Contacts of the helix formed by residues 191 - 207 (chain A) 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 A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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190A GLN* 1.3 75.4 + - - +
192A LYS* 1.3 58.4 + - - +
193A SER* 3.7 7.4 + - - -
194A GLY* 2.8 30.4 + - - -
195A LEU 2.9 24.6 + - - -
249A TRP* 3.6 10.8 - - - -
524A HIS* 3.5 28.2 + - + -
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Residues in contact with LYS 192 (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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191A ASP* 1.3 75.1 - - - +
193A SER* 1.3 59.8 + - - +
195A LEU* 3.4 0.9 + - - -
196A LEU* 3.0 27.7 + - - +
220A ILE* 3.5 22.2 - - + +
249A TRP* 3.3 55.9 - - + +
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Residues in contact with SER 193 (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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191A ASP* 3.4 6.3 + - - -
192A LYS* 1.3 77.0 - - - +
194A GLY* 1.3 60.7 + - - +
196A LEU* 3.6 9.5 - - - +
197A MET* 3.1 34.6 + - - +
520A ALA* 4.8 4.3 - - - -
521A HIS* 3.7 32.9 - - - +
524A HIS* 3.3 34.9 - - - -
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Residues in contact with GLY 194 (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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190A GLN* 3.2 22.9 - - - +
191A ASP* 2.8 17.7 + - - -
193A SER* 1.3 75.9 + - - +
195A LEU* 1.3 62.8 + - - +
197A MET* 3.4 19.6 + - - +
198A LYS* 3.3 24.8 + - - +
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Residues in contact with LEU 195 (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 VAL* 4.6 9.4 - - + -
190A GLN* 3.8 9.5 - - + +
191A ASP 2.9 17.0 + - - +
192A LYS 3.9 3.8 - - - +
194A GLY* 1.3 76.0 - - - +
196A LEU* 1.3 56.6 + - - +
198A LYS* 3.1 12.8 + - + -
199A LEU* 2.8 44.6 + - + +
220A ILE* 4.7 4.7 - - + -
249A TRP* 3.7 27.8 - - + -
250A VAL* 3.8 26.9 - - + -
253A ALA* 3.7 28.3 - - + -
254A PHE* 4.1 13.0 - - + -
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Residues in contact with LEU 196 (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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192A LYS 3.0 18.1 + - - +
193A SER* 3.6 10.8 - - - +
195A LEU* 1.3 76.7 - - - +
197A MET* 1.3 57.3 + - + +
199A LEU* 3.2 5.8 + - - +
200A GLN* 2.8 58.0 + - + +
217A PRO 4.2 3.4 - - - +
218A LEU 3.6 21.8 - - - +
219A ASN* 3.6 33.4 - - - +
220A ILE* 4.0 8.2 - - + +
223A ALA* 4.5 8.7 - - + -
517A VAL 5.1 2.2 - - - +
520A ALA* 3.9 19.5 - - + -
521A HIS* 5.2 4.7 - - + +
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Residues in contact with MET 197 (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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190A GLN* 5.3 1.1 - - - +
193A SER* 3.1 15.5 + - - +
194A GLY* 3.7 25.8 - - - +
195A LEU 3.3 0.2 - - - -
196A LEU* 1.3 75.5 - - - +
198A LYS* 1.3 65.9 + - + +
200A GLN* 3.5 14.1 + - - +
201A ASN* 3.2 23.6 + - - +
485A ASN* 3.6 45.8 - - - +
486A PHE* 4.4 18.6 - - + -
521A HIS* 4.0 30.1 - - + +
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Residues in contact with LYS 198 (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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185A VAL* 5.0 12.2 - - + +
186A SER* 2.9 35.7 + - - +
187A VAL* 3.9 4.3 + - + +
190A GLN* 3.7 24.9 - - + +
194A GLY 3.4 14.8 - - - +
195A LEU* 3.1 18.7 + - + +
197A MET* 1.3 80.8 - - + +
199A LEU* 1.3 57.3 + - + +
201A ASN* 3.5 10.7 + - + +
202A LEU* 3.0 28.5 + - - +
392A ASP* 2.7 30.7 + - - +
393A VAL* 5.1 1.5 - - - +
394A LYS* 5.9 0.6 - - - +
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Residues in contact with LEU 199 (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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185A VAL* 6.4 0.2 - - + -
195A LEU* 2.8 47.2 + - + +
196A LEU* 3.7 4.0 - - - +
198A LYS* 1.3 69.9 - - - +
200A GLN* 1.3 61.2 + - - +
202A LEU* 3.6 9.9 - - + +
203A CYS* 2.8 37.8 + - - -
217A PRO* 5.0 0.9 - - - -
220A ILE* 4.5 15.9 - - + +
223A ALA* 3.8 30.7 - - + +
