Contacts of the strand formed by residues 1149 - 1156 (chain A) in PDB entry 6A5T
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 THR1149 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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1145A LEU* 2.3 43.4 + - + +
1146A LYS* 3.3 7.0 + - - +
1148A VAL* 1.3 80.9 - - - +
1150A SER* 1.3 63.6 + - - +
1151A ALA 3.3 24.0 - - - +
1197A LEU* 5.0 6.7 - - + -
1198A GLU 4.2 4.0 - - - +
1199A LEU* 4.0 9.4 - - + -
1271A LEU* 3.7 13.4 - - + +
48I LEU* 3.6 31.6 - - + +
49I ILE* 3.6 18.9 - - - +
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Residues in contact with SER1150 (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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1148A VAL 3.5 0.8 + - - -
1149A THR* 1.3 74.6 - - - +
1151A ALA* 1.3 62.6 + - - +
1198A GLU* 2.4 58.3 + - - +
1199A LEU 4.3 10.3 - - - -
1200A ASP* 4.4 8.1 - - - -
47I GLU* 5.0 0.2 - - - -
48I LEU* 4.0 1.9 + - - -
49I ILE* 3.7 36.9 + - - +
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Residues in contact with ALA1151 (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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1149A THR* 3.3 19.0 - - - +
1150A SER* 1.3 86.1 + - - +
1152A THR* 1.3 66.6 - - - +
1153A GLU* 4.8 3.8 - - - +
1197A LEU* 3.9 11.4 - - - +
1198A GLU* 3.7 13.4 + - + +
45I ARG* 3.3 36.3 - - - +
46I HIS 4.1 5.6 - - - +
47I GLU* 4.7 1.8 - - - -
48I LEU 4.3 6.5 - - - +
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Residues in contact with THR1152 (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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1151A ALA* 1.3 79.8 - - - +
1153A GLU* 1.3 71.4 + - - +
1196A ARG 4.2 3.4 - - - -
1197A LEU* 4.9 2.0 - - + -
1267A GLU* 3.0 35.0 - - - +
1271A LEU* 3.7 6.3 - - + -
44I TYR* 4.1 3.9 - - - -
45I ARG* 3.5 21.1 + - - +
46I HIS* 2.3 56.3 + - + +
48I LEU* 3.5 19.7 - - + -
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Residues in contact with GLU1153 (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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1151A ALA* 4.8 1.5 - - - +
1152A THR* 1.3 85.9 - - - +
1154A ILE* 1.3 62.6 + - - +
1155A TYR* 3.1 24.4 + - + +
1195A LEU* 3.1 9.9 - - - +
1196A ARG* 2.2 88.1 + - + +
1197A LEU* 4.7 4.7 - - - -
1198A GLU* 3.8 21.0 - - - +
1267A GLU* 5.7 0.2 - - - +
42I LYS* 4.3 2.1 + - - +
44I TYR* 4.3 6.0 - - - -
45I ARG* 3.8 17.7 + - - +
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Residues in contact with ILE1154 (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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1153A GLU* 1.3 70.8 - - - +
1155A TYR* 1.3 70.1 + - - +
1193A TRP* 4.6 14.8 - - + -
1194A LEU 4.0 2.5 - - - -
1195A LEU* 3.5 23.1 - - + -
1260A ASP* 4.3 9.4 - - - +
1263A LEU* 4.4 18.8 - - + -
1264A LYS* 3.6 33.0 - - + -
1267A GLU* 5.8 1.8 - - + -
41I PRO 3.0 14.0 - - - +
42I LYS* 3.0 12.7 - - - +
43I VAL* 3.2 6.9 + - + +
44I TYR* 3.5 45.1 + - + +
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Residues in contact with TYR1155 (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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1153A GLU* 3.1 39.3 + - + -
1154A ILE* 1.3 80.5 - - - +
1156A TYR* 1.3 61.5 + - - +
1157A ASP* 3.9 1.8 - - + -
1165A ILE* 3.5 28.7 - - + +
1193A TRP* 3.5 4.0 - - - -
1194A LEU* 2.8 42.3 + - + +
1196A ARG* 3.4 27.2 + - + -
1241A ARG* 5.8 0.4 - - - +
40I ASP* 4.4 1.3 - - - -
41I PRO* 3.2 21.8 - - + -
42I LYS* 2.9 60.3 + - + -
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Residues in contact with TYR1156 (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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1155A TYR* 1.3 73.7 - - - +
1157A ASP* 1.3 58.5 + - - +
1158A PRO* 3.2 40.9 - - + +
1164A VAL* 5.6 5.0 - - - +
1192A PRO* 3.6 17.9 - - + -
1193A TRP* 3.3 41.3 - + + -
18I GLU* 2.8 48.0 + - + +
19I ASP 4.9 1.0 + - - -
20I LYS* 5.4 0.7 - - - -
23I GLN* 4.9 1.2 - - - -
24I ARG* 3.7 23.1 + - - -
25I LEU* 3.9 19.3 - - + -
41I PRO* 3.3 28.6 + - + +
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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