Contacts of the helix formed by residues 134 - 149 (chain A) in PDB entry 1CEZ
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 VAL 134 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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132A THR 3.7 0.6 + - - -
133A THR* 1.3 71.9 - - - +
135A GLN* 1.3 73.6 + - - +
137A VAL* 4.0 0.9 - - - +
138A ALA* 3.1 27.9 + - - +
210A ILE* 6.1 0.2 - - - -
214A VAL* 4.5 13.2 - - + +
217A ILE* 4.5 13.5 - - + -
229A LEU* 4.3 16.4 - - + -
242A GLU* 2.7 36.0 + - + +
243A THR* 4.3 0.4 - - - +
244A ILE* 4.5 9.9 - - + -
751A PHE* 5.6 1.6 - - + -
757A LEU* 3.8 30.3 - - + -
759A PRO* 4.4 10.8 - - + -
6T T 5.2 0.9 - - - +
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Residues in contact with GLN 135 (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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133A THR* 3.0 14.8 - - - +
134A VAL* 1.3 92.4 - - - +
136A ALA* 1.3 60.5 + - - +
138A ALA* 4.9 1.8 - - - -
139A SER* 2.8 35.5 + - - -
210A ILE* 4.0 7.8 - - + +
242A GLU 4.7 1.2 + - - +
759A PRO* 3.9 5.6 - - + +
760A THR* 2.6 34.7 + - - +
761A ILE* 4.2 14.1 - - + -
4T A 3.6 40.4 - - + +
5T G 4.4 2.6 + - - -
6T T 3.4 22.1 + - - -
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Residues in contact with ALA 136 (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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125A CYS* 4.3 5.1 - - + -
131A ASN* 3.1 38.4 - - + +
133A THR* 3.1 9.3 + - - +
135A GLN* 1.3 80.6 - - - +
137A VAL* 1.3 65.0 + - + +
139A SER* 3.6 4.8 - - - -
140A ALA* 3.0 24.6 + - - +
3T T 5.9 2.7 - - - +
4T A 4.2 11.1 + - - +
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Residues in contact with VAL 137 (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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122A THR* 4.1 19.5 - - + +
125A CYS* 3.9 29.8 - - + -
126A LEU* 6.1 1.6 - - + -
132A THR* 4.2 13.7 - - - +
133A THR 3.2 15.3 + - - +
134A VAL 4.3 0.4 - - - +
136A ALA* 1.3 75.2 - - + +
138A ALA* 1.3 65.8 + - - +
140A ALA* 3.2 2.9 + - - +
141A ILE* 3.0 33.3 + - + +
217A ILE* 3.6 22.7 - - + -
244A ILE* 3.9 22.9 - - + -
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Residues in contact with ALA 138 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
134A VAL 3.1 20.0 + - - +
135A GLN 4.2 0.2 - - - +
137A VAL* 1.3 78.3 - - - +
139A SER* 1.3 57.4 + - - +
141A ILE* 4.4 0.2 - - - -
142A GLY 2.9 24.3 + - - -
209A SER 3.6 4.9 - - - +
210A ILE* 4.0 13.5 - - + +
213A GLY* 3.3 16.7 - - - -
214A VAL* 3.5 37.2 - - + +
217A ILE* 3.7 6.7 - - + +
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Residues in contact with SER 139 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
135A GLN 2.8 21.1 + - - -
136A ALA 3.6 3.1 - - - -
138A ALA* 1.3 78.8 - - - +
140A ALA* 1.3 62.0 + - - +
142A GLY 3.4 0.3 + - - -
143A ARG* 3.1 25.1 + - - +
206A LYS* 3.4 16.6 + - - -
209A SER* 3.7 6.7 + - - -
210A ILE* 3.7 16.8 - - - +
3T T 4.5 4.7 + - - +
4T A 3.1 25.6 + - - -
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Residues in contact with ALA 140 (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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121A THR* 3.6 21.3 - - + +
125A CYS* 3.6 15.7 - - - -
136A ALA 3.0 17.9 + - - +
137A VAL 3.2 0.9 + - - +
139A SER* 1.3 77.3 + - - +
141A ILE* 1.3 61.8 + - - +
143A ARG* 3.8 8.4 + - - +
144A ALA* 3.3 22.3 + - - +
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Residues in contact with ILE 141 (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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117A ILE* 5.0 1.6 - - + -
118A THR* 4.3 18.8 - - + +
121A THR* 3.8 23.8 - - + -
122A THR* 3.6 17.9 - - - +
137A VAL* 3.0 20.7 + - + +
138A ALA 3.8 4.3 - - - +
140A ALA* 1.3 75.8 - - - +
142A GLY* 1.3 61.2 + - - +
144A ALA* 3.3 3.1 + - - +
145A ILE* 2.8 42.7 + - + +
213A GLY* 4.0 15.5 - - - +
216A CYS* 4.0 13.7 - - + -
217A ILE* 3.5 31.9 - - + +
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Residues in contact with GLY 142 (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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138A ALA 2.9 10.9 + - - -
