Contacts of the helix formed by residues 750 - 767 (chain A) in PDB entry 3K23
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 750 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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564A ASN* 3.4 35.4 - - + +
565A MET* 4.0 19.5 - - - +
568A GLY* 3.9 12.6 - - - -
749A PHE* 1.3 96.4 - - + +
751A GLU* 1.3 68.5 + - - +
752A MET* 4.5 3.4 - - + +
753A LEU* 3.8 16.4 - - + +
754A ALA* 3.2 19.3 + - - +
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Residues in contact with GLU 751 (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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750A PRO* 1.3 70.7 - - - +
752A MET* 1.3 67.2 + - - +
754A ALA* 3.0 19.1 + - - +
755A GLU* 3.1 16.0 + - + +
744D LEU* 3.1 36.1 - - + +
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Residues in contact with MET 752 (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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568A GLY* 4.4 9.4 - - - +
571A VAL* 3.5 28.9 - - + -
572A ILE* 4.1 25.8 - - + -
575A VAL* 5.3 0.4 - - - -
750A PRO* 3.4 2.3 - - + +
751A GLU* 1.3 78.9 - - - +
753A LEU* 1.3 62.3 + - - +
755A GLU* 3.8 3.2 + - - +
756A ILE* 3.2 40.2 + - - +
744D LEU* 3.2 38.4 - - + +
745D LEU* 4.2 18.6 - - - +
748D LEU* 3.8 29.6 - - + -
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Residues in contact with LEU 753 (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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1A JZN 2.9 38.1 - - + -
564A ASN* 3.5 16.8 - - - +
567A GLY 3.5 6.3 - - - +
568A GLY* 3.8 6.7 - - - +
571A VAL* 3.3 35.2 - - + -
600A TRP* 4.3 15.9 - - + -
749A PHE* 4.3 10.8 - - + -
750A PRO* 3.6 23.3 + - + +
751A GLU 3.2 0.8 - - - -
752A MET* 1.3 76.5 - - - +
754A ALA* 1.3 58.6 + - - +
756A ILE* 3.2 4.4 + - + +
757A ILE* 2.7 45.2 + - + +
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Residues in contact with ALA 754 (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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740A PHE* 3.9 27.8 - - + -
749A PHE* 4.9 6.5 - - + +
750A PRO 3.2 12.0 + - - +
751A GLU* 3.0 12.2 + - - +
753A LEU* 1.3 77.2 - - - +
755A GLU* 1.3 53.0 + - + +
757A ILE* 3.5 1.1 - - - +
758A THR* 2.7 41.2 + - - +
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Residues in contact with GLU 755 (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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597A GLN* 5.7 0.4 - - - +
751A GLU* 3.1 15.0 + - + +
752A MET* 4.0 5.0 - - - +
754A ALA* 1.3 79.8 - - + +
756A ILE* 1.3 57.9 + - + +
758A THR* 3.6 4.1 - - - -
759A ASN* 2.7 40.0 + - + +
743D ALA* 3.7 15.0 + - - +
744D LEU* 3.2 49.2 + - + +
745D LEU* 3.7 8.7 + - - +
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Residues in contact with ILE 756 (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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571A VAL* 3.5 34.1 - - + -
596A LEU* 5.4 2.9 - - + +
597A GLN* 4.2 27.8 - - + +
600A TRP* 3.3 42.8 - - + +
752A MET* 3.2 25.7 + - - +
753A LEU* 3.2 5.9 + - + +
755A GLU* 1.3 80.9 - - + +
757A ILE* 1.3 57.4 + - - +
759A ASN* 3.7 5.1 - - - +
760A GLN* 2.9 32.2 + - + +
745D LEU* 4.7 16.4 - - + -
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Residues in contact with ILE 757 (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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600A TRP* 4.2 21.3 - - + -
736A CYS* 3.6 27.4 - - - -
737A PHE* 3.9 24.8 - - + -
740A PHE* 3.5 34.5 - - + -
749A PHE* 3.8 23.3 - - + -
753A LEU* 2.7 29.7 + - + +
754A ALA* 3.5 4.3 - - - +
756A ILE* 1.3 68.8 - - - +
758A THR* 1.3 68.9 + - - +
760A GLN* 3.0 13.7 + - - +
761A ILE* 3.1 19.4 + - + +
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Residues in contact with THR 758 (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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740A PHE* 3.5 22.5 - - + -
754A ALA* 2.7 24.5 + - - +
755A GLU* 3.8 4.5 - - - -
757A ILE* 1.3 75.0 - - - +
