Contacts of the strand formed by residues 172 - 177 (chain C) in PDB entry 6FLP
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 TYR 172 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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157C PHE* 6.5 0.4 - - + -
158C ASP 3.5 17.0 - - - +
159C SER* 3.5 24.9 - - - -
170C VAL* 3.2 40.6 - - + +
171C LEU* 1.3 75.6 - - - +
173C ASN* 1.3 68.3 - - - +
187C GLU* 3.9 0.2 - - - -
188C PHE* 3.3 41.8 + + + -
432C LEU* 4.3 12.1 - - + -
435C ILE* 4.9 13.2 - - + -
436C ARG* 4.0 36.8 - - - -
441C GLU* 6.5 0.2 - - - -
442C VAL* 3.7 15.9 - - + -
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Residues in contact with ASN 173 (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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157C PHE* 3.9 1.6 - - - +
158C ASP* 2.9 49.6 + - - +
160C ASP* 3.4 24.7 + - - +
171C LEU* 5.7 1.5 - - + +
172C TYR* 1.3 80.9 - - - +
174C ALA* 1.3 64.0 + - - +
175C ARG* 5.5 6.9 - - - +
185C ASP* 6.3 0.9 - - + -
186C PHE 3.2 15.0 - - - +
187C GLU* 3.8 21.0 + - + +
197C ARG* 5.3 6.0 - - - +
432C LEU* 4.5 6.2 - - - +
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Residues in contact with ALA 174 (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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155C VAL* 5.2 0.9 - - + -
156C PHE* 3.7 18.6 - - - +
157C PHE* 3.7 20.4 - - + +
173C ASN* 1.3 78.5 - - - +
175C ARG* 1.3 65.4 + - - +
176C ILE* 6.1 0.9 - - + -
185C ASP* 3.7 7.6 - - - +
186C PHE* 3.0 36.7 + - + +
428C VAL* 4.6 13.5 - - + -
432C LEU* 4.6 5.8 - - + +
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Residues in contact with ARG 175 (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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151C ARG* 3.6 20.6 - - - +
154C GLY 3.7 1.9 - - - +
155C VAL* 3.6 20.5 - - - +
156C PHE* 3.5 39.4 + - + -
158C ASP* 5.8 2.0 + - - -
173C ASN* 5.5 7.1 - - - +
174C ALA* 1.3 79.8 + - - +
176C ILE* 1.3 65.7 + - - +
177C ILE* 3.7 23.8 - - + -
183C TRP* 4.5 11.2 - - + +
184C LEU 3.4 6.3 - - - +
185C ASP* 3.2 25.7 + - - +
197C ARG* 5.2 5.5 - - - +
24N C 5.4 7.5 + - - -
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Residues in contact with ILE 176 (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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154C GLY 3.5 8.1 - - - +
155C VAL* 4.1 17.0 - - + -
174C ALA* 6.1 0.7 - - + -
175C ARG* 1.3 74.3 - - - +
177C ILE* 1.3 62.8 + - - +
178C PRO* 3.2 15.5 - - + +
182C SER 4.6 0.3 - - - +
183C TRP* 3.8 2.6 - - - -
184C LEU* 3.1 42.0 + - + +
186C PHE* 5.0 6.3 - - + -
395C TYR* 4.9 2.5 - - - +
397C LEU* 5.1 5.8 - - + -
405C PHE* 5.0 11.4 - - + -
420C LEU* 4.4 26.7 - - + -
424C ASP 5.8 0.4 - - - +
425C ILE* 4.2 25.8 - - + -
428C VAL* 4.3 20.2 - - + -
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Residues in contact with ILE 177 (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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151C ARG* 3.9 29.6 - - + +
152C SER 5.2 4.0 - - - +
153C PRO* 3.3 11.2 - - + -
154C GLY* 2.7 43.4 + - - +
156C PHE* 3.6 27.4 - - + -
175C ARG* 3.7 18.2 - - + -
176C ILE* 1.3 72.3 - - - +
178C PRO* 1.3 72.1 - - - +
183C TRP* 3.4 33.2 - - + +
397C LEU* 5.0 0.6 - - - +
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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