Contacts of the strand formed by residues 748 - 755 (chain C) in PDB entry 3FCS
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 VAL 748 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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747C GLN* 1.3 77.2 - - - +
749C GLU* 1.3 65.2 + - - +
750C LEU 4.1 0.5 + - - -
786C LEU* 3.5 22.2 - - + -
787C HIS 3.4 11.4 - - - +
788C ASN* 4.3 15.5 - - + +
794C VAL* 4.4 11.2 - - + -
797C LEU* 4.3 8.7 - - + -
895C MET* 5.4 0.9 - - - -
930C PHE* 3.4 40.4 - - + -
932C VAL* 4.4 8.7 - - + -
945C PRO* 3.8 28.9 - - + +
946C ARG 4.9 1.9 - - - +
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Residues in contact with GLU 749 (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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747C GLN* 3.7 14.7 + - + +
748C VAL* 1.3 73.6 - - - +
750C LEU* 1.3 67.7 + - - +
751C ARG* 4.3 31.2 + - + +
785C GLU 3.8 0.6 - - - +
786C LEU* 3.3 9.5 - - - +
787C HIS* 2.8 55.1 + - + +
789C ASN* 5.6 2.0 - - + -
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Residues in contact with LEU 750 (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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748C VAL 4.1 0.6 + - - -
749C GLU* 1.3 83.0 - - - +
751C ARG* 1.3 70.3 + - - +
784C TYR* 4.6 7.9 - - + -
785C GLU 3.2 21.1 - - - +
786C LEU* 3.3 23.1 - - + -
799C LEU* 4.5 12.1 - - + -
928C ALA* 3.7 17.7 - - + +
930C PHE* 3.5 35.6 - - + -
948C GLU 3.9 8.3 - - - +
949C ALA* 3.7 31.6 - - + +
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Residues in contact with ARG 751 (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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749C GLU* 4.3 26.3 + - + +
750C LEU* 1.3 78.5 - - - +
752C GLY* 1.3 62.1 + - - +
753C ASN* 5.2 4.0 - - - +
784C TYR* 3.4 11.5 - - - -
785C GLU* 3.0 32.6 + - + +
949C ALA* 4.9 3.1 - - - -
591D PRO* 3.4 38.0 + - - +
592D GLY* 3.6 20.2 - - - +
603D THR* 3.4 38.9 + - + +
605D PRO* 6.3 0.4 - - - +
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Residues in contact with GLY 752 (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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751C ARG* 1.3 80.4 + - - +
753C ASN* 1.3 71.9 + - - +
783C THR 3.3 11.4 - - - -
784C TYR* 4.0 4.7 - - - -
949C ALA* 5.2 1.4 - - - +
950C GLN 4.6 5.3 + - - +
951C VAL* 3.4 23.3 - - - +
603D THR* 4.1 4.4 - - - +
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Residues in contact with ASN 753 (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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751C ARG* 5.2 5.9 - - - +
752C GLY* 1.3 81.4 + - - +
754C SER* 1.3 64.1 + - - +
755C PHE* 3.6 23.2 - - + -
783C THR 3.1 29.2 + - - -
951C VAL* 3.4 14.0 - - - +
603D THR* 2.8 27.7 + - - +
605D PRO* 3.6 28.3 - - + +
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Residues in contact with SER 754 (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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753C ASN* 1.3 77.7 + - - +
755C PHE* 1.3 69.9 + - - +
756C PRO 2.9 20.7 + - - +
757C ALA* 3.6 14.9 + - - +
780C VAL* 5.1 0.4 - - - -
781C GLU 3.3 9.4 - - - -
782C HIS* 3.9 2.7 - - - +
951C VAL* 3.3 10.1 - - - +
952C TRP 2.9 18.3 + - - -
953C THR* 2.9 25.5 + - - -
605D PRO* 5.9 0.3 - - - +
606D ASP* 4.7 3.5 + - - +
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Residues in contact with PHE 755 (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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753C ASN* 3.6 26.7 - - + -
754C SER* 1.3 77.9 - - - +
756C PRO* 1.3 63.0 - - + +
779C LYS* 4.5 2.3 - - - +
780C VAL* 3.8 1.3 - - - -
781C GLU* 2.8 55.4 + - + +
783C THR* 4.0 21.3 - - - -
602D PRO 3.2 24.0 - - - -
603D THR* 5.0 0.2 - - - -
604D CYS 3.1 27.4 - - - -
605D PRO* 4.3 0.4 - - + -
606D ASP* 4.0 26.0 - - + -
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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