Contacts of the strand formed by residues 591 - 606 (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 VAL 591 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
587A LEU* 3.1 44.6 + - + -
588A SER* 3.3 22.3 + - - +
590A SER* 1.3 80.2 - - - +
592A ASN* 1.3 74.3 + - - +
593A VAL* 4.3 10.1 - - + -
627A ALA* 5.6 1.8 - - + -
628A ASP 3.3 5.6 - - - +
629A TYR* 3.3 34.3 - - + -
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Residues in contact with ASN 592 (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* 3.4 31.3 - - + +
56A GLU* 4.5 2.4 - - - +
60A LEU* 5.9 1.4 - - + +
585A ALA 3.4 5.3 + - - +
586A ALA* 3.4 22.2 - - - +
588A SER 4.5 3.0 + - - -
590A SER 5.5 1.9 - - - -
591A VAL* 1.3 83.9 + - - +
593A VAL* 1.3 65.7 + - - +
594A VAL* 6.3 0.9 - - + -
626A TRP* 5.4 0.7 - - - -
627A ALA* 3.0 5.9 - - - +
628A ASP* 2.7 58.5 + - - +
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Residues in contact with VAL 593 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
583A ALA* 4.3 2.2 - - + +
584A LYS* 3.2 2.4 - - - -
585A ALA* 3.0 44.0 + - + +
587A LEU* 3.8 38.6 - - + -
591A VAL* 4.3 6.1 - - + -
592A ASN* 1.3 82.1 - - - +
594A VAL* 1.3 70.2 + - - +
625A LEU* 5.7 6.3 - - + -
626A TRP* 3.1 6.5 - - - +
627A ALA* 3.5 20.2 - - + -
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Residues in contact with VAL 594 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28A ILE* 4.4 18.8 - - + -
57A GLU* 4.2 12.1 - - + +
72A TYR* 4.1 26.4 - - + +
582A GLU* 5.2 2.2 - - - +
583A ALA 3.1 8.3 - - - +
584A LYS* 3.8 34.1 - - + +
585A ALA 5.1 0.2 - - - +
592A ASN* 6.3 0.7 - - + -
593A VAL* 1.3 83.8 - - - +
595A GLY* 1.3 62.4 + - - +
624A SER 4.5 0.2 - - - -
625A LEU* 3.2 4.6 - - - +
626A TRP* 2.4 57.5 + - + +
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Residues in contact with GLY 595 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
72A TYR 4.8 1.3 - - - -
582A GLU* 3.3 2.2 - - - +
583A ALA* 2.6 45.0 + - - +
594A VAL* 1.3 79.9 - - - +
596A SER* 1.3 60.0 + - - -
624A SER* 2.9 17.3 - - - -
625A LEU* 3.8 10.1 - - - -
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Residues in contact with SER 596 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
72A TYR 2.8 20.7 + - - -
73A THR 4.1 0.2 - - - -
74A PRO* 3.4 32.1 - - - +
581A ILE* 3.1 18.6 - - - -
582A GLU* 3.7 3.1 - - - +
595A GLY* 1.3 76.3 - - - -
597A TYR* 1.3 61.6 + - - +
598A THR* 4.7 0.5 + - - -
623A ALA* 3.3 5.8 - - - +
624A SER* 2.8 33.6 + - - +
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Residues in contact with TYR 597 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
74A PRO* 4.0 0.3 - - - +
579A VAL* 4.7 10.1 - - + -
580A GLU* 3.5 2.8 - - - -
581A ILE* 2.9 53.3 + - + +
596A SER* 1.3 75.1 - - - +
598A THR* 1.3 75.5 + - - +
599A TYR* 3.8 22.5 - - + -
621A HIS* 2.7 41.3 + - + -
622A MSE 3.4 14.1 - - - -
623A ALA* 4.0 11.4 - - + +
647A TYR* 6.4 0.7 - + - -
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Residues in contact with THR 598 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
74A PRO* 3.1 16.5 - - - +
75A GLY* 3.0 38.3 + - - +
550A TYR* 5.4 0.9 - - - +
579A VAL 3.5 7.0 - - - +
580A GLU* 4.3 9.4 - - + +
596A SER* 4.7 0.7 + - - -
597A TYR* 1.3 82.7 + - - +
599A TYR* 1.3 64.1 + - - +
600A THR* 3.5 19.7 + - - +
620A LYS 3.6 0.2 - - - +
621A HIS* 3.5 7.1 - - - -
622A MSE 2.7 52.3 + - + +
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Residues in contact with TYR 599 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
550A TYR* 4.1 3.8 + - - -
577A ARG* 4.6 5.5 + - - -
578A GLY* 2.9 36.5 - - - -
