Contacts of the strand formed by residues 1084 - 1094 (chain C) in PDB entry 4OUL
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 GLU1084 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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1075A TYR* 5.5 1.6 - - - -
1084A GLU* 2.9 15.5 - - - +
1085A THR 5.4 1.0 - - - +
1201A CA 2.4 31.0 - - - -
1084B GLU* 3.3 15.5 - - - +
1051C MET 3.6 0.7 - - - +
1052C LEU* 3.4 5.0 - - - +
1053C LYS* 2.8 45.6 + - + +
1076C ALA* 3.4 8.9 - - + +
1077C ASN 3.4 39.2 - - - +
1078C ASP* 4.5 5.2 - - + +
1082C ASP 4.4 2.0 - - - +
1083C HIS* 1.3 78.8 - - - +
1085C THR* 1.3 82.5 + - - +
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Residues in contact with THR1085 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1074A ALA* 6.1 0.2 - - - +
1075A TYR 3.8 14.4 + - - -
1085A THR 4.9 7.3 + - - -
1087A SER* 4.7 11.9 + - - +
1084B GLU* 5.6 0.7 - - - +
1085B THR* 5.0 7.6 + - - -
1050C HIS* 4.3 22.4 - - + -
1051C MET 3.3 16.6 - - - +
1052C LEU* 3.6 15.2 - - + +
1075C TYR 4.2 2.6 - - - +
1076C ALA* 3.4 11.2 - - - +
1084C GLU* 1.3 91.8 + - - +
1086C ALA* 1.3 69.7 + - - +
1087C SER* 3.9 4.4 + - - -
1116C TYR 5.7 1.6 - - - +
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Residues in contact with ALA1086 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1049C PHE* 3.9 4.0 - - - -
1050C HIS* 3.6 0.9 - - - -
1051C MET* 2.8 38.4 + - - +
1060C LEU* 3.8 25.8 - - + -
1062C VAL* 4.5 6.7 - - + -
1074C ALA* 3.6 23.3 - - + +
1075C TYR 4.0 10.5 - - - -
1076C ALA* 3.6 12.0 - - + +
1085C THR* 1.3 70.1 - - - +
1087C SER* 1.3 61.1 + - - +
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Residues in contact with SER1087 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1087A SER* 5.9 0.7 - - - -
1050B HIS* 3.0 34.8 + - - +
1085B THR* 4.7 10.5 + - - +
1087B SER* 6.0 0.9 - - - -
1116B TYR 5.4 0.2 - - - +
1049C PHE* 2.9 18.7 + - - -
1050C HIS* 3.0 30.2 + - - -
1074C ALA* 3.4 12.1 - - - +
1075C TYR 5.3 0.2 + - - -
1085C THR* 3.9 7.8 + - - -
1086C ALA* 1.3 75.8 - - - +
1088C ASN* 1.3 66.0 + - - +
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Residues in contact with ASN1088 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1050B HIS* 3.6 13.7 + - - -
1115B LYS 3.5 11.5 + - - -
1116B TYR 3.1 19.8 + - - -
1118B THR* 2.6 26.6 + - - +
1048C ILE* 3.6 4.3 - - - +
1049C PHE* 3.1 52.3 + - + +
1072C VAL* 3.9 11.3 - - + +
1073C SER 2.7 28.0 + - - +
1087C SER* 1.3 76.6 + - - +
1089C HIS* 1.3 77.2 + - - +
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Residues in contact with HIS1089 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1023B LEU* 5.4 0.2 - - - +
1048B ILE* 3.5 41.5 + - + +
1049B PHE* 3.9 2.7 - - - -
1050B HIS* 2.9 30.5 + - + -
1118B THR* 3.0 30.5 + - - +
1119B PHE 4.0 0.4 - - - -
1120B SER* 2.7 42.7 + - - -
1046C VAL* 5.9 1.3 - - + -
1047C PHE 3.1 14.8 - - - +
