Contacts of the helix formed by residues 159 - 182 (chain A) in PDB entry 4XZC
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 PRO 159 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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157A LYS* 5.3 1.8 - - - +
158A VAL* 1.3 92.3 - - + +
160A GLY* 1.3 55.9 + - - +
161A GLU* 3.4 9.2 - - + -
162A TYR* 3.1 21.0 + - + -
163A ALA* 2.7 31.9 + - - +
421A THR* 6.5 0.4 - - - -
424A GLY* 3.6 27.4 - - - +
425A ASN* 4.0 19.5 - - + +
428A ALA* 5.4 1.3 - - + -
429A LYS* 4.4 9.9 - - + -
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Residues in contact with GLY 160 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
158A VAL 3.7 1.0 + - - -
159A PRO* 1.3 71.2 - - - +
161A GLU* 1.3 63.9 - - - +
163A ALA* 2.9 21.9 + - - +
164A VAL* 3.9 10.2 + - - +
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Residues in contact with GLU 161 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
159A PRO* 4.3 11.2 - - + -
160A GLY* 1.3 70.7 - - - +
162A TYR* 1.3 90.4 + - + +
164A VAL* 3.9 13.0 - - - +
165A GLU* 4.0 10.0 - - - +
429A LYS* 5.1 4.4 + - - -
436A ARG* 5.4 2.4 + - - +
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Residues in contact with TYR 162 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
158A VAL* 3.8 16.4 - - + -
159A PRO* 3.1 12.1 + - + +
160A GLY 3.1 0.4 - - - -
161A GLU* 1.3 102.9 + - + +
163A ALA* 1.3 57.9 + - - +
164A VAL 2.8 12.4 + - - -
165A GLU* 3.0 16.8 + - - +
166A VAL* 3.1 12.5 + - - +
428A ALA 5.3 1.8 - - - +
429A LYS* 3.4 50.9 - - + +
432A VAL* 3.5 35.4 - - + -
433A GLN* 4.1 16.2 + - + -
436A ARG* 3.3 29.7 + - - -
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Residues in contact with ALA 163 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
158A VAL* 3.6 22.9 - - + +
159A PRO 2.7 22.4 + - - +
160A GLY* 2.9 11.2 + - - +
162A TYR* 1.3 72.1 - - - +
164A VAL* 1.3 60.3 + - - +
166A VAL* 4.1 3.8 - - - +
167A LYS* 3.3 35.4 + - - +
482A ILE* 4.1 8.3 - - + +
483A VAL 4.5 7.4 - - - +
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Residues in contact with VAL 164 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
160A GLY 3.9 7.9 - - - +
161A GLU* 3.9 16.6 - - - +
162A TYR 2.8 0.8 + - - -
163A ALA* 1.3 75.4 - - - +
165A GLU* 1.3 66.1 + - + +
167A LYS* 3.0 13.5 + - - +
168A GLU* 3.0 23.8 + - + +
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Residues in contact with GLU 165 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
161A GLU 4.0 14.9 - - - +
162A TYR* 3.0 6.4 + - - +
164A VAL* 1.3 80.3 - - + +
166A VAL* 1.3 54.4 + - - +
168A GLU* 3.1 24.2 + - - +
169A MET* 2.8 37.9 + - - +
432A VAL* 3.9 18.1 - - + +
435A PHE* 4.8 8.1 - - + -
436A ARG* 3.3 43.9 + - - +
439A LYS* 4.6 9.5 + - - +
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Residues in contact with VAL 166 (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 TYR* 5.1 0.7 - - + -
158A VAL* 3.7 27.1 - - + -
162A TYR* 3.1 17.4 + - + +
163A ALA 4.1 5.2 - - - +
165A GLU* 1.3 73.6 - - - +
167A LYS* 1.3 53.2 + - - +
169A MET* 2.8 15.2 + - - +
170A LEU* 2.7 32.4 + - + +
428A ALA* 5.1 5.8 - - + -
432A VAL* 3.8 18.4 - - + +
456A LEU* 4.4 23.2 - - + +
482A ILE* 4.0 31.4 - - + -
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Residues in contact with LYS 167 (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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163A ALA* 3.3 20.5 - - - +
