Contacts of the helix formed by residues 144 - 163 (chain B) in PDB entry 6F0X
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 GLU 144 (chain B).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
141B TYR 3.2 7.5 + - - -
142B ASP 3.3 6.8 - - - +
143B VAL* 1.3 79.0 - - - +
145B VAL* 1.3 64.4 + - - +
146B LYS* 3.1 8.1 - - - +
147B SER* 2.9 30.0 + - - +
148B HIS* 3.1 22.0 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 145 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
141B TYR* 4.3 10.6 + - + -
143B VAL* 3.1 28.7 - - + +
144B GLU* 1.3 74.6 - - - +
146B LYS* 1.3 67.2 + - - +
148B HIS* 3.1 10.4 + - + +
149B LEU* 2.8 34.2 + - + +
177B LEU* 5.8 2.2 - - + -
188B LEU* 5.9 3.4 - - + -
317B GLN* 3.3 46.4 - - + +
318B TYR 4.5 0.9 - - - +
319B ILE* 3.7 23.6 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 146 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136B TRP* 3.3 50.8 + - + +
137B ASP* 5.2 1.6 + - - +
139B LEU 3.6 25.7 + - - +
140B VAL* 3.9 17.2 - - - +
141B TYR* 4.1 35.6 + - + +
144B GLU* 4.6 4.3 - - - +
145B VAL* 1.3 77.9 - - - +
147B SER* 1.3 57.8 + - - +
149B LEU* 3.9 2.9 - - - +
150B LEU* 2.9 34.3 + - - +
188B LEU* 5.4 3.4 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with SER 147 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
401A GLN* 5.5 3.1 - - - -
144B GLU* 2.9 25.3 + - - +
146B LYS* 1.3 78.6 - - - +
148B HIS* 1.3 56.6 + - - +
150B LEU* 3.3 8.9 + - - +
151B ASP* 2.6 43.9 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with HIS 148 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
397A ALA* 5.9 0.2 - - - +
398A LEU* 3.6 39.4 + - + +
399A TYR* 6.0 6.1 - + - -
401A GLN* 5.2 5.2 - - - -
420A LYS* 3.5 23.0 + - - +
143B VAL* 4.7 14.5 + - + -
144B GLU* 3.1 20.4 + - + +
145B VAL* 3.1 17.1 + - + +
147B SER* 1.3 81.6 - - - +
149B LEU* 1.3 59.0 + - - +
151B ASP* 2.6 21.5 - - - +
152B TYR* 2.9 17.2 + - - +
317B GLN* 4.9 5.7 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 149 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136B TRP* 6.1 3.1 - - + -
145B VAL* 2.8 27.4 + - + +
146B LYS* 4.1 2.9 - - - +
148B HIS* 1.3 73.8 - - - +
150B LEU* 1.3 62.5 + - - +
152B TYR* 3.1 27.9 - - + +
153B VAL* 3.7 4.7 + - - +
175B VAL* 3.8 28.5 - - + -
177B LEU* 4.3 27.8 - - + -
188B LEU* 5.5 6.3 - - + -
189B CYS* 5.9 1.3 - - - -
192B LEU* 3.6 40.8 - - + +
296B LEU* 4.9 2.5 - - + -
315B ILE* 4.6 6.3 - - + -
317B GLN* 5.8 5.6 - - + +
----------------------------------------------------------
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
----------------------------------------------------------
22B HIS* 5.7 2.5 - - + +
136B TRP* 5.2 9.2 - - + +
146B LYS 2.9 20.7 + - - +
147B SER* 3.4 8.5 - - - +
148B HIS 3.1 0.2 - - - -
149B LEU* 1.3 73.1 - - - +
151B ASP* 1.3 68.4 + - + +
152B TYR 2.9 5.3 + - - -
153B VAL* 3.1 7.6 + - - +
154B MET* 3.0 18.8 + - + +
192B LEU* 4.2 11.1 - - + +
195B LYS* 3.9 23.8 - - + -
196B LEU* 3.6 26.8 - - + +
199B ARG* 3.8 34.1 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 151 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
397A ALA* 3.7 14.3 - - - +
398A LEU 4.8 0.2 - - - +
401A GLN* 2.7 38.6 - - + +
147B SER* 2.6 18.6 + - - +
148B HIS* 2.6 33.5 - - - +
150B LEU* 1.3 73.7 - - + +
152B TYR* 1.3 58.9 + - - +
154B MET* 3.4 16.8 - - + -
155B THR* 2.8 40.8 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 152 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
390A LYS* 5.1 2.5 - - - -
393A PHE* 3.2 33.9 - + - -
394A LEU* 4.8 6.7 - - + -
397A ALA* 4.5 11.1 - - + +
398A LEU* 6.5 0.2 - - + -
148B HIS 2.9 15.5 + - - +
149B LEU* 3.1 21.1 - - + +
150B LEU 2.9 0.8 + - - -
151B ASP* 1.3 76.7 + - - +
153B VAL* 1.3 81.9 + - + +
155B THR* 3.8 1.0 - - - -
156B THR* 2.3 41.2 + - + -
171B TRP* 4.4 7.3 - + - -
172B ASN 3.6 19.6 + - - -
173B ARG* 4.4 5.2 - - - -
174B VAL 4.5 1.4 + - - -
175B VAL* 3.6 28.6 - - + +
294B VAL* 4.8 8.7 - - + +
314B ASP* 4.7 3.3 - - + +
315B ILE* 3.4 29.6 - - + +
----------------------------------------------------------
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
----------------------------------------------------------
149B LEU 4.5 3.6 - - - +
150B LEU 3.1 4.0 + - - +
152B TYR* 1.3 100.4 - - + +