224A LYS 5.1 1.1 - - - +
227A LEU* 4.7 9.4 - - + -
253A ALA* 4.3 14.4 - - + +
254A PHE* 3.7 37.2 - - + -
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Residues in contact with GLN 200 (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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196A LEU* 2.8 43.3 + - + +
197A MET* 3.7 16.8 - - - +
199A LEU* 1.3 72.2 - - - +
201A ASN* 1.3 62.4 + - - +
203A CYS* 3.3 1.9 + - - +
204A THR* 3.1 26.2 + - - -
216A LEU* 3.7 29.5 - - + +
217A PRO* 2.9 35.1 + - + +
481A MET* 5.5 1.0 - - - +
485A ASN* 5.7 0.2 - - - +
517A VAL* 3.2 46.4 + - - +
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Residues in contact with ASN 201 (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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197A MET 3.2 15.1 + - - +
198A LYS* 3.8 9.3 + - + +
200A GLN* 1.3 79.6 - - - +
202A LEU* 1.3 61.9 + - - +
204A THR* 3.4 9.9 + - - +
205A ARG* 3.0 49.2 + - - +
434A ARG* 5.7 5.5 - - - +
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Residues in contact with LEU 202 (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 HIS* 4.8 2.0 - - + -
185A VAL* 3.8 30.3 - - + -
198A LYS 3.0 18.4 + - - +
199A LEU* 3.6 9.9 - - + +
200A GLN 3.3 0.2 - - - -
201A ASN* 1.3 74.6 - - - +
203A CYS* 1.3 66.3 + - - +
205A ARG* 3.1 34.8 + - + +
206A LEU* 2.9 52.4 + - + +
227A LEU* 4.4 19.3 - - + -
240A LEU* 4.7 8.1 - - + -
254A PHE* 4.0 21.1 - - + -
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Residues in contact with CYS 203 (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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199A LEU* 2.8 29.9 + - - +
200A GLN 3.3 4.2 + - - +
202A LEU* 1.3 73.3 - - - +
204A THR* 1.3 62.8 + - - +
206A LEU* 3.4 1.8 + - - -
207A ASP* 3.2 21.5 + - - +
216A LEU* 5.4 0.9 - - + -
217A PRO* 4.0 30.3 - - + -
223A ALA* 4.1 17.9 - - - -
226A ARG* 4.1 19.1 - - + +
227A LEU* 4.4 12.8 - - - -
230A LEU* 3.6 21.8 - - + +
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Residues in contact with THR 204 (chain A).
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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200A GLN 3.1 15.0 + - - -
201A ASN* 3.5 12.9 - - - +
203A CYS* 1.3 76.4 - - - +
205A ARG* 1.3 64.7 + - + +
206A LEU 3.3 0.7 + - - -
207A ASP 3.3 20.9 + - - +
208A GLN* 3.7 8.5 + - + +
216A LEU* 3.3 19.9 - - - +
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Residues in contact with ARG 205 (chain A).
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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116A GLU 5.4 2.2 + - - -
117A GLY 3.2 23.8 + - - -
118A GLY* 4.5 5.5 - - - -
183A HIS* 4.6 17.2 + - + +
184A TRP 2.6 35.5 + - - +
185A VAL* 4.0 8.7 - - - +
186A SER 5.2 0.6 - - - +
201A ASN* 3.0 40.6 + - - +
202A LEU* 3.1 29.2 + - + +
204A THR* 1.3 78.6 - - + +
206A LEU* 1.3 64.2 + - + +
207A ASP 3.5 0.3 + - - -
208A GLN* 3.5 33.7 + - - +
235A HIS* 5.7 0.5 - - - -
434A ARG* 6.3 1.1 - - - +
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Residues in contact with LEU 206 (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 HIS* 3.5 45.1 - - + +
202A LEU* 2.9 37.8 + - + +
203A CYS* 3.4 1.1 + - - -
205A ARG* 1.3 77.3 - - - +
207A ASP* 1.3 57.7 + - - +
208A GLN 3.8 1.3 - - - -
227A LEU* 3.7 30.5 - - + -
230A LEU* 4.0 19.9 - - + +
231A MET* 4.0 11.7 - - - -
234A LYS* 3.4 15.3 + - - +
235A HIS* 2.9 38.5 + - + +
240A LEU* 5.1 1.3 - - + -
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Residues in contact with ASP 207 (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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203A CYS 3.2 12.9 + - - +
204A THR* 3.5 8.7 - - - +
205A ARG 3.3 0.2 - - - -
206A LEU* 1.3 79.1 - - - +
208A GLN* 1.3 64.5 + - - +
209A ASP* 3.5 1.8 - - - +
210A GLU* 3.3 17.9 + - - +
211A SER* 3.0 31.4 + - - -
212A PHE* 3.3 33.6 + - - +
213A SER 3.8 4.3 - - - +
226A ARG* 5.8 1.8 - - - -
230A LEU* 3.6 23.3 - - + +
234A LYS* 3.7 4.4 - - - +
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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