Contacts of the strand formed by residues 145 - 150 (chain C) in PDB entry 6OW3
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 145 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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143C SER 3.7 0.4 + - - -
144C PRO* 1.3 76.0 - - - +
146C VAL* 1.3 65.0 + - - +
147C TYR* 4.1 10.1 - - - -
161C SER 3.9 0.5 - - - +
162C ILE* 3.7 3.9 - - - +
163C ILE* 3.0 30.9 + - - +
269C LEU* 4.7 6.6 - - - +
273C GLY* 4.2 14.5 - - - -
276C LYS* 4.5 8.3 - - - -
277C ALA* 4.7 3.4 - - - -
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Residues in contact with VAL 146 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
145C GLY* 1.3 76.0 - - - +
147C TYR* 1.3 68.6 + - - +
148C PHE* 3.7 28.4 - - + -
161C SER 3.5 7.0 - - - +
162C ILE* 3.6 24.5 - - + -
269C LEU* 5.9 2.0 - - + -
276C LYS* 5.4 2.4 + - - +
277C ALA* 4.7 14.7 - - + +
280C LYS* 3.9 21.3 - - + +
281C LEU* 4.3 14.8 - - + -
302C VAL* 4.2 9.6 - - + -
306C THR* 3.8 27.8 - - + +
323C ASP* 4.1 2.1 - - - +
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Residues in contact with TYR 147 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
142C ARG* 3.6 32.1 - - - +
143C SER* 2.6 38.1 + - - -
144C PRO 3.9 1.5 + - - -
145C GLY* 4.1 18.2 - - - -
146C VAL* 1.3 77.6 - - - +
148C PHE* 1.3 66.0 + - - +
149C THR* 4.2 1.6 - - - +
159C ILE 3.8 0.2 - - - +
160C ALA* 3.2 4.7 - - - +
161C SER* 2.6 50.6 + - - +
163C ILE* 4.4 11.0 - - + -
276C LYS* 3.2 23.7 + - - -
323C ASP* 3.6 23.1 - - + +
325C ILE* 5.2 8.1 - - + -
330C ASN* 3.5 33.7 + - + -
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Residues in contact with PHE 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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146C VAL* 3.7 26.9 - - + -
147C TYR* 1.3 74.4 - - - +
149C THR* 1.3 61.8 + - - +
158C TYR* 5.5 1.6 - - + -
159C ILE 3.3 6.5 - - - +
160C ALA* 3.4 32.5 - - + -
280C LYS* 3.6 22.0 - - + -
281C LEU* 4.0 4.9 - - + -
306C THR 3.8 12.8 - - - -
309C TYR* 3.4 46.0 - + + -
310C LEU* 3.9 13.9 - - + -
313C LEU* 4.1 19.5 - - + -
321C GLU 4.5 3.1 - - - +
322C VAL* 3.1 6.7 - - - +
323C ASP* 3.1 43.2 + - - +
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Residues in contact with THR 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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147C TYR* 4.2 1.7 - - - -
148C PHE* 1.3 74.6 - - - +
150C PRO* 1.3 81.6 + - - +
152C PRO* 5.8 1.6 - - + -
158C TYR* 3.6 5.3 - - - +
159C ILE* 2.9 47.5 + - + +
161C SER* 5.0 7.1 + - - +
322C VAL* 4.0 2.1 - - - +
323C ASP 4.9 4.6 + - - -
325C ILE* 5.3 11.0 - - - +
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Residues in contact with PRO 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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149C THR* 1.3 102.7 + - - +
151C ASP* 1.3 65.5 + - - +
152C PRO* 3.3 10.4 - - - +
157C ARG 4.0 1.1 - - - +
158C TYR* 3.6 19.1 - - + -
322C VAL* 3.3 32.5 - - + -
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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