139A SER 3.4 0.2 + - - -
141A ILE* 1.3 76.6 - - - +
143A ARG* 1.3 57.6 + - - +
145A ILE* 3.3 7.1 + - - +
146A GLU* 2.9 31.2 + - - +
204A TRP* 3.9 4.1 - - - -
209A SER* 3.4 35.2 - - - -
212A VAL* 4.5 4.3 - - - -
213A GLY* 4.3 3.8 - - - -
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Residues in contact with ARG 143 (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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139A SER 3.1 17.2 + - - +
140A ALA* 3.8 8.3 - - - +
142A GLY* 1.3 76.8 - - - +
144A ALA* 1.3 60.9 + - - +
146A GLU* 3.4 9.5 + - - +
147A ASP* 3.1 36.5 + - - +
200A ALA 5.1 8.3 + - - -
202A SER* 5.3 13.8 - - - -
209A SER* 3.6 4.5 + - - +
268A PHE* 6.1 4.5 - - - -
292A ARG* 5.4 2.0 + - - +
2T A 6.1 2.2 + - - -
3T T 6.0 4.4 - - - +
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Residues in contact with ALA 144 (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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43A SER 5.8 0.2 - - - +
44A TYR* 4.5 3.1 - - + -
117A ILE* 3.4 33.4 - - + +
121A THR* 4.2 6.3 - - - +
140A ALA 3.3 14.8 + - - +
141A ILE 3.3 2.3 + - - +
143A ARG* 1.3 77.9 - - - +
145A ILE* 1.3 67.8 + - - +
146A GLU 3.1 0.4 - - - -
147A ASP* 3.0 23.3 + - - +
148A GLU 3.3 8.7 + - - -
267A MET* 5.2 11.9 - - + -
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Residues in contact with ILE 145 (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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106A LEU* 3.8 20.6 - - + -
109A ILE* 4.0 18.2 - - + +
114A VAL* 4.0 38.4 - - + +
117A ILE* 4.0 23.8 - - + -
141A ILE* 2.8 39.3 + - + +
142A GLY 3.6 4.3 - - - +
144A ALA* 1.3 72.5 - - - +
146A GLU* 1.3 62.4 + - - +
148A GLU* 3.3 5.4 + - - +
149A ALA* 3.1 18.9 + - - +
204A TRP* 4.2 7.9 - - + -
212A VAL* 4.0 16.8 - - + -
216A CYS* 4.6 1.1 - - - -
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Residues in contact with GLU 146 (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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142A GLY 2.9 17.9 + - - +
143A ARG* 3.7 6.5 - - - +
144A ALA 3.1 0.2 - - - -
145A ILE* 1.3 76.0 - - - +
147A ASP* 1.3 67.3 + - - +
149A ALA* 3.5 1.7 + - + +
150A ARG* 3.2 26.2 + - + +
202A SER* 2.4 26.2 + - - -
203A SER* 3.0 29.6 + - - -
204A TRP* 3.0 56.2 - - + +
209A SER* 5.8 0.9 - - - -
292A ARG* 3.6 15.0 + - - +
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Residues in contact with ASP 147 (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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44A TYR* 3.4 25.6 + - + +
143A ARG* 3.1 27.5 + - - +
144A ALA* 3.0 14.2 + - - +
146A GLU* 1.3 76.5 - - - +
148A GLU* 1.3 49.6 - - - +
150A ARG 2.0 34.0 - - - +
151A PHE* 3.5 14.0 - - - +
202A SER* 6.0 0.3 - - - -
268A PHE* 6.1 1.2 - - - -
292A ARG* 2.8 48.3 + - + +
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Residues in contact with GLU 148 (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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44A TYR* 3.2 19.2 - - + +
109A ILE* 3.6 27.3 - - + +
110A LYS* 5.3 5.0 + - - +
113A ALA* 3.9 11.7 - - + +
117A ILE* 3.9 12.8 - - + -
144A ALA 3.3 2.6 + - - -
145A ILE 3.6 8.1 - - - +
146A GLU 3.2 0.4 - - - -
147A ASP* 1.3 74.3 - - - +
149A ALA* 1.3 61.8 + - - +
150A ARG 2.7 13.0 - - - +
151A PHE* 5.3 0.2 - - - -
152A GLY* 2.8 38.4 + - - +
155A ARG* 2.6 46.8 + - - -
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Residues in contact with ALA 149 (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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105A PHE 5.6 0.7 - - - +
108A GLU* 6.2 1.8 - - + -
109A ILE* 4.1 22.8 - - + +
145A ILE 3.1 13.5 + - - +
146A GLU* 3.8 8.1 - - + +
147A ASP 3.4 0.2 - - - -
148A GLU* 1.3 76.9 - - - +
150A ARG* 1.3 60.0 + - - +
152A GLY* 4.0 4.2 + - - -
153A ARG 5.0 2.1 + - - -
204A TRP* 4.4 19.1 - - + +
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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
------------------------------------------------------------
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