Contacts of the helix formed by residues 72 - 90 (chain h) in PDB entry 6QXT
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 THR 72 (chain h).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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69h ASP 5.5 2.2 - - - -
70h ILE 3.6 5.4 + - - -
71h ASN* 1.3 73.7 - - - +
73h SER* 1.3 61.7 + - - +
74h GLN* 3.3 7.2 - - - -
75h VAL* 3.8 13.8 - - - +
76h LEU* 2.9 31.9 + - - +
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Residues in contact with SER 73 (chain h).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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192 A 5.8 0.4 - - - -
202 A 4.9 21.1 - - - -
72h THR* 1.3 74.2 - - - +
74h GLN* 1.3 58.4 + - - +
76h LEU* 4.1 3.1 - - - +
77h LYS* 2.9 30.5 + - - +
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Residues in contact with GLN 74 (chain h).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
491 T 6.2 4.5 - - - -
72h THR* 3.3 3.9 - - - -
73h SER* 1.3 76.3 - - - +
75h VAL* 1.3 61.0 + - - +
77h LYS* 3.8 4.6 - - - +
78h LEU* 2.9 32.9 + - - +
157h TYR 5.5 1.3 - - - +
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Residues in contact with VAL 75 (chain h).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70h ILE 4.1 19.7 - - - +
71h ASN* 5.3 0.4 - - - -
72h THR* 3.4 16.7 + - - +
73h SER 3.4 0.4 - - - -
74h GLN* 1.3 78.8 - - - +
76h LEU* 1.3 57.8 + - - +
78h LEU* 3.9 2.9 - - - +
79h LEU* 2.9 30.9 + - - +
154h ILE* 5.5 8.5 - - + +
157h TYR* 5.0 18.2 - - + +
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Residues in contact with LEU 76 (chain h).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
71h ASN* 5.9 3.3 - - + +
72h THR 2.9 19.9 + - - +
73h SER* 4.2 3.4 - - - +
75h VAL* 1.3 74.6 - - - +
77h LYS* 1.3 60.2 + - - +
79h LEU* 3.7 5.8 - - - +
80h HIS* 2.9 29.1 + - - +
135h VAL 5.0 12.6 - - - +
136h ARG* 5.8 5.2 - - + -
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Residues in contact with LYS 77 (chain h).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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73h SER 2.9 21.4 + - - +
74h GLN* 3.8 5.2 - - - +
75h VAL 3.3 0.2 - - - -
76h LEU* 1.3 76.6 - - - +
78h LEU* 1.3 58.5 + - - +
80h HIS* 3.2 7.8 + - - +
81h THR* 2.9 27.4 + - - -
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Residues in contact with LEU 78 (chain h).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
74h GLN 2.9 18.1 + - - +
75h VAL 4.2 1.8 - - - +
77h LYS* 1.3 76.4 - - - +
79h LEU* 1.3 56.9 + - - +
81h THR* 3.4 8.8 + - - -
82h ASP* 2.9 27.5 + - - +
157h TYR* 4.6 23.1 - - + +
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Residues in contact with LEU 79 (chain h).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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75h VAL 2.9 20.6 + - - +
76h LEU* 3.7 7.6 - - - +
77h LYS 3.2 0.2 - - - -
78h LEU* 1.3 74.1 - - - +
80h HIS* 1.3 59.7 + - - +
82h ASP* 3.1 8.4 + - - +
83h ILE* 2.9 28.1 + - - +
157h TYR* 5.7 3.0 - - + +
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Residues in contact with HIS 80 (chain h).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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76h LEU 2.9 18.0 + - - +
77h LYS* 3.6 6.7 - - - +
79h LEU* 1.3 75.7 - - - +
81h THR* 1.3 56.9 + - - +
83h ILE* 3.3 7.4 + - - +
84h VAL* 2.9 29.0 + - - +
127h LEU* 5.7 10.0 - - + +
130h ILE* 4.8 19.0 - - + +
131h LYS* 5.9 1.6 - - + +
135h VAL* 6.4 2.7 - - + -
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Residues in contact with THR 81 (chain h).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
