Contacts of the helix formed by residues 144 - 161 (chain A) 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 A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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141A TYR 3.0 15.1 + - - +
142A ASP 2.9 12.3 - - - +
143A VAL* 1.3 83.0 - - - +
145A VAL* 1.3 51.5 + - - +
146A LYS* 2.8 24.0 - - - +
147A SER* 2.4 49.0 + - - +
148A HIS* 3.3 3.0 + - - -
329A LYS* 5.3 6.4 + - - -
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Residues in contact with VAL 145 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
141A TYR* 5.0 6.2 - - + +
143A VAL* 3.1 21.1 - - + +
144A GLU* 1.3 72.2 - - - +
146A LYS* 1.3 65.5 + - - +
147A SER 3.1 0.4 - - - -
148A HIS* 3.3 39.5 - - + +
149A LEU* 2.9 25.3 + - - +
317A GLN* 3.2 35.7 - - - +
319A ILE* 5.6 5.4 - - + -
420F LYS* 5.6 4.3 - - - +
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Residues in contact with LYS 146 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136A TRP* 3.4 44.0 - - + +
139A LEU 3.8 10.7 + - - +
140A VAL* 3.2 21.4 - - - +
141A TYR* 3.1 67.9 + - + +
144A GLU* 4.0 16.6 - - + +
145A VAL* 1.3 76.5 - - - +
147A SER* 1.3 58.2 + - - +
149A LEU* 3.4 9.4 + - - +
150A LEU* 2.9 27.6 + - - +
188A LEU* 5.2 3.1 - - + -
192A LEU* 4.8 0.7 - - - +
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Residues in contact with SER 147 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136A TRP* 5.1 0.8 - - - -
144A GLU* 2.4 46.8 + - - +
146A LYS* 1.3 68.7 - - - +
148A HIS* 1.3 57.9 + - - -
150A LEU* 3.3 14.4 - - - +
151A ASP* 2.7 43.5 + - - +
401F GLN* 5.6 4.0 - - - -
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Residues in contact with HIS 148 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
143A VAL* 3.6 27.9 + - + +
144A GLU 3.8 7.2 - - - -
145A VAL* 2.9 47.5 + - + +
147A SER* 1.3 79.3 - - - +
149A LEU* 1.3 58.8 + - - +
151A ASP* 2.5 24.6 - - - +
152A TYR* 2.8 17.7 + - - +
317A GLN* 5.6 0.9 - - - +
397F ALA* 5.1 1.2 - - - +
398F LEU* 4.4 29.2 - - + +
401F GLN* 6.1 2.0 - - - -
420F LYS* 4.9 9.7 + - - +
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Residues in contact with LEU 149 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136A TRP* 6.4 0.2 - - + -
145A VAL* 2.9 11.0 + - - +
146A LYS* 3.6 10.5 - - - +
148A HIS* 1.3 76.2 - - - +
150A LEU* 1.3 62.9 + - - +
152A TYR* 3.0 6.8 - - + +
153A VAL* 3.0 32.6 + - + +
175A VAL* 4.0 10.8 - - + -
177A LEU* 4.3 24.5 - - + -
188A LEU* 5.8 5.6 - - + -
189A CYS* 6.0 1.1 - - - -
192A LEU* 3.5 37.7 - - + -
315A ILE* 3.8 33.2 - - + -
317A GLN* 5.1 13.4 + - + +
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Residues in contact with LEU 150 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136A TRP* 5.6 7.0 - - + -
146A LYS 2.9 17.9 + - - +
147A SER* 3.0 16.1 + - - +
149A LEU* 1.3 77.7 - - - +
151A ASP* 1.3 62.0 + - - +
153A VAL* 3.2 1.0 + - - -
154A MET* 2.9 27.4 + - + +
192A LEU* 4.3 12.8 - - + -
195A LYS* 3.9 27.6 - - + -
196A LEU* 3.5 33.6 - - + +
199A ARG* 3.6 35.7 - - + +
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Residues in contact with ASP 151 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
147A SER* 2.7 15.9 + - - +
148A HIS* 2.5 34.0 - - - +
150A LEU* 1.3 74.4 - - + +
152A TYR* 1.3 62.7 + - - +
154A MET* 3.3 12.9 - - + +
155A THR* 2.8 37.8 + - - +
397F ALA 3.3 15.6 - - - +
398F LEU* 3.7 1.4 - - - +
401F GLN* 2.2 55.2 + - + +
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Residues in contact with TYR 152 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
148A HIS 2.8 17.7 + - - +
149A LEU* 3.0 10.3 - - + +
151A ASP* 1.3 84.1 + - - +
153A VAL* 1.3 69.0 + - + +
155A THR* 3.1 3.6 + - - -
156A THR* 2.6 47.1 + - + -
172A ASN 4.9 2.3 + - - -
173A ARG* 6.4 0.9 - - - -
174A VAL 4.6 1.5 + - - -
175A VAL* 5.4 0.4 - - + -
314A ASP* 2.2 36.1 + - - +
315A ILE* 3.2 28.0 - - + +
393F PHE* 3.0 33.2 - + - -
394F LEU* 3.5 17.3 - - + -
397F ALA* 3.9 25.3 - - + +
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Residues in contact with VAL 153 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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149A LEU* 3.0 28.9 + - + +
150A LEU 4.0 2.0 - - - +
152A TYR* 1.3 88.1 - - + +
