Contacts of the helix formed by residues 1432 - 1446 (chain H) in PDB entry 2BT4
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 THR1432 (chain H).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1420H LEU* 3.4 17.7 - - - +
1421H GLY* 4.9 3.1 - - - -
1422H GLN* 5.9 2.5 - - + -
1430H SER 4.7 5.4 - - - +
1431H ASP* 1.3 77.1 - - - +
1433H LEU* 1.3 65.3 + - - +
1434H ALA* 3.4 10.7 + - - +
1435H ASP* 3.1 31.7 + - - +
1436H VAL* 3.0 21.8 + - - +
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Residues in contact with LEU1433 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1413H ASN* 4.1 15.5 - - + +
1417H LEU* 3.6 36.6 - - + +
1418H ASN* 4.1 11.9 + - - +
1420H LEU* 4.0 23.0 + - + +
1432H THR* 1.3 75.0 - - - +
1434H ALA* 1.3 57.2 + - - +
1436H VAL* 3.2 8.6 + - + +
1437H GLU* 2.9 27.8 + - - +
1453H PHE* 3.8 20.5 - - + -
1455H GLN* 3.7 35.4 - - + -
1538H TYR* 4.7 4.5 - - - +
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Residues in contact with ALA1434 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1432H THR* 3.2 10.1 + - - +
1433H LEU* 1.3 77.2 - - - +
1435H ASP* 1.3 58.2 + - - +
1437H GLU* 3.3 14.6 + - - +
1438H ALA* 3.0 27.2 + - - +
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Residues in contact with ASP1435 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1430H SER 4.7 1.0 - - - +
1431H ASP* 3.7 23.1 - - + +
1432H THR* 3.1 38.3 + - - +
1434H ALA* 1.3 76.3 - - - +
1436H VAL* 1.3 59.9 + - - +
1438H ALA* 3.2 7.6 + - - +
1439H LEU* 3.0 29.8 + - - +
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Residues in contact with VAL1436 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1420H LEU* 3.8 13.0 - - + -
1431H ASP* 4.6 3.1 - - + -
1432H THR 3.0 14.3 + - - +
1433H LEU* 3.2 10.7 + - + +
1435H ASP* 1.3 73.9 - - - +
1437H GLU* 1.3 67.5 + - - +
1439H LEU* 3.1 10.2 + - + +
1440H CYS* 2.8 23.1 + - - -
1453H PHE* 3.8 19.3 - - + -
1535H VAL* 3.5 34.5 - - + +
1538H TYR* 3.9 35.0 - - + -
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Residues in contact with GLU1437 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1433H LEU 2.9 12.8 + - - +
1434H ALA* 3.5 15.4 - - - +
1436H VAL* 1.3 76.8 - - - +
1438H ALA* 1.3 63.1 + - - +
1440H CYS* 3.2 3.1 + - - +
1441H VAL* 3.0 33.6 + - + +
1451H VAL* 5.2 0.8 - - + +
1453H PHE* 3.6 54.2 + - + +
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Residues in contact with ALA1438 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1434H ALA 3.0 13.4 + - - +
1435H ASP* 3.6 11.0 - - - +
1436H VAL 3.2 0.2 - - - -
1437H GLU* 1.3 76.6 - - - +
1439H LEU* 1.3 62.0 + - - +
1441H VAL* 3.4 10.4 + - - +
1442H LYS* 3.2 21.8 + - - +
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Residues in contact with LEU1439 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1431H ASP* 6.3 0.4 - - - -
1435H ASP 3.0 14.2 + - - +
1436H VAL* 3.3 12.8 - - + +
1438H ALA* 1.3 75.9 - - - +
1440H CYS* 1.3 57.9 + - - +
1442H LYS* 3.3 36.1 + - - +
1443H ALA* 2.9 29.9 + - - +
1535H VAL* 4.0 35.2 - - + +
1536H GLN* 4.9 1.8 - - - +
1538H TYR* 5.9 0.7 - - + -
1539H VAL* 4.0 25.6 - - + -
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Residues in contact with CYS1440 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1411H ILE* 3.6 33.4 - - + -
1436H VAL* 2.8 19.6 + - - +
1437H GLU* 3.4 9.9 - - - +
1439H LEU* 1.3 71.2 - - - +
1441H VAL* 1.3 66.9 + - - +
1443H ALA* 3.8 5.9 - - - +
1444H ALA* 2.9 26.7 + - - +
1451H VAL* 3.7 6.0 - - + +
1453H PHE* 4.2 10.8 - - + -
1538H TYR* 3.7 35.9 - - - -
1539H VAL* 5.7 0.2 - - - -
1542H VAL* 4.5 6.1 - - - +
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Residues in contact with VAL1441 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1437H GLU* 3.0 27.3 + - + +
1438H ALA* 3.6 10.8 - - - +
1440H CYS* 1.3 76.1 - - - +
1442H LYS* 1.3 65.9 + - + +
1444H ALA* 3.9 1.8 - - - +
1445H ALA* 3.0 24.7 + - + +
1449H GLY 4.9 0.7 - - - +
1450H THR* 5.8 1.0 - - - +
1451H VAL* 3.9 22.7 - - + +
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Residues in contact with LYS1442 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1438H ALA 3.2 11.0 + - - +
1439H LEU* 3.6 33.8 - - - +
1440H CYS 3.2 0.2 - - - -
1441H VAL* 1.3 81.5 - - + +
1443H ALA* 1.3 68.9 + - + +
1445H ALA* 3.3 6.0 + - - +
1446H ALA* 2.9 25.4 + - + +
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Residues in contact with ALA1443 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1439H LEU 2.9 17.4 + - - +
1440H CYS* 3.9 5.6 - - - +
1442H LYS* 1.3 80.6 - - + +
1444H ALA* 1.3 61.6 + - - +
1446H ALA* 3.3 7.1 + - - +
1447H HIS* 2.9 29.9 - - + +
1539H VAL* 4.0 33.0 - - + +
1542H VAL* 3.8 16.6 - - + -
1543H GLU* 6.0 0.2 - - + -
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Residues in contact with ALA1444 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1404H LEU* 5.3 0.4 - - - -
1409H ILE* 4.3 4.9 - - + -
1440H CYS 2.9 17.7 + - - +
1441H VAL 3.9 2.9 - - - +
1443H ALA* 1.3 74.8 - - - +
1445H ALA* 1.3 63.8 + - - +
1447H HIS* 3.0 12.0 + - - +
1448H GLY 3.0 0.3 + - - -
1449H GLY* 2.8 40.4 + - - +
1450H THR* 4.0 3.8 - - - +
1451H VAL* 3.7 20.2 - - + -
1542H VAL* 3.6 16.3 - - + +
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Residues in contact with ALA1445 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1441H VAL* 3.0 20.3 + - + +
1442H LYS* 3.8 6.5 - - - +
1444H ALA* 1.3 71.3 - - - +
1446H ALA* 1.3 59.1 + - - +
1447H HIS 2.9 10.4 + - - -
1448H GLY* 3.0 12.2 + - - +
1449H GLY 3.4 12.5 + - - +
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Residues in contact with ALA1446 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1442H LYS* 2.9 18.5 + - + +
1443H ALA* 3.6 9.2 - - - +
1444H ALA 3.1 0.4 - - - -
1445H ALA* 1.3 76.0 - - - +
1447H HIS* 1.4 71.4 + - + +
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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