Contacts of the strand formed by residues 150 - 158 (chain C) in PDB entry 4X2Q
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 TYR 150 (chain C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
145C PRO* 6.2 0.3 - - - +
146C VAL* 4.7 11.3 + - + +
147C ASP 3.4 24.7 - - - +
148C GLY* 2.8 14.8 + - - +
149C ASP* 1.3 88.0 - - + +
151C PHE* 1.3 63.0 + - - +
152C THR* 4.3 14.4 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 151 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
440A LEU* 4.6 20.4 - - + -
153B PHE* 3.5 42.0 - + - -
155B ARG* 4.3 33.4 - - + +
143C THR* 3.8 28.9 - - + -
144C ILE 5.1 4.7 - - - -
150C TYR* 1.3 77.0 - - - +
152C THR* 1.3 65.7 + - - +
153C PHE* 3.5 32.0 - + - -
----------------------------------------------------------
Back to top of page
Residues in contact with THR 152 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
143C THR* 3.6 4.2 - - - -
144C ILE* 3.0 41.9 + - - +
146C VAL* 3.4 39.8 - - + +
150C TYR* 4.7 8.5 - - + -
151C PHE* 1.3 85.5 - - - +
153C PHE* 1.3 64.2 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 153 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
143B THR* 4.0 6.5 - - + -
151B PHE* 3.5 41.5 - + - -
153B PHE* 5.8 0.2 - + - -
142C MET 3.2 12.3 - - - +
143C THR* 3.8 15.5 - - + -
144C ILE* 5.2 0.4 - - - -
151C PHE* 3.5 35.0 - + - -
152C THR* 1.3 76.5 - - - +
154C THR* 1.3 73.1 + - - +
155C ARG* 4.4 18.4 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with THR 154 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
143B THR* 2.6 31.0 + - - +
141C GLY* 3.4 7.7 - - - -
142C MET* 2.9 37.3 + - + +
144C ILE* 4.0 22.7 - - + -
153C PHE* 1.3 79.4 - - - +
155C ARG* 1.3 61.5 + - - +
156C HIS* 5.0 4.6 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 155 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
143B THR* 4.3 4.0 - - - +
151B PHE* 4.8 27.1 - - + +
495B ILE* 5.7 9.7 - - - +
499B ASN 4.7 11.5 + - - -
500B SER* 5.4 1.2 + - - -
153C PHE* 4.4 22.9 - - + -
154C THR* 1.3 79.5 - - - +
156C HIS* 1.3 65.2 + - - +
157C GLU* 3.2 40.5 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with HIS 156 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
500B SER* 4.2 5.2 - - - +
139C ILE* 3.7 40.0 + - + +
140C HIS 3.4 21.1 + - - -
141C GLY* 3.8 12.3 - - - +
142C MET* 6.3 1.8 - - + -
154C THR* 4.4 4.4 + - - -
155C ARG* 1.3 75.7 + - - +
157C GLU* 1.3 61.3 - - - +
158C PRO* 4.7 0.7 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 157 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
500B SER* 3.6 21.8 - - - +
77C ARG* 6.2 0.7 - - - -
155C ARG* 3.2 50.1 + - + +
156C HIS* 1.3 76.1 - - - +
158C PRO* 1.3 77.9 - - + +
159C ILE* 3.6 5.0 + - - +
185C CYS* 4.5 2.9 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with PRO 158 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
500B SER* 3.8 34.1 - - - +
70C PHE* 3.6 24.7 - - + -
77C ARG* 4.7 1.6 - - - +
84C ARG* 5.9 0.4 - - - +
156C HIS 4.7 0.4 - - - +
157C GLU* 1.3 92.2 - - + +
159C ILE* 1.3 64.3 + - - +
185C CYS* 3.3 29.3 - - + +
186C GLY 3.4 14.6 - - - +
187C ASN* 3.4 14.8 - - - +
----------------------------------------------------------
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