Contacts of the helix formed by residues 197 - 207 (chain B) in PDB entry 1UNN
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 ARG 197 (chain B).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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143B GLN* 4.9 1.0 + - - +
146B MET* 3.6 49.6 + - + +
147B ALA 3.0 27.3 + - - -
148B HIS* 3.2 63.0 + - - +
156B ASN* 3.0 22.8 + - + +
157B GLY* 3.4 0.8 - - - -
196B PRO* 1.3 71.5 - - + +
198B LYS* 1.3 76.0 + - + +
200B VAL* 3.1 3.3 + - - +
201B ILE* 2.9 48.2 + - - +
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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
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22B GLY* 6.5 1.3 - - - -
48B ASP* 4.1 18.1 + - - +
50B GLU* 6.3 1.3 - - + +
51B MET* 3.5 16.2 - - + +
196B PRO* 3.2 3.6 - - + +
197B ARG* 1.3 94.2 - - + +
199B GLY* 1.3 58.6 + - - +
201B ILE* 3.3 16.0 + - + +
202B GLU* 3.0 28.4 + - - +
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Residues in contact with GLY 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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51B MET* 3.8 18.5 - - - +
195B VAL* 4.1 7.2 - - - -
196B PRO* 2.8 12.7 + - - +
198B LYS* 1.3 76.0 - - - +
200B VAL* 1.3 60.7 + - - +
202B GLU 3.3 0.2 + - - -
203B LEU* 2.7 31.0 + - - +
232B PHE* 3.6 13.7 - - - -
234B SER* 4.1 11.9 - - - -
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Residues in contact with VAL 200 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
139B ILE* 3.6 28.6 - - + +
143B GLN* 3.9 12.6 - - + -
146B MET* 4.1 5.6 - - + -
158B MET* 3.5 41.1 - - + -
160B PHE* 4.2 5.2 - - + -
195B VAL* 3.7 18.8 - - + +
196B PRO 2.9 15.6 + - - +
197B ARG* 3.3 9.2 - - - +
199B GLY* 1.3 77.6 - - - +
201B ILE* 1.3 57.9 + - - +
203B LEU* 3.2 9.2 + - - +
204B MET* 2.9 29.5 + - - +
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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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143B GLN* 3.4 26.2 - - - +
146B MET* 4.7 1.3 - - + -
197B ARG* 2.9 51.5 + - - +
198B LYS* 3.7 13.9 - - + +
200B VAL* 1.3 75.5 - - - +
202B GLU* 1.3 60.4 + - + +
204B MET* 3.1 7.6 + - + +
205B ARG* 2.8 63.3 + - - +
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Residues in contact with GLU 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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16B GLN* 4.2 7.8 - - - +
19B GLY* 3.2 26.5 - - - +
20B PRO* 4.0 15.9 - - + -
51B MET* 3.9 11.9 - - - -
53B MET* 2.7 32.3 - - - +
198B LYS 3.0 18.4 + - - +
199B GLY 3.8 2.7 - - - +
201B ILE* 1.3 79.2 - - + +
203B LEU* 1.4 54.4 + - - +
205B ARG* 2.7 37.7 + - - +
206B MET* 2.9 10.0 + - - +
232B PHE* 3.1 26.7 - - + -
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Residues in contact with LEU 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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135B MET* 4.7 8.3 - - + -
139B ILE* 3.8 24.5 - - + -
160B PHE* 4.6 14.4 - - + -
195B VAL* 5.7 4.5 - - + -
199B GLY 2.7 21.1 + - - +
200B VAL* 3.5 6.3 - - - +
202B GLU* 1.4 72.4 - - - +
204B MET* 1.3 63.5 + - - +
206B MET* 3.1 27.4 + - - +
207B LEU* 3.2 33.9 + - + +
214B LEU* 4.9 2.9 - - + -
216B VAL* 6.3 1.1 - - + -
223B ILE* 5.6 10.3 - - + -
225B ALA* 3.7 29.6 - - + -
232B PHE* 4.2 15.7 - - + -
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Residues in contact with MET 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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136B LYS* 4.1 32.0 + - - +
139B ILE* 3.4 41.5 - - + -
140B GLU* 3.4 33.9 - - + +
143B GLN* 3.8 17.0 - - - +
200B VAL 2.9 13.5 + - - +
201B ILE* 3.3 12.3 - - + +
203B LEU* 1.3 73.7 - - - +
205B ARG* 1.3 66.2 + - - +
206B MET 3.2 0.3 + - - -
207B LEU* 3.3 21.6 + - - +
208B ASP* 4.4 1.0 - - - +
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Residues in contact with ARG 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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16B GLN* 3.4 12.6 + - - +
19B GLY* 5.2 10.2 + - - +
201B ILE* 2.8 45.3 + - - +
202B GLU* 2.7 35.9 + - - +
204B MET* 1.3 73.7 - - - +
206B MET* 1.3 60.5 + - - +
208B ASP* 3.3 18.2 - - - +
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Residues in contact with MET 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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12B LYS* 5.7 2.8 + - - -
16B GLN* 3.5 21.5 + - - +
53B MET* 3.8 10.1 - - + -
132B GLN* 4.3 4.0 + - - -
202B GLU 2.9 10.7 + - - +
203B LEU* 3.1 25.0 + - - +
205B ARG* 1.3 80.0 - - - +
207B LEU* 1.3 60.0 + - + +
208B ASP* 3.6 8.3 + - - +
225B ALA* 3.4 25.6 - - - +
227B VAL* 4.0 27.7 - - + +
230B PHE* 3.7 31.9 - - + +
232B PHE* 3.5 28.0 - - + +
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Residues in contact with LEU 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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132B GLN* 3.5 25.8 - - + +
135B MET* 3.5 28.7 - - + -
136B LYS* 2.8 47.9 + - + +
139B ILE* 4.4 4.9 - - + -
203B LEU* 3.2 28.2 + - + +
204B MET* 3.3 12.0 + - - +
205B ARG 3.4 0.2 - - - -
206B MET* 1.3 73.9 - - + +
208B ASP* 1.3 75.8 + - - +
214B LEU* 4.0 23.1 - - + -
227B VAL* 4.2 11.7 - - + -
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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