Contacts of the strand formed by residues 1622 - 1630 (chain A) 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 A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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1579A MET 3.9 5.6 - - - +
1580A HIS* 3.6 20.3 + - + +
1582A LYS* 5.6 2.9 + - - -
1615A SER* 4.4 8.7 + - - -
1620A ASN 3.7 4.3 + - - -
1621A PRO* 1.3 72.4 - - - +
1623A PHE* 1.3 68.0 + - - +
1624A ASN* 3.6 26.9 - - - +
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Residues in contact with PHE1623 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1578A VAL* 3.6 29.8 - - + +
1579A MET 2.9 11.1 + - - -
1580A HIS* 4.7 0.4 - - - -
1581A ILE* 3.8 19.3 - - + -
1594A PRO* 3.6 26.0 - - + -
1595A TYR* 4.1 4.3 - - - -
1596A VAL* 3.9 6.3 - - + -
1612A THR* 3.5 14.8 - - - -
1613A LYS 3.4 24.0 - - - -
1614A ILE 5.4 0.2 - - - -
1615A SER* 3.9 11.2 - - - -
1621A PRO* 3.6 33.7 - - + -
1622A THR* 1.3 79.4 - - - +
1624A ASN* 1.3 71.7 + - - +
1625A GLU* 3.1 28.4 + - + +
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Residues in contact with ASN1624 (chain A).
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* 3.9 12.7 - - + +
1578A VAL 3.0 12.7 + - - -
1579A MET* 3.1 28.5 + - - +
1580A HIS* 4.9 2.4 - - - -
1622A THR* 3.6 21.2 - - - +
1623A PHE* 1.3 78.5 - - - +
1625A GLU* 1.3 59.7 - - - +
1628B VAL* 3.6 22.6 - - + +
1630B SER* 3.7 28.2 + - - +
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Residues in contact with GLU1625 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1576A ILE 3.8 0.5 - - - +
1577A MET* 3.6 2.9 - - - -
1578A VAL* 2.8 36.1 + - - +
1611A LYS 4.7 0.3 - - - +
1612A THR* 3.4 24.9 - - + -
1613A LYS* 3.0 57.7 + - + +
1623A PHE* 3.5 26.2 - - + +
1624A ASN* 1.3 78.5 - - - +
1626A MET* 1.3 62.6 + - - +
1627A LEU* 3.9 3.3 + - + +
1628B VAL* 4.7 1.8 - - - -
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Residues in contact with MET1626 (chain A).
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* 3.6 39.3 - - + -
1576A ILE 3.6 21.5 - - - -
1577A MET* 3.8 12.1 - - + +
1625A GLU* 1.3 73.8 - - - +
1627A LEU* 1.3 68.7 + - - +
1628A VAL* 3.9 8.3 + - + +
1570B ARG* 4.1 11.2 - - - +
1575B PHE* 3.5 31.9 - - + -
1626B MET* 3.6 45.8 + - + +
1628B VAL* 3.8 11.9 - - + +
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Residues in contact with LEU1627 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1574A LEU 4.0 0.7 - - - +
1575A PHE* 3.8 1.0 - - - -
1576A ILE* 2.8 49.3 + - + +
1578A VAL* 4.0 21.8 - - + -
1596A VAL* 4.8 2.2 - - + -
1598A THR* 3.6 35.9 - - + +
1610A ARG* 4.2 23.3 - - + +
1611A LYS 3.7 28.0 - - - +
1612A THR* 4.1 14.8 - - + +
1625A GLU* 5.2 2.2 - - + +
1626A MET* 1.3 82.3 - - - +
1628A VAL* 1.3 60.9 + - - +
1629A TYR* 5.1 2.0 - - + -
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Residues in contact with VAL1628 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1573A THR* 3.5 25.6 - - + -
1574A LEU 3.7 2.7 - - - -
1575A PHE* 4.3 8.3 - - + -
1610A ARG* 2.9 34.2 + - - +
1626A MET* 3.9 7.4 + - + +
1627A LEU* 1.3 78.4 - - - +
1629A TYR* 1.3 64.3 + - - +
1630A SER* 3.8 13.2 + - - +
1577B MET* 4.4 11.4 - - - -
1624B ASN* 3.5 26.2 - - - +
1625B GLU* 4.8 0.7 - - - -
1626B MET* 3.8 32.5 - - + +
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Residues in contact with TYR1629 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1572A GLY 4.4 0.7 - - - +
1573A THR* 3.6 2.8 - - - -
1574A LEU* 2.9 55.1 + - + +
1576A ILE* 4.5 12.1 - - + -
1598A THR* 2.8 34.5 + - - -
1599A TYR* 3.7 2.3 - - - -
1600A LEU* 3.6 33.7 - - + -
1608A SER* 2.7 41.0 + - - -
1610A ARG* 3.4 32.8 - - + +
1627A LEU* 5.1 2.5 - - + -
1628A VAL* 1.3 72.3 - - - +
1630A SER* 1.3 63.5 - - - +
1631A GLY 4.1 0.2 + - - -
1632A TYR* 4.1 15.5 + + + +
1642A LEU* 4.0 16.6 - - + -
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Residues in contact with SER1630 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1573A THR* 4.2 13.5 + - - +
1610A ARG* 4.8 5.3 + - - +
1628A VAL* 3.8 11.6 + - - +
1629A TYR* 1.3 71.9 - - - +
1631A GLY* 1.3 64.2 + - - +
1632A TYR* 3.4 16.2 - - - -
1624B ASN* 3.4 40.0 + - - +
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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