Contacts of the strand formed by residues 736 - 743 (chain B) in PDB entry 6IEH
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 LEU 736 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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641B GLU 4.9 1.2 - - - +
644B ILE* 5.6 1.5 - - + +
645B HIS* 2.8 41.7 + - + +
650B CYS* 4.8 4.0 - - - -
654B LEU* 4.2 22.0 - - + -
660B VAL* 3.8 29.4 - - + -
661B LYS 3.2 13.7 - - - +
662B VAL* 4.3 7.4 - - + +
674B VAL* 5.9 0.2 - - + -
696B VAL* 4.4 18.2 - - + -
698B VAL* 5.7 1.3 - - + -
731B VAL* 5.6 2.0 - - + +
732B LEU 4.6 1.5 + - - +
733B VAL* 3.2 23.6 - - + +
734B HIS 3.2 0.6 - - - -
735B LEU* 1.3 76.0 - - - +
737B SER* 1.3 62.9 + - - +
738B ALA 4.6 0.7 - - - +
739B ILE* 4.5 17.5 - - + -
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Residues in contact with SER 737 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
641B GLU* 3.7 45.8 - - - +
644B ILE* 5.7 6.1 - - - +
645B HIS* 5.5 0.7 - - - -
661B LYS* 2.9 23.1 + - - +
662B VAL 4.1 0.3 - - - -
663B LYS* 3.5 32.2 - - - +
735B LEU 3.5 1.2 + - - -
736B LEU* 1.3 74.2 - - - +
738B ALA* 1.3 61.2 + - - +
739B ILE* 5.7 0.2 - - - -
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Residues in contact with ALA 738 (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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644B ILE* 5.8 2.2 - - - -
660B VAL* 3.1 10.0 - - - +
661B LYS* 2.8 58.7 + - + -
671B TRP* 4.2 8.7 - - + -
736B LEU 3.5 0.8 - - - -
737B SER* 1.3 81.3 - - - +
739B ILE* 1.3 65.2 + - - +
776B LEU* 4.7 15.0 - - + -
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Residues in contact with ILE 739 (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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644B ILE* 3.5 41.9 - - + +
650B CYS* 3.9 19.7 - - + +
653B PHE* 4.6 6.7 - - + +
654B LEU* 5.6 4.5 - - + -
658B ARG* 4.0 17.7 - - - -
659B LEU 4.0 4.0 - - - +
660B VAL* 4.1 14.8 - - + -
671B TRP* 5.0 0.7 - - - -
736B LEU* 4.5 12.3 - - + -
738B ALA* 1.3 80.3 - - - +
740B SER* 1.3 63.3 + - - +
776B LEU* 3.5 22.5 - - - +
777B LEU* 3.6 27.8 + - + +
783B MET* 4.3 9.9 - - + -
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Residues in contact with SER 740 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
658B ARG* 3.5 24.8 + - - +
659B LEU* 3.2 22.8 + - - -
671B TRP* 4.2 3.4 - - - -
739B ILE* 1.3 75.8 - - - +
741B SER* 1.3 61.9 + - - +
742B VAL 3.9 5.4 - - - -
774B ILE* 3.0 24.7 - - - -
775B PRO 2.8 22.4 - - - -
776B LEU* 3.9 0.9 - - - +
777B LEU* 3.8 7.9 - - - +
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Residues in contact with SER 741 (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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165A THR* 4.2 16.2 - - - -
166A ASP 3.1 28.0 + - - +
167A LYS* 3.7 23.8 + - - -
658B ARG* 3.4 2.6 + - - -
740B SER* 1.3 72.6 - - - +
742B VAL* 1.3 65.5 + - - +
775B PRO* 3.1 26.5 + - - +
776B LEU 4.3 5.0 + - - -
777B LEU* 3.6 22.3 - - - +
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Residues in contact with VAL 742 (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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163A PHE* 3.8 32.3 - - + -
164A ARG 3.4 12.8 - - - +
165A THR* 4.3 4.3 - - + +
657B GLY 4.4 0.2 - - - -
658B ARG* 3.6 5.5 - - - +
659B LEU* 3.2 53.6 + - + +
740B SER 3.2 0.9 - - - +
741B SER* 1.3 77.5 - - - +
743B ARG* 1.3 64.4 + - - +
744B LEU* 4.6 0.4 - - + -
766B VAL* 4.2 9.0 - - + -
770B PHE* 5.1 4.5 - - + -
774B ILE* 4.2 5.4 - - + -
775B PRO* 3.6 31.9 - - + -
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Residues in contact with ARG 743 (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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163A PHE* 3.7 0.3 - - - -
164A ARG* 2.7 73.1 + - + +
166A ASP* 3.5 43.3 + - + +
181A ARG* 3.9 17.0 + - - +
182A GLY* 5.7 2.2 - - - -
183A ASP 6.0 0.6 - - - +
655B GLN* 3.7 18.7 - - - +
656B PRO* 2.5 35.6 + - - +
657B GLY 3.1 5.8 - - - -
658B ARG* 3.5 28.0 - - - +
741B SER 3.4 0.2 + - - -
742B VAL* 1.3 78.0 - - - +
744B LEU* 1.3 61.7 + - - +
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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