Contacts of the helix formed by residues 191 - 206 (chain B) in PDB entry 6IEH
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 191 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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190B PRO* 1.3 92.5 - - + +
192B LYS* 1.3 62.1 + - + +
193B ALA* 3.2 17.0 - - + +
194B LEU* 4.0 23.5 - - + +
195B SER* 2.5 33.1 + - - -
228B THR* 4.4 4.0 - - - -
256B TYR* 4.7 15.7 - - + -
262B ARG* 6.0 4.0 - - - -
487B MET 5.7 5.4 - - - +
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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
----------------------------------------------------------
191B ILE* 1.3 77.9 - - + +
193B ALA* 1.3 61.0 + - - +
195B SER* 3.3 5.7 + - - -
196B ASN* 3.1 58.2 + - - +
213B THR* 3.0 41.1 - - + -
215B ASP* 4.2 20.4 + - - +
216B VAL* 3.8 19.8 - - - +
228B THR* 4.5 6.7 - - + +
230B GLU* 6.2 0.2 - - - +
1038B ALA* 5.3 8.5 - - - +
1042B LEU* 4.6 3.4 - - - +
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Residues in contact with ALA 193 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
191B ILE* 3.8 12.9 - - + +
192B LYS* 1.3 76.7 - - - +
194B LEU* 1.3 71.7 + - + +
196B ASN* 3.8 8.9 + - - +
197B GLN* 3.6 19.1 + - - +
488B GLY* 6.0 1.1 - - - -
489B ILE* 4.4 10.8 - - + +
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Residues in contact with LEU 194 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
189B SER* 3.9 12.3 - - - +
190B PRO* 4.1 22.2 - - + -
191B ILE* 3.5 29.0 + - + +
192B LYS 3.2 0.2 - - - -
193B ALA* 1.3 81.1 - - + +
195B SER* 1.3 61.7 + - - +
197B GLN* 3.6 2.4 + - - +
198B LYS* 3.2 29.0 + - + +
252B ASP* 5.6 1.1 - - - +
253B GLU* 4.5 17.7 - - + +
256B TYR* 4.6 11.7 - - - +
487B MET 5.2 0.9 - - - +
488B GLY* 3.8 35.7 - - - +
489B ILE* 3.8 15.8 - - + +
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Residues in contact with SER 195 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
189B SER* 3.2 26.4 + - - -
191B ILE 2.5 23.5 + - - -
192B LYS* 3.7 4.9 - - - -
194B LEU* 1.3 77.9 - - - +
196B ASN* 1.3 60.2 + - - +
198B LYS* 3.5 1.3 + - - +
199B TYR* 2.9 25.6 + - - +
211B LEU* 4.1 10.6 - - - +
213B THR* 4.9 1.8 - - - -
226B VAL* 3.5 19.2 - - - +
228B THR* 3.6 15.9 + - - -
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Residues in contact with ASN 196 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
192B LYS* 3.1 45.6 + - - +
193B ALA* 4.1 7.9 - - - +
194B LEU 3.4 0.2 - - - -
195B SER* 1.3 73.2 - - - +
197B GLN* 1.3 65.2 + - - +
199B TYR* 3.2 8.1 + - - +
200B ARG* 3.2 27.1 + - - +
211B LEU* 3.0 24.8 - - - +
213B THR* 4.7 0.7 + - - -
1040B LEU* 4.7 17.8 + - + +
1041B TYR 5.1 5.2 - - - +
1042B LEU* 3.7 21.2 - - + +
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Residues in contact with GLN 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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193B ALA 3.6 6.9 + - - +
194B LEU 3.8 3.8 - - - +
195B SER 3.2 0.4 - - - -
196B ASN* 1.3 81.0 - - - +
198B LYS* 1.3 61.4 + - + +
200B ARG* 3.4 18.0 + - - +
201B GLU* 3.1 32.1 + - - +
489B ILE* 3.3 42.2 - - + -
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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
----------------------------------------------------------
168B THR* 3.3 20.1 + - - +
187B PHE* 3.5 39.7 - - + -
189B SER* 4.0 8.7 - - - +
194B LEU* 3.2 19.0 + - - +
195B SER* 3.5 5.8 + - - +
196B ASN 3.2 0.2 - - - -
197B GLN* 1.3 78.2 - - - +
199B TYR* 1.3 57.9 + - - +
201B GLU* 3.2 29.3 + - + +
202B MET* 2.8 36.6 + - + +
226B VAL* 4.5 3.4 - - + -
252B ASP* 3.9 10.5 + - - -
