Contacts of the strand formed by residues 736 - 743 (chain A) 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 736 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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614A LEU* 3.4 46.7 - - + +
615A THR* 4.7 0.9 - - - +
616A ALA* 4.2 18.8 - - + +
720A GLN* 3.5 1.7 - - - +
721A LEU* 2.8 46.5 + - + +
734A LYS* 4.3 6.5 - - + +
735A ILE* 1.3 73.2 - - - +
737A LEU* 1.3 62.4 + - - +
738A LEU* 4.2 22.7 - - + -
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Residues in contact with LEU 737 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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718A SER* 5.2 10.1 - - - -
719A PHE 3.4 7.4 - - - +
720A GLN* 3.4 39.9 - - + +
735A ILE* 3.8 13.2 + - + +
736A VAL* 1.3 75.8 - - - +
738A LEU* 1.3 69.7 + - - +
739A ASP* 4.3 10.1 + - - +
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Residues in contact with LEU 738 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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616A ALA* 4.1 33.4 - - + +
617A SER* 4.1 9.6 - - - +
618A VAL* 3.4 33.4 - - + -
633A LEU* 5.2 4.5 - - + -
718A SER* 3.5 0.9 - - - -
719A PHE* 2.8 50.0 + - + +
721A LEU* 4.0 20.9 - - + -
736A VAL* 4.2 10.8 - - + -
737A LEU* 1.3 82.0 - - - +
739A ASP* 1.3 64.9 + - - +
740A VAL* 3.7 3.5 + - + -
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Residues in contact with ASP 739 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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716A SER* 4.7 14.3 + - - +
717A VAL 3.6 5.8 - - - +
718A SER* 3.6 20.3 + - - -
737A LEU* 4.2 9.3 + - - +
738A LEU* 1.3 79.3 + - - +
740A VAL* 1.3 63.7 + - - +
741A PRO* 3.6 6.8 - - - +
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Residues in contact with VAL 740 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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618A VAL* 3.8 36.6 - - + -
621A SER* 2.9 33.9 - - - +
623A LEU* 3.4 25.4 - - + -
631A LEU* 4.1 12.6 - - + -
716A SER* 3.3 1.4 - - - -
717A VAL* 3.0 37.6 + - + +
719A PHE* 4.3 11.2 - - + -
738A LEU* 3.7 3.6 + - + +
739A ASP* 1.3 72.8 - - - +
741A PRO* 1.3 66.3 - - + +
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Residues in contact with PRO 741 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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621A SER* 3.6 22.8 - - - +
622A PRO* 4.7 6.1 - - + -
623A LEU* 3.1 26.2 + - - +
715A GLU 3.8 7.0 - - - +
716A SER* 3.9 5.6 - - - -
739A ASP 3.6 8.0 - - - +
740A VAL* 1.3 92.3 - - + +
742A VAL* 1.3 61.6 + - - +
743A ARG* 4.3 21.1 - - + +
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Residues in contact with VAL 742 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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623A LEU* 3.5 26.2 - - + +
624A LEU 5.3 0.2 - - - -
625A VAL* 3.4 28.2 - - + +
710A LEU 5.7 3.1 - - - +
713A ALA* 5.0 6.3 - - + -
714A GLY 3.6 14.5 - - - +
715A GLU* 2.8 22.3 + - - +
716A SER* 3.7 19.3 - - - +
717A VAL* 4.0 12.6 - - + +
740A VAL 4.0 3.8 - - - +
741A PRO* 1.3 78.3 - - - +
743A ARG* 1.3 66.5 + - - +
939A VAL* 3.2 15.1 - - - +
941A PRO* 4.9 0.2 - - - +
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Residues in contact with ARG 743 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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622A PRO* 5.7 11.7 - - + -
623A LEU 3.0 19.4 + - - +
624A LEU* 3.4 10.8 - - + +
625A VAL* 3.4 10.8 + - - -
741A PRO* 4.3 18.1 - - + +
742A VAL* 1.3 83.1 - - - +
744A ALA* 1.3 60.9 + - - +
745A GLU 3.9 0.3 + - - -
939A VAL 3.7 6.1 - - - -
941A PRO* 3.4 50.1 + - + +
942A LEU* 4.1 22.2 - - + +
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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