154B MET* 1.3 59.3 + - - +
155B THR 2.8 6.8 + - - -
156B THR* 2.9 23.4 + - + +
157B LEU* 3.7 17.6 + - + +
192B LEU* 5.5 2.7 - - + -
196B LEU* 3.8 35.4 - - + -
200B LEU* 4.4 14.0 - - + +
203B ARG* 5.2 0.9 + - - -
246B LEU* 5.8 6.5 - - + -
248B PHE* 5.9 0.2 - - + -
294B VAL* 3.7 31.2 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with MET 154 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22B HIS* 4.1 14.4 - - + +
98B HIS* 6.5 0.2 - - + -
150B LEU* 3.0 11.1 + - + +
151B ASP* 3.4 25.6 - - + -
153B VAL* 1.3 76.3 - - - +
155B THR* 1.3 58.1 + - - +
157B LEU 5.2 0.4 - - - -
158B LEU* 5.3 1.4 + - - +
196B LEU* 4.8 3.7 - - + +
199B ARG* 3.5 50.5 - - + +
200B LEU* 3.9 19.3 - - + -
203B ARG* 4.9 7.9 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with THR 155 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
393A PHE* 5.1 0.2 - - - -
396A HIS* 3.3 41.1 - - + +
397A ALA* 4.7 12.0 - - + -
401A GLN* 5.0 9.0 - - - -
151B ASP* 2.8 24.3 + - - +
152B TYR 4.1 1.3 - - - -
154B MET* 1.3 76.9 + - - +
156B THR* 1.3 68.1 + - - +
157B LEU 3.3 2.2 - - - -
158B LEU* 2.9 27.0 + - + +
159B PHE* 3.8 10.5 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with THR 156 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
393A PHE* 3.2 23.9 - - + -
152B TYR* 2.3 37.5 + - + -
153B VAL* 2.9 15.9 + - + -
155B THR* 1.3 74.7 - - - +
157B LEU* 1.3 69.6 + - + +
159B PHE* 2.8 32.2 + - - +
160B SER 3.7 0.7 + - - -
171B TRP* 3.3 42.4 - - + -
291B SER 5.7 0.2 - - - +
294B VAL* 6.3 2.2 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 157 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
153B VAL* 3.7 16.1 + - + +
155B THR 3.3 0.8 - - - -
156B THR* 1.3 91.1 - - + +
158B LEU* 1.3 59.0 + - - +
159B PHE 3.2 0.7 - - - -
160B SER* 3.1 13.7 + - - -
161B ASP* 2.8 26.2 + - - +
171B TRP* 4.6 4.3 - - + -
200B LEU* 5.6 3.4 - - + -
203B ARG* 2.8 29.2 + - - +
204B TYR* 3.2 39.9 - - + +
246B LEU* 5.0 4.3 - - + -
291B SER* 3.7 38.1 - - - +
292B ASN* 5.0 1.8 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 158 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
343A ILE* 6.3 2.7 - - + -
396A HIS* 4.2 25.1 - - + +
403A PRO* 4.5 22.9 - - + +
154B MET 5.5 0.9 - - - +
155B THR* 2.9 22.6 + - + +
157B LEU* 1.3 77.7 - - - +
159B PHE* 1.3 56.8 + - + +
161B ASP* 3.2 20.5 - - + +
162B LYS* 2.9 41.1 + - + +
203B ARG* 3.6 14.3 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 159 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
338A LEU* 4.4 5.8 - - + -
343A ILE* 3.5 33.0 - - + -
392A PRO 4.7 1.3 - - - -
393A PHE* 3.4 40.6 - + + -
396A HIS* 3.9 39.0 - + + -
397A ALA* 6.1 0.2 - - + -
155B THR* 3.8 12.8 - - + -
156B THR 2.8 21.0 + - - +
158B LEU* 1.3 77.2 - - + +
160B SER* 1.3 54.0 + - - +
162B LYS* 3.0 8.7 + - - +
163B ASN 2.5 32.1 + - - -
164B VAL* 3.4 14.9 + - + -
169B ILE* 4.3 22.7 - - + -
171B TRP* 5.1 10.3 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with SER 160 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
156B THR 3.7 1.2 + - - -
157B LEU* 3.1 28.5 + - - -
159B PHE* 1.3 77.5 - - - +
161B ASP* 1.3 59.6 + - - +
163B ASN* 2.8 23.9 + - - +
171B TRP* 5.8 4.1 - - - -
173B ARG* 5.6 2.5 - - - -
291B SER* 3.0 27.0 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 161 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
157B LEU 2.8 13.1 + - - +
158B LEU* 3.2 26.0 - - + +
160B SER* 1.3 76.4 - - - +
162B LYS* 1.3 62.1 + - - +
163B ASN* 3.0 10.2 + - - +
203B ARG* 5.0 8.0 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 162 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
341A CYS* 3.3 29.9 + - - +
342A GLN* 4.0 32.6 + - - +
343A ILE* 4.2 13.0 - - + +
158B LEU* 2.9 34.7 + - + +
159B PHE* 3.5 7.6 - - - +
161B ASP* 1.3 75.6 - - + +
163B ASN* 1.3 68.0 + - - +
164B VAL* 2.9 20.6 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ASN 163 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
341A CYS* 4.9 1.2 - - - -
159B PHE 2.5 13.2 + - - -
160B SER* 2.8 18.1 + - - +
161B ASP 3.8 5.4 - - - +
162B LYS* 1.3 74.9 - - - +
164B VAL* 1.3 65.5 + - - +
165B ASN 3.7 0.5 + - - -
----------------------------------------------------------
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