154A MET* 1.3 67.1 + - - +
156A THR* 3.2 12.3 - - + -
157A LEU* 3.0 32.6 + - + +
175A VAL* 4.4 13.7 - - + -
192A LEU* 5.0 2.5 - - + -
196A LEU* 4.0 28.5 - - + -
200A LEU* 6.4 0.2 - - - -
294A VAL* 4.3 23.3 - - + -
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Residues in contact with MET 154 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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150A LEU* 2.9 15.9 + - + +
151A ASP* 3.3 17.7 - - + +
153A VAL* 1.3 77.1 - - - +
155A THR* 1.3 61.5 + - - +
157A LEU* 3.8 3.3 + - - +
158A LEU* 3.2 29.3 + - + +
196A LEU* 4.4 8.6 - - + +
199A ARG* 4.6 15.0 - - - +
200A LEU* 3.6 39.7 - - + +
202A SER* 6.0 0.7 - - - +
203A ARG* 4.5 12.1 + - - +
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Residues in contact with THR 155 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
151A ASP* 2.8 18.5 + - - +
152A TYR 3.6 3.6 - - - -
154A MET* 1.3 74.6 - - - +
156A THR* 1.3 67.3 + - - +
158A LEU* 3.0 15.4 + - + +
159A PHE* 2.8 45.3 + - + -
396F HIS* 3.2 44.5 + - + +
397F ALA* 4.7 7.2 - - - -
401F GLN* 4.6 14.2 - - - -
402F ALA 5.5 0.2 + - - -
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Residues in contact with THR 156 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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152A TYR* 2.6 36.8 + - + -
153A VAL* 3.2 21.5 - - + -
155A THR* 1.3 77.7 - - - +
157A LEU* 1.3 64.9 + - + +
159A PHE* 3.3 24.2 + - - +
160A SER 4.3 1.0 + - - -
171A TRP* 4.3 11.5 - - + -
172A ASN 3.3 26.5 - - - +
173A ARG* 3.9 23.9 + - + -
393F PHE* 3.8 7.1 - - + -
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Residues in contact with LEU 157 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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153A VAL* 3.0 24.3 + - + +
154A MET 4.2 1.3 - - - +
156A THR* 1.3 76.7 - - + +
158A LEU* 1.3 63.3 + - - +
159A PHE 2.9 1.9 + - - -
160A SER* 3.1 19.6 + - - -
161A ASP* 3.9 2.1 + - - +
173A ARG* 3.9 14.6 - - + +
196A LEU* 6.5 0.2 - - + -
200A LEU* 3.7 27.1 - - + -
203A ARG* 3.1 21.1 + - - +
204A TYR* 5.3 2.2 - - + -
246A LEU* 3.8 23.8 - - + -
248A PHE* 5.9 0.2 - - + -
291A SER 3.1 27.1 - - - +
292A ASN* 4.2 8.3 - - - -
293A VAL 4.4 6.5 - - - +
294A VAL* 4.5 10.3 - - + -
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Residues in contact with LEU 158 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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154A MET* 3.2 25.0 + - + +
155A THR* 3.0 20.1 + - + +
157A LEU* 1.3 77.0 - - - +
159A PHE* 1.3 62.2 + - - +
161A ASP* 3.1 19.6 + - + +
162A LYS* 3.1 28.8 + - + +
203A ARG* 3.3 26.8 - - - +
396F HIS* 5.6 1.1 - - + -
401F GLN 6.1 0.9 - - - +
402F ALA 4.2 8.5 - - - +
403F PRO* 4.2 27.1 - - + +
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Residues in contact with PHE 159 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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155A THR* 2.8 51.5 + - + -
156A THR* 3.3 14.8 - - - +
157A LEU 2.9 1.4 + - - -
158A LEU* 1.3 75.9 - - - +
160A SER* 1.3 55.3 + - - +
162A LYS* 2.6 26.6 + - + +
163A ASN 3.4 0.9 + - - -
164A VAL* 3.2 42.1 - - + +
171A TRP* 4.5 19.5 - + + -
338F LEU* 5.2 7.4 - - + -
343F ILE* 4.8 12.8 - - + -
393F PHE* 3.3 42.6 - + - -
396F HIS* 4.0 23.1 - + + -
397F ALA* 6.5 0.4 - - + -
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Residues in contact with SER 160 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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156A THR 4.3 1.0 + - - -
157A LEU 3.1 9.1 + - - -
159A PHE* 1.3 76.7 - - - +
161A ASP* 1.3 57.0 + - - +
162A LYS 3.4 0.2 - - - -
163A ASN* 3.8 10.4 + - - +
164A VAL 4.9 6.9 + - - +
171A TRP* 5.3 3.1 - - - -
173A ARG* 3.7 24.4 - - - +
291A SER* 2.9 26.7 + - - -
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Residues in contact with ASP 161 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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157A LEU 3.9 1.9 + - - +
158A LEU* 3.1 22.4 + - + +
159A PHE 2.9 1.0 - - - -
160A SER* 1.3 74.8 - - - +
162A LYS* 1.3 62.4 + - - +
163A ASN 3.2 5.5 + - - -
203A ARG* 4.7 15.5 + - - +
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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