Contacts of the strand formed by residues 481 - 494 (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 PRO 481 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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470A VAL* 4.0 26.7 - - + -
472A SER* 5.8 0.2 - - - +
471C LYS* 3.6 35.8 - - + +
473C CYS 3.3 9.4 - - - +
474C VAL* 3.9 7.0 - - + -
479C LYS 3.3 11.4 - - - +
480C THR* 1.3 94.1 - - + +
482C VAL* 1.3 62.5 + - - +
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Residues in contact with VAL 482 (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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471C LYS* 3.4 13.6 - - - +
473C CYS* 2.8 48.5 + - + +
474C VAL* 4.0 4.0 - - - +
475C LEU* 3.9 19.1 - - + -
480C THR* 3.4 11.7 - - + +
481C PRO* 1.3 80.3 - - - +
483C SER* 1.3 59.0 + - - +
484C CYS* 3.2 5.9 + - + -
524C LEU* 4.0 19.7 - - + -
551C PHE* 4.0 28.3 - - + -
552C LEU 4.7 4.0 - - - +
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Residues in contact with SER 483 (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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466C LEU* 5.3 1.0 - - - +
467C ASN 2.8 26.8 + - - -
468C PRO* 3.8 17.5 - - - -
470C VAL 3.0 20.3 + - - -
471C LYS* 3.7 5.4 - - - +
482C VAL* 1.3 70.2 - - - +
484C CYS* 1.3 58.3 + - - +
485C PHE* 4.3 3.1 - - - -
551C PHE* 3.4 1.0 - - - -
552C LEU* 2.9 43.7 + - - +
5002C IMD 3.4 11.5 + - - -
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Residues in contact with CYS 484 (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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463C GLN* 4.6 0.2 + - - -
470C VAL 4.6 0.4 + - - -
472C SER* 4.3 8.9 - - - +
473C CYS* 2.0 58.6 - - + -
482C VAL* 3.2 1.7 + - + +
483C SER* 1.3 74.9 + - - +
485C PHE* 1.3 61.5 + - - +
524C LEU* 5.0 4.9 - - + -
549C MET* 5.4 5.4 - - + -
550C ALA 3.1 13.9 - - - +
551C PHE* 3.9 7.2 - - + +
5002C IMD 2.9 23.5 + - - -
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Residues in contact with PHE 485 (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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462C VAL* 3.9 16.2 - - + -
463C GLN* 3.4 21.3 - - - +
466C LEU* 3.3 47.3 - - + -
483C SER 4.3 5.2 - - - -
484C CYS* 1.3 79.6 - - - +
486C ASN* 1.3 76.0 + - - +
487C ILE* 3.9 21.3 - - + -
521C VAL* 3.9 25.6 - - + -
549C MET* 3.6 1.7 - - - -
550C ALA* 2.9 58.0 + - + +
551C PHE 4.0 4.5 - - - -
552C LEU* 4.4 0.7 - - + -
567C LEU* 4.8 3.1 - - + -
596C THR* 4.7 5.8 - - + -
5002C IMD 4.4 0.4 - + + -
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Residues in contact with ASN 486 (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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461C LEU 4.4 0.3 - - - +
462C VAL* 3.9 12.8 - - - +
463C GLN* 4.1 11.3 + - + +
485C PHE* 1.3 82.6 - - - +
487C ILE* 1.3 65.0 + - - +
488C GLN 4.3 0.2 - - - -
547C THR* 3.8 21.9 - - + +
548C THR 3.5 3.6 - - - -
549C MET* 3.0 26.9 - - - +
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Residues in contact with ILE 487 (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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460C LEU* 4.1 22.9 - - + -
461C LEU 3.7 10.3 - - - +
462C VAL* 4.2 4.5 - - + -
485C PHE* 3.9 16.4 - - + +
486C ASN* 1.3 80.7 - - - +
488C GLN* 1.3 62.9 + - - +
489C MET* 4.1 1.6 + - + +
508C LEU* 4.5 14.6 - - + -
510C LEU* 4.3 20.6 - - + -
546C HIS 3.8 1.2 - - - +
547C THR* 3.3 3.7 - - - -
548C THR* 2.7 50.6 + - + +
550C ALA* 3.9 21.8 - - + -
