Contacts of the helix formed by residues 195 - 214 (chain B) in PDB entry 1Z0X
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 HIS 195 (chain B).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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194B ILE* 1.3 75.9 - - - +
196B GLN* 1.3 68.3 + - - +
197B LYS 3.6 1.1 - - - +
198B SER* 3.2 19.8 + - - +
199B ALA* 2.9 21.5 + - - +
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Residues in contact with GLN 196 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
86B TYR* 2.7 30.8 + - - +
90B GLN* 3.5 23.6 + - - +
144B MSE 3.2 21.2 - - + +
145B ILE* 4.4 0.8 - - - +
148B ALA* 3.4 31.5 - - - +
194B ILE 3.3 7.4 + - - +
195B HIS* 1.3 69.1 - - - +
197B LYS* 1.3 64.3 + - - +
199B ALA* 2.9 18.1 + - - +
200B PHE 3.0 9.7 + - - -
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Residues in contact with LYS 197 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
83B GLU* 3.6 34.4 + - - +
86B TYR* 3.5 36.2 + - + -
87B ASP* 2.6 38.4 + - - +
195B HIS* 3.6 0.6 - - - +
196B GLN* 1.3 78.3 - - - +
198B SER* 1.3 64.7 + - - +
200B PHE* 2.9 13.3 + - - +
201B ILE* 3.0 22.3 + - + +
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Residues in contact with SER 198 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
195B HIS* 3.2 25.1 + - - +
197B LYS* 1.3 78.3 - - - +
199B ALA* 1.3 62.0 + - - +
201B ILE* 3.4 9.8 + - - +
202B GLN* 3.0 25.1 + - - +
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Residues in contact with ALA 199 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
132A LEU* 3.7 21.8 - - + +
144B MSE 4.6 4.7 - - + -
194B ILE* 5.7 3.4 - - + -
195B HIS 2.9 12.0 + - - +
196B GLN* 2.9 14.7 + - - +
198B SER* 1.3 73.9 - - - +
200B PHE* 1.3 65.4 + - - +
202B GLN* 3.1 9.4 + - - +
203B ALA* 2.9 18.9 + - - +
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Residues in contact with PHE 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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82B MSE 3.4 39.5 - - + -
83B GLU 4.4 0.2 - - - -
86B TYR* 3.9 22.0 - + + -
137B LEU 4.8 0.9 - - - -
140B LEU* 4.3 12.1 - - + -
141B LEU* 3.5 48.5 - - + -
144B MSE 3.3 29.1 - - + +
196B GLN 3.0 4.6 + - - +
197B LYS 2.9 8.5 + - - +
199B ALA* 1.3 77.6 - - - +
201B ILE* 1.3 77.5 + - + +
203B ALA* 3.1 7.0 + - + +
204B VAL* 3.0 47.6 + - + +
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Residues in contact with ILE 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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79B LEU* 4.2 16.2 - - + -
83B GLU* 3.9 37.9 - - + +
197B LYS* 3.0 26.3 + - + +
198B SER* 3.7 9.2 - - - +
199B ALA 3.3 0.2 - - - -
200B PHE* 1.3 94.3 - - + +
202B GLN* 1.3 57.7 + - - +
204B VAL* 3.3 5.1 + - + +
205B LYS* 2.9 57.5 + - - +
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Residues in contact with GLN 202 (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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128A GLU* 4.6 12.3 + - - +
129A MSE 3.4 27.3 - - - -
132A LEU* 3.2 20.6 - - + +
214A ASP* 5.2 5.7 - - - +
215A ASN* 4.7 7.3 - - - +
218A SER* 5.4 3.8 + - - -
198B SER* 3.0 15.2 + - - +
199B ALA* 3.4 6.5 - - - +
201B ILE* 1.3 77.6 - - - +
203B ALA* 1.3 54.7 + - - +
205B LYS* 4.3 12.9 - - + +
206B THR* 2.6 41.1 + - - -
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Residues in contact with ALA 203 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
132A LEU* 4.1 2.2 - - + +
136A SER* 3.3 28.3 - - - +
207A TYR* 3.6 12.5 - - + -
140B LEU* 3.8 22.9 - - + +
199B ALA 2.9 12.7 + - - +
200B PHE* 3.1 11.6 + - - +
202B GLN* 1.3 77.9 - - - +
204B VAL* 1.3 56.5 + - - +
206B THR* 3.4 6.9 + - - -
207B TYR* 3.0 24.6 + - - +
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Residues in contact with VAL 204 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78B LEU 5.4 0.2 - - - +
79B LEU* 4.8 10.5 - - + -
82B MSE 4.4 14.8 - - + -
137B LEU* 3.6 27.6 - - + -
140B LEU* 4.3 3.4 - - + -
200B PHE* 3.0 50.9 + - + +
201B ILE* 3.9 5.8 - - + +
203B ALA* 1.3 72.8 - - - +
205B LYS* 1.3 54.5 + - - +
206B THR 3.0 1.3 - - - -
207B TYR* 2.9 6.6 + - - +
208B LEU* 2.6 58.9 + - + +
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Residues in contact with LYS 205 (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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214A ASP* 5.8 0.2 - - - +
75B TYR* 3.1 19.9 + - + +
