Contacts of the strand formed by residues 150 - 158 (chain A) in PDB entry 6B0Z
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 GLY 150 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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148A GLY 3.5 1.2 + - - -
149A PRO* 1.3 74.7 - - - +
151A LYS* 1.3 63.8 + - - -
171A ASN* 3.7 8.3 - - - -
172A PHE* 2.9 37.8 + - - +
156C TYR* 3.8 7.6 - - - -
157C THR 3.1 14.1 - - - -
159C SER* 3.7 11.4 - - - -
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Residues in contact with LYS 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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150A GLY* 1.3 72.7 - - - -
152A VAL* 1.3 61.9 + - - +
153A GLU* 4.0 32.5 + - + +
168A LEU* 4.4 13.0 - - + -
170A HIS 3.8 3.1 - - - -
171A ASN* 3.5 29.6 - - + +
155C THR 3.5 1.2 - - - +
156C TYR* 3.3 4.0 - - - -
157C THR* 2.7 46.2 + - + +
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Residues in contact with VAL 152 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
144A PHE* 4.4 6.3 - - + -
146A VAL* 3.8 17.7 - - + -
150A GLY 3.8 0.2 + - - -
151A LYS* 1.3 74.2 - - - +
153A GLU* 1.3 64.4 + - - +
168A LEU* 3.7 1.6 - - - +
169A VAL* 2.9 41.8 + - + -
170A HIS 2.9 17.9 + - - +
172A PHE* 3.6 26.7 - - + -
179A ALA* 3.9 19.3 - - + -
154C ILE* 4.0 17.0 - - + -
155C THR 3.1 8.5 - - - +
156C TYR* 4.1 9.6 - - + -
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Residues in contact with GLU 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 LYS* 4.1 25.9 + - + +
152A VAL* 1.3 78.6 - - - +
154A ILE* 1.3 59.6 + - - +
155A THR* 4.2 2.0 + - + -
166A THR* 3.6 27.7 - - + +
167A TYR 3.3 13.2 - - - +
168A LEU* 4.2 15.0 - - + +
169A VAL* 4.2 2.7 - - - +
154C ILE* 3.2 3.9 - - - +
155C THR* 2.7 52.5 + - - +
157C THR* 4.3 12.5 + - - -
164C LYS* 5.4 2.4 + - - -
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Residues in contact with ILE 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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153A GLU* 1.3 73.5 - - - +
155A THR* 1.3 58.1 + - - +
167A TYR* 2.8 59.6 + - + -
169A VAL* 3.8 18.8 - - + +
181A GLY* 4.6 3.1 - - - -
182A MET 5.3 0.2 - - - +
142C THR* 4.9 3.6 - - + +
144C PHE* 3.8 18.6 - - + -
152C VAL* 3.9 23.8 - - + -
153C GLU 3.2 15.0 - - - +
154C ILE* 4.3 5.8 - - + -
169C VAL* 4.5 9.9 - - + -
179C ALA* 4.8 0.4 - - + -
180C MET* 3.7 31.6 - - - +
181C GLY* 3.9 6.7 - - - +
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Residues in contact with THR 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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153A GLU* 4.8 4.7 - - + +
154A ILE* 1.3 80.4 - - - +
156A TYR* 1.3 61.3 + - - +
157A THR* 4.3 2.8 + - - -
164A LYS* 4.4 20.5 - - - +
165A VAL 3.2 7.6 - - - -
166A THR* 3.5 31.9 - - + +
144C PHE* 5.0 1.8 - - - -
151C LYS 3.6 0.7 + - - +
152C VAL* 3.2 10.0 - - - +
153C GLU* 2.7 58.5 + - - +
155C THR* 5.0 8.9 - - + +
164C LYS* 6.2 0.9 - - - +
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Residues in contact with TYR 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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155A THR* 1.3 73.4 - - - +
157A THR* 1.3 64.6 + - - +
158A PRO* 3.4 29.9 - - + +
164A LYS* 3.4 6.1 - - - +
165A VAL* 2.9 46.2 + - + +
167A TYR* 5.0 1.1 - - + -
144C PHE* 4.1 21.5 - + + -
145C VAL 5.4 1.1 - - - -
146C VAL* 3.6 18.8 - - + -
147C PRO* 3.5 28.9 - - + +
148C GLY* 2.8 29.1 + - - -
149C PRO 3.0 10.2 + - - -
150C GLY* 4.0 17.5 - - - -
151C LYS 3.4 8.3 - - - -
152C VAL* 3.9 13.5 - - + -
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Residues in contact with THR 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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155A THR* 4.8 3.3 + - - -
156A TYR* 1.3 76.7 + - - +
158A PRO* 1.3 75.5 - - + +
159A SER* 4.6 0.3 - - - -
161A GLY* 4.9 6.1 - - - -
163A GLN 4.4 7.2 - - - +
164A LYS* 3.4 27.3 - - + +
150C GLY* 3.3 1.1 - - - -
151C LYS* 2.9 42.6 + - - +
153C GLU* 5.5 2.6 + - - -
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Residues in contact with PRO 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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156A TYR* 3.4 35.4 - - + +
157A THR* 1.3 91.3 - - - +
159A SER* 1.3 61.2 + - - +
160A ASP* 3.1 23.1 - - - +
161A GLY* 2.9 19.1 + - - -
162A THR* 4.7 0.4 - - - +
163A GLN* 3.1 40.2 - - + +
164A LYS 4.4 0.4 - - - +
165A VAL* 6.2 0.4 - - + -
147C PRO* 5.9 0.4 - - + -
149C PRO 3.6 9.2 - - - +
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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