77h LYS 2.9 13.8 + - - -
78h LEU* 3.6 11.9 - - - -
80h HIS* 1.3 78.1 - - - +
82h ASP* 1.3 55.6 + - - +
84h VAL* 3.3 8.3 + - - +
85h SER* 2.9 27.9 + - - -
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Residues in contact with ASP 82 (chain h).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78h LEU 2.9 14.9 + - - +
79h LEU* 3.1 12.3 + - - +
81h THR* 1.3 77.0 - - - +
83h ILE* 1.3 57.0 + - - +
85h SER* 3.2 8.9 + - - -
86h GLN* 2.9 27.1 + - - +
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Residues in contact with ILE 83 (chain h).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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111e GLU* 6.4 2.2 - - + -
79h LEU 2.9 15.3 + - - +
80h HIS* 3.7 8.1 - - - +
82h ASP* 1.3 75.4 - - - +
84h VAL* 1.3 58.6 + - - +
86h GLN* 3.2 9.2 + - - +
87h LEU* 2.9 28.8 + - - +
130h ILE* 5.9 5.6 - - + -
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Residues in contact with VAL 84 (chain h).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
80h HIS 2.9 17.4 + - - +
81h THR* 3.6 9.2 - - - +
82h ASP 3.3 0.2 - - - -
83h ILE* 1.3 76.1 - - - +
85h SER* 1.3 58.1 + - - +
87h LEU* 3.4 7.1 + - - +
88h ASN* 2.9 28.6 + - - +
126h LEU* 5.4 13.9 - - + -
127h LEU* 5.5 11.9 - - + +
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Residues in contact with SER 85 (chain h).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
81h THR 2.9 14.2 + - - -
82h ASP* 3.2 11.0 + - - -
84h VAL* 1.3 75.2 - - - +
86h GLN* 1.3 59.7 + - - +
88h ASN* 3.1 8.2 + - - +
89h ASP* 2.9 29.3 + - - +
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Residues in contact with GLN 86 (chain h).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
111e GLU* 5.8 9.6 - - + +
82h ASP 2.9 14.0 + - - +
83h ILE* 3.2 10.7 + - - +
85h SER* 1.3 77.3 - - - +
87h LEU* 1.3 59.7 + - - +
89h ASP* 3.4 17.4 + - - +
90h LYS* 3.9 6.9 + - - +
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Residues in contact with LEU 87 (chain h).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
111e GLU* 5.7 6.6 - - + +
83h ILE 2.9 16.4 + - - +
84h VAL* 3.9 7.4 - - - +
86h GLN* 1.3 75.7 - - - +
88h ASN* 1.3 60.6 + - - +
89h ASP 3.6 0.2 + - - -
90h LYS* 3.3 19.8 + - - +
93h VAL* 5.0 5.0 - - + +
94h ARG* 3.7 16.0 + - + +
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Residues in contact with ASN 88 (chain h).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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84h VAL 2.9 18.2 + - - +
85h SER* 3.1 9.1 + - - +
87h LEU* 1.3 76.1 - - - +
89h ASP* 1.3 61.8 + - - +
90h LYS 3.2 6.0 + - - +
91h PRO* 4.7 1.7 - - - +
94h ARG* 5.0 6.0 - - - +
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Residues in contact with ASP 89 (chain h).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
85h SER 2.9 14.8 + - - +
86h GLN* 3.8 9.6 - - - +
87h LEU 3.3 0.8 - - - -
88h ASN* 1.3 76.5 - - - +
90h LYS* 1.3 56.9 + - + +
91h PRO 3.9 2.3 - - - -
19p ASN* 4.9 10.5 - - - +
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Residues in contact with LYS 90 (chain h).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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86h GLN 3.9 6.7 + - - +
87h LEU* 3.3 16.8 + - - +
88h ASN 3.2 2.6 - - - +
89h ASP* 1.3 77.9 - - + +
91h PRO* 1.3 64.4 - - - +
92h GLU* 3.4 1.3 - - + +
93h VAL* 4.2 19.3 - - + +
94h ARG* 3.3 12.1 + - - +
19p ASN* 5.7 6.5 - - + -
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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