Contacts of the helix formed by residues 668 - 690 (chain A) in PDB entry 5FLZ
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 LEU 668 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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402A ASN* 4.5 14.6 - - - +
403A GLU* 6.0 4.7 - - + -
406A LEU* 3.6 13.7 - - + +
666A PRO* 3.4 14.3 + - + -
667A THR* 1.4 82.2 - - - +
669A ALA* 1.4 62.2 + - - +
670A VAL* 4.0 22.4 - - + +
671A ALA* 3.1 23.1 + - + +
672A ILE* 3.6 9.7 + - - +
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Residues in contact with ALA 669 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
353A LEU* 6.3 0.9 - - + -
398A TYR* 5.6 0.7 - - - +
402A ASN* 3.8 40.3 - - + +
405A PHE* 5.2 11.7 - - + -
406A LEU* 3.8 14.6 - - + +
668A LEU* 1.4 67.7 - - - +
670A VAL* 1.4 65.5 + - + +
672A ILE* 3.1 23.9 + - + +
673A GLN* 3.4 10.6 + - - +
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Residues in contact with VAL 670 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
398A TYR* 3.5 28.9 - - + +
402A ASN* 4.8 8.5 - - - +
668A LEU* 3.2 20.4 - - + -
669A ALA* 1.4 77.1 - - + +
671A ALA* 1.4 60.8 + - - +
673A GLN* 3.3 9.5 + - + +
674A ASN* 3.0 44.4 + - - +
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Residues in contact with ALA 671 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
662A CYS* 3.4 15.7 - - - +
663A TYR* 5.0 3.1 - - - -
666A PRO* 3.0 47.3 - - + +
668A LEU* 3.1 14.3 + - + +
670A VAL* 1.4 79.6 - - - +
672A ILE* 1.4 51.2 + - + +
674A ASN* 3.5 9.8 - - - +
675A GLU* 2.9 33.5 + - - +
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Residues in contact with ILE 672 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
406A LEU* 3.9 26.0 - - + -
409A PHE* 6.3 0.2 - - + -
415A LEU* 4.0 23.8 - - + -
419A LEU* 5.8 12.1 - - + -
573A ILE* 5.5 11.2 - - + -
663A TYR* 6.1 6.7 - - + -
668A LEU 3.8 7.9 - - - +
669A ALA* 3.1 13.2 + - + +
671A ALA* 1.4 71.9 - - + +
673A GLN* 1.4 52.0 + - - +
675A GLU* 3.0 9.8 + - + +
676A LEU* 2.8 36.9 + - + +
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Residues in contact with GLN 673 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
349A ARG* 6.2 2.0 - - - +
669A ALA 3.4 6.6 + - - +
670A VAL* 3.3 17.1 + - + +
672A ILE* 1.4 74.1 - - - +
674A ASN* 1.3 67.7 + - - +
676A LEU* 3.3 13.8 + - - +
677A GLU* 3.2 42.6 + - + +
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Residues in contact with ASN 674 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
662A CYS* 4.4 9.4 - - - -
666A PRO* 6.1 0.8 - - - +
670A VAL* 3.0 38.1 + - - +
671A ALA* 3.5 12.5 - - - +
673A GLN* 1.3 81.9 - - - +
675A GLU* 1.4 64.5 - - - +
677A GLU* 3.3 11.7 + - - +
678A GLY* 3.2 16.6 + - - -
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Residues in contact with GLU 675 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
655A GLU* 3.6 11.8 - - - +
658A SER* 4.1 1.9 - - - +
659A LEU* 3.1 60.4 + - + +
662A CYS* 3.2 24.3 - - - +
663A TYR* 5.2 5.4 - - + +
671A ALA 2.9 18.5 + - - +
672A ILE* 3.0 11.2 + - + +
674A ASN* 1.4 74.1 - - - +
676A LEU* 1.4 60.1 + - - +
678A GLY* 3.0 5.2 + - - +
679A GLY* 2.9 27.2 + - - -
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Residues in contact with LEU 676 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
573A ILE* 3.9 28.3 - - + +
574A ILE* 5.7 0.2 - - - -
575A SER* 5.1 2.7 - - - +
578A CYS* 3.7 34.8 - - - -
582A TYR* 5.4 6.5 - - - +
672A ILE* 2.8 17.2 + - + +
673A GLN* 3.3 18.1 + - - +
675A GLU* 1.4 73.8 - - - +
677A GLU* 1.3 87.9 + - - +
679A GLY* 3.1 4.1 + - - +
680A LEU* 3.1 34.4 + - + +
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Residues in contact with GLU 677 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
673A GLN* 3.2 30.6 + - + +
674A ASN* 3.4 10.3 - - - +
675A GLU 3.2 0.2 - - - -
676A LEU* 1.3 95.6 - - - +
678A GLY* 1.4 49.1 + - - +
680A LEU* 3.4 20.3 + - - +
681A THR* 2.9 35.1 + - - +
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Residues in contact with GLY 678 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
655A GLU* 3.2 19.1 - - - +
674A ASN 3.2 9.4 + - - -
675A GLU* 3.0 13.0 + - - -
677A GLU* 1.4 69.8 - - - +
679A GLY* 1.3 53.8 + - - +
681A THR* 2.6 38.9 + - - +
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Residues in contact with GLY 679 (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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581A LYS* 5.3 0.7 - - - +
582A TYR* 5.5 12.7 - - - -
655A GLU* 4.4 14.4 - - - +
659A LEU* 5.5 5.2 - - - -
675A GLU* 2.9 16.9 + - - -
676A LEU* 3.1 5.3 + - - -
678A GLY* 1.3 76.6 - - - +