1048C ILE* 4.4 7.6 - - + -
1049C PHE* 5.3 1.1 - - - -
1064C LEU* 5.0 1.3 - - - -
1072C VAL* 3.6 13.9 - - - +
1088C ASN* 1.3 89.1 + - - +
1090C ALA* 1.3 70.1 + - - +
1091C ILE* 4.9 1.8 - - + -
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Residues in contact with ALA1090 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1001B SER* 4.2 4.0 - - - -
1023B LEU* 4.7 2.2 - - + -
1045C TYR 3.8 0.2 - - - +
1046C VAL* 3.4 3.3 - - - +
1047C PHE* 2.8 34.4 + - - +
1064C LEU* 3.7 25.4 - - + -
1071C LEU* 5.4 0.2 - - + -
1072C VAL* 4.3 12.3 - - + -
1089C HIS* 1.3 82.6 - - - +
1091C ILE* 1.3 65.4 + - - +
1092C LEU* 4.0 21.5 - - + -
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Residues in contact with ILE1091 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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999B ALA* 4.1 12.1 - - + -
1000B PHE 3.9 8.1 - - - +
1001B SER* 3.5 18.2 + - - -
1023B LEU 4.3 0.2 - - - +
1024B ASN* 3.3 21.1 - - - +
1048B ILE* 6.1 2.5 - - + -
1120B SER* 3.6 26.9 - - - -
1121B GLY 3.9 5.8 - - - +
1122B TYR* 3.5 33.0 - - + -
1044C THR* 3.6 22.9 - - + -
1045C TYR 3.2 9.9 - - - +
1046C VAL* 3.8 18.6 - - + -
1089C HIS* 4.9 1.8 - - + -
1090C ALA* 1.3 77.8 - - - +
1092C LEU* 1.3 69.2 + - - +
1124C LEU* 4.4 1.3 - - + -
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Residues in contact with LEU1092 (chain C).
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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1023B LEU* 4.3 23.8 - - + +
1024B ASN* 4.5 3.1 - - - -
1044C THR* 3.4 5.1 - - - -
1045C TYR* 2.7 42.4 + - - +
1047C PHE* 4.0 26.7 - - + -
1064C LEU* 4.7 0.4 - - + -
1066C LYS* 5.8 0.2 - - + -
1071C LEU* 3.4 43.7 - - + -
1090C ALA* 4.0 20.2 - - + -
1091C ILE* 1.3 83.4 - - - +
1093C GLN* 1.3 62.4 + - - +
1094C LEU* 3.6 15.2 + - + +
1100C ILE* 4.3 7.6 - - + -
1012F THR* 5.0 2.7 - - + +
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Residues in contact with GLN1093 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1023B LEU 5.1 1.6 + - - -
1024B ASN* 3.9 20.9 - - - +
1043C GLY 3.5 7.9 - - - +
1044C THR* 4.4 7.2 - - - +
1092C LEU* 1.3 73.6 - - - +
1094C LEU* 1.3 68.8 + - - +
1095C PHE* 5.3 8.2 - - + -
1098C ASP* 5.0 0.2 - - - +
1015F GLN* 4.5 20.5 - - - +
1016F PRO* 6.3 2.0 - - + -
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Residues in contact with LEU1094 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1037C PHE* 4.0 13.9 - - + -
1039C CYS* 3.8 17.9 - - + -
1042C ASN* 3.6 4.9 - - - +
1043C GLY 2.8 29.0 + - - -
1045C TYR* 3.9 14.4 - - + -
1047C PHE* 3.9 17.9 - - + -
1066C LYS* 4.4 9.9 - - + -
1092C LEU* 4.2 15.7 - - + +
1093C GLN* 1.3 85.1 - - - +
1095C PHE* 1.3 65.7 + - - +
1098C ASP* 3.8 16.6 - - + +
1100C ILE* 3.6 39.7 - - + -
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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