Contacts of the strand formed by residues 147 - 153 (chain C) in PDB entry 3QAZ
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 GLN 147 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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156B PRO* 4.9 6.5 - - - +
157B LEU 2.8 23.5 + - - +
158B LEU* 3.7 14.6 - - + +
159B THR* 3.1 26.2 + - - +
142C LYS* 3.7 4.0 - - - -
143C LEU* 3.1 52.3 + - + +
144C SER* 3.6 19.5 + - - +
145C GLU 3.8 0.2 - - - -
146C SER* 1.3 91.8 + - - +
148C LEU* 1.3 64.4 + - - +
188C LEU 3.6 5.4 - - - +
189C PRO* 3.4 18.5 - - + +
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Residues in contact with LEU 148 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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140C LEU* 3.7 23.8 - - + -
141C HIS 4.0 8.3 - - - +
142C LYS* 4.6 6.1 - - + -
143C LEU* 4.7 4.6 - - - +
144C SER 5.4 0.4 - - - +
145C GLU 5.6 1.1 - - - +
146C SER* 5.3 0.4 - - - -
147C GLN* 1.3 81.0 - - - +
149C GLU* 1.3 61.3 + - - +
150C LEU 4.3 0.2 - - - -
187C SER* 3.5 5.9 - - - -
188C LEU* 2.9 44.8 + - + +
191C VAL* 3.5 33.0 - - + -
197C TYR* 5.9 0.2 - - + -
199C PHE* 4.5 7.9 - - + -
224C TRP* 3.7 54.3 - - + +
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Residues in contact with GLU 149 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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161B LYS* 2.6 36.5 + - - -
140C LEU* 3.6 7.1 - - - -
141C HIS* 3.3 31.8 + - + +
143C LEU* 3.9 18.1 - - + +
148C LEU* 1.3 78.1 - - - +
150C LEU* 1.3 63.4 + - - +
151C ASN* 3.2 31.8 + - - +
185C LYS* 3.5 16.8 + - + +
186C PHE 3.4 8.1 - - - +
187C SER* 4.9 4.7 - - - +
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Residues in contact with LEU 150 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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138C LEU* 4.4 9.6 - - + -
139C THR 3.7 11.2 - - - +
140C LEU* 4.3 14.8 - - + -
149C GLU* 1.3 71.7 - - - +
151C ASN* 1.3 77.6 + - - +
152C TRP* 3.7 21.7 - - + -
165C VAL* 4.2 17.5 - - + -
185C LYS* 3.3 6.9 - - - +
186C PHE* 2.7 44.3 + - + +
199C PHE* 4.1 23.8 - - + -
201C VAL* 4.0 16.2 - - + -
222C ILE* 4.2 18.8 - - + -
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Residues in contact with ASN 151 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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137C ASN 4.6 0.9 - - - -
138C LEU* 3.6 4.0 - - - -
139C THR* 3.1 44.7 + - - +
140C LEU 5.7 0.4 - - - -
141C HIS* 5.6 4.2 - - - +
149C GLU* 3.2 32.9 + - - +
150C LEU* 1.3 80.7 - - - +
152C TRP* 1.3 71.2 + - - +
184C HIS* 3.9 7.5 - - + +
185C LYS* 3.1 30.3 - - - +
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Residues in contact with TRP 152 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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135C PRO* 4.1 13.9 - - + -
136C GLU 3.8 13.5 - - - +
137C ASN 4.2 3.4 - - - -
138C LEU* 4.1 13.5 - - + -
150C LEU* 3.7 37.9 - - + -
151C ASN* 1.3 95.1 - - - +
153C ASN* 1.3 76.5 + - - +
154C ASN* 4.2 7.0 - - - -
163C HIS* 3.3 46.5 + + + -
165C VAL* 3.7 21.1 - - + -
180C VAL* 4.6 2.5 - - + -
184C HIS* 3.0 50.3 + - + +
185C LYS 3.6 22.4 - - - -
201C VAL* 3.9 16.1 - - + +
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Residues in contact with ASN 153 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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135C PRO* 3.5 8.1 - - - +
136C GLU* 3.2 32.7 + - + +
137C ASN* 3.7 28.4 + - - +
152C TRP* 1.3 82.3 + - - +
154C ASN* 1.3 71.3 + - - +
184C HIS* 5.0 7.9 + - - -
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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