Contacts of the strand formed by residues 71 - 84 (chain A) in PDB entry 2P0K
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 ASN 71 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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68A ASP* 3.0 26.4 + - - +
69A PRO 3.5 0.2 - - - -
70A ARG* 1.3 82.0 - - - +
72A THR* 1.3 58.3 + - - +
73A THR* 3.0 28.4 + - - +
74A SER* 3.0 39.5 + - - -
125A PRO 5.2 3.8 + - - -
127A LEU* 4.5 13.0 - - + +
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Residues in contact with THR 72 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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67A GLN* 3.4 28.3 - - + +
68A ASP 3.2 18.2 - - - +
69A PRO* 3.8 19.1 - - + +
70A ARG 4.1 0.4 - - - -
71A ASN* 1.3 72.4 - - - +
73A THR* 1.3 60.3 + - - +
74A SER 3.3 1.8 - - - -
103A ARG* 5.9 1.6 - - - +
109A GLU* 6.1 4.3 - - - +
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Residues in contact with THR 73 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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67A GLN* 5.2 0.6 - - - +
71A ASN* 3.0 24.4 + - - +
72A THR* 1.3 80.4 + - - +
74A SER* 1.3 65.4 + - - +
75A THR* 4.1 2.9 + - - -
124A GLN* 6.0 1.3 - - - +
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Residues in contact with SER 74 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67A GLN* 3.2 9.6 - - - +
68A ASP* 3.1 26.2 + - - -
71A ASN* 3.0 33.1 + - - -
73A THR* 1.3 81.6 - - - +
75A THR* 1.3 60.0 + - - +
76A CYS* 4.3 11.2 - - - -
124A GLN* 3.3 37.4 + - - +
125A PRO 4.7 1.9 + - - -
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Residues in contact with THR 75 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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65A GLU* 3.8 24.5 - - + +
66A ALA 3.6 4.7 - - - +
67A GLN* 2.8 29.0 + - - +
73A THR 4.1 3.2 + - - -
74A SER* 1.3 74.0 - - - +
76A CYS* 1.3 60.6 + - - +
111A GLN* 3.8 3.1 - - - +
116A CYS* 4.5 15.1 - - + -
122A MET 5.2 1.1 + - - -
123A LEU* 3.4 26.9 - - + -
124A GLN* 2.7 35.6 + - - +
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Residues in contact with CYS 76 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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65A GLU* 3.3 7.4 - - - +
66A ALA 2.9 34.1 + - - +
68A ASP* 3.7 24.9 - - - -
74A SER* 4.3 4.3 - - - -
75A THR* 1.3 75.6 - - - +
77A ILE* 1.3 65.3 + - - +
92A LEU* 4.0 16.4 - - + -
123A LEU* 4.5 4.5 - - - -
124A GLN 3.3 23.6 - - - +
125A PRO 3.9 3.1 - - - -
126A PRO* 3.7 29.8 - - + -
136A TRP* 5.0 0.7 - - + -
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Residues in contact with ILE 77 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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63A LYS* 4.2 16.6 - - + -
64A LEU 3.5 11.7 - - - +
65A GLU* 4.2 10.3 - - + +
76A CYS* 1.3 76.3 - - - +
78A ALA* 1.3 65.7 + - - +
92A LEU* 3.4 9.3 - - - +
93A ASP* 3.1 47.3 + - + +
113A ILE* 4.2 6.3 - - + -
123A LEU* 3.3 24.7 - - + -
136A TRP* 4.4 12.1 - - + -
140A LEU* 3.3 28.7 - - + -
143A THR* 4.6 4.3 - - + -
144A LEU* 4.0 21.1 - - + -
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Residues in contact with ALA 78 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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63A LYS* 3.3 5.0 - - - +
64A LEU* 2.9 45.1 + - + +
66A ALA* 4.0 25.1 - - + -
76A CYS 3.8 0.2 + - - -
77A ILE* 1.3 74.6 - - - +
79A THR* 1.3 58.9 + - - +
90A LEU* 4.3 7.9 - - + -
91A ARG 3.3 9.9 - - - +
92A LEU* 4.0 9.4 - - + -
93A ASP* 3.4 5.8 - - - -
101A PHE* 4.2 7.9 - - + -
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Residues in contact with THR 79 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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61A SER* 3.8 18.4 - - - +
62A MET 3.4 9.6 - - - +
63A LYS* 3.0 25.2 + - - +
78A ALA* 1.3 73.2 - - - +
80A VAL* 1.3 77.7 + - - +
81A VAL* 3.2 15.3 + - + +
90A LEU* 3.4 6.7 - - - -
91A ARG* 2.9 31.9 + - - -
93A ASP* 2.6 22.9 + - - -
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Residues in contact with VAL 80 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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58A PHE* 4.1 19.1 - - + -
59A LYS 3.5 21.5 - - - +
60A ILE* 3.5 8.0 - - - +
61A SER 2.8 27.9 + - - -
62A MET* 2.9 15.8 + - + +
64A LEU* 3.7 24.9 - - + -
79A THR* 1.3 74.8 - - - +
81A VAL* 1.3 58.0 + - - +
82A GLY 3.4 23.3 - - - +
83A LEU* 3.8 18.8 - - + -
88A LEU* 4.2 7.0 - - + -
89A ARG 3.6 4.7 - - - +
90A LEU* 3.9 8.1 - - + -
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Residues in contact with VAL 81 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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60A ILE* 3.9 19.5 - - + +
79A THR* 3.2 19.0 + - + +
80A VAL* 1.3 78.1 - - - +
82A GLY* 1.3 56.9 + - - +
89A ARG* 2.8 40.1 + - + +
90A LEU 4.3 0.2 - - - -
91A ARG* 4.0 39.7 - - + +
100A ASP* 3.8 16.4 - - - +
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Residues in contact with GLY 82 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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60A ILE* 4.0 9.4 - - - -
80A VAL* 3.4 14.6 - - - +
81A VAL* 1.3 81.1 - - - +
83A LEU* 1.3 64.1 + - - +
88A LEU* 3.7 1.0 - - - -
89A ARG* 2.9 40.1 + - - -
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Residues in contact with LEU 83 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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56A ASN* 3.9 14.1 - - - +
58A PHE* 3.6 27.6 - - + +
59A LYS* 4.6 2.9 - - - -
60A ILE* 4.4 18.2 - - + +
80A VAL* 3.8 12.3 - - + -
82A GLY* 1.3 79.2 - - - +
84A THR* 1.3 63.4 + - - +
85A GLY 4.2 0.4 - - - +
87A ARG 3.6 4.9 - - - +
88A LEU* 3.5 29.4 - - + -
89A ARG* 4.7 0.4 - - - +
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Residues in contact with THR 84 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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83A LEU* 1.3 75.0 - - - +
85A GLY* 1.3 59.3 + - - +
86A ALA 3.2 0.5 + - - -
87A ARG* 2.9 44.4 + - + +
89A ARG 5.4 0.2 - - - +
102A TRP* 4.0 22.9 - - + +
182A HIS* 5.8 1.3 - - - +
229A GLY 4.0 2.2 + - - -
230A ASP* 3.1 31.4 + - - +
231A ASN* 3.0 31.0 + - - +
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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