567C LEU* 3.9 23.8 - - + -
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Residues in contact with GLN 488 (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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460C LEU* 3.5 7.4 - - - +
461C LEU* 2.9 66.3 + - + +
486C ASN* 5.5 0.2 - - - +
487C ILE* 1.3 75.1 - - - +
489C MET* 1.3 63.4 + - - +
490C CYS* 3.9 19.5 - - - -
545C CYS* 3.8 19.5 - - + +
546C HIS 3.8 5.6 - - - +
547C THR* 3.7 23.2 + - + +
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Residues in contact with MET 489 (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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459C GLN 3.4 4.9 - - - -
460C LEU* 4.0 7.9 - - + -
487C ILE 4.8 3.1 - - - +
488C GLN* 1.3 76.6 - - - +
490C CYS* 1.3 61.5 + - - +
491C VAL* 4.1 1.8 + - + +
506C ALA* 3.9 17.0 - - + +
508C LEU* 4.0 31.4 - - + -
533C LEU* 3.3 35.0 - - + -
535C LEU* 5.2 7.3 - - + +
544C ILE 3.7 1.9 - - - +
545C CYS* 3.6 1.0 - - - -
546C HIS* 3.2 37.2 + - + +
548C THR* 5.3 4.5 - - + -
569C LEU* 3.5 37.0 - - + -
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Residues in contact with CYS 490 (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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457C SER 4.4 0.3 - - - -
458C VAL* 3.5 4.3 + - - -
459C GLN* 2.9 52.0 + - + +
461C LEU* 5.1 6.3 - - - -
488C GLN* 3.9 17.9 - - - -
489C MET* 1.3 74.4 - - - +
491C VAL* 1.3 62.2 + - - +
492C GLY 4.3 0.2 - - - -
543C PRO* 5.1 7.6 - - + -
544C ILE 3.2 4.7 - - - +
545C CYS* 2.0 48.9 - - - -
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Residues in contact with VAL 491 (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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456C ALA* 5.7 0.4 - - + -
457C SER 3.4 12.8 - - - +
458C VAL* 4.5 0.7 - - + -
489C MET* 4.1 2.7 - - + -
490C CYS* 1.3 77.7 - - - +
492C GLY* 1.3 63.5 + - - +
504C LEU* 4.3 2.7 - - + -
506C ALA* 4.3 4.5 - - + -
535C LEU* 3.6 27.8 - - + +
537C LEU* 3.5 23.9 - - + +
543C PRO* 3.9 1.8 - - - -
544C ILE* 2.8 36.8 + - - +
569C LEU* 4.0 16.6 - - + -
571C VAL* 3.7 39.3 - - + -
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Residues in contact with GLY 492 (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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455C LYS 4.5 0.2 - - - -
456C ALA* 3.5 4.2 - - - +
457C SER* 2.9 45.1 + - - +
491C VAL* 1.3 77.6 - - - +
493C ALA* 1.3 62.9 + - - +
494C THR* 5.7 0.4 - - - -
537C LEU* 4.2 5.6 - - - +
543C PRO* 3.7 20.5 - - - +
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Residues in contact with ALA 493 (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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454C VAL* 3.9 20.9 - - + -
455C LYS 3.6 5.4 - - - -
456C ALA* 5.1 0.2 - - - -
492C GLY* 1.3 75.0 - - - +
494C THR* 1.3 69.1 - - - +
498C ILE* 4.3 7.9 - - - +
502C LEU* 4.0 13.2 - - + -
504C LEU* 4.6 4.0 - - + -
537C LEU* 3.5 29.5 - - + +
540C LYS 4.2 13.7 + - - +
541C HIS* 5.3 0.5 - - - +
542C SER 5.3 2.6 + - - -
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Residues in contact with THR 494 (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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454C VAL* 3.5 5.2 - - - +
455C LYS* 2.6 61.5 + - - +
493C ALA* 1.3 82.1 - - - +
495C GLY* 1.3 58.0 + - - +
498C ILE* 4.0 7.6 - - - -
541C HIS* 4.6 14.6 - - - +
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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