Contacts of the strand formed by residues 180 - 187 (chain A) in PDB entry 1TAG
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 180 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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179A GLY* 1.3 70.7 - - - -
181A ILE* 1.3 66.5 + - - +
182A GLU* 4.0 2.6 + - + +
195A PHE* 4.4 24.9 - - + -
205A LYS* 3.9 40.1 - - + +
206A LYS* 3.8 31.4 - - + +
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Residues in contact with ILE 181 (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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46A VAL* 5.2 8.5 - - + -
177A THR* 3.9 29.6 - - + -
179A GLY* 3.6 6.2 + - - +
180A ILE* 1.3 79.1 - - - +
182A GLU* 1.3 70.3 - - - +
183A THR* 4.2 12.4 + - - +
194A MET 3.8 7.4 - - - +
195A PHE* 4.0 10.7 - - - -
196A ASP* 4.0 20.4 + - - +
206A LYS* 5.2 2.4 - - - +
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Residues in contact with GLU 182 (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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180A ILE* 4.0 3.0 + - + -
181A ILE* 1.3 78.7 - - - +
183A THR* 1.3 65.3 + - - +
184A GLN* 2.8 37.1 + - + +
193A ARG* 3.1 36.3 + - + +
194A MET 3.5 3.6 - - - +
195A PHE* 3.4 35.8 - - + -
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Residues in contact with THR 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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46A VAL* 3.5 29.7 - - + +
49A MET* 4.1 19.3 - - + -
50A LYS* 5.9 0.2 - - + -
54A GLN* 4.1 17.3 - - - +
181A ILE* 4.2 8.7 + - - +
182A GLU* 1.3 74.1 - - - +
184A GLN* 1.3 61.5 + - - +
185A PHE* 3.9 21.0 - - + -
192A PHE 3.5 2.8 - - - +
194A MET* 2.8 53.2 + - - +
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Residues in contact with GLN 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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54A GLN* 2.8 27.2 + - - +
182A GLU* 2.8 42.2 + - + +
183A THR* 1.3 77.1 - - - +
185A PHE* 1.3 60.9 - - - +
192A PHE 3.1 10.3 - - - +
193A ARG* 4.2 9.6 + - + -
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Residues in contact with PHE 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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49A MET* 3.8 29.6 - - + -
53A HIS* 3.5 48.7 - + + +
54A GLN* 4.2 6.5 - - + -
183A THR* 3.9 20.6 - - + -
184A GLN* 1.3 78.3 - - - +
186A SER* 1.3 61.1 + - - +
187A PHE* 4.2 2.5 - - + -
191A ASN* 3.7 1.9 - - - -
192A PHE* 2.8 64.8 + + + +
194A MET* 3.9 12.8 - - + -
332A PHE* 3.7 24.0 - + - -
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Residues in contact with SER 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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53A HIS* 4.8 7.0 + - - +
185A PHE* 1.3 77.6 - - - +
187A PHE* 1.3 66.3 + - - +
189A ASP* 4.6 6.8 + - - -
190A LEU 3.2 14.8 + - - -
191A ASN* 3.8 17.1 + - - +
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Residues in contact with PHE 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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53A HIS* 3.5 37.9 - + - +
185A PHE* 4.2 3.6 + - + -
186A SER* 1.3 77.3 + - - +
188A LYS* 1.3 99.4 + - + +
189A ASP 3.1 0.9 - - - -
190A LEU* 2.9 25.6 + - - +
192A PHE* 3.8 14.6 - + + -
329A LYS 5.9 0.4 - - - -
332A PHE* 4.0 9.4 - + - -
333A ASP* 3.2 32.1 - - + -
336A THR* 3.5 32.3 - - + -
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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