Contacts of the helix formed by residues 1535 - 1550 (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 VAL1535 (chain H).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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1420H LEU* 4.3 13.7 - - + -
1428H TYR 4.5 12.5 + - - +
1429H GLY* 6.1 0.2 - - - -
1431H ASP* 3.5 30.1 - - + +
1436H VAL* 3.5 31.4 - - + -
1439H LEU* 4.0 24.3 - - + +
1507H ILE* 4.2 8.0 - - + +
1534H GLY* 1.3 68.1 - - - -
1536H GLN* 1.3 67.4 + - - +
1537H GLY 3.0 2.9 + - - -
1538H TYR* 3.2 28.2 + - + +
1539H VAL 4.0 0.5 + - - -
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Residues in contact with GLN1536 (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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1143F GLU* 3.4 23.6 + - - +
1144F ARG* 2.6 41.2 + - - +
1147F ALA* 3.3 15.0 - - - +
1439H LEU* 5.0 2.0 - - - -
1533H CYS 3.2 9.9 - - - +
1534H GLY* 3.0 0.8 - - - -
1535H VAL* 1.3 81.4 - - - +
1537H GLY* 1.3 63.4 + - - +
1539H VAL* 2.9 28.4 + - + +
1540H PHE* 3.0 42.1 + - + -
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Residues in contact with GLY1537 (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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1505H VAL* 3.5 18.5 - - - +
1506H HIS 5.9 0.4 - - - -
1530H VAL* 4.0 23.1 - - - +
1533H CYS* 3.2 10.4 + - - -
1534H GLY 3.0 12.0 + - - -
1535H VAL 3.0 2.4 - - - -
1536H GLN* 1.3 79.3 - - - +
1538H TYR* 1.3 55.8 + - - +
1540H PHE* 3.3 6.3 + - - +
1541H GLY 2.8 23.2 + - - -
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Residues in contact with TYR1538 (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* 4.0 24.9 - - + -
1413H ASN* 2.8 29.0 + - - -
1417H LEU* 4.2 3.6 - - - +
1433H LEU* 4.7 2.4 - - - +
1436H VAL* 3.9 28.0 - - + -
1439H LEU* 5.9 0.9 - - + -
1440H CYS* 3.7 16.4 - - - -
1477H VAL* 4.4 12.2 - - + +
1479H ASN* 3.1 33.1 + - + +
1505H VAL* 4.2 15.7 - - + -
1507H ILE* 3.9 28.6 - - + +
1535H VAL* 3.2 22.1 + - - +
1536H GLN 3.2 0.8 - - - -
1537H GLY* 1.3 71.4 - - - +
1539H VAL* 1.3 61.9 + - + +
1541H GLY* 3.1 2.8 + - - -
1542H VAL* 2.9 33.2 + - - +
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Residues in contact with VAL1539 (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* 4.0 36.3 - - + +
1440H CYS* 5.9 0.2 - - - -
1443H ALA* 4.0 28.9 - - + -
1536H GLN* 2.9 21.4 + - + +
1538H TYR* 1.3 75.7 - - + +
1540H PHE* 1.3 68.5 + - + +
1542H VAL* 3.1 4.6 + - - +
1543H GLU* 2.9 41.2 + - - +
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Residues in contact with PHE1540 (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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1130F VAL* 5.0 0.4 - - + -
1140F PHE* 3.4 53.9 - + + -
1143F GLU* 3.3 28.5 - - + -
1144F ARG* 3.8 6.5 - - + -
1530H VAL* 4.1 17.7 - - + -
1533H CYS* 3.9 26.2 - - + -
1536H GLN* 3.0 44.0 + - + -
1537H GLY* 3.5 13.5 - - - +
1539H VAL* 1.3 76.5 - - + +
1541H GLY* 1.3 65.4 + - - +
1543H GLU* 3.2 12.4 + - - +
1544H ARG* 2.8 24.3 + - - +
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Residues in contact with GLY1541 (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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1477H VAL* 3.7 15.7 - - - -
1503H VAL* 3.9 25.4 - - - +
1505H VAL* 4.6 0.4 - - - +
1530H VAL* 5.0 0.4 - - - +
1537H GLY 2.8 15.4 + - - -
1538H TYR 3.1 5.3 + - - -
1540H PHE* 1.3 76.5 - - - +
1542H VAL* 1.3 61.1 + - - +
1544H ARG* 3.1 3.5 + - - +
1545H ILE* 2.9 27.4 + - - +
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Residues in contact with VAL1542 (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* 5.6 0.4 - - + -
1409H ILE* 3.8 20.3 - - + +
1411H ILE* 4.0 26.9 - - + -
1440H CYS* 4.5 12.1 - - - +
1443H ALA* 3.8 13.5 - - + +
1444H ALA* 3.6 33.0 - - - +
1447H HIS* 4.7 4.0 - - + -
