Contacts of the helix formed by residues 49 - 65 (chain C) in PDB entry 2UZ1
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 49 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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25C LEU* 3.5 6.7 - - - +
47C THR* 2.8 18.5 + - - -
48C ARG* 1.3 78.7 - - - +
50C GLU* 1.3 68.6 + - - +
51C ALA* 3.0 38.4 + - + +
52C ALA* 3.1 15.7 + - + +
53C ALA 3.2 0.3 + - - -
80C ASN* 3.8 29.3 + - + -
453C TYR 5.0 6.1 - - - -
454C SER* 5.9 5.4 - - - +
457C GLU* 3.3 8.2 + - - +
49D HIS* 4.1 21.6 + + - -
51D ALA* 5.6 3.8 - - + +
452D GLY 5.8 0.4 - - - +
453D TYR* 3.5 44.5 + + - +
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Residues in contact with GLU 50 (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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25C LEU* 3.7 20.4 - - + +
47C THR* 4.6 0.2 - - - -
49C HIS* 1.3 72.7 + - - +
51C ALA* 1.3 57.5 + - - +
53C ALA* 3.2 7.8 + - - +
54C GLY* 2.9 26.5 + - - -
72C VAL* 3.5 28.2 - - + +
73C THR* 4.5 1.6 - - - +
77C GLY* 3.6 30.9 - - - +
80C ASN* 3.1 24.9 + - + +
81C ALA* 4.4 4.8 - - - +
453D TYR* 2.8 19.4 + - - -
1556D TPP 2.7 31.9 + - - -
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Residues in contact with ALA 51 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49C HIS* 3.0 23.0 + - + +
50C GLU* 1.3 75.1 - - - +
52C ALA* 1.3 58.0 + - - +
54C GLY 3.2 1.0 + - - -
55C HIS* 2.9 44.1 + - + +
80C ASN 3.3 21.8 + - - +
83C THR* 5.6 2.5 - - - -
84C PRO* 3.2 14.4 - - + +
454C SER* 5.7 3.4 - - - +
49D HIS* 5.5 4.9 - - + +
80D ASN* 5.9 2.0 - - - +
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Residues in contact with ALA 52 (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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47C THR* 4.2 4.3 - - + -
49C HIS* 3.1 11.5 + - + +
51C ALA* 1.3 79.1 - - - +
53C ALA* 1.3 52.5 + - - +
55C HIS* 4.5 2.2 - - - -
56C ALA* 2.8 35.3 + - - +
426C GLY* 3.6 18.6 - - - +
429C LEU* 5.9 0.7 - - + -
454C SER* 4.7 9.3 + - - +
457C GLU* 3.3 44.2 - - + +
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Residues in contact with ALA 53 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23C PHE* 3.4 13.9 - - - +
24C GLY* 3.6 33.9 - - - +
47C THR* 3.3 25.0 + - + +
49C HIS 3.2 5.3 + - - +
50C GLU* 3.2 12.4 + - + +
52C ALA* 1.3 75.1 - - - +
54C GLY* 1.3 59.3 + - - +
56C ALA* 3.2 2.8 + - - +
57C ALA* 3.0 25.1 + - - +
70C ALA* 4.7 1.8 - - + -
72C VAL* 5.3 3.8 - - + -
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Residues in contact with GLY 54 (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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50C GLU 2.9 12.0 + - - -
51C ALA 3.6 2.7 - - - -
53C ALA* 1.3 77.1 - - - +
55C HIS* 1.3 57.1 + - - +
57C ALA* 3.2 6.2 + - - +
58C GLU* 3.0 27.9 + - - +
70C ALA* 4.1 7.8 - - - +
81C ALA* 5.5 1.8 - - - -
84C PRO* 3.6 21.6 - - - +
97C PHE* 4.0 15.3 - - - -
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Residues in contact with HIS 55 (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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51C ALA* 2.9 35.6 + - + +
52C ALA* 4.6 1.8 - - - -
54C GLY* 1.3 69.2 - - - +
56C ALA* 1.3 59.6 + - - +
58C GLU* 2.7 28.3 + - - +
59C GLY 2.8 24.4 + - - -
83C THR* 3.9 9.7 - - - +
84C PRO* 3.4 33.2 - - + +
87C ASN* 4.4 2.2 - - + -
422C GLY 4.9 2.5 - - - -
423C VAL* 3.3 51.5 - - + +
426C GLY* 3.7 7.9 - - - -
427C THR* 3.2 26.7 + - - +
454C SER* 5.5 3.1 - - - -
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Residues in contact with ALA 56 (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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23C PHE* 3.4 25.4 - - + -
47C THR* 5.1 0.9 - - + -
52C ALA 2.8 21.6 + - - +
53C ALA* 3.4 7.9 - - - +
55C HIS* 1.3 74.0 - - - +
57C ALA* 1.3 57.3 + - - +
59C GLY 3.1 0.5 + - - -
60C TYR* 2.9 27.9 + - - +
426C GLY* 3.0 17.9 + - - +
429C LEU* 4.3 8.5 - - + -
430C GLY* 3.2 16.4 - - - +
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Residues in contact with ALA 57 (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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23C PHE* 3.8 12.0 - - + -
