Contacts of the helix formed by residues 151 - 164 (chain A) in PDB entry 1XZ0
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 ASN 151 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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147A VAL 4.6 1.5 + - - +
148A LEU 4.3 6.2 + - - +
149A ASN 3.3 2.9 - - - -
150A GLN* 1.3 76.2 - - + +
152A GLN* 1.3 62.6 + - - +
153A HIS* 3.3 15.3 + - - +
154A GLU* 3.1 34.8 + - + +
155A ASN* 3.3 22.9 + - - +
601A JH0 3.4 25.9 - - + -
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Residues in contact with GLN 152 (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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129A ASN* 4.2 11.0 + - - +
149A ASN 4.5 8.4 - - - +
150A GLN 3.1 10.6 + - - +
151A ASN* 1.3 69.8 + - - +
153A HIS* 1.3 68.1 + - - +
155A ASN* 3.4 20.5 + - - +
156A ASP* 3.2 47.0 + - - +
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Residues in contact with HIS 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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151A ASN* 3.8 12.3 + - - +
152A GLN* 1.3 77.6 - - - +
154A GLU* 1.3 74.7 + - - +
156A ASP* 3.0 21.0 + - - +
157A ILE* 3.4 36.3 + - + +
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Residues in contact with GLU 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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69A LEU* 5.7 1.6 - - - +
72A ILE* 6.2 0.3 - - - +
73A ARG* 3.0 45.9 + - - +
151A ASN* 3.1 27.9 + - - +
153A HIS* 1.3 95.0 - - - +
155A ASN* 1.3 64.2 + - - +
157A ILE* 3.4 17.0 + - - +
158A THR* 3.1 20.1 + - - -
601A JH0 3.4 37.1 - - + +
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Residues in contact with ASN 155 (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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126A PHE* 3.9 12.5 - - + -
129A ASN* 4.3 12.5 + - - +
130A SER* 4.8 0.2 - - - +
131A TRP* 3.3 25.8 + - - -
148A LEU 3.6 13.8 + - - +
149A ASN* 3.5 30.1 + - - +
151A ASN 3.3 10.5 + - - +
152A GLN* 3.7 24.8 + - - +
153A HIS 3.2 1.0 - - - -
154A GLU* 1.3 79.7 - - - +
156A ASP* 1.3 57.7 + - - +
158A THR* 3.2 6.1 + - - -
159A HIS* 2.9 29.3 + - - +
601A JH0 4.7 6.6 - - - +
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Residues in contact with ASP 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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129A ASN* 3.4 15.0 + - - +
152A GLN* 3.2 36.1 + - - +
153A HIS* 3.0 11.6 + - - +
155A ASN* 1.3 75.5 - - - +
157A ILE* 1.3 58.8 + - + +
159A HIS* 3.5 7.9 + - - +
160A ASN* 3.0 31.2 + - - +
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Residues in contact with ILE 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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69A LEU* 4.5 19.1 - - + -
73A ARG* 3.2 24.5 - - - +
153A HIS* 3.4 41.1 + - + +
154A GLU* 3.7 20.4 - - - +
155A ASN 3.2 0.4 - - - -
156A ASP* 1.3 77.4 - - + +
158A THR* 1.3 64.0 + - - +
160A ASN* 3.1 15.3 + - - +
161A LEU* 3.1 19.8 + - + +
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Residues in contact with THR 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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73A ARG* 2.9 29.2 + - - +
114A LEU* 3.5 31.9 - - + -
126A PHE* 3.7 19.7 - - + -
131A TRP* 5.1 0.2 - - + -
154A GLU 3.1 10.3 + - - -
155A ASN* 3.2 9.8 + - - -
157A ILE* 1.3 76.7 - - - +
159A HIS* 1.3 61.7 + - - +
160A ASN 3.4 0.2 + - - -
161A LEU* 3.4 10.0 + - + +
162A LEU* 3.3 23.5 + - + +
601A JH0 3.4 22.0 - - + -
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Residues in contact with HIS 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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126A PHE* 4.1 13.4 - - + -
128A ASN* 5.7 3.1 - - - -
129A ASN* 3.2 44.5 + - + +
155A ASN 2.9 16.7 + - - +
156A ASP* 3.8 5.6 - - - +
157A ILE 3.2 0.2 - - - -
158A THR* 1.3 78.5 - - - +
160A ASN* 1.3 66.5 + - - +
162A LEU* 4.1 3.8 - - - +
163A SER* 3.0 45.6 + - - -
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Residues in contact with ASN 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 ASP 3.0 18.4 + - - +
157A ILE* 3.1 6.6 + - - +
159A HIS* 1.3 84.3 - - - +
161A LEU* 1.3 60.5 + - - +
163A SER* 4.5 3.1 + - - +
164A ASP* 3.1 39.1 + - - +
165A THR* 3.2 13.6 + - - -
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Residues in contact with LEU 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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66A LEU* 4.1 24.9 - - + -
69A LEU* 3.8 24.7 - - + -
70A PHE* 5.9 3.8 - - + -
73A ARG* 4.3 16.4 - - - +
157A ILE* 3.1 19.3 + - + +
158A THR* 3.6 9.2 - - + +
160A ASN* 1.3 79.1 - - - +
162A LEU* 1.3 59.8 + - + +
165A THR* 3.7 19.4 - - + +
166A CYS* 3.1 31.5 + - - +
601A JH0 4.1 38.5 - - + +
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Residues in contact with LEU 162 (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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101A GLY* 4.4 6.1 - - - +
102A CYS* 5.2 0.2 - - - +
112A SER* 3.6 33.9 - - - +
113A PHE* 3.8 20.2 - - - +
114A LEU* 3.7 30.7 - - + -
126A PHE* 3.9 25.4 - - + +
158A THR* 3.3 14.4 + - + +
159A HIS* 4.2 4.5 - - - +
161A LEU* 1.3 79.5 - - - +
163A SER* 1.3 62.5 + - - +
166A CYS* 4.0 4.9 - - - +
167A PRO* 3.8 12.5 - - - +
601A JH0 4.0 35.7 - - + -
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Residues in contact with SER 163 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
112A SER* 5.3 1.6 - - - -
159A HIS* 3.0 45.5 + - - -
160A ASN* 4.5 3.2 + - - -
162A LEU* 1.3 78.3 - - - +
164A ASP* 1.3 62.6 + - - +
167A PRO* 3.2 18.5 - - - +
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Residues in contact with ASP 164 (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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160A ASN* 3.1 27.4 + - - +
163A SER* 1.3 82.3 - - - +
165A THR* 1.3 69.8 + - - +
166A CYS 3.3 1.3 - - - -
167A PRO* 3.4 8.9 - - - +
168A ARG* 3.1 51.0 + - - +
2E NAG 5.2 3.6 - - - +
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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