680A LEU* 1.3 57.9 + - - +
681A THR 3.0 11.1 - - - +
683A ILE* 3.5 12.6 - - - +
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Residues in contact with LEU 680 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
577A THR* 4.5 13.7 - - - +
578A CYS* 3.8 40.2 - - + +
581A LYS* 3.8 31.9 - - + -
582A TYR* 5.4 5.2 - - + +
676A LEU* 3.1 25.6 + - + +
677A GLU* 3.4 28.0 - - - +
679A GLY* 1.3 72.2 - - - +
681A THR* 1.4 62.4 + - + +
683A ILE* 2.9 20.3 - - - +
684A MET* 3.3 15.8 + - - +
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Residues in contact with THR 681 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
655A GLU* 4.0 1.4 - - - +
677A GLU 2.9 18.6 + - - +
678A GLY* 2.6 29.8 + - - +
679A GLY 3.0 7.6 - - - +
680A LEU* 1.4 74.1 - - + +
682A ASN* 1.4 59.5 + - - +
683A ILE 2.8 16.8 + - - -
684A MET* 4.0 21.8 - - + -
685A THR* 4.5 10.3 - - + -
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Residues in contact with ASN 682 (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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650A ASN 4.5 5.0 + - - +
651A VAL* 3.4 39.6 + - - +
654A LYS* 5.2 8.4 - - - +
655A GLU* 3.5 30.1 - - + +
681A THR* 1.4 75.9 - - - +
683A ILE* 1.4 58.5 + - - +
684A MET 3.3 0.6 - - - +
685A THR* 3.4 25.1 + - - +
686A ASN* 2.9 30.4 + - - +
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Residues in contact with ILE 683 (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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581A LYS* 3.1 43.5 - - + +
582A TYR* 6.1 0.7 - - + -
584A ILE* 4.8 8.3 - - + -
585A ILE* 3.5 35.9 - - + +
588A TYR* 5.9 4.3 - - + -
651A VAL* 5.4 7.0 - - + -
655A GLU* 5.8 0.8 - - - +
679A GLY 3.5 15.3 - - - +
680A LEU* 2.9 28.5 - - - +
681A THR 2.8 7.5 + - - -
682A ASN* 1.4 77.0 - - - +
684A MET* 1.4 55.7 + - - +
686A ASN* 3.4 6.7 + - + +
687A ARG* 2.9 28.5 + - + +
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Residues in contact with MET 684 (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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581A LYS* 4.5 22.4 - - - +
680A LEU* 3.4 15.9 - - - +
681A THR* 4.0 22.9 - - + -
683A ILE* 1.4 63.3 - - - +
685A THR* 1.3 63.8 + - + +
687A ARG* 3.4 8.4 + - - +
688A CYS* 3.2 31.0 + - - -
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Residues in contact with THR 685 (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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681A THR* 4.5 13.2 - - + -
682A ASN* 3.4 33.7 + - - +
683A ILE 3.4 0.2 - - - -
684A MET* 1.3 76.6 - - + +
686A ASN* 1.4 52.2 + - - +
688A CYS* 3.0 12.1 + - - +
689A LEU* 2.8 33.3 + - - +
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Residues in contact with ASN 686 (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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588A TYR* 5.3 8.1 - - - -
647A PHE* 4.6 12.8 - - - -
651A VAL* 3.8 36.6 - - + +
682A ASN* 2.9 22.2 + - - +
683A ILE* 3.7 8.2 - - + +
685A THR* 1.4 72.8 + - - +
687A ARG* 1.4 65.4 + - - +
689A LEU* 4.3 12.9 - - - +
690A SER* 2.9 45.9 + - - -
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Residues in contact with ARG 687 (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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584A ILE* 5.7 8.8 - - + +
588A TYR* 3.8 29.2 + - + +
683A ILE* 2.9 14.6 + - + +
684A MET* 3.4 13.7 - - - +
685A THR 3.3 0.2 - - - -
686A ASN* 1.4 74.2 - - - +
688A CYS* 1.3 62.6 + - - +
690A SER 2.7 23.1 - - - +
691A ASP* 4.2 2.8 - - - +
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Residues in contact with CYS 688 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
684A MET* 3.3 23.3 - - - -
685A THR* 3.0 10.8 + - - +
687A ARG* 1.3 81.1 - - - +
689A LEU* 1.4 64.6 + - - +
691A ASP* 3.0 16.1 - - - +
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Residues in contact with LEU 689 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
685A THR 2.8 18.8 + - - +
686A ASN* 3.3 14.8 + - - +
688A CYS* 1.4 75.4 - - - +
690A SER* 1.3 66.1 + - - +
691A ASP* 3.8 7.2 - - - +
692A LEU* 5.6 1.2 - - - +
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Residues in contact with SER 690 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
588A TYR* 5.6 1.4 + - - -
686A ASN* 2.9 35.9 + - - +
687A ARG* 2.7 25.5 - - - +
689A LEU* 1.3 78.9 - - - +
691A ASP* 1.3 61.1 + - - +
692A LEU* 3.7 24.2 - - - +
693A ILE* 6.4 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
------------------------------------------------------------
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