Contacts of the helix formed by residues 145 - 156 (chain 1) in PDB entry 1KZC
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 ASN 145 (chain 1).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1431 PRO* 3.4 1.7 - - - +
1441 ARG* 1.3 85.2 + - - +
1461 ALA* 1.3 63.0 + - - +
1471 GLU* 3.0 23.9 + - - +
1481 GLU* 2.8 49.4 + - - +
1491 ASN* 3.0 19.9 + - - +
1831 TYR* 3.7 18.4 - - - -
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Residues in contact with ALA 146 (chain 1).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1451 ASN* 1.3 75.2 - - - +
1471 GLU* 1.3 74.1 + - - +
1491 ASN* 3.6 3.0 - - - +
1501 ARG* 3.1 23.6 + - - +
1831 TYR* 3.4 27.6 - - + +
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Residues in contact with GLU 147 (chain 1).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1451 ASN* 3.0 23.6 + - - +
1461 ALA* 1.3 86.4 + - - +
1481 GLU* 1.3 66.7 + - + +
1501 ARG* 3.3 7.7 + - - +
1511 ALA* 3.1 21.0 + - - +
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Residues in contact with GLU 148 (chain 1).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1151 LYS* 2.9 45.6 + - + +
1171 PHE* 4.3 14.7 - - + -
1421 THR 3.6 5.0 - - - +
1431 PRO* 4.0 9.0 - - + -
1441 ARG* 2.9 21.5 + - - +
1451 ASN* 2.8 31.6 + - - +
1471 GLU* 1.3 75.2 - - + +
1491 ASN* 1.3 66.1 + - - +
1511 ALA* 3.2 8.2 + - - +
1521 ILE* 3.0 29.5 + - - +
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Residues in contact with ASN 149 (chain 1).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1431 PRO* 3.5 19.2 - - + +
1451 ASN 3.0 10.0 + - - +
1461 ALA 3.6 9.0 - - - +
1471 GLU 3.2 0.2 - - - -
1481 GLU* 1.3 77.9 - - - +
1501 ARG* 1.3 58.2 + - - +
1521 ILE* 3.4 4.4 + - - +
1531 GLN* 3.0 30.0 + - - +
1831 TYR* 3.6 19.2 + - - +
1851 ASN* 3.5 8.5 - - - +
2031 LEU* 3.7 8.9 - - - +
2071 GLY* 2.8 30.7 + - - -
2091 TRP* 2.8 28.3 + - - -
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Residues in contact with ARG 150 (chain 1).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1461 ALA 3.1 14.0 + - - +
1471 GLU* 3.6 6.5 - - - +
1491 ASN* 1.3 79.3 - - - +
1511 ALA* 1.3 64.7 + - - +
1531 GLN* 3.2 37.6 + - - +
1541 ASN* 3.0 59.1 + - - +
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Residues in contact with ALA 151 (chain 1).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1171 PHE* 4.0 23.0 - - + +
1471 GLU 3.1 14.3 + - - +
1481 GLU* 3.6 9.0 - - - +
1501 ARG* 1.3 77.4 - - - +
1521 ILE* 1.3 61.3 + - - +
1541 ASN* 3.5 8.8 + - - +
1551 VAL* 3.2 22.2 + - - +
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Residues in contact with ILE 152 (chain 1).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1171 PHE* 3.6 30.3 - - + -
1411 ALA* 3.6 20.2 - - + -
1431 PRO* 3.7 33.2 - - + -
1481 GLU 3.0 17.9 + - - +
1491 ASN* 3.7 4.3 - - - +
1511 ALA* 1.3 72.8 - - - +
1531 GLN* 1.3 67.6 + - - +
1551 VAL* 3.0 24.3 - - - +
1561 ALA* 3.1 8.1 + - - +
1621 LEU* 4.1 11.0 - - + -
2031 LEU* 3.8 15.0 - - + -
2211 VAL* 3.8 26.2 - - + -
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Residues in contact with GLN 153 (chain 1).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1491 ASN* 3.0 17.9 + - - +
1501 ARG* 3.2 41.5 + - - +
1521 ILE* 1.3 75.7 - - - +
1541 ASN* 1.3 58.8 + - - +
1561 ALA* 2.8 29.5 + - - +
2031 LEU* 3.4 16.3 - - + +
2041 LEU 4.3 2.7 - - - +
2051 THR* 2.9 28.5 + - - +
2061 ASN* 3.2 14.7 + - - +
2071 GLY* 3.4 24.8 - - - +
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Residues in contact with ASN 154 (chain 1).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1501 ARG* 3.0 64.2 + - - +
1511 ALA* 3.7 8.4 - - - +
1521 ILE 3.3 0.2 - - - -
1531 GLN* 1.3 78.2 - - - +
1551 VAL* 1.3 59.8 + - - +
1561 ALA 3.6 3.5 + - - +
1571 LYS* 5.8 1.9 - - - +
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Residues in contact with VAL 155 (chain 1).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1171 PHE* 3.8 22.0 - - + +
1181 MET* 4.0 0.9 - - - -
1191 SER* 3.2 32.0 - - - +
1511 ALA 3.2 9.8 + - - +
1521 ILE* 3.0 26.0 - - - +
1541 ASN* 1.3 79.6 - - - +
1561 ALA* 1.3 59.4 + - - +
1571 LYS* 3.7 7.2 + - - +
2211 VAL* 3.7 26.9 - - + -
1372 GLN* 4.7 8.1 + - - +
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Residues in contact with ALA 156 (chain 1).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1191 SER* 4.0 7.9 - - - +
1521 ILE 3.1 16.5 + - - +
1531 GLN* 2.8 23.5 + - - +
1541 ASN* 4.0 3.5 - - - +
1551 VAL* 1.3 79.6 - - - +
1571 LYS* 1.3 62.9 + - - +
1581 ASP 3.3 17.9 + - - +
1601 ALA* 4.2 7.2 - - + +
2031 LEU* 5.0 6.1 - - + +
2051 THR* 6.0 0.3 - - - +
2191 LEU* 5.3 0.4 - - + -
2211 VAL* 3.9 17.3 - - + -
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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