Contacts of the helix formed by residues 58 - 74 (chain B) in PDB entry 2EZT
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 58 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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32B ILE* 4.0 2.9 - - - -
56B VAL* 3.3 13.7 - - - +
57B ARG* 1.3 80.8 - - - +
59B GLU* 1.3 67.9 + - - +
60B GLU* 3.1 50.7 + - + +
61B VAL* 3.1 16.2 + - + +
89B HIS* 3.1 51.8 + + - -
455B GLN* 3.3 22.9 - - - +
456B ASP* 3.3 2.2 + - - +
1511B NA 4.1 17.9 - - - -
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Residues in contact with GLU 59 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31B GLY* 5.7 0.4 - - - -
32B ILE* 3.6 39.9 - - + +
56B VAL* 4.2 7.2 - - - -
58B HIS* 1.3 71.9 + - - +
60B GLU* 1.3 63.8 + - - +
61B VAL 3.2 0.2 - - - -
62B GLY* 3.3 3.1 + - - -
63B ALA 3.1 16.8 + - - -
80B PHE 4.3 11.2 - - - +
81B GLY* 4.5 1.6 - - - -
82B SER* 4.6 3.5 + - - -
86B GLY* 3.5 42.0 - - - +
89B HIS* 2.7 36.0 + - + -
90B LEU* 3.5 18.3 - - + +
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Residues in contact with GLU 60 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58B HIS* 3.1 35.0 + - + +
59B GLU* 1.3 77.1 - - - +
61B VAL* 1.3 60.5 + - + +
63B ALA* 3.3 2.0 + - - +
64B MET* 2.8 58.2 + - + +
89B HIS 3.1 22.6 + - - +
90B LEU* 4.4 4.3 - - - +
92B ASN* 3.8 17.7 + - + +
93B GLY 4.6 0.3 + - - -
422B MET 4.9 1.9 - - - +
452B MET* 4.3 14.4 - - - +
453B THR* 4.2 18.2 - - + +
455B GLN* 5.6 0.2 + - - -
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Residues in contact with VAL 61 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56B VAL* 4.3 7.0 - - + -
58B HIS 3.1 9.9 + - - +
60B GLU* 1.3 78.6 - - + +
62B GLY* 1.3 56.8 + - - +
64B MET* 4.4 0.2 - - - -
65B ALA* 2.8 33.9 + - + +
427B PRO* 3.4 27.8 - - + +
430B ILE* 4.2 9.4 - - + -
453B THR* 3.7 32.8 - - + -
455B GLN* 3.7 8.3 - - - +
456B ASP* 3.2 43.5 - - + +
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Residues in contact with GLY 62 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30B TYR* 3.4 32.9 - - - -
31B GLY* 5.6 0.4 - - - -
56B VAL* 3.9 10.1 - - - +
58B HIS 3.8 2.6 + - - -
59B GLU 3.3 8.5 + - - -
60B GLU 3.3 0.6 - - - -
61B VAL* 1.3 75.7 - - - +
63B ALA* 1.3 58.4 + - - +
66B ALA* 2.9 30.3 + - - +
79B CYS* 3.7 7.7 - - - +
90B LEU* 5.7 0.2 - - - -
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Residues in contact with ALA 63 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59B GLU 3.1 6.4 + - - +
60B GLU 3.8 4.0 - - - +
62B GLY* 1.3 76.0 - - - +
64B MET* 1.3 58.2 + - - +
66B ALA* 3.2 3.3 + - - +
67B ALA* 3.0 27.4 + - - +
79B CYS* 3.8 16.8 - - - +
90B LEU* 3.2 47.3 - - + +
93B GLY* 3.6 12.0 - - - -
94B LEU* 4.0 5.8 - - + +
104B VAL* 5.2 2.1 - - - +
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Residues in contact with MET 64 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60B GLU* 2.8 47.6 + - + +
63B ALA* 1.3 78.3 - - - +
65B ALA* 1.3 56.1 + - - +
67B ALA* 3.3 6.6 + - - +
68B ALA* 3.0 26.9 + - - +
71B LYS* 5.7 0.3 + - - -
92B ASN* 3.9 7.6 - - + -
93B GLY* 3.7 15.5 - - - -
96B ASP* 5.0 3.5 - - - +
421B THR* 3.5 31.9 - - + +
422B MET 3.6 13.0 - - - +
423B GLY* 3.8 11.9 - - - +
424B VAL* 4.0 15.8 - - + +
427B PRO* 3.6 31.2 - - + -
428B GLY 5.2 0.3 + - - -
453B THR* 4.4 4.7 - - - -
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Residues in contact with ALA 65 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30B TYR* 3.4 31.9 - - + +
61B VAL* 2.8 24.4 + - + +
62B GLY 3.9 0.9 - - - +
64B MET* 1.3 69.8 - - - +
66B ALA* 1.3 60.5 - - - +
68B ALA* 3.3 0.8 + - - -
69B ASP* 2.8 27.5 + - - -
427B PRO* 3.5 28.9 - - + +
430B ILE* 4.8 3.1 - - + -
431B ALA* 3.3 9.6 - - + +
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Residues in contact with ALA 66 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30B TYR* 3.5 7.8 - - + -
62B GLY 2.9 19.8 + - - +
63B ALA 3.5 5.2 - - - +
65B ALA* 1.3 76.8 - - - +
67B ALA* 1.3 61.2 + - - +
69B ASP* 3.3 9.0 - - - +
70B ALA 3.3 15.1 + - - -
