Contacts of the strand formed by residues 152 - 160 (chain A) in PDB entry 5FHK
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 LEU 152 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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135A PRO* 3.8 31.2 - - + -
141A ILE* 5.7 4.3 - - + -
147A GLN* 4.6 3.1 - - + +
149A ASP* 3.4 37.6 + - + +
150A SER 3.3 4.4 - - - +
151A SER* 1.3 98.5 - - - +
153A ILE* 1.3 67.9 + - - +
154A ALA* 3.9 3.6 + - + +
267A LEU* 3.7 38.4 - - + -
268A TYR* 3.4 4.7 - - - +
269A ASN* 3.9 21.8 - - + +
270A HIS* 5.7 0.2 - - - -
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Residues in contact with ILE 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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152A LEU* 1.3 75.4 - - - +
154A ALA* 1.3 66.7 + - - +
155A ARG* 5.8 1.6 - - + -
266A MET 3.4 2.3 - - - +
267A LEU* 3.2 6.2 - - - -
268A TYR* 2.8 78.1 + - + +
269A ASN 3.9 0.2 - - - +
270A HIS* 3.4 44.6 - - + -
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Residues in contact with ALA 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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147A GLN* 5.3 10.5 - - + +
152A LEU* 3.9 4.1 + - + +
153A ILE* 1.3 80.5 - - - +
155A ARG* 1.3 60.5 + - - +
156A LYS 4.4 0.5 + - - -
265A TYR* 4.2 16.1 - - + -
266A MET 3.4 4.3 - - - -
267A LEU* 3.7 20.4 - - + -
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Residues in contact with ARG 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 ILE* 5.8 2.0 - - + -
154A ALA* 1.3 74.5 - - - +
156A LYS* 1.3 71.7 + - - +
157A ILE* 3.3 10.3 + - + +
265A TYR* 3.2 5.1 - - - -
266A MET* 2.7 54.9 + - + +
268A TYR* 5.4 7.0 + - + +
286A ILE* 3.5 54.0 + - - +
289A ASN* 6.3 1.4 - - - +
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Residues in contact with LYS 156 (chain A).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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154A ALA 4.4 0.4 + - - -
155A ARG* 1.3 79.1 - - - +
157A ILE* 1.3 62.4 + - - +
158A GLY* 3.9 21.1 - - - +
159A SER* 4.4 9.7 + - - -
263A ASP* 3.8 35.2 + - + +
264A ILE 3.5 7.2 - - - +
265A TYR* 3.8 18.9 - - + +
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Residues in contact with ILE 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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105A MET* 5.6 1.8 - - + +
106A MET* 4.0 17.5 - - + -
109A MET* 4.5 10.8 - - + -
142A PHE* 3.5 37.0 - - + -
155A ARG* 3.3 20.2 + - + +
156A LYS* 1.3 77.1 - - - +
158A GLY* 1.3 57.2 + - - +
264A ILE* 2.9 26.4 + - + +
265A TYR 4.5 2.2 - - - -
266A MET* 4.2 12.1 - - + -
285A VAL* 4.4 13.2 - - + +
286A ILE* 6.3 0.7 - - - -
289A ASN* 3.3 32.3 - - + +
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Residues in contact with GLY 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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105A MET* 4.8 7.9 - - - -
156A LYS* 3.6 12.7 - - - +
157A ILE* 1.3 80.4 - - - +
159A SER* 1.3 64.3 + - - -
263A ASP* 3.6 4.3 - - - +
264A ILE* 2.8 32.9 + - - +
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Residues in contact with SER 159 (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 MET* 4.6 7.6 - - - +
156A LYS* 4.4 9.3 + - - -
158A GLY* 1.3 74.9 - - - -
160A VAL* 1.3 65.1 + - - +
238A ASP* 5.1 0.5 - - - +
239A VAL* 5.8 1.7 - - - +
261A PRO* 5.1 6.4 - - - +
262A ARG 3.5 6.3 - - - -
263A ASP* 3.2 24.0 - - - -
264A ILE* 3.7 6.8 - - - +
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Residues in contact with VAL 160 (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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101A LEU* 4.5 10.8 - - + -
105A MET* 4.9 1.6 - - - -
144A VAL* 5.6 0.4 - - + -
159A SER* 1.3 75.8 - - - +
161A LYS* 1.3 63.4 + - - +
162A ASP* 4.5 0.9 - - - +
237A PRO* 3.5 25.1 - - + -
238A ASP* 3.3 17.5 - - - +
239A VAL* 3.8 18.2 - - + -
261A PRO* 3.3 6.3 - - - +
262A ARG* 3.0 70.9 + - + +
264A ILE* 4.3 12.1 - - + -
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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