Contacts of the helix formed by residues 147 - 167 (chain B) in PDB entry 1XTG
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 ASP 147 (chain B).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146B MET* 1.3 89.0 - - - +
148B GLU* 1.3 65.0 + - - +
149B ASN* 3.2 3.2 + - - -
150B LEU* 3.6 12.8 + - + +
151B GLU* 3.5 16.8 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 148 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146B MET 3.5 16.2 + - - +
147B ASP* 1.3 79.4 - - - +
149B ASN* 1.3 65.7 + - - +
151B GLU* 3.3 13.9 + - - +
152B GLN* 3.0 36.6 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ASN 149 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
356A LYS* 2.9 57.3 + - - +
359A LYS* 4.9 13.3 - - - +
146B MET 4.9 7.3 - - - +
147B ASP* 3.2 1.3 - - - +
148B GLU* 1.3 79.7 - - - +
150B LEU* 1.3 64.4 + - - +
152B GLN* 2.9 15.0 + - - +
153B VAL* 2.9 26.4 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 150 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
147B ASP* 3.6 14.3 + - + +
148B GLU 3.4 0.2 - - - -
149B ASN* 1.3 80.7 - - - +
151B GLU* 1.3 58.1 + - - +
153B VAL* 3.2 19.6 + - + +
154B SER* 2.9 33.5 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 151 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
147B ASP 3.5 10.2 + - - +
148B GLU* 3.3 17.2 + - - +
149B ASN 3.1 0.4 - - - -
150B LEU* 1.3 78.6 - - - +
152B GLN* 1.3 62.2 + - + +
154B SER* 2.9 21.1 + - - +
155B GLY* 3.1 9.2 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 152 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
356A LYS* 2.5 48.7 + - + +
148B GLU* 3.0 27.8 + - + +
149B ASN* 2.9 13.4 + - - +
151B GLU* 1.3 74.9 - - + +
153B VAL* 1.3 64.7 + - - +
155B GLY* 3.2 2.0 + - - -
156B ILE* 2.9 32.0 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 153 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
356A LYS* 3.8 35.4 - - + +
357A PHE* 3.8 37.2 - - + -
149B ASN* 2.9 22.3 + - - +
150B LEU* 3.4 20.4 - - + +
152B GLN* 1.3 74.6 - - - +
154B SER* 1.3 65.6 + - - +
156B ILE* 3.1 5.4 + - - +
157B ILE* 2.9 36.9 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with SER 154 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
150B LEU* 2.9 21.3 + - - +
151B GLU* 2.9 22.5 + - - +
153B VAL* 1.3 74.1 - - - +
155B GLY* 1.3 61.1 + - - +
157B ILE* 3.3 16.2 + - - +
158B GLY* 3.1 17.8 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 155 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
151B GLU 3.1 14.8 + - - -
152B GLN* 3.6 3.8 - - - -
153B VAL 3.1 0.2 - - - -
154B SER* 1.3 78.6 + - - +
156B ILE* 1.3 61.6 + - - +
158B GLY* 3.0 12.2 + - - -
159B ASN* 3.2 18.0 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 156 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
103A LEU* 4.6 1.8 - - + -
348A ILE* 3.9 26.9 - - + -
353A ASN* 3.3 37.5 - - - +
356A LYS* 5.0 7.2 - - + +
357A PHE* 3.7 30.1 - - + -
152B GLN* 2.9 22.7 + - + +
153B VAL* 3.6 6.7 - - - +
155B GLY* 1.3 71.3 - - - +
157B ILE* 1.3 67.1 + - - +
159B ASN* 3.2 15.6 + - - +
160B LEU* 3.1 24.4 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 157 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
102A ASP* 3.7 27.8 - - + +
357A PHE* 3.9 17.9 - - + -
153B VAL* 2.9 34.1 + - + +
154B SER* 3.4 14.6 - - - +
155B GLY 3.2 0.2 - - - -
156B ILE* 1.3 75.8 - - - +
158B GLY* 1.3 64.0 + - - +
160B LEU* 3.2 9.5 + - - +
161B ARG* 2.9 48.7 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 158 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
154B SER 3.1 9.3 + - - -
155B GLY 3.0 10.3 + - - -
