Contacts of the helix formed by residues 746 - 755 (chain B) in PDB entry 7CN9
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 SER 746 (chain B).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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743B CYS* 2.1 34.8 + - - +
744B GLY 3.6 1.0 + - - -
745B ASP* 1.3 76.5 + - - +
747B THR* 1.3 64.6 + - - +
748B GLU* 3.3 16.8 - - - -
749B CYS* 3.5 17.1 - - - +
750B SER* 3.0 27.6 + - - -
977B LEU* 3.7 10.1 - - - +
978B ASN* 4.0 8.5 + - - -
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Residues in contact with THR 747 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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745B ASP 5.7 0.7 - - - +
746B SER* 1.3 69.0 - - - +
748B GLU* 1.3 99.8 + - - +
749B CYS 2.9 2.1 + - - -
750B SER* 3.0 5.7 + - - -
751B ASN* 2.8 34.1 + - - +
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Residues in contact with GLU 748 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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746B SER* 3.3 15.8 - - - -
747B THR* 1.3 114.7 + - - +
749B CYS* 1.3 64.8 + - + +
751B ASN* 3.3 13.3 + - - +
752B LEU* 2.9 40.2 + - + +
977B LEU* 5.2 1.7 - - + +
981B LEU* 3.7 28.9 - - + +
990B GLU* 4.8 14.1 - - - +
993B ILE* 4.6 21.5 - - + -
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Residues in contact with CYS 749 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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742B ILE* 3.2 23.1 - - - -
743B CYS* 2.0 57.4 - - - -
746B SER* 3.5 19.9 + - - +
747B THR 2.9 2.0 + - - -
748B GLU* 1.3 82.7 - - + +
750B SER* 1.3 55.2 + - - +
752B LEU* 3.1 6.6 + - - +
753B LEU* 2.9 26.6 + - - +
977B LEU* 4.2 8.7 - - + -
993B ILE* 5.3 8.7 - - + -
997B ILE* 4.8 4.4 - - + +
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Residues in contact with SER 750 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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739B THR* 4.9 8.3 + - - +
743B CYS* 3.0 22.0 - - - +
746B SER 3.0 11.4 + - - -
747B THR* 3.0 5.1 + - - -
749B CYS* 1.3 73.8 - - - +
751B ASN* 1.3 67.7 + - - +
753B LEU* 3.8 5.1 - - - +
754B LEU* 3.0 31.7 + - - +
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Residues in contact with ASN 751 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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747B THR* 2.8 22.2 + - - +
748B GLU* 3.3 20.0 - - - +
750B SER* 1.3 77.7 - - - +
752B LEU* 1.3 66.6 + - + +
754B LEU* 3.4 3.2 + - - +
755B GLN* 2.9 25.5 + - - +
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Residues in contact with LEU 752 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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971A GLY* 5.8 2.9 - - - +
748B GLU* 2.9 32.4 + - + +
749B CYS* 3.6 4.3 - - - +
751B ASN* 1.3 85.7 - - + +
753B LEU* 1.3 58.8 + - - +
755B GLN* 3.0 38.7 - - + +
756B TYR* 3.4 15.2 - - + -
990B GLU* 3.9 25.4 - - - +
993B ILE* 5.7 7.2 - - + -
994B ASP* 5.0 16.2 - - + +
997B ILE* 4.7 20.1 - - + +
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Residues in contact with LEU 753 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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738B CYS* 3.5 40.6 - - + +
739B THR* 4.4 5.2 - - + +
742B ILE* 4.5 15.5 - - + -
743B CYS* 5.5 1.1 - - - -
749B CYS* 2.9 16.3 + - - +
750B SER* 3.1 7.5 + - - +
752B LEU* 1.3 75.2 - - - +
754B LEU* 1.3 65.2 + - + +
755B GLN 2.9 4.3 - - - -
756B TYR* 2.5 37.2 + - + +
757B GLY 4.4 7.4 - - - +
759B PHE* 6.3 0.4 - - + -
760B CYS* 3.5 30.1 - - + +
997B ILE* 5.2 8.5 - - + -
1001B LEU* 6.0 7.4 - - + -
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Residues in contact with LEU 754 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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739B THR* 5.7 8.1 - - + -
750B SER* 3.0 21.0 + - - +
751B ASN* 3.6 3.6 - - - +
753B LEU* 1.3 85.9 - - + +
755B GLN* 1.3 62.5 + - - +
756B TYR 3.1 0.7 - - - +
757B GLY* 3.8 25.4 + - - +
758B SER* 5.6 1.1 - - - -
760B CYS* 5.6 4.3 - - - -
761B THR* 5.6 7.4 - - + -
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Residues in contact with GLN 755 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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968A SER* 3.6 13.0 + - - -
969A ASN* 3.0 32.0 + - - +
970A PHE* 3.1 1.4 + - - -
971A GLY* 3.3 30.5 - - - +
972A ALA 5.3 1.0 + - - -
751B ASN 2.9 8.1 + - - +
752B LEU* 3.0 40.0 - - + +
754B LEU* 1.3 78.4 - - - +
756B TYR* 1.3 66.9 + - + +
757B GLY 3.4 3.4 + - - -
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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