Contacts of the helix formed by residues 191 - 207 (chain B) in PDB entry 1Z6T
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 ASP 191 (chain B).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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190B GLN* 1.3 77.4 + - - +
192B LYS* 1.3 65.4 + - - +
193B SER* 3.4 8.3 + - - -
194B GLY* 2.8 33.6 + - - -
195B LEU* 2.9 20.4 + - - +
249B TRP* 3.6 8.5 - - - -
524B HIS* 3.3 29.0 + - + -
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Residues in contact with LYS 192 (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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191B ASP* 1.3 75.5 - - - +
193B SER* 1.3 58.3 + - - +
195B LEU 3.3 0.7 + - - -
196B LEU* 2.9 28.7 + - - +
220B ILE* 3.6 27.6 - - + +
249B TRP* 3.3 44.7 - - + +
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Residues in contact with SER 193 (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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191B ASP* 3.4 6.7 + - - -
192B LYS* 1.3 76.1 - - - +
194B GLY* 1.3 66.8 + - - +
196B LEU* 3.4 9.8 + - - +
197B MET* 3.1 30.6 + - - +
520B ALA* 4.8 4.3 - - - -
521B HIS* 3.8 27.9 + - - +
524B HIS* 3.0 41.4 + - - -
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Residues in contact with GLY 194 (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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190B GLN* 3.2 23.2 - - - +
191B ASP* 2.8 17.5 + - - -
193B SER* 1.3 78.3 + - - +
195B LEU* 1.3 58.9 + - - +
197B MET* 3.4 21.0 + - - +
198B LYS* 3.3 24.9 + - - +
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Residues in contact with LEU 195 (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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187B VAL* 4.5 10.5 - - + -
190B GLN* 3.8 11.0 - - + +
191B ASP 2.9 17.5 + - - +
192B LYS 3.7 4.0 - - - +
194B GLY* 1.3 72.2 - - - +
196B LEU* 1.3 59.9 + - - +
198B LYS* 3.1 11.1 + - + -
199B LEU* 2.8 45.3 + - + +
220B ILE* 4.4 4.9 - - + -
249B TRP* 3.7 26.5 - - + -
250B VAL* 4.0 26.7 - - + -
253B ALA* 3.8 27.8 - - + -
254B PHE* 4.1 12.1 - - + -
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Residues in contact with LEU 196 (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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192B LYS 2.9 17.9 + - - +
193B SER* 3.6 8.7 - - - +
194B GLY 3.3 0.2 - - - -
195B LEU* 1.3 77.8 - - - +
197B MET* 1.3 57.9 + - + +
199B LEU* 3.2 5.3 + - - +
200B GLN* 2.8 64.1 + - + +
217B PRO 4.0 2.0 - - - +
218B LEU 3.6 19.7 - - - +
219B ASN* 3.7 34.1 - - - +
220B ILE* 4.1 7.6 - - + +
223B ALA* 4.4 10.1 - - + -
517B VAL 4.9 2.5 - - - +
520B ALA* 3.9 20.4 - - + -
521B HIS* 5.2 5.4 - - + +
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Residues in contact with MET 197 (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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190B GLN* 5.4 0.2 - - - +
193B SER* 3.1 13.5 + - - +
194B GLY* 3.5 29.6 - - - +
195B LEU 3.3 0.2 - - - -
196B LEU* 1.3 76.4 - - + +
198B LYS* 1.3 63.9 + - + +
200B GLN* 3.5 14.4 + - - +
201B ASN* 3.1 23.2 + - - +
485B ASN* 3.7 44.2 - - - +
486B PHE* 4.6 16.8 - - + -
521B HIS* 3.9 35.7 - - + -
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Residues in contact with LYS 198 (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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185B VAL* 5.0 13.2 - - + +
186B SER* 2.8 38.5 + - - +
187B VAL* 3.6 10.9 + - + +
190B GLN* 3.6 25.6 - - + +
194B GLY 3.3 13.0 + - - +
195B LEU* 3.1 18.3 + - + +
197B MET* 1.3 78.7 - - + +
199B LEU* 1.3 58.5 + - + +
201B ASN* 3.4 6.9 + - - +
202B LEU* 3.0 28.2 + - - +
254B PHE* 6.1 0.2 - - + -
392B ASP* 2.6 32.2 + - - +
393B VAL* 5.9 0.7 - - - -
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Residues in contact with LEU 199 (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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195B LEU* 2.8 45.9 + - + +
196B LEU* 3.8 3.8 - - - +
198B LYS* 1.3 71.8 - - - +
200B GLN* 1.3 59.3 + - - +
202B LEU* 3.4 9.3 + - + +
203B CYS* 2.9 36.3 + - - -
220B ILE* 4.5 12.8 - - + +
