A VAL* 4.7 5.2 - - + +
195A VAL* 4.6 3.1 - - - -
246A ALA* 4.7 16.5 + - - +
449A LEU* 3.8 1.6 - - - +
453A LEU* 2.7 40.7 - - - +
456A GLU* 4.2 15.1 + - - -
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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