Contacts of the strand formed by residues 1318 - 1328 (chain B) in PDB entry 2WIN
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 GLY1318 (chain B).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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924B THR* 3.2 25.8 - - - +
925B LEU* 3.0 22.6 + - - -
961B GLN 3.5 10.3 - - - -
962B GLY* 4.4 2.9 - - - -
963B THR* 4.0 5.8 - - - -
1272B LEU* 4.1 10.7 - - - +
1317B GLN* 1.3 75.5 - - - +
1319B THR* 1.3 64.1 + - - -
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Residues in contact with THR1319 (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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922B VAL* 6.3 2.2 - - + -
923B ARG 4.3 11.0 - - - +
924B THR* 4.7 6.0 + - - +
925B LEU* 4.6 3.4 - - - +
959B LEU* 3.8 2.7 - - + +
960B LEU* 3.9 4.2 - - - +
961B GLN* 2.8 45.7 + - + +
963B THR* 3.1 19.4 + - - -
1318B GLY* 1.3 74.5 + - - -
1320B LEU* 1.3 70.2 + - - +
1321B SER* 4.1 6.7 - - - +
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Residues in contact with LEU1320 (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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921B ALA 4.1 1.6 - - - +
922B VAL* 3.8 3.1 - - - -
923B ARG* 3.2 39.2 + - + +
925B LEU* 3.6 34.2 - - + +
938B GLU* 5.5 5.2 - - + -
940B ILE* 4.4 10.8 - - + -
958B ILE* 3.8 24.5 - - + -
959B LEU 3.2 18.6 - - - +
960B LEU* 4.1 14.1 - - + -
1276B LEU* 6.0 0.2 - - + -
1310B VAL* 3.9 28.9 - - + -
1319B THR* 1.3 77.3 - - - +
1321B SER* 1.3 61.0 + - - +
1322B VAL* 4.2 8.0 - - + +
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Residues in contact with SER1321 (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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921B ALA 4.0 4.0 - - - -
922B VAL* 4.1 16.4 - - - -
957B ARG 4.1 1.0 - - - +
958B ILE 4.0 0.2 - - - -
959B LEU* 3.0 56.1 + - - +
1319B THR* 4.1 8.1 - - - +
1320B LEU* 1.3 73.9 - - - +
1322B VAL* 1.3 62.4 + - - +
1323B VAL* 4.2 7.9 + - - +
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Residues in contact with VAL1322 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
919B THR* 4.1 1.0 - - - +
920B VAL* 3.1 48.1 + - + +
921B ALA* 3.3 17.0 + - + +
940B ILE* 4.5 19.5 - - + -
956B THR* 3.8 17.5 - - + -
957B ARG 3.5 12.1 - - - +
958B ILE* 4.1 26.9 - - + -
1308B PHE* 4.6 5.6 - - + -
1320B LEU* 4.5 10.8 - - + -
1321B SER* 1.3 76.2 - - - +
1323B VAL* 1.3 68.3 + - - +
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Residues in contact with VAL1323 (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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917B ASN* 3.8 20.4 - - + +
918B LYS 3.8 10.1 - - - +
919B THR* 4.6 15.9 - - + +
920B VAL* 4.2 2.0 - - - -
922B VAL* 6.0 0.4 - - + -
955B GLU 4.5 0.2 - - - +
957B ARG* 3.1 36.5 + - + +
1321B SER* 4.2 8.3 + - - +
1322B VAL* 1.3 82.0 - - - +
1324B THR* 1.3 74.5 + - - +
1325B MET* 6.4 1.3 - - + -
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Residues in contact with THR1324 (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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916B MET 4.1 0.2 - - - +
917B ASN* 3.1 28.2 - - - +
918B LYS* 3.0 23.0 + - - +
920B VAL* 3.4 23.5 - - + +
943B ALA* 4.2 22.8 - - + +
945B LEU* 5.4 2.6 - - - +
954B SER* 6.3 1.8 - - - -
955B GLU 3.7 5.2 - - - +
956B THR* 3.2 34.8 - - + +
1305B ASN* 5.1 0.9 - - + +
1323B VAL* 1.3 75.9 - - - +
1325B MET* 1.3 60.7 + - - +
1326B TYR* 4.3 7.4 - - - -
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Residues in contact with MET1325 (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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176A LEU* 3.8 17.3 - - + +
177A VAL* 3.7 29.4 - - + -
178A ASN* 3.2 37.5 - - - +
915B ARG* 4.8 13.9 - - - -
916B MET 3.5 12.6 - - - +
917B ASN* 4.8 9.2 - - + -
954B SER* 3.6 2.6 - - - -
955B GLU* 3.2 44.0 + - + +
957B ARG* 6.2 1.8 - - - +
1323B VAL* 4.3 1.3 + - + -
1324B THR* 1.3 75.9 - - - +
1326B TYR* 1.3 66.6 + - - +
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Residues in contact with TYR1326 (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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176A LEU* 4.9 4.9 - - - -
914B ILE 3.8 0.3 - - - +
915B ARG* 3.8 4.9 - - - -
916B MET* 3.1 45.3 + - + +
918B LYS* 3.1 52.5 + - + +
945B LEU* 4.1 26.9 - - + -
947B ASP* 3.5 18.0 + - - -
948B GLN* 4.2 15.5 - - + +
953B GLU 4.6 3.1 - - - -
954B SER* 3.6 21.8 - - - -
1324B THR* 4.7 7.2 - - - -
1325B MET* 1.3 80.3 - - - +
1327B HIS* 1.3 82.1 + - - +
1328B ALA* 3.4 31.7 + - + +
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Residues in contact with HIS1327 (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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176A LEU* 3.1 34.3 - - + +
910B VAL* 5.3 13.5 - - + +
913B GLY* 4.6 10.4 + - - -
914B ILE 3.5 20.7 + - - +
915B ARG* 4.3 18.2 + - + -
948B GLN* 3.9 2.4 - - - +
949B VAL* 3.5 19.4 + - + +
952B THR* 4.4 24.5 + - + +
953B GLU* 3.7 19.5 + - - -
1326B TYR* 1.3 82.2 - - - +
1328B ALA* 1.3 64.0 + - - +
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Residues in contact with ALA1328 (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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913B GLY* 3.5 5.2 - - - -
914B ILE* 2.7 45.9 + - + +
916B MET* 3.9 23.8 - - + -
947B ASP* 3.8 8.5 - - - +
949B VAL* 4.3 1.1 - - - -
1326B TYR* 3.4 31.5 + - + +
1327B HIS* 1.3 74.8 - - - +
1329B LYS* 1.3 62.2 + - - +
1330B ALA 3.4 0.6 + - - -
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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