79B LEU* 3.9 27.4 - - + -
201B ILE* 2.9 41.4 + - + +
202B GLN* 4.0 14.6 - - + +
204B VAL* 1.3 75.1 - - - +
206B THR* 1.3 52.6 + - - +
208B LEU* 3.4 5.7 + - - +
209B ASP* 2.7 43.2 + - - +
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Residues in contact with THR 206 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
129A MSE 4.2 9.6 - - + +
206A THR 4.4 0.3 - - - +
207A TYR* 3.6 42.8 - - + +
210A GLY* 3.4 8.3 + - - -
211A LEU* 4.0 11.2 - - + +
214A ASP* 3.7 24.9 + - + +
202B GLN* 2.6 33.8 + - - -
203B ALA 3.4 5.6 - - - -
204B VAL 3.0 0.2 - - - -
205B LYS* 1.3 74.2 - - - +
207B TYR* 1.3 65.9 + - - +
209B ASP* 3.2 0.9 + - - -
210B GLY* 3.1 16.8 + - - -
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Residues in contact with TYR 207 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
140A LEU* 5.1 6.1 - - + -
203A ALA* 3.5 33.9 - - + -
206A THR* 3.7 21.5 + - + +
207A TYR* 4.3 24.6 - + + +
132B LEU* 4.1 5.9 + - - +
133B ALA* 3.8 29.4 + - + -
136B SER* 3.4 32.4 + - - -
137B LEU* 4.2 25.4 - - + -
140B LEU* 5.0 5.6 - - + -
203B ALA 3.0 13.3 + - - +
204B VAL* 2.9 8.6 + - - +
206B THR* 1.3 74.1 - - - +
208B LEU* 1.3 61.0 + - - +
210B GLY* 2.8 19.8 + - - -
211B LEU* 3.1 24.1 + - + +
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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
----------------------------------------------------------
74B TRP* 3.8 11.6 - - + -
75B TYR* 3.4 47.3 - - + +
78B LEU* 4.0 27.8 - - + -
79B LEU* 4.0 19.5 - - + +
137B LEU* 4.3 10.8 - - + -
204B VAL* 2.6 41.2 + - + +
205B LYS* 3.5 1.8 - - - +
207B TYR* 1.3 74.6 - - + +
209B ASP* 1.3 61.6 + - - +
211B LEU* 3.1 27.7 + - + +
212B GLN* 3.1 14.7 + - - +
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Residues in contact with ASP 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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210A GLY* 4.0 6.6 - - - +
213A ALA* 5.4 6.8 - - + +
214A ASP* 2.4 45.1 - - - +
75B TYR* 2.8 28.3 + - - -
205B LYS* 2.7 26.6 + - - +
206B THR 3.6 2.0 - - - +
207B TYR 3.2 0.4 - - - -
208B LEU* 1.3 72.4 - - - +
210B GLY* 1.3 62.0 + - - +
212B GLN* 3.6 13.0 + - - +
213B ALA* 3.2 20.6 + - - +
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Residues in contact with GLY 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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206A THR* 3.1 34.2 - - - +
209A ASP* 3.9 11.9 - - - +
210A GLY* 3.5 11.0 - - - -
206B THR 3.1 5.9 + - - -
207B TYR 2.8 5.4 + - - -
209B ASP* 1.3 75.6 - - - +
211B LEU* 1.3 64.7 + - - +
213B ALA* 3.4 14.4 + - - +
214B ASP* 3.7 5.9 + - - +
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Residues in contact with LEU 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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206A THR* 3.6 20.4 - - + +
74B TRP* 4.0 21.5 - - + -
78B LEU* 5.0 0.9 - - + -
120B LEU* 4.6 9.0 - - + -
125B PHE* 4.0 20.6 - - + -
129B MSE 3.2 32.7 - - + +
133B ALA* 3.9 27.6 - - + -
207B TYR* 3.1 21.6 + - + +
208B LEU* 3.1 22.0 + - + +
210B GLY* 1.3 76.9 - - - +
212B GLN* 1.3 64.8 + - - +
213B ALA 3.1 1.0 + - - -
214B ASP 3.3 17.3 + - - +
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Residues in contact with GLN 212 (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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74B TRP* 3.8 23.8 - - + -
75B TYR* 4.5 15.2 - - + -
125B PHE* 5.1 1.3 - - - -
208B LEU 3.1 9.3 + - - +
209B ASP* 3.6 15.6 - - - +
210B GLY 3.3 0.2 - - - -
211B LEU* 1.3 80.7 - - - +
213B ALA* 1.3 64.9 + - + +
214B ASP 3.9 4.3 - - - +
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Residues in contact with ALA 213 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
209A ASP* 4.7 13.0 - - + +
209B ASP 3.2 14.3 + - - +
210B GLY* 3.5 12.8 - - - +
211B LEU 3.1 1.0 + - - -
212B GLN* 1.3 81.9 - - - +
214B ASP* 1.3 70.6 + - - +
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Residues in contact with ASP 214 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
209A ASP* 3.9 18.7 - - - +
125B PHE* 6.0 0.9 - - - -
129B MSE 5.3 13.0 - - + -
210B GLY 3.7 5.9 + - - +
211B LEU 3.3 16.1 + - - +
212B GLN 3.9 4.2 - - - +
213B ALA* 1.3 90.3 - - - +
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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
------------------------------------------------------------
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