Contacts of the strand formed by residues 697 - 707 (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 ALA 697 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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638C ALA* 3.3 3.3 - - - +
639C ASN 3.0 26.0 + - - -
693C MET* 4.1 19.7 - - + -
694C LYS* 3.2 28.1 + - + +
695C LYS 3.0 3.3 + - - +
696C ASN* 1.3 79.2 - - - +
698C GLN* 1.3 61.8 + - - +
699C ILE* 5.5 4.0 - - + -
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Residues in contact with GLN 698 (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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636C ASP* 2.8 39.7 + - - +
637C ALA 3.3 7.6 - - - +
638C ALA* 3.7 15.9 - - + +
665C ASN* 4.7 4.5 + - - +
666C VAL* 5.3 3.3 - - - +
696C ASN 3.9 3.5 + - - +
697C ALA* 1.3 77.8 - - - +
699C ILE* 1.3 63.4 + - - +
700C GLY 4.2 1.0 + - - -
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Residues in contact with ILE 699 (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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635C MET 3.8 1.0 - - - +
636C ASP* 3.6 3.3 - - - -
637C ALA* 2.6 44.4 + - + +
664C SER* 4.0 15.7 - - - -
665C ASN* 4.0 1.8 - - - -
666C VAL* 4.1 19.3 - - + -
672C LEU* 5.3 4.0 - - + -
689C LEU* 3.2 44.4 - - + +
693C MET* 4.7 11.9 - - + -
697C ALA* 5.5 3.4 - - + -
698C GLN* 1.3 81.7 - - - +
700C GLY* 1.3 69.2 + - - +
701C ILE* 3.9 17.3 + - + +
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Residues in contact with GLY 700 (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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635C MET 3.6 5.8 - - - -
636C ASP* 3.9 11.7 + - - -
664C SER* 3.2 7.8 - - - -
665C ASN* 2.8 51.6 + - - +
698C GLN* 4.2 0.8 - - - +
699C ILE* 1.3 72.4 - - - +
701C ILE* 1.3 58.6 + - - -
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Residues in contact with ILE 701 (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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633C LEU 3.4 4.4 - - - +
634C GLN* 3.5 1.7 - - - +
635C MET* 2.7 60.5 + - + +
637C ALA* 5.0 5.2 - - + -
649C LEU* 3.7 21.3 - - + -
662C ALA* 5.0 2.0 - - + -
663C LEU 3.4 12.1 - - - +
672C LEU* 3.4 23.6 - - + -
687C CYS* 5.5 2.5 - - + -
689C LEU* 3.3 34.8 - - + -
699C ILE* 4.0 17.9 - - + +
700C GLY* 1.3 78.0 - - - +
702C ALA* 1.3 65.4 + - - +
703C MET* 4.8 2.9 - - + +
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Residues in contact with ALA 702 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
632C GLU* 3.7 24.5 - - - +
633C LEU 3.5 4.5 - - - -
634C GLN* 4.7 4.9 - - + +
662C ALA* 3.4 1.2 - - - -
663C LEU* 2.8 50.0 + - + +
664C SER* 4.9 0.2 - - - +
700C GLY 4.3 0.4 - - - -
701C ILE* 1.3 73.2 - - - +
703C MET* 1.3 60.1 + - - +
704C LEU* 4.2 1.7 + - - +
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Residues in contact with MET 703 (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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632C GLU* 3.5 3.5 - - - +
633C LEU* 2.9 51.2 + - + +
635C MET* 3.7 21.3 - - + -
649C LEU* 6.0 0.2 - - - -
651C VAL* 3.8 36.8 - - + -
653C LEU* 4.8 4.5 - - + -
659C TYR* 3.8 28.9 - - + -
661C ARG 3.4 14.1 - - - +
662C ALA* 4.1 8.5 - - + +
685C VAL* 4.3 13.2 - - + -
687C CYS* 5.1 5.2 - - - -
701C ILE* 4.9 0.7 - - + -
702C ALA* 1.3 73.0 - - - +
704C LEU* 1.3 65.0 + - - +
705C VAL* 3.6 21.1 + - + -
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Residues in contact with LEU 704 (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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630C VAL* 4.4 13.0 - - + +
631C LEU 3.6 4.9 - - - +
632C GLU* 3.7 34.1 - - + +
660C MET* 3.2 46.2 + - + -
661C ARG* 2.8 54.9 + - + +
702C ALA 4.2 1.7 - - - +
703C MET* 1.3 74.1 - - - +
705C VAL* 1.3 63.3 + - - +
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Residues in contact with VAL 705 (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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630C VAL* 3.4 1.4 - - - -
631C LEU* 2.8 41.2 + - + +
633C LEU* 3.5 27.8 - - + -
653C LEU* 4.3 7.0 - - + -
657C ALA* 3.7 29.2 - - + -
658C HIS 3.3 14.8 - - - +
659C TYR* 4.8 2.7 - - - -
660C MET* 3.7 4.5 - - - -
703C MET* 3.6 22.2 - - + -
704C LEU* 1.3 81.6 - - - +
706C SER* 1.3 61.7 + - - +
707C VAL* 3.6 3.1 + - + -
719C PHE* 4.1 13.0 - - + -
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Residues in contact with SER 706 (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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629C ASN 3.4 11.4 - - - -
630C VAL* 4.3 0.4 - - - +
656C GLY 3.3 1.4 - - - +
658C HIS* 3.0 46.5 + - - +
660C MET* 3.4 23.2 - - - +
705C VAL* 1.3 70.7 - - - +
707C VAL* 1.3 60.6 + - - +
708C GLY* 3.1 8.5 + - - -
2N NAG 4.3 19.7 - - - -
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Residues in contact with VAL 707 (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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623C LEU* 3.8 26.9 - - + -
627C ALA 4.2 1.0 - - - +
628C ASP 5.5 0.2 - - - -
629C ASN* 3.1 33.5 + - + +
631C LEU* 3.5 33.4 - - + -
654C PRO* 5.5 2.0 - - + -
656C GLY* 3.5 14.6 - - - -
657C ALA* 4.0 7.9 - - + +
705C VAL* 3.6 4.1 + - + -
706C SER* 1.3 68.1 - - - +
708C GLY* 1.3 70.7 + - - +
710C LEU* 5.5 4.0 - - + -
717C VAL* 5.3 8.3 - - + -
719C PHE* 4.0 17.5 - - + -
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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