Contacts of the strand formed by residues 629 - 639 (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 ASN 629 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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622C PRO 4.8 0.7 - - - +
623C LEU* 3.4 34.6 - - + +
624C LEU* 2.9 56.8 + - - +
627C ALA* 3.4 9.2 + - - +
628C ASP* 1.3 77.4 - - - +
630C VAL* 1.3 63.4 + - - +
631C LEU* 4.0 0.9 - - + -
706C SER* 3.4 5.5 - - - -
707C VAL* 3.1 39.5 + - + +
708C GLY 5.6 0.4 + - - -
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Residues in contact with VAL 630 (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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619C THR 5.1 1.2 - - - +
620C GLY* 5.6 1.8 - - - +
628C ASP 3.6 8.5 + - - +
629C ASN* 1.3 79.6 - - - +
631C LEU* 1.3 64.3 + - - +
632C GLU* 3.9 1.4 + - - +
660C MET* 3.7 31.2 - - + -
704C LEU* 4.4 14.7 - - + +
705C VAL 3.4 4.3 - - - +
706C SER* 4.6 0.7 - - - -
2N NAG 3.2 30.3 - - - +
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Residues in contact with LEU 631 (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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618C VAL* 3.5 24.7 - - + -
619C THR 4.2 1.8 - - - -
620C GLY 3.2 28.5 - - - +
621C SER 4.0 10.1 - - - +
623C LEU* 3.6 24.7 - - + -
629C ASN 4.0 0.4 - - - -
630C VAL* 1.3 75.8 - - - +
632C GLU* 1.3 58.7 + - - +
633C LEU* 4.1 10.3 - - + -
704C LEU* 3.6 4.0 - - - +
705C VAL* 2.8 36.2 + - + +
707C VAL* 3.5 26.0 - - + -
719C PHE* 3.8 22.0 - - + -
740C VAL* 4.1 7.2 - - + -
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Residues in contact with GLU 632 (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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618C VAL* 3.8 1.8 - - - -
619C THR* 3.2 43.6 + - - +
630C VAL 3.9 1.3 + - - +
631C LEU* 1.3 73.9 - - - +
633C LEU* 1.3 63.2 + - - +
634C GLN* 3.1 36.0 + - + +
702C ALA* 3.7 14.3 - - + +
703C MET 3.5 16.4 - - - +
704C LEU* 3.7 26.0 - - + +
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Residues in contact with LEU 633 (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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617C SER 3.8 6.1 - - - +
618C VAL* 4.6 13.7 - - + +
631C LEU* 4.6 8.5 - - + -
632C GLU* 1.3 72.1 - - - +
634C GLN* 1.3 62.6 + - - +
635C MET* 3.9 16.2 - - + +
651C VAL* 4.0 10.5 - - + -
701C ILE 3.4 5.5 - - - +
702C ALA* 3.5 0.6 - - - -
703C MET* 2.9 49.9 + - + +
705C VAL* 3.5 35.4 - - + -
719C PHE* 3.9 33.7 - - + -
721C LEU* 4.2 15.3 - - + -
738C LEU* 4.9 3.6 - - + -
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Residues in contact with GLN 634 (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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616C ALA* 3.3 2.3 - - - +
617C SER* 2.8 51.2 + - - +
619C THR* 3.7 29.5 - - + +
632C GLU* 3.1 29.4 + - - +
633C LEU* 1.3 71.6 - - - +
635C MET* 1.3 58.4 + - - +
701C ILE 3.5 4.7 - - - +
702C ALA* 4.9 5.7 - - + +
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Residues in contact with MET 635 (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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614C LEU* 4.5 8.5 - - + -
615C THR 3.3 12.6 - - - +
616C ALA* 3.7 8.3 - - + +
633C LEU* 3.9 13.9 - - + +
634C GLN* 1.3 74.9 - - - +
636C ASP* 1.3 58.4 + - - +
637C ALA 3.9 0.8 + - - -
649C LEU* 3.5 30.3 - - + -
651C VAL* 4.2 1.1 - - + -
699C ILE 3.8 0.9 - - - +
700C GLY* 3.6 1.1 - - - -
701C ILE* 2.7 56.6 + - + +
703C MET* 3.7 44.6 - - + -
721C LEU* 3.2 28.5 - - + -
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Residues in contact with ASP 636 (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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613C GLN 3.8 1.2 - - - +
614C LEU* 3.6 3.9 - - - -
615C THR* 2.8 45.4 + - - +
635C MET* 1.3 71.7 - - - +
637C ALA* 1.3 63.2 + - - +
638C ALA* 5.5 0.2 - - - +
698C GLN* 2.8 43.3 + - - +
699C ILE 3.3 9.8 - - - +
700C GLY* 3.9 7.7 + - - -
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Residues in contact with ALA 637 (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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613C GLN 3.4 4.5 - - - -
614C LEU* 3.8 8.5 - - + -
635C MET 3.9 1.0 + - - +
636C ASP* 1.3 74.6 - - - +
638C ALA* 1.3 59.5 + - - +
649C LEU* 6.1 0.4 - - + -
689C LEU* 4.3 15.7 - - + -
693C MET* 4.0 5.5 - - + +
698C GLN* 3.3 2.3 - - - -
699C ILE* 2.6 49.7 + - + +
701C ILE* 5.0 7.6 - - + -
723C ILE* 3.3 26.0 - - + -
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Residues in contact with ALA 638 (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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612C LEU* 3.3 5.4 - - - +
613C GLN* 2.6 50.0 + - + +
636C ASP 5.5 0.2 - - - +
637C ALA* 1.3 76.0 - - - +
639C ASN* 1.3 61.8 + - - +
640C GLU* 4.1 8.1 - - + +
693C MET* 3.6 6.2 - - - +
697C ALA 3.3 12.8 - - - +
698C GLN* 3.7 25.8 - - + +
723C ILE* 4.3 0.9 - - - +
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Residues in contact with ASN 639 (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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610C PRO* 3.7 1.0 - - - +
611C GLN 2.8 34.1 + - - -
612C LEU* 3.6 18.5 - - + +
638C ALA* 1.3 73.7 - - - +
640C GLU* 1.3 55.5 + - - +
641C GLY* 3.0 9.3 + - - -
642C GLU 2.8 27.1 + - - -
644C ALA 4.1 2.6 - - - +
693C MET* 3.2 27.9 + - + -
694C LYS 3.5 13.2 + - - +
696C ASN* 2.7 35.7 + - - -
697C 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