164A VAL* 3.0 11.5 + - - +
166A VAL* 1.3 77.7 - - - +
168A GLU* 1.3 57.4 + - - +
170A LEU* 3.1 11.0 + - + +
171A SER* 2.8 28.9 + - - -
482A ILE* 3.1 48.7 + - + +
483A VAL 5.4 1.4 - - - -
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Residues in contact with GLU 168 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
164A VAL* 3.0 9.3 + - + +
165A GLU* 3.2 25.2 - - - +
166A VAL 3.1 0.2 - - - -
167A LYS* 1.3 74.5 - - - +
169A MET* 1.3 63.6 + - - +
171A SER* 3.3 9.0 + - - +
172A ASP* 3.2 20.4 + - - +
435A PHE* 4.2 12.5 - - + -
439A LYS* 3.3 36.4 + - - +
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Residues in contact with MET 169 (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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165A GLU 2.8 18.7 + - - +
166A VAL* 2.8 13.0 + - - +
168A GLU* 1.3 71.9 - - - +
170A LEU* 1.3 67.8 + - - +
172A ASP 3.1 2.8 + - - -
173A MET* 3.0 29.1 + - + +
431A ILE* 3.6 17.7 - - + -
432A VAL* 4.6 9.2 - - - -
435A PHE* 3.5 47.3 - - + -
452A SER* 3.2 37.5 - - - +
453A GLU* 3.8 17.3 - - + +
456A LEU* 3.8 20.9 - - + -
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Residues in contact with LEU 170 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
166A VAL 2.7 15.8 + - - +
167A LYS* 3.1 12.3 + - + +
169A MET* 1.3 72.7 - - - +
171A SER* 1.3 63.3 + - - +
173A MET* 3.1 24.9 + - + +
174A VAL* 3.0 29.0 + - + +
456A LEU* 5.5 0.9 - - + -
460A LEU* 3.9 21.3 - - + -
477A ALA 4.3 0.7 - - - +
478A THR* 3.7 28.3 - - - +
480A VAL 3.3 27.1 - - - +
482A ILE* 3.6 25.6 - - + -
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Residues in contact with SER 171 (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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167A LYS 2.8 13.8 + - - -
168A GLU* 3.6 12.5 + - - +
169A MET 3.2 0.2 - - - -
170A LEU* 1.3 75.9 - - - +
172A ASP* 1.3 59.5 + - - +
174A VAL* 3.2 8.9 + - - +
175A ARG* 2.9 28.1 + - - +
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Residues in contact with ASP 172 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
168A GLU* 3.2 8.3 + - + +
169A MET 3.1 3.7 + - - +
171A SER* 1.3 82.6 + - - +
173A MET* 1.3 57.3 + - - +
175A ARG* 2.6 42.6 + - - +
176A ARG* 2.8 50.8 + - - +
435A PHE* 5.9 2.0 - - + -
444A LEU* 5.2 4.7 - - - +
445A ASP* 4.4 5.2 - - - +
450A VAL* 4.5 1.6 - - - +
453A GLU* 2.7 27.8 - - - +
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Residues in contact with MET 173 (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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169A MET 3.0 8.9 + - - +
170A LEU* 3.2 57.2 - - + +
172A ASP* 1.3 79.3 - - - +
174A VAL* 1.3 56.5 + - - +
176A ARG* 3.3 9.8 + - - +
177A ARG* 2.9 28.4 + - - +
453A GLU* 3.7 48.9 - - + +
456A LEU* 3.5 22.4 - - + -
457A HIS* 4.7 10.5 - - - -
460A LEU* 4.6 3.4 - - + -
478A THR* 3.9 20.1 - - + +
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Residues in contact with VAL 174 (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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170A LEU* 3.0 21.6 + - + +
171A SER* 3.5 9.0 - - - +
173A MET* 1.3 73.4 - - - +
175A ARG* 1.3 66.8 + - - +
177A ARG* 3.1 16.5 + - - +
178A ASN* 3.2 23.4 + - - +
478A THR* 3.5 32.8 - - - +
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Residues in contact with ARG 175 (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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171A SER* 2.9 13.3 + - - +
