Contacts of the strand formed by residues 247 - 257 (chain G) in PDB entry 6G2T
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 247 (chain G).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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156G LEU* 4.6 0.4 - - - -
240G GLU* 5.2 11.7 - - + +
241G VAL 4.0 2.5 - - - -
242G SER* 3.5 26.0 - - - -
243G THR 4.4 7.9 - - - -
246G LYS* 1.3 89.0 - - - +
248G ASP* 1.3 63.9 + - - +
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Residues in contact with ASP 248 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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155G GLY* 3.3 13.5 + - - -
156G LEU* 3.2 36.1 + - + +
157G PHE* 4.0 20.7 + - + +
240G GLU* 3.5 7.4 - - - +
241G VAL 3.0 35.5 + - - +
247G PHE* 1.3 77.2 - - - +
249G CYS* 1.3 87.7 + - - +
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Residues in contact with CYS 249 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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157G PHE* 3.7 4.0 - - - -
160G ARG* 4.9 2.6 + - - -
238G ARG* 3.9 35.0 - - + +
239G CYS 3.2 11.4 - - - +
240G GLU* 4.3 14.8 - - + -
248G ASP* 1.3 90.5 + - - +
250G SER* 1.3 65.2 + - - +
251G ASN* 5.5 5.2 - - - -
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Residues in contact with SER 250 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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157G PHE* 3.0 28.2 - - - -
160G ARG* 3.3 25.9 + - - +
161G PRO* 3.7 27.6 - - - -
237G TYR 4.1 0.2 - - - +
238G ARG* 3.4 3.8 - - - +
239G CYS* 2.9 33.7 + - - +
249G CYS* 1.3 74.6 + - - +
251G ASN* 1.3 68.9 + - - +
252G PHE* 4.6 1.5 - - - -
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Residues in contact with ASN 251 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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160G ARG* 4.8 7.5 + - - +
161G PRO 5.1 3.0 - - - +
163G ASP* 5.0 0.5 - - - +
236G SER* 5.3 7.0 + - - +
237G TYR 3.8 3.4 - - - +
238G ARG* 3.4 37.0 + - - +
249G CYS* 5.5 4.6 - - - -
250G SER* 1.3 77.1 - - - +
252G PHE* 1.3 61.9 + - - +
253G ASN* 5.6 0.2 - - - -
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Residues in contact with PHE 252 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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161G PRO* 3.5 35.2 - - + +
162G GLN 4.4 7.4 - - - -
163G ASP* 3.5 11.0 - - - +
174G PHE* 3.5 36.3 - + + -
191G TRP* 3.4 39.7 - + - -
224G LEU* 4.1 4.9 - - + -
236G SER* 3.9 0.7 + - - -
237G TYR* 2.8 80.9 + + + +
238G ARG 4.5 0.2 - - - -
239G CYS* 4.1 8.7 - - + -
250G SER 4.6 0.4 - - - -
251G ASN* 1.3 75.2 - - - +
253G ASN* 1.3 69.2 + - - +
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Residues in contact with ASN 253 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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163G ASP* 2.7 27.0 + - - +
164G GLY 3.5 22.9 + - - +
174G PHE* 4.5 2.3 - - - -
235G GLY 3.6 8.5 - - - +
236G SER* 3.3 23.6 + - - -
252G PHE* 1.3 87.1 + - - +
254G LEU* 1.3 61.4 + - - +
255G THR* 5.1 4.5 - - - +
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Residues in contact with LEU 254 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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164G GLY 3.8 8.3 - - - +
166G VAL* 4.0 13.0 - - + -
172G ILE* 3.9 17.9 - - + -
174G PHE* 3.6 26.0 - - + -
226G ILE* 3.5 22.4 - - + -
233G PHE* 3.7 18.4 - - + +
234G THR* 3.3 2.6 - - - +
235G GLY 2.9 34.3 + - - +
236G SER* 5.1 0.2 - - - +
237G TYR* 3.5 45.0 - - + +
252G PHE* 4.4 0.4 + - - -
253G ASN* 1.3 72.9 - - - +
255G THR* 1.3 74.3 + - - +
256G VAL* 5.2 0.2 - - + -
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Residues in contact with THR 255 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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164G GLY 3.6 8.3 + - - +
165G GLU* 3.8 5.1 - - - -
166G VAL* 3.1 28.0 + - - +
234G THR* 4.0 14.9 - - + +
235G GLY 5.4 0.2 + - - -
253G ASN* 4.3 5.6 - - - +
254G LEU* 1.3 81.2 + - - +
256G VAL* 1.3 73.2 + - - +
257G HIS* 3.7 33.6 + - + +
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Residues in contact with VAL 256 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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166G VAL* 3.2 24.5 - - + +
167G THR 4.3 2.5 - - - +
168G VAL* 3.7 33.9 - - + +
229G ALA* 4.4 7.0 - - + +
230G GLN 3.3 30.5 - - - +
231G PRO* 4.3 7.1 - - + +
233G PHE* 4.4 10.5 - - + -
234G THR* 3.1 20.7 + - - +
254G LEU* 5.2 1.6 - - + -
255G THR* 1.3 83.2 - - - +
257G HIS* 1.3 64.1 + - - +
258G GLU* 3.8 3.5 + - - +
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Residues in contact with HIS 257 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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165G GLU* 3.8 43.4 + - + +
166G VAL 3.1 14.7 + - - +
167G THR* 4.4 17.4 - - + +
168G VAL* 4.4 3.8 + - - +
255G THR* 3.7 29.6 - - + +
256G VAL* 1.3 73.6 + - - +
258G GLU* 1.3 69.8 + - - +
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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