1451H VAL* 5.0 0.4 - - + -
1477H VAL* 4.0 6.0 - - + +
1538H TYR 2.9 18.6 + - - +
1539H VAL 3.5 6.3 - - - +
1541H GLY* 1.3 74.3 - - - +
1543H GLU* 1.3 57.9 + - - +
1545H ILE* 3.2 3.9 + - - +
1546H ALA* 2.9 29.0 + - + +
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Residues in contact with GLU1543 (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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1136F GLN* 3.4 13.7 + - - +
1140F PHE* 3.3 19.7 - - + -
1143F GLU* 2.5 37.5 - - - +
1443H ALA* 6.0 0.2 - - + -
1447H HIS* 3.7 29.9 + - + +
1539H VAL* 2.9 33.4 + - + +
1540H PHE* 3.5 9.9 - - - +
1542H VAL* 1.3 75.7 - - + +
1544H ARG* 1.3 62.3 + - - +
1546H ALA* 3.4 7.5 + - - +
1547H ALA* 3.1 17.2 + - - +
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Residues in contact with ARG1544 (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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1132F GLY 4.5 5.1 + - - -
1133F CYS* 3.3 49.4 + - - +
1134F GLY* 3.9 6.7 - - - +
1136F GLN* 2.9 35.3 + - - +
1140F PHE* 3.9 8.3 - - + -
1503H VAL* 3.7 25.1 - - + -
1527H ASP* 5.9 2.4 - - + +
1528H GLY* 5.8 0.9 - - - +
1540H PHE 2.8 17.1 + - - +
1541H GLY* 3.5 4.3 - - - +
1543H GLU* 1.3 74.1 - - - +
1545H ILE* 1.3 68.1 + - - +
1547H ALA* 3.1 11.8 + - - +
1548H LEU* 3.0 54.4 + - + +
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Residues in contact with ILE1545 (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* 4.3 7.6 - - + -
1409H ILE* 4.0 28.3 - - + -
1474H CYS* 4.1 9.4 - - - +
1475H GLY* 4.1 14.1 - - - -
1476H ILE 3.7 15.9 - - - +
1477H VAL* 3.9 15.3 - - + -
1501H PRO* 3.6 39.9 - - + +
1503H VAL* 4.0 13.9 - - + -
1541H GLY 2.9 18.4 + - - +
1542H VAL 3.2 6.3 + - - +
1544H ARG* 1.3 75.0 - - - +
1546H ALA* 1.3 58.8 + - - +
1548H LEU* 3.0 1.2 + - - +
1549H ALA* 2.7 30.0 + - + +
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Residues in contact with ALA1546 (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* 3.7 21.3 - - + +
1447H HIS* 3.9 35.0 - - + +
1542H VAL* 2.9 16.8 + - + +
1543H GLU 3.6 6.3 - - - +
1545H ILE* 1.3 77.9 - - - +
1547H ALA* 1.3 60.2 + - - +
1549H ALA 4.0 0.3 - - - -
1550H GLY* 3.1 21.5 + - - -
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Residues in contact with ALA1547 (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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1136F GLN* 3.3 32.5 - - - +
1543H GLU 3.1 10.4 + - - +
1544H ARG* 3.1 12.8 + - - +
1546H ALA* 1.3 76.6 - - - +
1548H LEU* 1.3 63.9 + - - +
1550H GLY* 3.4 15.8 + - - +
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Residues in contact with LEU1548 (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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1501H PRO* 3.9 31.0 - - + +
1503H VAL* 5.4 2.0 - - + -
1527H ASP* 4.8 16.2 - - + -
1544H ARG* 3.0 63.9 + - + +
1545H ILE 3.8 2.2 - - - +
1547H ALA* 1.3 75.6 - - - +
1549H ALA* 1.3 60.7 + - - +
1550H GLY 3.1 10.7 + - - +
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Residues in contact with ALA1549 (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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1402H ARG 4.0 18.3 - - - +
1403H SER* 4.0 18.4 - - - -
1404H LEU* 3.9 23.6 + - + +
1474H CYS* 4.2 15.5 - - + +
1501H PRO* 4.5 5.8 - - + -
1545H ILE 2.7 19.7 + - - +
1546H ALA 4.0 0.4 - - - -
1548H LEU* 1.3 71.4 - - - +
1550H GLY* 1.3 60.3 + - - +
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Residues in contact with GLY1550 (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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1546H ALA 3.1 16.6 + - - -
1547H ALA* 3.4 14.4 + - - +
1548H LEU 3.1 6.1 - - - +
1549H ALA* 1.3 82.9 - - - +
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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