77B GLY* 3.3 12.9 - - - -
78B VAL 3.7 33.4 - - - +
79B CYS* 4.1 5.2 - - + -
104B VAL* 3.8 13.3 - - + +
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Residues in contact with ALA 67 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63B ALA 3.0 13.0 + - - +
64B MET* 3.6 8.5 - - - +
65B ALA 3.3 0.2 - - - -
66B ALA* 1.3 77.7 - - - +
68B ALA* 1.3 56.8 + - - +
70B ALA* 3.1 5.2 + - - +
71B LYS* 2.9 32.1 + - - +
93B GLY 4.1 4.3 - - - +
96B ASP* 3.8 21.8 - - - +
97B ALA* 4.0 24.5 - - + -
102B VAL* 3.7 5.0 - - + +
104B VAL* 3.8 10.7 - - - +
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Residues in contact with ALA 68 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64B MET 3.0 16.7 + - - +
65B ALA 3.6 4.9 - - - +
67B ALA* 1.3 73.8 - - - +
69B ASP* 1.3 66.7 + - - +
71B LYS* 3.5 14.0 - - + +
72B LEU* 2.9 29.2 + - + +
414B ILE* 3.6 22.9 - - + -
428B GLY* 3.7 12.8 - - - -
431B ALA* 3.7 15.9 - - + -
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Residues in contact with ASP 69 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28B HIS* 2.7 33.8 + - - +
30B TYR* 2.9 31.9 + - - -
65B ALA 2.8 15.8 + - - +
66B ALA* 3.3 11.3 - - - +
68B ALA* 1.3 73.2 - - - +
70B ALA* 1.3 57.5 + - - +
72B LEU* 3.3 0.3 + - - -
73B THR* 2.8 37.9 + - - +
75B LYS 4.2 2.0 - - - +
76B ILE 5.2 0.7 - - - +
77B GLY* 4.1 12.4 - - - -
431B ALA* 3.5 4.4 - - - +
435B ASN* 2.8 26.3 + - - +
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Residues in contact with ALA 70 (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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66B ALA 3.3 5.2 + - - +
67B ALA 3.1 5.8 + - - +
69B ASP* 1.3 76.7 - - - +
71B LYS* 1.3 62.2 + - - +
74B GLY* 2.9 26.7 + - - +
75B LYS 3.3 18.2 - - - +
77B GLY 4.1 0.2 - - - +
102B VAL* 3.5 25.6 - - + +
103B PRO* 3.3 33.9 - - + +
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Residues in contact with LYS 71 (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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64B MET 5.7 0.2 + - - -
67B ALA* 2.9 23.9 + - - +
68B ALA* 3.2 14.5 + - - +
70B ALA* 1.3 79.0 - - - +
72B LEU* 1.3 60.6 + - - +
74B GLY 4.7 0.5 + - - -
96B ASP* 2.6 31.0 + - - -
100B ASP* 3.3 27.0 + - + +
102B VAL* 3.9 19.0 - - + +
412B ARG* 2.9 19.3 + - - -
414B ILE* 4.0 22.8 - - + +
415B THR 2.9 30.3 + - - +
416B SER* 4.0 0.2 - - - +
417B ASN* 6.2 0.2 - - - +
424B VAL* 5.4 2.8 - - - +
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Residues in contact with LEU 72 (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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68B ALA 2.9 20.5 + - - +
69B ASP 3.9 2.5 - - - +
71B LYS* 1.3 77.4 - - - +
73B THR* 1.3 63.2 + - + +
74B GLY 3.7 0.2 - - - -
224B ARG* 5.3 0.9 + - - -
389B ILE* 4.0 21.1 - - + -
412B ARG* 2.8 39.1 + - + +
414B ILE* 3.9 33.0 - - + -
428B GLY 4.4 0.2 - - - +
431B ALA 4.2 3.6 - - - -
432B ALA* 3.4 39.7 - - + +
435B ASN* 4.3 5.6 - - - +
436B TYR* 3.3 25.8 + - + -
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Residues in contact with THR 73 (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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69B ASP* 2.8 19.3 + - - +
72B LEU* 1.3 79.3 - - + +
74B GLY* 1.3 59.8 + - - +
75B LYS* 3.2 34.5 + - - +
435B ASN* 3.6 37.8 + - + +
436B TYR* 3.7 15.9 - - + +
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Residues in contact with GLY 74 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70B ALA* 2.9 18.7 + - - -
71B LYS 4.7 0.8 + - - -
72B LEU 3.7 0.4 - - - -
73B THR* 1.3 77.8 - - - +
75B LYS* 1.3 61.2 + - - +
103B PRO* 4.3 7.8 - - - +
158B TYR* 3.5 17.7 - - - -
161B GLN* 5.5 1.6 + - - -
189B TYR* 5.4 1.4 + - - -
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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
------------------------------------------------------------
Atomic class I II III IV V VI VII VIII
------------------------------------------------------------
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