Contacts of the strand formed by residues 991 - 999 (chain C) in PDB entry 3EI4
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 HIS 991 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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946C ALA* 4.2 2.0 - - - +
947C ARG 3.8 1.6 - - - -
948C ASP* 5.1 0.6 + - - -
949C PHE* 3.3 51.5 + + + +
978C GLN 3.9 5.2 - - - +
979C LYS 5.4 2.3 - - - +
980C ASP* 5.8 0.9 - - - +
987C GLU 5.5 0.2 - - - +
988C GLU* 2.8 50.2 + - - +
989C ARG* 4.5 2.3 - - - +
990C GLN* 1.3 77.4 - - - +
992C LEU* 1.3 74.6 + - - +
993C GLN* 3.0 48.7 + - - +
994C GLU 5.4 0.2 + - - -
122D THR* 4.3 12.1 - - + +
123D HIS* 5.6 2.5 - + - -
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Residues in contact with LEU 992 (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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922C LEU* 5.6 0.9 - - + -
930C VAL* 4.2 10.8 - - + +
931C LEU* 4.0 7.2 - - - +
932C LEU* 3.8 19.1 - - + +
946C ALA* 3.2 41.5 - - + +
947C ARG 2.9 14.8 + - - +
948C ASP* 3.1 37.2 - - + +
965C PHE* 3.9 26.5 - - + -
977C CYS* 4.2 5.6 - - + -
978C GLN 3.2 25.1 - - - +
979C LYS* 4.4 2.5 - - - +
990C GLN 3.8 0.6 + - - -
991C HIS* 1.3 71.7 - - - +
993C GLN* 1.3 66.0 + - - +
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Residues in contact with GLN 993 (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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977C CYS* 3.1 2.9 - - - -
978C GLN* 2.6 48.0 + - + +
979C LYS 5.7 0.4 - - - +
988C GLU* 5.4 2.8 - - - +
991C HIS* 3.0 42.0 + - + +
992C LEU* 1.3 70.3 - - - +
994C GLU* 1.3 76.3 + - - +
995C VAL* 4.0 15.3 - - + -
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Residues in contact with GLU 994 (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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948C ASP* 2.7 33.8 + - - +
950C ASN* 3.0 33.1 + - - +
952C ASN* 3.1 11.4 + - - +
975C PHE* 4.0 11.3 - - + +
976C VAL 3.1 17.5 - - - +
977C CYS* 4.2 4.5 - - - -
991C HIS* 5.4 0.2 + - - -
992C LEU 3.5 1.2 + - - -
993C GLN* 1.3 87.3 + - - +
995C VAL* 1.3 61.2 + - - +
996C GLY 3.8 1.1 - - - -
997C LEU* 3.8 23.8 - - + +
1076C PHE* 5.7 2.1 - - - -
1081C LYS* 5.0 5.7 + - - -
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Residues in contact with VAL 995 (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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1C MET 5.8 0.2 - - - +
2C SER* 3.6 19.9 + - - +
976C VAL* 2.5 22.7 + - + +
977C CYS 4.2 1.6 - - - +
978C GLN* 3.3 52.5 - - + +
993C GLN* 4.0 14.6 - - + -
994C GLU* 1.3 77.7 - - - +
996C GLY* 1.3 54.5 + - - +
997C LEU* 5.8 0.9 - - - -
1086C THR* 3.9 14.8 + - - +
1087C GLY* 4.7 4.0 - - - -
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Residues in contact with GLY 996 (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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2C SER* 5.7 0.4 - - - -
4C ASN* 5.2 1.3 - - - -
975C PHE* 3.0 9.0 - - - -
976C VAL* 2.9 38.1 + - - +
994C GLU 3.8 0.8 - - - -
995C VAL* 1.3 81.4 - - - +
997C LEU* 1.3 67.2 + - - +
1086C THR* 3.2 11.4 - - - -
1087C GLY* 4.7 2.9 - - - -
1088C PHE* 3.9 10.3 - - - -
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Residues in contact with LEU 997 (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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974C LEU 3.4 2.0 - - - -
975C PHE* 4.1 7.0 - - + -
994C GLU* 3.8 27.4 - - + +
995C VAL 5.8 0.7 - - - -
996C GLY* 1.3 85.3 - - - +
998C PHE* 1.3 64.4 + - - +
1076C PHE* 3.9 44.0 - - + -
1081C LYS* 5.7 3.4 - - - +
1083C GLU* 3.3 31.0 - - + +
1085C ALA* 3.3 13.8 - - - +
1086C THR* 2.9 34.3 + - - +
1088C PHE* 3.6 3.2 - - - +
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Residues in contact with PHE 998 (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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6C VAL* 3.8 24.7 - - + -
973C ASN* 3.2 4.4 - - - -
974C LEU* 2.7 55.3 + - + +
997C LEU* 1.3 77.5 - - - +
999C HIS* 1.3 63.8 + - - +
1000C LEU* 3.3 6.9 + - + -
1055C GLN* 6.3 0.4 - - - -
1070C HIS* 5.9 0.4 - + - -
1074C ARG* 3.3 61.7 - - + -
1076C PHE* 4.3 3.5 - - - -
1085C ALA* 4.1 8.9 - - + +
1088C PHE* 3.5 37.2 - - + -
1089C ILE 5.1 0.2 - - - -
1090C ASP* 3.6 25.1 - - + -
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Residues in contact with HIS 999 (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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60C LYS* 5.1 4.6 - - + +
83C LYS* 3.5 21.2 - - + +
971C ALA 3.6 12.2 + - - -
972C PHE* 3.3 22.0 + - - +
973C ASN* 2.9 27.1 - - - +
998C PHE* 1.3 72.3 - - - +
1000C LEU* 1.3 51.1 + - - +
1001C GLY* 3.9 11.6 - - - -
1073C TRP* 3.1 42.8 + + - -
1074C ARG* 2.7 60.2 + - - +
1075C SER 3.4 12.8 - - - +
1076C PHE* 4.4 1.4 - - - +
1077C HIS* 4.7 7.6 - - + +
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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