Contacts of the strand formed by residues 206 - 218 (chain B) in PDB entry 4ZTZ
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 206 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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124B GLN* 3.2 18.8 - - + +
126B PHE* 4.6 8.5 - + - -
193B TYR* 2.7 60.6 + + - -
196B CYS* 3.3 36.6 - - + +
197B LEU* 3.7 18.6 - - + -
200B VAL* 4.4 9.6 - - + -
203B ARG 3.8 9.9 - - - +
204B LEU* 4.4 7.0 - - + -
205B PRO* 1.3 76.5 - - - +
207B GLY* 1.3 65.2 + - - +
208B LEU* 3.6 14.5 - - + +
241B TRP* 4.2 6.5 - - - -
242B PHE* 2.9 47.8 + + + +
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Residues in contact with GLY 207 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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124B GLN 2.8 13.2 + - - +
125B VAL* 3.3 3.4 - - - -
126B PHE 3.0 24.1 + - - -
206B TYR* 1.3 75.4 - - - +
208B LEU* 1.3 70.9 + - - +
209B ALA 4.2 0.2 - - - -
239B LEU* 4.0 7.4 - - - -
240B VAL 3.2 11.2 - - - -
241B TRP* 3.9 17.5 - - - -
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Residues in contact with LEU 208 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
126B PHE* 3.3 17.3 - - + +
127B PRO 5.2 0.2 - - - +
128B VAL* 3.8 18.8 - - + +
189B ALA* 3.4 25.9 - - - +
192B HIS* 3.7 22.4 - - + +
196B CYS* 3.6 25.4 - - + -
206B TYR* 3.6 12.1 - - + -
207B GLY* 1.3 82.7 - - - +
209B ALA* 1.3 61.0 + - - +
238B SER 3.8 1.2 - - - +
239B LEU* 3.4 3.3 - - - +
240B VAL* 2.9 44.3 + - + +
242B PHE* 3.9 20.2 - - + -
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Residues in contact with ALA 209 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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114B TRP* 5.0 3.6 - - - +
115B TRP* 3.5 9.7 - - + -
118B VAL* 4.7 3.1 - - + -
119B VAL* 3.6 31.0 - - + -
125B VAL* 4.2 3.8 - - + +
126B PHE 3.1 8.2 + - - +
127B PRO* 3.4 6.9 - - - +
128B VAL* 3.1 21.4 + - - -
207B GLY 4.2 0.2 - - - -
208B LEU* 1.3 74.4 - - - +
210B GLN* 1.3 61.7 + - - +
238B SER 3.3 8.5 - - - +
239B LEU* 4.0 17.2 - - + +
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Residues in contact with GLN 210 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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114B TRP* 5.6 0.4 - - - +
115B TRP* 4.0 5.3 - - - -
128B VAL* 3.2 31.7 + - + +
129B ASP* 4.1 4.6 + - - +
130B ALA* 3.1 48.1 + - - +
182B ARG* 3.6 14.6 - - - +
185B LEU* 3.3 31.7 - - + +
189B ALA* 4.9 0.6 - - + +
209B ALA* 1.3 77.7 - - - +
211B ILE* 1.3 70.0 + - - +
212B GLY* 5.1 2.2 - - - -
238B SER* 2.9 31.2 + - - +
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Residues in contact with ILE 211 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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111B ALA* 3.4 41.7 - - + +
114B TRP* 3.5 22.2 - - + +
115B TRP* 4.1 18.2 - - + -
210B GLN* 1.3 79.7 - - - +
212B GLY* 1.3 59.4 + - - +
235B THR* 3.9 23.5 - - + +
236B GLU 3.5 6.3 - - - +
237B ALA* 3.7 11.9 - - + -
342B LEU* 4.0 13.0 - - + -
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Residues in contact with GLY 212 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
132B HIS* 6.0 0.2 - - - -
182B ARG* 3.9 13.7 - - - -
185B LEU* 3.6 11.5 - - - +
210B GLN* 5.0 3.1 - - - -
211B ILE* 1.3 76.0 - - - +
213B VAL* 1.3 65.3 + - - -
214B CYS* 3.6 5.0 + - - -
235B THR* 4.4 3.4 - - - -
236B GLU* 2.9 32.5 + - - +
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Residues in contact with VAL 213 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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132B HIS* 4.1 14.4 - - + +
182B ARG* 3.0 25.0 + - - +
212B GLY* 1.3 71.0 - - - -
214B CYS* 1.3 63.1 + - - +
215B PHE* 4.0 7.9 - - + -
233B GLU* 3.7 37.9 - - + +
234B LYS* 3.5 16.2 - - - +
235B THR* 3.8 15.3 + - - +
132C HIS* 3.5 31.0 - - + +
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Residues in contact with CYS 214 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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182B ARG* 4.1 7.4 - - - +
183B GLU 3.5 4.9 - - - +
184B ASN* 3.8 7.0 - - - -
185B LEU* 3.6 40.2 - - - -
212B GLY 4.1 2.0 - - - -
213B VAL* 1.3 78.8 - - - +
215B PHE* 1.3 64.6 + - - +
216B HIS* 3.5 26.4 + - + -
233B GLU* 3.2 3.6 - - - -
234B LYS 2.9 30.8 + - - +
236B GLU* 3.3 23.1 - - - +
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Residues in contact with PHE 215 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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132B HIS* 4.0 24.5 - - + -
181B LEU* 3.5 42.0 - - + +
182B ARG* 3.0 27.0 + - + +
183B GLU* 3.6 11.1 - - - +
213B VAL* 4.0 11.4 - - + -
214B CYS* 1.3 73.4 - - - +
216B HIS* 1.3 62.9 + - - +
217B PRO* 3.9 5.1 - - - +
231B ILE* 3.9 25.6 - - + -
232B GLY 3.8 2.9 - - - -
233B GLU* 3.2 37.7 - - + -
132C HIS* 3.5 36.8 - + + -
133C HIS* 4.2 4.5 - + + -
181C LEU* 5.6 0.4 - - + -
215C PHE* 5.3 2.2 - + - -
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Residues in contact with HIS 216 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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93B SER 5.6 2.5 - - - +
183B GLU* 3.2 32.3 + - + -
214B CYS* 3.5 17.9 + - + -
215B PHE* 1.3 77.4 - - - +
217B PRO* 1.3 70.5 - - + +
218B VAL* 3.5 3.3 + - + +
231B ILE* 3.5 3.4 - - - +
232B GLY 2.9 39.8 + - - +
234B LYS* 3.9 25.8 - - + +
236B GLU* 3.2 25.8 + - - -
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Residues in contact with PRO 217 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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180B LYS* 4.5 23.1 - - - +
183B GLU* 3.9 27.8 - - + +
215B PHE 3.9 6.3 - - - +
216B HIS* 1.3 86.0 - - + +
218B VAL* 1.3 60.0 + - - +
219B PHE* 5.7 7.6 - - + -
230B SER 4.0 6.1 - - - +
231B ILE* 4.5 6.9 - - + -
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Residues in contact with VAL 218 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
93B SER* 4.7 19.1 - - - +
95B CYS* 3.9 17.0 - - - -
216B HIS* 3.9 2.0 - - + +
217B PRO* 1.3 74.6 - - - +
219B PHE* 1.3 73.8 + - - +
220B ASP* 3.5 10.4 + - + +
229B LYS 3.0 1.2 + - - -
230B SER* 2.8 55.0 + - - +
231B ILE 3.8 0.2 - - - +
232B GLY* 3.7 18.6 - - - +
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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