Contacts of the strand formed by residues 149 - 155 (chain G) in PDB entry 4UNA
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 ASN 149 (chain G).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
139G SER* 2.7 49.3 + - - -
142G LEU* 3.5 10.0 - - + +
143G ASN* 3.8 12.0 + - - +
147G VAL 3.1 22.8 + - - -
148G ARG* 1.3 76.6 - - - +
150G THR* 1.3 74.9 + - - +
163G LEU* 3.8 21.4 - - + +
164G ASN 3.0 17.0 - - - +
165G ILE* 4.0 2.7 - - - -
166G SER* 4.2 3.1 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with THR 150 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149G ASN* 1.3 83.1 - - - +
151G ILE* 1.3 67.0 + - - +
152G HIS* 4.4 1.7 + - - -
162G VAL 3.7 0.5 - - - +
163G LEU* 3.4 2.8 - - - +
164G ASN* 2.8 44.8 + - - +
5H T 4.9 1.2 - - - -
6H G 2.8 27.2 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 151 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
132G LYS* 4.9 14.1 - - + -
135G LEU* 3.5 41.3 - - + +
136G GLU* 3.6 14.4 - - + +
139G SER* 3.7 17.0 - - - +
150G THR* 1.3 82.7 - - - +
152G HIS* 1.3 69.6 + - - +
161G TYR* 4.1 22.7 - - + -
162G VAL 3.3 8.7 - - - +
163G LEU* 4.0 17.9 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with HIS 152 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
150G THR* 5.3 1.6 + - - -
151G ILE* 1.3 79.2 - - - +
153G LEU* 1.3 82.2 + - - +
154G ASP* 3.2 17.4 + - - -
161G TYR* 3.4 10.5 - - - -
162G VAL* 2.9 52.4 + - + +
6H G 3.5 50.8 + + + +
7H C 3.1 29.5 + + - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 153 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
152G HIS* 1.3 83.8 - - - +
154G ASP* 1.3 62.9 + - - +
155G ASP 4.3 1.6 - - - +
156G HIS* 3.3 68.4 - - + +
159G GLY* 4.0 20.4 - - - -
160G VAL 4.1 2.5 - - - +
161G TYR* 3.4 47.8 - - + +
7H C 4.3 2.6 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 154 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
126G ARG* 5.5 1.2 + - - -
128G TRP* 3.2 27.4 + - + -
152G HIS* 3.2 17.5 + - - -
153G LEU* 1.3 75.2 - - - +
155G ASP* 1.3 66.2 + - + +
156G HIS* 3.7 8.7 + - - -
160G VAL 2.9 11.4 + - - +
161G TYR 4.3 0.7 - - - -
162G VAL* 3.8 26.2 - - + +
7H C 4.1 6.2 - - - +
8H C 3.0 52.9 + - - -
9H G 4.8 1.0 - - - +
16O C 5.1 1.2 - - - +
17O C 4.3 3.5 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 155 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
128G TRP* 6.3 0.2 - - + -
153G LEU* 4.3 2.5 - - - +
154G ASP* 1.3 76.7 - - + +
156G HIS* 1.3 57.4 + - - +
157G ARG* 2.7 51.3 + - - +
158G HIS* 3.4 12.5 + - - -
159G GLY* 2.9 24.8 + - - -
160G VAL* 2.9 31.7 + - + -
8H C 5.4 2.0 - - - -
9H G 5.7 2.7 - - - +
15I C 2.5 39.8 + - + +
16O C 5.3 3.6 - - - +
----------------------------------------------------------
Back to top of page
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
------------------------------------------------------------
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) + - + + + + + -
------------------------------------------------------------
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