157B ILE* 1.3 76.3 - - - +
159B ASN* 1.3 61.1 + - - +
161B ARG* 3.1 26.1 + - - +
162B HIS* 3.2 12.1 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ASN 159 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
343A LYS* 5.4 8.2 + - - -
348A ILE* 4.1 22.9 - - + +
155B GLY 3.2 19.7 + - - -
156B ILE* 3.2 17.3 + - - +
158B GLY* 1.3 75.7 - - - +
160B LEU* 1.3 62.7 + - - +
162B HIS* 3.3 17.3 + - - +
163B MET* 3.3 17.3 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 160 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
102A ASP* 3.9 16.6 - - + +
103A LEU* 3.8 32.1 - - + +
106A MET* 3.7 31.9 - - + +
344A MET* 4.2 13.2 - - + -
348A ILE* 3.9 22.0 - - + -
349A TYR* 4.3 4.0 - - + -
357A PHE* 4.5 1.8 - - + -
156B ILE* 3.1 30.7 + - + +
157B ILE* 3.2 9.8 + - - +
159B ASN* 1.3 73.6 - - - +
161B ARG* 1.3 60.8 + - - +
163B MET* 3.0 7.7 + - - +
164B ALA* 2.8 28.5 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 161 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
102A ASP* 5.6 0.8 + - - -
154B SER 5.8 0.2 + - - -
157B ILE* 2.9 38.1 + - - +
158B GLY* 3.1 20.2 + - - +
160B LEU* 1.3 78.0 - - - +
162B HIS* 1.3 60.5 + - - +
164B ALA* 3.3 21.7 + - + +
165B LEU* 4.1 4.0 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with HIS 162 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
337A LYS* 5.9 0.7 - - - -
340A LYS* 2.7 40.3 + - + +
158B GLY 3.2 7.5 + - - +
159B ASN* 3.5 11.9 - - - +
160B LEU 3.1 0.4 - - - -
161B ARG* 1.3 81.4 - - - +
163B MET* 1.3 83.4 + - + +
165B LEU* 4.1 10.7 + - - +
166B ASP* 4.6 4.8 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with MET 163 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
106A MET* 4.7 1.6 - - + -
322A LEU* 5.3 6.1 - - + -
337A LYS* 5.5 1.1 - - + +
340A LYS* 3.7 49.4 - - + +
341A LEU* 4.4 4.7 - - - -
344A MET* 3.7 35.4 - - + +
348A ILE* 5.7 2.7 - - + -
159B ASN 3.3 11.9 + - - +
160B LEU 3.0 7.8 + - - +
162B HIS* 1.3 103.9 - - + +
164B ALA* 1.3 54.8 + - - +
165B LEU 3.2 2.7 - - - -
166B ASP* 3.0 15.7 + - + +
167B MET* 2.7 45.6 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 164 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
106A MET* 4.1 12.1 - - + -
160B LEU 2.8 12.2 + - - +
161B ARG* 3.3 19.9 + - + +
163B MET* 1.3 78.1 - - - +
165B LEU* 1.3 58.4 + - - +
168B GLY* 2.7 34.5 + - - +
169B ASN* 5.5 1.7 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 165 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
161B ARG 4.1 2.7 + - - +
162B HIS 4.1 10.2 + - - +
163B MET 3.1 1.0 + - - -
164B ALA* 1.3 78.4 - - - +
166B ASP* 1.3 68.9 + - - +
168B GLY 4.7 0.2 - - - -
169B ASN* 5.9 0.7 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 166 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
113A ARG* 2.7 30.0 + - - -
322A LEU* 3.8 28.9 - - + +
337A LYS* 2.7 33.9 + - - +
340A LYS* 5.1 0.2 + - - -
162B HIS* 4.6 9.2 - - - +
163B MET* 3.0 13.4 + - + +
165B LEU* 1.3 89.6 - - - +
167B MET* 1.3 62.0 + - + +
168B GLY 3.7 1.1 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with MET 167 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
106A MET* 3.1 20.6 - - + +
109A THR* 3.2 15.9 - - - +
110A SER* 4.9 6.6 + - - +
113A ARG* 2.8 50.7 + - - +
233A TYR* 5.0 5.8 - - - +
319A GLU 3.9 2.5 - - - +
320A LYS 4.5 4.3 - - - +
322A LEU* 3.2 38.8 - - + -
341A LEU* 3.8 26.7 - - + -
344A MET* 3.9 21.1 - - + -
163B MET* 2.7 25.3 + - + +
166B ASP* 1.3 77.6 - - + +
168B GLY* 1.3 59.9 + - - +
169B ASN 3.4 2.9 - - - -
----------------------------------------------------------
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