Contacts of the helix formed by residues 151 - 163 (chain I) in PDB entry 2AAZ
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 ASP 151 (chain I).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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132I ARG* 2.7 59.5 + - - +
149I GLY 3.8 4.0 + - - +
150I VAL* 1.3 71.7 - - - +
152I GLN* 1.3 61.9 + - - +
153I LEU 3.3 1.9 + - - -
154I GLN* 3.0 27.0 + - + +
155I ARG* 3.2 18.7 + - - +
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Residues in contact with GLN 152 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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130I GLN 2.8 23.2 + - - -
131I TRP* 3.0 11.0 + - - +
134I PHE* 3.6 13.1 - - - +
150I VAL* 3.4 11.4 - - + +
151I ASP* 1.3 71.2 - - - +
153I LEU* 1.3 58.4 + - - +
155I ARG* 3.3 6.9 + - - +
156I VAL* 2.9 33.9 + - - +
170I ILE 3.9 10.7 - - - +
171I LEU* 3.8 11.9 - - + -
172I SER* 2.7 49.1 + - - +
174J TRP* 4.7 1.4 + - - -
176J PRO* 3.7 30.3 - - + +
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Residues in contact with LEU 153 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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84I VAL* 3.9 27.4 - - + -
131I TRP* 3.4 8.5 + - + +
132I ARG* 3.6 30.5 - - - +
151I ASP* 3.3 1.0 + - - -
152I GLN* 1.3 78.2 - - - +
154I GLN* 1.3 63.6 + - - +
156I VAL* 3.1 10.1 + - + +
157I ILE* 3.1 24.6 + - + +
171I LEU* 3.9 28.4 - - + +
234I LEU* 4.7 5.4 - - + -
238I ILE* 4.3 22.0 - - + -
292I ILE* 3.7 34.1 - - + -
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Residues in contact with GLN 154 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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132I ARG* 4.4 4.5 - - - +
151I ASP* 3.0 31.3 + - + +
153I LEU* 1.3 77.1 - - - +
155I ARG* 1.3 57.8 + - - +
157I ILE* 3.1 17.2 + - - +
158I ASP* 2.9 57.5 + - - +
291I ASP* 5.3 6.9 - - - +
292I ILE* 4.0 24.5 - - - +
293I ASP* 5.1 2.2 + - - -
139L THR* 6.0 7.4 - - + -
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Residues in contact with ARG 155 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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150I VAL* 5.9 5.3 - - + +
151I ASP 3.2 13.9 + - - +
152I GLN* 3.5 11.9 - - - +
153I LEU 3.2 0.8 - - - -
154I GLN* 1.3 76.8 - - - +
156I VAL* 1.3 55.2 + - + +
158I ASP* 3.7 5.7 + - - +
159I THR* 2.7 50.0 + - - +
117L HIS* 3.4 50.5 + - - -
181L LEU* 5.2 10.7 - - - +
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Residues in contact with VAL 156 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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152I GLN 2.9 21.0 + - - +
153I LEU* 3.1 11.6 + - + +
155I ARG* 1.3 78.0 - - + +
157I ILE* 1.3 63.2 + - - +
159I THR* 3.8 2.3 - - - -
160I ILE* 3.0 43.7 + - + +
169I ILE* 3.6 30.3 - - + +
170I ILE 3.7 26.5 - - - +
171I LEU* 4.5 8.1 - - + -
193I PHE* 3.8 17.3 - - + -
238I ILE* 4.6 9.9 - - + -
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Residues in contact with ILE 157 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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153I LEU* 3.1 16.1 + - + +
154I GLN* 3.1 29.6 + - - +
156I VAL* 1.3 79.3 - - + +
158I ASP* 1.3 63.7 + - - +
160I ILE 3.3 0.3 + - - -
161I LYS* 3.2 36.8 + - + +
238I ILE* 3.6 43.7 - - + -
241I ILE* 4.0 19.1 - - + -
242I THR* 3.7 17.7 - - + +
292I ILE* 4.6 18.6 - - + -
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Residues in contact with ASP 158 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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154I GLN* 2.9 46.9 + - - +
155I ARG* 3.7 7.3 + - - +
157I ILE* 1.3 77.5 - - - +
159I THR* 1.3 59.7 + - - +
161I LYS* 3.4 8.1 + - - +
162I ASN* 2.9 38.2 + - - +
117L HIS* 3.2 34.8 + - + +
139L THR 4.9 8.5 - - - +
140L ASP* 5.5 8.2 - - - +
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Residues in contact with THR 159 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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155I ARG* 2.7 37.8 + - - +
156I VAL* 3.8 4.7 - - - -
158I ASP* 1.3 74.5 - - - +
160I ILE* 1.3 60.4 + - - +
163I ASN* 2.7 54.9 + - + +
166I ASP* 3.5 24.7 - - + +
169I ILE* 3.8 18.6 - - + -
117L HIS* 3.7 13.1 - - + +
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Residues in contact with ILE 160 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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156I VAL* 3.0 33.7 + - + +
157I ILE 3.7 4.3 - - - +
159I THR* 1.3 77.1 - - - +
161I LYS* 1.3 60.8 + - - +
164I PRO* 3.5 24.8 - - - +
169I ILE* 4.2 13.0 - - + -
193I PHE* 4.5 4.9 - - + -
195I VAL* 3.8 24.2 - - + +
209I LEU* 3.8 16.6 - - + -
238I ILE* 3.5 30.1 - - + -
242I THR* 3.6 23.6 - - + +
244I THR* 3.9 14.7 - - + +
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Residues in contact with LYS 161 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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157I ILE* 3.2 34.6 + - + +
158I ASP* 3.8 9.3 + - - +
159I THR 3.2 0.4 - - - -
160I ILE* 1.3 80.2 - - - +
162I ASN* 1.3 71.2 + - - +
163I ASN 3.7 0.2 - - - -
164I PRO* 4.5 3.2 - - - +
241I ILE* 4.0 18.1 + - - +
242I THR* 3.7 25.6 - - - +
286I LYS* 5.7 5.4 - - - +
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Residues in contact with ASN 162 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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158I ASP* 2.9 18.1 + - - +
161I LYS* 1.3 88.9 - - - +
163I ASN* 1.3 60.0 + - - +
164I PRO* 3.7 4.5 - - - +
107L LYS* 3.1 25.1 + - - +
111L GLU* 5.0 0.3 - - - +
116L GLY 3.6 0.4 - - - +
117L HIS 2.5 34.0 + - - +
118L ARG* 3.5 13.4 - - - +
119L ARG* 3.3 34.8 - - - +
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Residues in contact with ASN 163 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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159I THR* 2.7 23.4 + - + +
162I ASN* 1.3 75.3 - - - +
164I PRO* 1.3 62.0 - - - +
165I THR* 3.3 12.8 + - - -
166I ASP* 3.0 55.6 + - - +
107L LYS* 4.6 0.2 - - - +
111L GLU* 3.5 25.4 + - - +
116L GLY* 3.2 26.1 + - - +
117L HIS* 4.8 0.2 - - - -
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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