Contacts of the helix formed by residues 141 - 158 (chain A) in PDB entry 3ZG2
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 141 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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138A LYS 4.6 2.7 + - - +
139A PHE 3.4 0.2 - - - -
140A GLN* 1.3 85.5 - - - +
142A PHE* 1.3 66.1 + - + +
143A VAL 3.5 0.4 - - - -
144A PRO* 3.4 8.4 - - - +
145A ALA* 3.0 30.4 + - + +
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Residues in contact with PHE 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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133A GLU 5.1 2.2 - - - -
138A LYS* 3.3 24.9 - - + -
139A PHE* 3.0 52.3 - + - +
140A GLN 3.2 1.2 - - - -
141A ASN* 1.3 83.5 - - + +
143A VAL* 1.3 59.9 + - - +
145A ALA* 3.3 4.2 + - + +
146A ILE* 2.9 36.5 + - - +
182A CYS* 3.3 36.3 - - + -
183A LEU* 3.6 30.3 - - + -
427A PHE* 4.2 15.5 - + - -
430A LEU* 3.7 13.2 - - + -
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Residues in contact with VAL 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 PHE 4.0 1.5 + - - +
142A PHE* 1.3 76.0 - - - +
144A PRO* 1.3 68.0 - - + +
146A ILE* 4.0 6.4 - - - +
147A GLN* 3.2 23.2 + - - +
330A LEU* 3.6 22.9 - - + +
331A ASN 3.7 10.5 - - - +
332A TYR* 3.5 35.2 - - + +
335A VAL* 3.8 22.9 - - + -
430A LEU* 3.8 28.0 - - + -
434A THR* 3.9 8.1 - - + +
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Residues in contact with PRO 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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140A GLN 3.7 11.4 - - - +
141A ASN* 3.4 17.5 - - - +
143A VAL* 1.3 94.7 - - + +
145A ALA* 1.3 63.5 + - - +
147A GLN* 3.3 6.4 + - + +
148A HIS* 3.1 25.5 + - - +
329A GLN* 4.3 15.3 - - + +
330A LEU 3.9 13.9 - - - +
331A ASN* 5.2 3.4 - - - -
332A TYR 5.2 1.8 - - - +
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Residues in contact with ALA 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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141A ASN* 3.0 22.4 + - + +
142A PHE* 3.5 9.2 - - + +
144A PRO* 1.3 76.4 - - - +
146A ILE* 1.3 61.0 + - - +
148A HIS* 3.8 4.6 + - - +
149A GLU* 3.4 12.6 + - - +
181A GLN* 3.3 46.5 - - + +
182A CYS* 4.4 7.4 - - - -
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Residues in contact with ILE 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 PHE 2.9 20.7 + - - +
143A VAL* 4.0 4.0 - - - +
145A ALA* 1.3 74.1 - - - +
147A GLN* 1.3 67.5 + - - +
149A GLU* 3.0 2.4 + - - -
150A VAL* 2.9 29.9 + - + +
178A THR* 3.7 27.4 - - + +
182A CYS* 3.5 23.8 - - - -
427A PHE* 5.0 0.2 - - + -
430A LEU* 4.0 18.6 - - + -
431A GLN* 3.9 29.2 - - + -
434A THR* 3.9 24.9 - - + +
435A ILE* 4.4 9.2 - - + +
438A THR* 5.8 0.2 - - - +
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Residues in contact with GLN 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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143A VAL 3.2 16.2 + - - +
144A PRO* 3.3 4.9 + - - +
146A ILE* 1.3 77.2 - - - +
148A HIS* 1.3 61.9 + - - +
150A VAL* 4.0 2.6 - - - +
151A ARG* 3.0 66.9 + - - +
328A ALA* 3.1 7.1 + - - +
329A GLN* 3.2 11.5 - - - +
330A LEU* 2.3 55.2 + - - +
434A THR* 4.1 9.2 - - + -
438A THR* 3.4 26.2 + - - +
441A ARG* 5.6 2.2 - - - +
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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
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144A PRO 3.1 16.1 + - - +
145A ALA* 4.0 3.8 - - - +
147A GLN* 1.3 76.2 - - - +
149A GLU* 1.3 77.7 + - + +
151A ARG* 3.3 6.9 + - - +
152A LYS* 2.9 50.6 + - + +
181A GLN* 3.7 27.7 + - - -
189A ARG* 5.8 0.4 + - - -
329A GLN* 4.7 5.9 + - - +
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Residues in contact with GLU 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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145A ALA 3.4 11.8 + - - +
146A ILE 3.0 2.4 + - - -
148A HIS* 1.3 80.9 + - + +
150A VAL* 1.3 64.9 + - - +
152A LYS* 3.3 37.8 + - - +
153A PHE* 3.6 15.6 + - - +
174A MET* 5.7 0.5 - - - +
177A ASN* 3.2 33.9 + - - +
