Contacts of the strand formed by residues 631 - 639 (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 LEU 631 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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618A VAL* 3.4 26.2 - - + -
619A THR 3.7 2.9 - - - +
620A GLY 3.2 28.3 - - - +
621A SER* 4.0 9.6 - - - +
623A LEU* 3.8 19.3 - - + -
629A ASN 4.1 0.6 - - - -
630A VAL* 1.3 79.1 - - - +
632A GLU* 1.3 60.6 + - - +
633A LEU* 4.1 9.4 - - + -
704A LEU* 3.6 3.3 - - - -
705A VAL* 2.9 35.5 + - + +
707A VAL* 3.6 24.2 - - + +
719A PHE* 3.9 22.4 - - + -
740A VAL* 4.1 13.2 - - + -
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Residues in contact with GLU 632 (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 1.6 - - - -
619A THR* 3.2 45.2 + - - +
630A VAL 4.0 0.8 + - - +
631A LEU* 1.3 75.1 - - - +
633A LEU* 1.3 69.0 + - - +
634A GLN* 2.8 36.3 + - + +
702A ALA* 3.7 14.4 - - + +
703A MET 3.4 12.1 - - - +
704A LEU* 3.9 23.6 - - + +
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Residues in contact with LEU 633 (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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617A SER 3.8 5.2 - - - +
618A VAL* 4.7 13.2 - - + +
631A LEU* 4.5 9.6 - - + -
632A GLU* 1.3 73.3 - - - +
634A GLN* 1.3 60.7 + - - +
635A MET* 4.1 14.7 - - + +
651A VAL* 3.9 17.7 - - + -
701A ILE 3.5 2.3 - - - +
702A ALA* 3.5 4.3 - - - -
703A MET* 2.8 55.6 + - + +
705A VAL* 3.6 33.2 - - + -
719A PHE* 4.0 25.1 - - + -
721A LEU* 4.1 15.3 - - + -
738A LEU* 5.2 2.5 - - + -
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Residues in contact with GLN 634 (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* 3.3 1.7 - - - +
617A SER* 2.8 54.8 + - - +
619A THR* 3.8 27.8 - - + +
632A GLU* 2.8 32.7 + - - +
633A LEU* 1.3 72.8 - - - +
635A MET* 1.3 60.0 + - - +
701A ILE 3.6 4.5 - - - +
702A ALA* 4.9 5.1 - - + +
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Residues in contact with MET 635 (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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614A LEU* 4.5 9.0 - - + -
615A THR 3.3 11.0 - - - +
616A ALA* 3.7 9.2 - - + -
633A LEU* 4.1 11.7 - - + +
634A GLN* 1.3 75.2 - - - +
636A ASP* 1.3 58.8 + - - +
637A ALA* 4.0 0.4 + - - -
649A LEU* 3.5 30.3 - - + -
651A VAL* 4.1 1.1 - - + -
687A CYS* 6.5 0.4 - - - -
699A ILE 4.0 0.9 - - - +
700A GLY* 3.6 1.0 - - - -
701A ILE* 2.7 56.8 + - + +
703A MET* 3.7 44.6 - - + -
721A LEU* 3.2 29.2 - - + -
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Residues in contact with ASP 636 (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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613A GLN 4.0 0.7 - - - +
614A LEU* 3.6 5.2 - - - -
615A THR* 2.8 46.2 + - - +
635A MET* 1.3 71.2 - - - +
637A ALA* 1.3 61.7 + - - +
638A ALA* 4.2 1.0 + - - +
698A GLN* 2.8 44.5 + - - +
699A ILE 3.3 9.5 - - - +
700A GLY* 4.0 6.9 + - - -
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Residues in contact with ALA 637 (chain A).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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613A GLN 3.5 4.5 - - - -
614A LEU* 4.0 7.9 - - + -
635A MET 4.0 1.2 + - - +
636A ASP* 1.3 73.9 - - - +
638A ALA* 1.3 59.1 + - - +
649A LEU* 6.1 0.9 - - + -
689A LEU* 4.2 20.6 - - + -
693A MET* 3.9 5.6 - - + +
698A GLN* 3.3 1.9 - - - -
699A ILE* 2.7 45.9 + - + +
701A ILE* 5.1 5.4 - - + -
723A ILE* 3.3 25.6 - - + -
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Residues in contact with ALA 638 (chain A).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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612A LEU* 3.5 2.8 - - - +
613A GLN* 2.6 52.6 + - + +
636A ASP* 4.2 1.3 + - - +
637A ALA* 1.3 75.6 - - - +
639A ASN* 1.3 60.0 + - - +
640A GLU* 4.1 7.2 - - + +
693A MET* 3.7 7.2 - - - +
697A ALA 3.3 8.7 - - - +
698A GLN* 3.5 32.8 - - + +
723A ILE* 4.8 0.3 - - - +
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Residues in contact with ASN 639 (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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610A PRO* 3.9 4.2 - - - +
611A GLN 2.8 33.4 + - - +
612A LEU* 3.7 19.6 - - + +
638A ALA* 1.3 73.6 - - - +
640A GLU* 1.3 55.4 + - - +
641A GLY 2.9 11.0 + - - -
642A GLU 2.7 29.1 + - - -
644A ALA 4.0 2.4 - - - +
693A MET* 3.3 27.0 + - + +
694A LYS 3.8 10.5 + - - +
696A ASN* 2.7 36.6 + - - -
697A ALA 3.0 8.9 + - - -
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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