223B ALA* 3.8 31.4 - - + +
224B LYS 5.2 0.9 - - - +
227B LEU* 4.8 8.1 - - + -
253B ALA* 4.2 14.8 - - + +
254B PHE* 3.3 42.6 - - + -
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Residues in contact with GLN 200 (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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196B LEU* 2.8 45.3 + - + +
197B MET* 3.8 14.6 - - - +
199B LEU* 1.3 71.6 - - - +
201B ASN* 1.3 63.8 + - - +
203B CYS* 3.3 3.1 + - - +
204B THR* 3.1 27.1 + - - -
216B LEU* 4.0 24.2 - - + +
217B PRO* 2.7 39.8 + - + +
517B VAL* 3.2 44.8 + - - +
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Residues in contact with ASN 201 (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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197B MET 3.1 13.9 + - - +
198B LYS* 3.7 7.7 - - + +
200B GLN* 1.3 79.8 - - - +
202B LEU* 1.3 61.1 + - - +
204B THR* 3.3 9.9 + - - -
205B ARG* 3.1 46.8 + - - +
434B ARG* 5.6 5.3 + - - +
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Residues in contact with LEU 202 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
183B HIS* 4.6 2.5 - - + -
185B VAL* 3.7 36.6 - - + -
198B LYS 3.0 17.1 + - - +
199B LEU* 3.7 8.7 - - + +
201B ASN* 1.3 75.7 + - - +
203B CYS* 1.3 66.2 + - - +
205B ARG* 3.2 26.5 + - + +
206B LEU* 2.9 54.0 + - + +
227B LEU* 3.8 21.1 - - + -
240B LEU* 4.4 11.2 - - + -
254B PHE* 4.0 19.1 - - + -
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Residues in contact with CYS 203 (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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199B LEU* 2.9 23.1 + - - +
200B GLN 3.8 3.6 - - - +
202B LEU* 1.3 76.6 - - - +
204B THR* 1.3 62.2 + - - +
206B LEU* 3.5 1.5 + - - -
207B ASP* 3.3 24.8 + - - +
216B LEU* 5.6 0.9 - - + -
217B PRO* 3.9 31.4 - - + -
223B ALA* 4.1 18.6 - - - -
226B ARG* 4.1 18.2 - - + +
227B LEU* 4.3 14.1 - - - -
230B LEU* 3.7 16.2 - - + +
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Residues in contact with THR 204 (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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200B GLN 3.1 13.9 + - - -
201B ASN* 3.6 12.2 - - - -
202B LEU 3.1 0.2 - - - -
203B CYS* 1.3 75.2 - - - +
205B ARG* 1.3 66.1 + - + +
207B ASP* 3.4 21.4 + - - +
208B GLN* 3.7 8.2 + - + +
216B LEU* 3.2 22.3 - - - +
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Residues in contact with ARG 205 (chain B).
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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116B GLU 5.4 1.7 + - - -
117B GLY 3.3 22.0 + - - -
118B GLY* 4.7 4.0 - - - -
183B HIS* 4.5 16.9 + - + +
184B TRP 2.9 31.6 + - - +
185B VAL* 4.2 8.3 - - - +
186B SER 5.4 1.0 - - - +
201B ASN* 3.1 38.1 + - - +
202B LEU* 3.5 30.1 - - + +
204B THR* 1.3 78.3 - - + +
206B LEU* 1.3 64.4 + - + +
207B ASP 3.4 0.7 + - - -
208B GLN* 3.6 34.3 + - - +
235B HIS* 5.5 0.9 - - - -
434B ARG* 5.6 8.8 - - - +
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Residues in contact with LEU 206 (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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183B HIS* 3.6 47.6 - - + +
202B LEU* 2.9 32.1 + - + +
203B CYS 4.0 4.3 - - - +
204B THR 3.2 0.2 - - - -
205B ARG* 1.3 77.1 - - + +
207B ASP* 1.3 58.2 + - - +
208B GLN 3.8 1.1 - - - -
227B LEU* 3.4 32.8 - - + -
230B LEU* 4.1 16.8 - - + +
231B MET* 3.9 16.6 - - - -
234B LYS* 3.5 12.3 - - - +
235B HIS* 2.7 38.2 + - + +
240B LEU* 5.1 0.9 - - + -
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Residues in contact with ASP 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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203B CYS 3.3 15.8 + - - +
204B THR* 3.5 8.2 - - - +
205B ARG 3.2 0.4 - - - -
206B LEU* 1.3 80.8 - - - +
208B GLN* 1.3 66.1 + - - +
209B ASP 3.6 0.4 - - - -
210B GLU* 3.3 12.0 + - - +
211B SER* 3.0 17.7 + - - -
212B PHE* 3.3 40.9 + - - +
213B SER 3.7 8.1 + - - +
226B ARG* 5.5 2.3 - - - -
230B LEU* 3.8 13.9 - - + +
234B LYS* 2.8 27.0 + - - +
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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