Contacts of the strand formed by residues 1147 - 1157 (chain B) in PDB entry 2IUK
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 GLY1147 (chain B).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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1141B GLU* 4.0 2.3 - - - +
1142B ASP* 3.8 22.3 + - - -
1143B ILE* 3.8 10.4 + - - +
1145B ASN 3.9 0.4 - - - -
1146B HIS* 1.3 76.9 - - - +
1148B THR* 1.3 64.8 + - - -
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Residues in contact with THR1148 (chain B).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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1139B LYS* 4.6 5.5 - - - +
1140B LEU 3.1 15.5 + - - -
1141B GLU* 4.3 12.5 - - - +
1143B ILE* 5.1 1.3 - - - -
1146B HIS* 3.6 9.5 + - - +
1147B GLY* 1.3 77.4 - - - +
1149B ILE* 1.3 71.4 + - - +
1150B GLU* 3.7 17.5 + - - +
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Residues in contact with ILE1149 (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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1119B ILE* 3.6 20.2 - - + -
1120B PRO* 3.3 25.1 - - + +
1138B VAL 4.1 0.4 - - - +
1139B LYS* 3.3 2.8 - - - +
1140B LEU* 2.7 42.1 + - + +
1143B ILE* 3.5 24.9 - - + -
1146B HIS* 3.8 15.3 - - + +
1148B THR* 1.3 79.6 + - - +
1150B GLU* 1.3 64.1 + - - +
1151B PHE* 3.8 19.7 - - + -
1171B VAL* 3.6 29.4 - - + -
1172B ASN* 5.8 0.2 - - - +
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Residues in contact with GLU1150 (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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1138B VAL 3.5 5.4 - - - +
1139B LYS* 4.2 22.2 - - + -
1148B THR* 3.7 24.1 + - - +
1149B ILE* 1.3 80.0 - - - +
1151B PHE* 1.3 65.8 + - - +
1152B VAL 4.0 0.4 - - - -
1171B VAL* 3.8 4.2 - - - +
1172B ASN* 3.0 53.7 + - - +
1797B ASN* 4.3 24.7 - - - +
1800B THR* 5.5 2.3 - - - +
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Residues in contact with PHE1151 (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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1070B LEU* 5.2 0.2 - - + -
1120B PRO 4.5 3.4 - - - -
1122B ALA* 3.8 28.9 - - - -
1123B PHE* 3.3 44.2 - + + -
1137B SER* 3.4 12.3 - - - -
1138B VAL* 2.7 47.3 + - + +
1140B LEU* 3.6 33.4 - - + -
1149B ILE* 3.8 17.3 - - + -
1150B GLU* 1.3 76.1 - - - +
1152B VAL* 1.3 62.0 + - - +
1153B CYS* 3.6 8.3 - - - -
1169B PHE* 3.9 1.6 - - + -
1170B PHE 3.1 26.7 - - - +
1171B VAL* 3.8 18.2 - - + -
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Residues in contact with VAL1152 (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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1136B VAL 4.7 1.8 - - - +
1137B SER* 5.1 1.6 - - - -
1150B GLU 4.0 0.6 + - - +
1151B PHE* 1.3 72.7 - - - +
1153B CYS* 1.3 61.3 + - - +
1154B ASN* 4.2 12.8 - - - +
1169B PHE* 5.2 1.7 - - - +
1170B PHE 4.6 6.9 + - - +
1172B ASN* 3.7 18.4 - - + +
1555B TYR* 5.4 3.8 - - - +
1795B THR* 3.5 29.8 - - + +
1797B ASN* 3.2 43.5 - - - +
1798B TRP* 4.6 7.0 - - - +
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Residues in contact with CYS1153 (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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1123B PHE* 4.0 5.2 - - - -
1135B LEU* 3.5 38.6 - - + +
1136B VAL 3.3 12.1 + - - +
1137B SER* 3.9 8.3 - - - -
1138B VAL 4.0 2.2 - - - -
1151B PHE* 3.7 28.3 - - - -
1152B VAL* 1.3 75.5 - - - +
1154B ASN* 1.3 71.9 + - - +
1155B SER* 3.2 10.9 + - - -
1169B PHE* 3.9 23.6 - - + -
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Residues in contact with ASN1154 (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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1134B PHE* 3.3 31.2 - - + -
1135B LEU 3.1 8.3 + - - -
1136B VAL* 3.2 26.7 + - - +
1152B VAL* 4.2 8.7 - - + +
1153B CYS* 1.3 76.9 - - - +
1155B SER* 1.3 56.4 + - - +
1266B ASP* 4.9 5.5 - - - +
1269B PHE* 6.0 1.6 - - - -
1555B TYR* 6.2 1.0 - - - -
1794B GLU* 3.2 33.1 + - - +
1795B THR* 3.8 30.6 + - - +
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Residues in contact with SER1155 (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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1134B PHE* 3.9 2.2 - - - -
1135B LEU* 2.8 40.1 + - - +
1153B CYS 3.4 11.4 - - - -
1154B ASN* 1.3 75.3 - - - +
1156B TRP* 1.3 61.6 + - - +
1157B VAL* 3.4 2.4 + - - +
1167B ARG* 3.0 26.2 + - - -
1169B PHE* 3.6 15.9 - - - -
1266B ASP* 2.9 24.0 + - - -
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Residues in contact with TRP1156 (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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1020B LYS* 3.6 32.8 - - + -
1023B LEU* 3.8 44.6 - - + -
1024B ASP* 5.3 2.9 - - + -
1132B GLU* 3.7 19.7 - - + -
1133B PHE 3.5 8.7 - - - -
1134B PHE* 3.5 43.1 - + - +
1155B SER* 1.3 71.1 + - - +
1157B VAL* 1.3 61.0 + - - +
1158B TYR* 4.3 15.6 - - + -
1163B TYR* 3.7 6.6 + - - -
1167B ARG* 3.0 19.4 + - - -
1208B ARG* 5.1 0.2 - - - -
1265B ARG* 3.2 40.0 - - + +
1266B ASP* 3.3 23.7 + - - +
1268B ASN 4.4 5.2 + - - -
1270B GLY* 5.0 9.0 - - - +
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Residues in contact with VAL1157 (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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1125B ILE* 4.4 14.8 - - + +
1127B ASN* 3.1 29.4 - - + +
1132B GLU* 3.2 14.6 - - - +
1133B PHE* 3.0 35.8 + - + -
1135B LEU* 4.1 7.9 - - + -
1155B SER 3.6 15.3 - - - +
1156B TRP* 1.3 71.8 - - - +
1158B TYR* 1.3 66.2 + - - +
1163B TYR* 4.6 0.2 - - - -
1167B ARG* 4.1 15.0 - - + +
1169B PHE* 3.7 29.6 - - + -
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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