178A THR* 3.7 18.6 - - + -
181A GLN* 3.3 37.7 - - + +
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Residues in contact with VAL 150 (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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146A ILE* 2.9 16.3 + - + +
147A GLN 4.0 2.9 - - - +
149A GLU* 1.3 74.8 - - - +
151A ARG* 1.3 64.6 + - - +
153A PHE* 3.0 17.5 + - - +
154A MET* 3.1 24.8 + - + +
174A MET* 3.9 26.5 - - + -
178A THR* 3.6 21.5 - - + -
435A ILE* 3.9 30.7 - - + -
438A THR* 3.8 25.6 - - + -
439A ALA* 5.1 2.7 - - + +
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Residues in contact with ARG 151 (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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147A GLN* 3.0 46.4 + - - +
148A HIS* 3.3 6.5 + - - +
150A VAL* 1.3 74.3 - - - +
152A LYS* 1.3 68.1 + - - +
154A MET* 3.7 25.0 + - + +
155A ALA* 3.5 16.8 + - - +
328A ALA* 2.2 51.9 + - - +
329A GLN* 3.4 18.7 - - - +
438A THR* 3.9 8.3 - - + +
441A ARG* 4.1 9.9 - - - +
442A GLU* 3.1 28.8 + - - +
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Residues in contact with LYS 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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148A HIS* 2.9 39.8 + - + +
149A GLU* 3.3 31.1 + - - +
151A ARG* 1.3 75.1 - - - +
153A PHE* 1.3 66.0 + - - +
155A ALA* 2.8 20.7 + - - +
156A GLU* 3.2 13.5 + - - +
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Residues in contact with PHE 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 GLU 3.6 10.0 + - - +
150A VAL 3.0 9.0 + - - +
152A LYS* 1.3 78.6 - - - +
154A MET* 1.3 66.3 + - - +
156A GLU* 3.2 7.8 + - - +
157A ASN* 2.7 59.5 + - - +
158A TRP* 3.8 25.8 - + - -
170A ASP* 3.6 35.2 - - + -
173A ALA* 4.0 19.5 - - + -
174A MET* 3.7 26.9 - - + -
177A ASN* 4.1 20.6 - - - +
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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 VAL* 3.3 22.0 - - + +
151A ARG* 3.7 28.0 - - + +
152A LYS 3.1 0.6 - - - -
153A PHE* 1.3 82.6 - - + +
155A ALA* 1.3 57.9 + - - +
158A TRP* 2.8 66.3 + - + +
174A MET* 4.9 0.4 - - - -
438A THR* 3.8 14.8 - - + +
439A ALA* 4.3 9.9 - - - -
442A GLU* 3.2 28.3 - - - +
443A TYR* 3.6 32.8 - - + +
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Residues in contact with ALA 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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151A ARG 3.5 8.8 + - - +
152A LYS* 2.8 14.3 + - - +
154A MET* 1.3 75.2 - - - +
156A GLU* 1.3 57.9 + - - +
158A TRP 4.4 3.6 - - - -
159A LYS* 4.1 16.3 - - - +
475A ARG* 4.8 7.9 - - - +
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Residues in contact with GLU 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 LYS* 3.2 12.7 + - - +
153A PHE* 3.2 9.2 + - - +
155A ALA* 1.3 78.7 - - - +
157A ASN* 1.3 77.8 + - - +
159A LYS* 3.1 24.2 - - - +
195A ARG* 5.8 1.4 + - - -
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Residues in contact with ASN 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 PHE* 2.7 60.8 + - + +
156A GLU* 1.3 95.5 + - - +
158A TRP* 1.3 74.7 + - + +
159A LYS* 3.1 13.9 + - - +
160A GLU* 4.8 1.9 - - - +
165A ILE* 4.8 5.9 - - + +
170A ASP* 5.0 3.1 - - - +
473A TYR* 3.9 5.4 + - - -
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Residues in contact with TRP 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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153A PHE* 3.8 9.1 - + - -
154A MET* 2.8 47.8 + - + +
157A ASN* 1.3 80.3 - - + +
159A LYS* 1.3 53.0 + - - +
160A GLU 4.3 0.3 - - - +
165A ILE* 3.8 19.8 - - + +
167A LEU* 4.7 8.3 - - + -
170A ASP* 2.7 33.7 + - + -
174A MET* 4.0 29.2 - - + -
304A MET* 5.4 2.2 - - + -
439A ALA* 4.6 7.6 - - + -
443A TYR* 3.4 34.1 - + + +
445A PHE* 3.6 33.7 - + - -
473A TYR* 3.3 26.5 - + + -
475A ARG* 2.5 32.1 + - - -
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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
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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