Contacts of the strand formed by residues 1622 - 1630 (chain B) in PDB entry 6BTY
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 THR1622 (chain B).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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1579B MET 4.0 4.5 - - - +
1580B HIS* 3.7 17.7 - - + +
1613B LYS* 4.4 8.7 + - - -
1615B SER* 4.8 5.1 + - - -
1620B ASN 3.7 4.1 + - - -
1621B PRO* 1.3 73.6 - - - +
1623B PHE* 1.3 68.9 + - - +
1624B ASN* 3.7 25.8 - - - +
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Residues in contact with PHE1623 (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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1578B VAL* 3.6 30.1 - - + +
1579B MET 2.9 7.4 + - - +
1580B HIS* 4.8 0.2 - - - -
1581B ILE* 3.9 18.6 - - + -
1594B PRO* 3.6 21.3 - - + -
1595B TYR* 4.2 5.2 - - - -
1596B VAL* 4.0 5.6 - - + -
1612B THR* 3.5 15.7 - - - -
1613B LYS* 3.3 44.0 + - + +
1615B SER* 4.0 11.4 - - - -
1621B PRO* 3.5 33.9 - - + -
1622B THR* 1.3 79.7 - - - +
1624B ASN* 1.3 73.1 + - - +
1625B GLU* 3.1 24.6 + - + +
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Residues in contact with ASN1624 (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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1628A VAL* 3.5 24.5 - - + +
1630A SER* 3.4 31.5 + - - +
1577B MET* 4.0 10.3 - - - +
1578B VAL 3.0 12.3 + - - -
1579B MET* 3.0 30.3 + - - +
1580B HIS* 5.4 0.7 + - - -
1622B THR* 3.7 20.9 - - - +
1623B PHE* 1.3 76.5 - - - +
1625B GLU* 1.3 60.4 + - - +
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Residues in contact with GLU1625 (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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1628A VAL* 4.8 0.9 - - - -
1576B ILE 3.7 0.5 - - - +
1577B MET* 3.5 3.4 - - - -
1578B VAL* 2.8 36.4 + - - +
1611B LYS 4.4 2.9 - - - +
1612B THR* 3.3 26.8 - - + -
1613B LYS* 2.8 58.6 + - - +
1623B PHE* 3.5 15.9 - - + +
1624B ASN* 1.3 78.9 - - - +
1626B MET* 1.3 63.1 + - - +
1627B LEU* 3.8 2.7 + - + +
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Residues in contact with MET1626 (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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1575A PHE* 3.7 33.0 - - + -
1626A MET* 3.6 44.6 + - + +
1628A VAL* 3.8 11.4 - - + +
1575B PHE* 3.6 37.0 - - + -
1576B ILE 3.6 20.4 - - - -
1577B MET* 3.7 15.5 - - + +
1625B GLU* 1.3 75.0 - - - +
1627B LEU* 1.3 65.6 + - - +
1628B VAL* 3.9 15.1 + - + +
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Residues in contact with LEU1627 (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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1574B LEU 3.8 1.7 - - - +
1575B PHE* 3.8 1.6 - - - -
1576B ILE* 2.8 52.7 + - + +
1578B VAL* 3.8 22.2 - - + -
1596B VAL* 5.0 2.2 - - + -
1598B THR* 3.6 37.9 - - + +
1610B ARG* 4.2 23.6 - - + +
1611B LYS* 3.9 27.4 - - - +
1612B THR* 4.3 11.9 - - + -
1625B GLU* 4.6 4.5 - - + +
1626B MET* 1.3 80.5 - - - +
1628B VAL* 1.3 60.7 + - - +
1629B TYR* 5.0 2.5 - - + -
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Residues in contact with VAL1628 (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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1577A MET* 4.4 9.0 - - + -
1624A ASN 3.6 22.0 - - - +
1625A GLU* 4.7 0.4 - - - -
1626A MET* 3.8 37.0 - - + +
1573B THR* 3.6 22.7 - - + -
1574B LEU 3.7 2.2 - - - -
1575B PHE* 4.1 9.9 - - + -
1610B ARG* 2.8 34.2 + - - +
1626B MET* 3.9 10.0 + - + +
1627B LEU* 1.3 76.5 - - - +
1629B TYR* 1.3 65.3 + - - +
1630B SER* 3.6 13.0 + - - +
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Residues in contact with TYR1629 (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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1572B GLY 4.6 0.5 - - - +
1573B THR* 3.6 2.7 - - - +
1574B LEU* 2.9 57.9 + - + +
1576B ILE* 4.3 12.6 - - + -
1598B THR* 2.8 34.0 + - - -
1599B TYR* 3.7 2.6 + - - -
1600B LEU* 3.7 26.5 - - + -
1608B SER* 2.6 43.4 + - - -
1610B ARG* 3.4 30.0 - - + +
1627B LEU* 4.8 2.9 - - + -
1628B VAL* 1.3 73.2 - - - +
1630B SER* 1.3 62.8 + - - +
1632B TYR* 4.0 21.0 - + + +
1642B LEU* 4.0 16.6 - - + -
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Residues in contact with SER1630 (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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1577A MET* 5.9 0.3 - - - +
1624A ASN* 3.7 29.4 + - - +
1572B GLY 4.7 0.2 - - - -
1573B THR* 4.4 13.2 + - - +
1610B ARG* 4.9 4.0 - - - +
1628B VAL* 3.6 18.6 + - - +
1629B TYR* 1.3 73.6 - - - +
1631B GLY* 1.3 60.4 + - - +
1632B TYR* 3.3 19.9 - - - -
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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