Contacts of the strand formed by residues 150 - 158 (chain F) in PDB entry 1NZX
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 PHE 150 (chain F).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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285E TRP* 6.6 0.2 - + - -
455E CYS* 3.8 17.5 - - + -
458E VAL* 3.5 45.8 - - + -
144F ILE 5.4 0.7 - - - +
146F ILE* 3.9 23.2 - - + +
147F ASP 3.4 20.6 - - - -
148F GLY* 2.8 10.5 + - - +
149F ASP* 1.3 91.1 - - + +
151F PHE* 1.3 60.3 + - - +
152F SER 3.9 1.7 + - - -
492F THR* 3.9 13.0 - - + -
493F VAL 3.1 7.6 - - - +
494F LYS* 3.9 17.7 - - + -
495F VAL* 3.7 6.8 - - - +
498F LYS* 3.9 16.7 - - - +
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Residues in contact with PHE 151 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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143F THR* 4.4 11.2 - - + -
144F ILE 5.7 0.4 - - - -
150F PHE* 1.3 70.9 - - - +
152F SER* 1.3 69.9 + - - +
153F TYR* 3.5 35.9 - + + -
491F VAL 3.4 3.6 - - - +
492F THR* 4.4 0.2 - - - -
493F VAL* 2.6 49.1 + - + +
495F VAL* 3.8 19.5 - - + +
151G PHE* 4.6 2.9 - + - -
153G TYR* 3.3 54.3 - + - -
155G ARG* 5.5 10.8 - - + -
440H ASN* 4.4 16.2 - - - -
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Residues in contact with SER 152 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
463E SER* 2.8 29.6 + - - -
143F THR* 3.6 1.7 - - - -
144F ILE* 2.7 42.0 + - - +
146F ILE* 3.5 21.5 - - - -
150F PHE 3.9 1.4 - - - -
151F PHE* 1.3 80.9 - - - +
153F TYR* 1.3 61.0 + - - +
490F THR* 3.9 3.3 - - - +
491F VAL 3.3 3.6 + - - -
492F THR* 3.2 21.5 + - - +
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Residues in contact with TYR 153 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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440E ASN* 4.4 8.1 + - - -
443E SER* 3.9 9.5 + - - -
142F LYS 3.0 14.4 - - - +
143F THR* 4.0 9.2 - - + -
144F ILE* 4.3 3.1 - - - +
151F PHE* 3.5 38.1 - + + -
152F SER* 1.3 77.5 + - - +
154F THR* 1.3 67.3 + - - +
155F ARG* 4.2 12.4 - - + -
490F THR* 3.5 3.3 - - - +
491F VAL* 2.7 81.3 + - + +
493F VAL* 4.2 6.4 - - + +
143G THR* 3.9 16.8 - - + -
151G PHE* 3.4 33.0 - + - -
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Residues in contact with THR 154 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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464E PRO* 3.6 31.2 - - + -
480E TYR* 2.8 25.6 + - + +
141F GLY* 3.5 3.1 - - - -
142F LYS* 2.8 25.1 + - - -
144F ILE* 3.8 15.0 - - + -
153F TYR* 1.3 81.5 - - - +
155F ARG* 1.3 60.0 + - - +
156F HIS* 4.2 1.1 + - - -
488F VAL* 4.0 7.9 - - + -
489F LYS 3.0 9.6 - - - +
490F THR* 3.8 4.9 - - - +
143G THR* 2.7 31.0 + - - +
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Residues in contact with ARG 155 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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443E SER* 5.3 2.0 - - - -
444E GLN* 3.5 41.6 + - - +
77F ARG* 5.5 0.2 - - - +
153F TYR* 4.2 17.7 - - + -
154F THR* 1.3 75.4 - - - +
156F HIS* 1.3 62.3 + - - +
157F GLU* 2.8 39.5 + - + +
487F GLU 3.6 0.9 - - - +
488F VAL* 3.7 2.4 - - - -
489F LYS* 2.7 46.2 + - + +
491F VAL* 4.5 9.4 - - + -
143G THR* 4.5 4.0 - - - +
151G PHE* 5.7 11.0 - - + -
498G LYS* 6.3 0.4 - - - +
499G ASN 3.2 23.6 + - - -
500G SER* 3.6 18.6 + - - -
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Residues in contact with HIS 156 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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480E TYR* 2.8 38.7 + + - -
139F TYR* 3.4 45.5 + + + +
140F HIS 2.9 27.4 + - - -
141F GLY* 3.8 11.1 - - - +
142F LYS* 5.6 3.6 - - - -
154F THR* 4.1 2.4 + - - -
155F ARG* 1.3 78.1 - - - +
157F GLU* 1.3 61.5 + - - +
158F PRO* 4.9 0.3 - - - +
185F THR 5.7 0.3 - - - +
486F THR* 3.7 15.5 - - + -
488F VAL* 4.3 13.0 - - + +
143G THR* 4.9 0.8 + - - -
500G SER* 3.9 6.9 - - - +
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Residues in contact with GLU 157 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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444E GLN 4.0 2.2 - - - +
447E GLN* 5.9 0.2 - - - -
468E TYR* 2.6 33.0 + - - +
77F ARG* 5.6 3.5 + - - +
155F ARG* 2.8 44.0 + - + +
156F HIS* 1.3 76.8 - - - +
158F PRO* 1.3 76.0 - - + +
185F THR* 4.9 2.1 - - - -
485F TYR 4.0 0.2 - - - +
486F THR* 3.4 7.8 + - - +
487F GLU 2.8 33.6 + - - +
489F LYS* 3.0 30.5 + - + +
500G SER* 3.5 9.0 - - - +
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Residues in contact with PRO 158 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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468E TYR* 5.6 2.1 - - - -
70F PHE* 3.6 29.6 - - + -
77F ARG* 4.8 1.3 - - - +
156F HIS 4.9 0.2 - - - +
157F GLU* 1.3 93.8 - - + +
159F VAL* 1.3 64.6 + - - +
160F GLY 3.1 0.6 + - - -
185F THR* 3.3 23.6 - - - +
186F GLY 3.6 13.9 - - - +
187F ASN* 3.4 12.6 - - - +
485F TYR 3.8 5.4 - - - +
487F GLU* 3.9 7.2 - - - +
500G SER* 3.4 33.4 - - - +
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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