Contacts of the strand formed by residues 572 - 585 (chain A) in PDB entry 1FCP
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 GLY 572 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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556A ASN 2.7 13.3 + - - -
557A ASN* 2.6 44.4 + - - -
558A LEU 5.1 0.2 - - - -
559A MSE 3.0 21.3 - - - +
571A GLY* 1.3 80.1 - - - +
573A GLU* 1.3 57.8 + - - +
606A THR 3.4 11.4 - - - -
607A ASP* 5.3 1.1 - - - -
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Residues in contact with GLU 573 (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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553A THR* 3.9 16.0 - - + +
554A LYS 3.4 12.3 - - - +
555A THR* 4.0 25.2 - - + +
556A ASN 5.4 0.3 + - - -
557A ASN* 4.2 2.1 - - - +
571A GLY 3.7 3.4 + - - +
572A GLY* 1.3 76.1 - - - +
574A ILE* 1.3 69.8 + - - +
604A TYR* 3.8 1.2 - - - -
605A THR* 3.0 41.0 + - - +
606A THR* 2.9 33.3 + - - +
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Residues in contact with ILE 574 (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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95A PHE* 3.8 32.6 - - + -
552A LEU 4.2 0.2 - - - +
553A THR* 3.6 6.2 - - - +
554A LYS* 2.9 38.4 + - + +
557A ASN* 3.6 23.6 - - + +
573A GLU* 1.3 80.9 - - - +
575A ARG* 1.3 67.4 + - - +
602A ALA* 5.1 2.5 - - + -
603A GLU* 3.4 19.7 - - - +
604A TYR* 3.5 38.1 - - + +
605A THR* 4.1 2.2 - - - +
615A PRO* 5.1 14.1 - - + -
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Residues in contact with ARG 575 (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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95A PHE* 4.7 0.2 - - - -
551A ASN* 4.1 15.3 - - - +
552A LEU 3.5 8.5 - - - +
553A THR* 4.6 9.6 - - + +
574A ILE* 1.3 78.0 - - - +
576A ALA* 1.3 69.1 + - - +
577A ARG* 2.9 55.5 - - - +
601A ASP* 3.6 8.2 + - - +
602A ALA* 3.2 2.1 - - - -
603A GLU* 2.7 70.4 + - - +
605A THR* 3.6 18.0 + - - +
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Residues in contact with ALA 576 (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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93A ARG 3.6 15.0 - - - +
95A PHE* 3.3 29.8 - - + -
550A TYR* 3.2 13.2 - - + +
552A LEU* 2.7 41.9 + - + +
575A ARG* 1.3 76.0 - - - +
577A ARG* 1.3 57.1 + - - +
600A THR* 5.3 1.8 - - + -
601A ASP 3.3 7.2 - - - +
602A ALA* 4.3 9.2 - - + -
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Residues in contact with ARG 577 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
550A TYR* 3.2 17.5 - - - +
551A ASN* 4.0 18.8 - - + +
575A ARG* 2.9 49.5 - - - +
576A ALA* 1.3 74.9 - - - +
578A GLY* 1.3 58.2 + - - +
599A TYR* 4.6 5.9 + - - -
601A ASP* 2.9 74.9 + - - +
603A GLU* 5.0 0.6 + - - -
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Residues in contact with GLY 578 (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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549A VAL* 3.1 9.0 - - - +
550A TYR* 2.9 45.1 + - - -
577A ARG* 1.3 75.0 - - - +
579A VAL* 1.3 64.3 + - - -
599A TYR* 2.9 24.2 - - - -
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Residues in contact with VAL 579 (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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548A ALA 3.2 14.4 - - - +
549A VAL* 3.8 17.9 - - + -