172A ASP* 2.6 34.9 + - - +
174A VAL* 1.3 78.5 - - - +
176A ARG* 1.3 88.0 + - - +
178A ASN* 3.4 6.4 + - - +
179A ILE* 3.2 52.0 + - + +
445A ASP* 3.7 31.1 + - - +
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Residues in contact with ARG 176 (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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172A ASP* 2.8 41.2 + - - +
173A MET* 3.5 8.7 - - - +
174A VAL 3.2 0.2 - - - -
175A ARG* 1.3 90.3 - - - +
177A ARG* 1.3 65.7 + - - +
179A ILE* 3.3 10.7 + - + +
180A LEU* 3.2 31.7 + - + +
444A LEU* 2.8 32.9 + - - +
445A ASP* 4.1 7.7 + - - +
447A MET 3.1 20.4 + - - -
448A ASP* 3.8 16.4 + - - +
449A ILE* 4.9 0.8 - - - +
450A VAL* 3.5 17.8 - - - +
453A GLU* 3.4 13.8 + - - -
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Residues in contact with ARG 177 (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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173A MET 2.9 13.6 + - - +
174A VAL* 3.1 11.2 + - + +
176A ARG* 1.3 75.0 - - - +
178A ASN* 1.3 58.6 + - - +
180A LEU* 3.0 14.3 + - - +
181A LEU* 2.9 48.5 + - + +
300A ALA* 3.5 42.7 - - + +
301A GLN* 5.2 6.7 - - - +
457A HIS* 5.7 3.8 + - - -
475A GLY 5.5 2.2 + - - -
476A ASN* 2.9 38.1 + - - +
477A ALA 5.2 0.2 - - - +
478A THR* 3.2 26.0 + - + +
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Residues in contact with ASN 178 (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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174A VAL* 3.2 18.2 + - - +
175A ARG* 3.5 11.2 - - - +
177A ARG* 1.3 76.1 - - - +
179A ILE* 1.3 62.7 + - + +
180A LEU 3.1 2.0 - - - -
181A LEU* 4.4 13.1 - - - +
182A ASN* 2.8 51.6 + - - +
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Residues in contact with ILE 179 (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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175A ARG* 3.2 49.1 - - + +
176A ARG* 3.3 8.0 + - + +
178A ASN* 1.3 76.2 - - + +
180A LEU* 1.3 67.5 + - + +
182A ASN* 4.3 12.1 - - - +
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Residues in contact with LEU 180 (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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176A ARG* 3.2 21.3 + - + +
177A ARG* 3.0 8.1 + - - +
179A ILE* 1.3 84.4 - - + +
181A LEU* 1.3 66.6 + - - +
182A ASN 4.0 2.9 - - - +
299A ARG* 3.6 42.6 + - - +
300A ALA* 3.5 21.8 - - - +
372A ASN* 3.8 21.1 - - - +
374A LEU* 3.8 22.2 - - + -
375A TYR* 3.4 14.3 + - + +
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Residues in contact with LEU 181 (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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177A ARG* 2.9 41.9 + - + +
178A ASN* 3.9 12.1 - - - +
180A LEU* 1.3 80.1 - - - +
182A ASN* 1.3 74.7 + - - +
296A SER* 4.9 5.2 - - - +
299A ARG* 4.5 15.6 + - + -
300A ALA* 4.4 28.5 - - + +
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Residues in contact with ASN 182 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
178A ASN* 2.8 44.8 + - - +
179A ILE* 4.3 11.2 - - - +
180A LEU 3.5 4.2 - - - +
181A LEU* 1.3 89.3 - - - +
299A ARG* 5.5 3.3 + - - -
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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
------------------------------------------------------------
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) + - + + + + + -
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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