489B ILE* 5.2 10.5 - - - -
490B ASN* 5.1 1.2 + - - -
1102B ATP 2.6 33.1 + - - -
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Residues in contact with TYR 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 SER 2.9 16.0 + - - +
196B ASN* 3.3 10.1 - - - +
198B LYS* 1.3 76.8 - - - +
200B ARG* 1.3 76.0 + - + +
202B MET* 3.8 0.5 - - - -
203B TYR* 2.9 31.8 + - + +
209B VAL* 3.3 33.8 + - + +
210B GLY 3.8 10.5 - - - -
211B LEU* 3.7 28.5 - - + -
218B ILE* 3.7 23.7 - - + +
226B VAL* 3.9 9.8 - - + +
1042B LEU* 3.8 33.7 - - + -
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Residues in contact with ARG 200 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
196B ASN 3.2 9.7 + - - +
197B GLN* 3.9 18.6 + - - +
199B TYR* 1.3 99.0 - - + +
201B GLU* 1.3 62.9 + - - +
203B TYR* 2.9 21.2 + - + +
204B GLU* 3.2 27.4 + - - +
1041B TYR* 3.6 32.5 + - - +
1042B LEU* 4.9 5.4 - - - +
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Residues in contact with GLU 201 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
168B THR* 4.8 5.0 + - - +
197B GLN* 3.1 25.0 + - + +
198B LYS* 3.2 36.4 + - - +
200B ARG* 1.3 81.5 - - + +
202B MET* 1.3 80.2 + - + +
204B GLU* 3.6 18.4 + - - +
205B GLU* 3.7 13.3 + - - +
489B ILE* 5.4 4.2 - - - +
490B ASN* 5.4 4.9 + - - +
1102B ATP 5.1 4.0 + - - -
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Residues in contact with MET 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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168B THR* 5.2 7.2 - - + +
171B ALA* 5.7 1.1 - - - -
172B GLU* 3.8 36.1 - - + +
175B ILE* 3.8 28.0 - - + -
187B PHE* 4.7 19.1 - - + -
198B LYS* 2.8 25.0 + - + +
199B TYR 4.0 2.2 - - - +
201B GLU* 1.3 99.2 - - + +
203B TYR* 1.3 61.3 + - - +
204B GLU 3.3 0.2 + - - -
205B GLU* 3.4 2.4 + - + +
206B PHE* 3.1 31.7 + - + +
209B VAL* 3.8 10.6 - - + +
224B CYS* 5.0 3.6 - - - -
226B VAL* 4.4 18.4 - - + -
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Residues in contact with TYR 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 TYR* 2.9 24.8 + - + +
200B ARG* 2.9 14.3 + - + +
202B MET* 1.3 77.7 - - - +
204B GLU* 1.3 64.0 + - + +
206B PHE 3.0 18.7 - - - +
207B GLN* 4.5 6.3 - - - +
209B VAL* 3.9 14.3 - - + +
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Residues in contact with GLU 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 ARG* 3.4 24.6 + - + +
201B GLU* 3.9 13.8 - - - +
202B MET 3.2 0.2 - - - -
203B TYR* 1.3 80.6 - - - +
205B GLU* 1.3 73.3 + - - +
206B PHE 4.9 0.2 - - - -
207B GLN* 5.6 3.1 - - - +
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Residues in contact with GLU 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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134B LYS* 3.5 34.3 + - - +
136B TYR* 5.9 0.3 - - - -
172B GLU* 4.0 24.6 - - + +
201B GLU 3.7 14.6 - - - +
202B MET* 3.4 2.1 + - + +
203B TYR 3.4 0.4 - - - -
204B GLU* 1.3 90.1 - - - +
206B PHE* 1.3 81.0 + - + +
207B GLN* 4.2 3.0 + - - +
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Residues in contact with PHE 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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134B LYS* 4.0 19.1 - - + -
172B GLU* 3.1 37.7 - - + -
175B ILE* 3.6 37.7 - - + -
176B ALA* 3.8 23.8 - - + -
179B LEU* 4.2 20.2 - - + -
202B MET* 3.1 18.4 + - + +
203B TYR 3.0 11.9 - - - +
205B GLU* 1.3 91.8 - - + +
207B GLN* 1.3 61.3 + - - +
208B ASP 3.5 0.7 - - - +
209B VAL* 3.0 25.6 - - + +
224B CYS* 5.3 1.8 - - + -
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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