550A TYR* 4.2 0.2 - - - -
578A GLY* 1.3 80.4 - - - +
580A GLU* 1.3 69.1 + - - +
581A ILE* 4.4 15.7 - - + -
597A TYR* 3.9 8.2 - - + +
598A THR* 3.5 2.3 - - - -
599A TYR* 2.7 51.2 + - + +
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Residues in contact with GLU 580 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49A SER* 4.0 2.9 + - - -
74A PRO* 4.4 10.5 - - + -
75A GLY* 3.3 14.6 - - - -
93A ARG* 2.4 50.7 + - - +
133A ARG* 2.8 32.7 + - - +
546A THR* 4.8 1.3 - - - +
547A GLY* 3.4 0.7 - - - -
548A ALA* 2.6 45.2 + - + +
550A TYR* 3.7 13.3 + - + -
579A VAL* 1.3 79.5 - - - +
581A ILE* 1.3 62.4 + - - +
597A TYR 3.5 7.6 - - - +
598A THR* 4.3 8.1 - - + +
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Residues in contact with ILE 581 (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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74A PRO* 4.0 1.9 - - - +
546A THR* 3.4 9.4 - - - +
547A GLY* 4.0 10.8 - - - -
548A ALA 4.6 0.2 - - - +
579A VAL* 4.4 14.4 - - + -
580A GLU* 1.3 82.8 - - - +
582A GLU* 1.3 61.6 + - - +
596A SER* 3.1 5.9 - - - -
597A TYR* 2.9 63.0 + - + +
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Residues in contact with GLU 582 (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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50A ILE 4.9 1.0 - - - +
51A SER* 2.6 28.6 + - - -
72A TYR 4.6 2.1 - - - +
73A THR* 3.2 26.2 + - - +
74A PRO* 3.5 21.3 - - + +
545A VAL* 3.7 3.3 - - - +
546A THR* 3.1 47.0 + - + +
581A ILE* 1.3 76.6 - - - +
583A ALA* 1.3 73.6 + - - +
584A LYS* 3.4 25.6 + - + -
594A VAL* 5.2 2.2 - - + +
595A GLY 3.3 11.9 - - - +
596A SER* 3.7 0.7 - - - -
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Residues in contact with ALA 583 (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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544A VAL 3.7 6.1 - - - -
545A VAL* 3.6 20.2 - - + -
582A GLU* 1.3 78.5 - - - +
584A LYS* 1.3 65.7 + - - +
585A ALA* 6.4 0.2 - - + -
593A VAL* 4.3 2.7 - - + -
594A VAL* 3.1 5.1 - - - +
595A GLY* 2.6 43.9 + - - +
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Residues in contact with LYS 584 (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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28A ILE* 3.7 26.7 - - + +
29A ALA* 4.7 7.9 - - + +
30A ALA 5.9 0.7 - - - +
52A VAL 3.4 27.6 + - - +
53A VAL* 4.5 3.4 - - - +
57A GLU* 2.9 33.5 + - - +
72A TYR* 5.8 1.2 - - - +
73A THR* 4.5 6.8 - - - +
543A ILE* 3.7 0.3 - - - -
544A VAL* 2.9 37.5 + - + +
545A VAL* 5.0 0.7 - - - +
582A GLU* 3.4 30.4 + - + +
583A ALA* 1.3 80.4 - - - +
585A ALA* 1.3 64.0 + - - +
593A VAL* 3.2 7.0 - - - -
594A VAL* 3.8 19.0 - - + +
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Residues in contact with ALA 585 (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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27A THR* 5.2 3.4 - - - -
28A ILE* 4.6 6.9 - - - +
29A ALA* 5.3 1.8 - - - +
542A PRO 3.6 8.7 - - - -
543A ILE* 3.3 24.7 - - + -
545A VAL* 6.0 2.7 - - + -
583A ALA* 6.4 0.2 - - + -
584A LYS* 1.3 76.7 - - - +
586A ALA* 1.3 61.6 + - - +
587A LEU* 3.6 11.4 - - + -
592A ASN* 3.4 8.1 + - - +
593A VAL* 3.0 43.0 + - + +
594A VAL* 5.1 0.2 - - - +
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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