759A ASN* 1.3 58.0 + - - +
761A ILE* 4.0 6.7 + - - +
762A PRO* 3.3 20.3 - - - +
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Residues in contact with ASN 759 (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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597A GLN* 3.3 35.1 + - - +
755A GLU* 2.7 23.0 + - + +
756A ILE 3.8 4.0 - - - +
758A THR* 1.3 75.4 - - - +
760A GLN* 1.3 64.8 + - - +
762A PRO* 3.6 9.0 - - - +
763A LYS* 3.9 20.5 + - - +
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Residues in contact with GLN 760 (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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597A GLN* 3.1 57.4 + - + +
598A TYR* 3.3 22.6 - - - -
600A TRP* 4.7 3.6 - - + +
737A PHE* 5.1 10.3 - - + -
756A ILE* 2.9 21.6 + - + +
757A ILE* 3.0 4.0 + - - +
759A ASN* 1.3 79.0 + - - +
761A ILE* 1.3 53.2 + - - +
762A PRO* 3.2 3.4 - - - -
763A LYS* 2.7 55.1 + - - +
764A TYR* 2.7 20.5 + - + +
769A ILE* 4.3 7.6 - - - +
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Residues in contact with ILE 761 (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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737A PHE* 3.9 33.8 - - + -
740A PHE* 4.8 0.9 - - + -
741A LEU* 3.4 40.2 - - + -
757A ILE* 3.1 28.5 + - + +
758A THR* 4.3 5.2 - - - +
760A GLN* 1.3 74.7 - - - +
762A PRO* 1.3 61.1 - - + +
764A TYR* 3.6 6.0 + - - +
765A SER* 2.8 47.9 + - - +
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Residues in contact with PRO 762 (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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758A THR 3.3 20.6 - - - +
759A ASN 3.6 7.6 - - - +
760A GLN 3.3 3.8 - - - -
761A ILE* 1.3 94.8 - - + +
763A LYS* 1.3 58.7 + - - +
765A SER* 3.7 7.5 - - - -
766A ASN* 3.1 30.8 + - - +
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Residues in contact with LYS 763 (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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594A THR* 5.4 7.7 + - - +
597A GLN* 4.6 5.5 + - - -
598A TYR* 4.1 24.5 - - + +
759A ASN* 3.9 22.3 + - - +
760A GLN* 2.7 47.2 + - - +
762A PRO* 1.3 71.7 - - - +
764A TYR* 1.3 65.8 + - - +
766A ASN 3.5 0.7 + - - -
767A GLY* 3.3 15.8 + - - -
768A ASN* 3.3 26.8 + - + +
769A ILE* 4.2 7.6 + - + -
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Residues in contact with TYR 764 (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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730A GLU* 3.3 41.4 + - + +
733A LEU* 5.5 11.2 - - + -
734A ASN* 4.1 23.7 + - - -
737A PHE* 4.6 21.3 - + + -
760A GLN* 2.7 21.7 + - + +
761A ILE* 4.0 4.9 - - - +
763A LYS* 1.3 72.8 - - - +
765A SER* 1.3 73.8 + - - +
766A ASN 3.2 0.9 + - - -
767A GLY* 3.3 11.4 + - - -
769A ILE* 5.2 18.5 - - + +
771A LYS* 5.4 2.7 - - - -
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Residues in contact with SER 765 (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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761A ILE* 2.8 35.9 + - - +
762A PRO* 4.0 7.2 - - - -
763A LYS 3.3 0.4 - - - -
764A TYR* 1.3 82.8 - - - +
766A ASN* 1.3 58.5 + - - +
767A GLY 3.8 0.2 + - - -
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Residues in contact with ASN 766 (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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762A PRO 3.1 18.1 + - - +
763A LYS* 4.4 2.2 - - - +
764A TYR 3.2 0.4 - - - -
765A SER* 1.3 76.9 - - - +
767A GLY* 1.3 61.4 + - - +
768A ASN* 3.3 8.4 + - + +
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Residues in contact with GLY 767 (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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677A LYS* 3.3 20.4 + - - -
763A LYS 3.3 1.0 + - - -
764A TYR* 3.3 13.8 + - - -
765A SER 3.4 0.6 - - - -
766A ASN* 1.3 78.1 - - - +
768A ASN* 1.3 57.4 + - - +
769A ILE* 2.9 17.7 + - - +
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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