579A VAL* 2.7 33.3 + - + +
597A TYR* 3.8 14.4 - - + -
598A THR* 1.3 74.1 - - - +
600A THR* 1.3 62.1 + - - +
601A ASP* 4.3 16.8 + - + -
620A LYS* 2.5 38.2 + - + -
621A HIS* 3.3 36.3 - + - -
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Residues in contact with THR 600 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
75A GLY* 5.5 0.3 - - - -
93A ARG* 4.2 20.3 - - - +
94A GLY* 4.3 1.3 - - - +
550A TYR* 4.0 15.0 + - - +
576A ALA* 5.3 2.0 - - + -
577A ARG 4.3 0.7 - - - -
598A THR* 3.5 19.6 + - - +
599A TYR* 1.3 77.7 + - - +
601A ASP* 1.3 60.8 + - - +
602A ALA* 3.8 7.9 + - + +
618A VAL* 3.7 23.0 - - + +
619A PRO 3.7 17.0 + - - +
620A LYS* 2.9 35.6 + - - +
622A MSE 4.4 6.6 - - - +
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Residues in contact with ASP 601 (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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575A ARG* 3.6 12.3 + - - +
576A ALA* 3.3 2.2 - - - -
577A ARG* 2.9 79.1 + - - +
599A TYR* 4.1 14.0 + - + -
600A THR* 1.3 73.0 - - - +
602A ALA* 1.3 62.2 + - - +
603A GLU* 4.5 4.4 - - - +
614A THR* 6.1 1.1 - - - -
620A LYS* 3.7 21.0 + - - +
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Residues in contact with ALA 602 (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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94A GLY* 4.9 5.6 - - - +
95A PHE* 5.8 0.7 - - + -
574A ILE* 5.2 2.7 - - + -
575A ARG 3.2 7.4 - - - +
576A ALA* 4.0 11.9 - - + +
600A THR* 3.7 6.3 + - + -
601A ASP* 1.3 74.2 - - - +
603A GLU* 1.3 63.3 + - - +
614A THR* 2.8 31.7 - - - +
615A PRO* 3.7 27.4 - - + -
618A VAL* 4.4 17.9 - - + +
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Residues in contact with GLU 603 (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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574A ILE* 3.4 7.2 - - - +
575A ARG* 2.7 71.1 + - - +
577A ARG* 5.0 0.5 + - - -
601A ASP* 4.5 6.4 - - - +
602A ALA* 1.3 76.7 - - - +
604A TYR* 1.3 67.5 + - - +
605A THR* 3.0 8.7 + - - +
612A GLY* 3.3 39.4 + - - +
613A ASN 3.5 4.7 - - - -
614A THR* 4.6 1.8 - - + +
615A PRO* 4.7 0.7 - - - -
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Residues in contact with TYR 604 (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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557A ASN* 4.4 5.6 - - - -
573A GLU 3.8 2.9 - - - -
574A ILE* 3.5 33.9 - - + +
603A GLU* 1.3 74.7 - - - +
605A THR* 1.3 63.9 + - - +
606A THR 3.5 0.4 - - - -
607A ASP* 3.6 31.9 - - + -
610A TYR* 3.8 35.4 - + + -
611A LYS* 3.5 20.9 + - - +
612A GLY* 2.9 24.3 + - - -
613A ASN* 3.0 31.2 + - + +
614A THR 4.5 1.8 - - - -
615A PRO* 4.2 30.1 - - + +
655A PRO* 5.0 9.5 - - + +
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Residues in contact with THR 605 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
573A GLU* 3.0 35.1 + - - +
574A ILE 4.3 0.2 - - - -
575A ARG* 3.6 30.1 + - - +
603A GLU* 3.0 7.4 + - - +
604A TYR* 1.3 71.6 - - - +
606A THR* 1.3 66.8 + - - +
607A ASP 4.3 0.2 - - - -
611A LYS* 2.7 32.5 + - - -
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Residues in contact with THR 606 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
559A MSE 4.8 8.7 - - + -
571A GLY 4.3 12.3 - - - +
572A GLY* 3.4 4.0 - - - -
573A GLU* 2.9 46.5 + - - +
604A TYR* 4.9 0.3 - - - -
605A THR* 1.3 93.4 + - - +
607A ASP* 1.3 70.5 + - - +
611A LYS* 4.6 2.9 - - - +
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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
------------------------------------------------------------
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