Contacts of the strand formed by residues 160 - 170 (chain T) in PDB entry 1RZZ
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 160 (chain T).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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152T PRO* 4.5 20.0 - - + -
153T VAL 3.4 8.5 - - - +
154T ARG* 4.3 9.4 - - + +
158T LEU 5.7 0.7 - - - +
159T GLU* 1.3 76.9 + - - +
161T ALA* 1.3 61.4 + - - +
162T GLY 3.6 23.6 - - - +
184T LYS* 3.9 24.0 + - - +
210T SER* 4.1 6.2 - - - -
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Residues in contact with ALA 161 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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153T VAL 2.7 13.9 + - - +
155T GLY 4.9 0.9 - - - +
159T GLU 3.5 2.1 + - - +
160T ILE* 1.3 74.3 - - - +
162T GLY* 1.3 55.1 + - - +
183T LEU* 3.5 26.0 - - - +
184T LYS* 4.4 8.8 + - - +
210T SER* 3.9 16.6 - - - +
213T PHE* 3.5 48.1 - - + +
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Residues in contact with GLY 162 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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152T PRO* 3.4 5.2 - - - +
153T VAL* 2.6 34.1 + - - +
160T ILE* 3.6 11.9 - - - +
161T ALA* 1.3 82.2 - - - +
163T LYS* 1.3 57.7 + - - +
181T VAL* 4.2 4.7 - - - -
182T GLU 3.0 14.6 - - - -
183T LEU* 4.6 0.9 - - - -
184T LYS* 4.5 7.4 - - - -
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Residues in contact with LYS 163 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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150T GLY* 4.9 6.3 - - - +
151T LEU 3.2 12.6 - - - +
152T PRO* 4.4 4.3 - - + -
153T VAL* 4.0 4.5 - - - -
162T GLY* 1.3 75.1 - - - +
164T VAL* 1.3 65.7 + - - +
165T VAL* 3.6 8.2 + - + -
181T VAL* 3.3 1.9 - - - +
182T GLU* 2.8 66.7 + - + +
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Residues in contact with VAL 164 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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148T PRO 3.3 20.4 - - - +
149T ILE* 3.6 20.5 - - + +
150T GLY* 2.7 28.5 + - - +
151T LEU 2.8 13.1 + - - +
153T VAL* 3.7 21.1 - - + -
163T LYS* 1.3 73.1 - - - +
165T VAL* 1.3 63.5 + - - +
166T ASP 3.7 15.5 - - - +
179T LEU* 4.2 20.6 - - + -
180T GLU 3.3 12.6 - - - +
181T VAL* 4.7 4.0 - - + -
203T VAL* 4.0 16.6 - - + -
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Residues in contact with VAL 165 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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135T LYS* 5.6 3.6 + - - -
149T ILE* 4.1 12.9 - - - +
163T LYS* 4.0 12.3 - - + +
164T VAL* 1.3 77.5 - - - +
166T ASP* 1.3 69.2 + - + +
180T GLU* 2.8 41.7 + - + +
182T GLU* 3.7 35.4 - - + +
188T THR* 4.3 11.7 - - + -
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Residues in contact with ASP 166 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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133T PRO* 3.3 26.9 - - - +
134T MET* 3.6 16.3 - - - +
135T LYS* 3.4 28.4 + - + +
149T ILE* 3.7 16.4 - - - +
164T VAL* 3.6 8.7 - - - +
165T VAL* 1.3 85.5 - - + +
167T ILE* 1.3 77.1 + - - +
168T TRP* 4.8 0.2 - - + -
179T LEU* 3.6 3.3 - - - -
180T GLU* 2.7 47.7 + - + +
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Residues in contact with ILE 167 (chain T).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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10S VAL* 4.7 7.9 - - + -
12S VAL* 5.5 2.9 - - + -
133T PRO* 3.7 1.6 - - - +
134T MET* 2.8 37.9 + - + +
142T VAL* 3.7 30.5 - - + -
148T PRO* 3.8 18.8 - - + -
149T ILE* 3.7 18.2 - - + -
166T ASP* 1.3 82.2 + - - +
168T TRP* 1.3 64.2 + - - +
169T VAL* 3.9 15.7 - - + -
176T ALA* 3.7 28.3 - - + -
178T PHE 3.6 6.7 - - - +
179T LEU* 3.6 17.9 - - + -
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Residues in contact with TRP 168 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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131T ILE* 3.8 22.4 - - + -
132T LYS 3.5 2.5 - - - -
133T PRO* 3.3 33.9 - - + +
166T ASP 4.7 0.4 - - - -
167T ILE* 1.3 79.3 - - - +
169T VAL* 1.3 61.4 + - - +
176T ALA* 3.8 2.1 - - - -
177T ARG* 2.9 25.6 + - - -
178T PHE* 2.7 33.3 + + + +
180T GLU* 2.9 36.4 + - + -
190T LEU* 3.5 30.7 - - + +
219T ILE* 3.9 10.8 - - + -
222T PRO 3.4 14.6 - - - -
223T THR 3.7 3.4 - - - -
224T GLU* 3.5 48.9 - - - -
225T VAL* 3.7 16.2 - - + -
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Residues in contact with VAL 169 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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12S VAL* 3.6 28.5 - - + -
131T ILE* 3.2 7.3 - - - -
132T LYS 2.8 39.8 + - - +
134T MET* 4.5 11.2 - - + -
137T ALA* 5.4 1.8 - - + -
140T PHE* 3.9 25.1 - - + -
167T ILE* 3.9 19.7 - - + +
168T TRP* 1.3 77.2 - - - +
170T ASP* 1.3 76.9 + - - +
171T ILE* 3.3 12.0 + - + +
175T MET 3.7 16.2 - - - +
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Residues in contact with ASP 170 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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233S CYS* 4.8 3.3 - - - -
130T LYS* 2.9 43.8 + - - +
131T ILE* 4.5 3.4 - - + +
169T VAL* 1.3 72.0 - - - +
171T ILE* 1.3 53.2 + - - +
172T PRO* 3.2 3.3 - - - +
173T GLU* 2.8 41.8 + - + +
174T GLN* 2.7 36.0 + - - -
175T MET* 2.9 10.8 + - + +
177T ARG* 3.5 35.8 + - + +
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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