53C ALA 3.0 12.4 + - - +
54C GLY 3.2 9.6 + - - +
56C ALA* 1.3 75.8 - - - +
58C GLU* 1.3 62.5 + - - +
60C TYR* 3.5 0.8 + - - +
61C ALA* 3.0 19.1 + - - +
68C GLY* 3.5 12.5 - - - -
69C VAL 3.8 33.7 - - - +
70C ALA* 3.9 4.0 - - + +
95C VAL* 3.8 16.2 - - + -
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Residues in contact with GLU 58 (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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54C GLY 3.0 11.1 + - - +
55C HIS* 2.7 40.2 + - - +
57C ALA* 1.3 77.4 - - - +
59C GLY* 1.3 58.1 + - - +
61C ALA* 3.2 2.4 + - - +
62C ARG* 2.8 42.7 + - - +
84C PRO* 3.2 24.0 - - + +
87C ASN* 2.8 27.8 - - - +
88C ALA* 3.6 15.4 + - + -
91C ASP* 4.5 2.8 - - - +
93C THR* 4.1 7.9 + - + -
95C VAL* 3.7 21.3 - - + +
97C PHE* 5.1 1.1 - - + -
427C THR* 4.9 4.9 + - - +
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Residues in contact with GLY 59 (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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55C HIS 2.8 14.6 + - - -
56C ALA 3.1 0.9 + - - -
58C GLU* 1.3 70.1 - - - +
60C TYR* 1.3 60.0 + - - +
62C ARG* 3.9 0.8 - - - +
63C ALA* 2.9 35.3 + - - +
413C LEU* 4.0 5.7 - - - +
427C THR* 3.3 35.7 - - - -
431C ALA* 3.6 7.5 - - - +
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Residues in contact with TYR 60 (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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19C VAL* 6.4 0.4 - - + -
20C GLU* 4.3 6.4 + - - +
21C HIS* 2.7 54.4 + + + +
23C PHE* 3.6 26.2 - + + -
56C ALA 2.9 17.1 + - - +
57C ALA 3.5 4.0 - - - +
59C GLY* 1.3 76.1 - - - +
61C ALA* 1.3 56.6 + - - +
64C GLY* 2.9 29.5 + - - -
66C LYS* 3.3 35.9 + - + +
67C LEU 3.5 25.6 - - - -
68C GLY* 4.1 6.3 - - - -
69C VAL 5.3 0.2 - - - -
430C GLY 3.6 10.5 - - - +
433C VAL* 4.0 6.3 - - + -
434C ALA* 3.7 30.0 - - + +
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Residues in contact with ALA 61 (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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57C ALA 3.0 18.2 + - - +
58C GLU 3.5 4.3 - - - +
60C TYR* 1.3 76.3 - - - +
62C ARG* 1.3 58.7 + - - +
65C ALA* 2.9 25.6 + - - -
66C LYS* 3.1 30.6 + - - +
68C GLY 3.6 4.7 - - - +
93C THR* 3.8 13.7 - - + -
94C PRO* 3.6 22.7 - - + +
95C VAL* 4.4 0.2 - - + -
217C ARG* 5.1 4.2 - - - -
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Residues in contact with ARG 62 (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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58C GLU* 2.8 29.4 + - - +
61C ALA* 1.3 78.9 - - - +
63C ALA* 1.3 63.0 + - - +
65C ALA* 3.6 7.4 + - - +
87C ASN* 4.6 6.5 + - - -
91C ASP* 4.0 17.5 + - - -
93C THR* 3.7 26.4 + - + +
216C SER* 4.5 12.3 + - - -
217C ARG* 4.0 10.8 + - - +
240C GLU* 2.7 41.7 + - - +
413C LEU* 3.5 32.1 - - + +
414C CYS 3.0 37.8 + - - +
423C VAL* 6.0 2.2 - - - +
427C THR* 3.8 24.0 + - - +
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Residues in contact with ALA 63 (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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59C GLY 2.9 16.9 + - - +
62C ARG* 1.3 77.9 - - - +
64C GLY* 1.3 57.9 + - - +
65C ALA* 3.8 0.7 + - - +
388C THR* 4.6 8.7 - - + +
411C GLY* 6.0 3.6 - - - -
413C LEU* 4.2 9.6 - - + +
431C ALA* 3.9 26.0 - - + +
434C ALA* 4.3 4.3 - - + -
435C ASP* 4.1 14.6 - - - +
440C ARG* 3.4 22.6 + - - -
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Residues in contact with GLY 64 (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 TYR 2.9 17.8 + - - -
63C ALA* 1.3 78.3 - - - +
65C ALA* 1.3 72.6 + - - +
66C LYS* 3.3 21.0 + - - +
434C ALA* 4.1 9.8 - - - +
440C ARG* 5.4 1.6 - - - -
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Residues in contact with ALA 65 (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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61C ALA 2.9 13.0 + - - -
62C ARG 3.6 5.6 + - - +
63C ALA 3.4 2.8 - - - +
64C GLY* 1.3 81.1 - - - +
66C LYS* 1.3 56.9 + - - +
216C SER 3.8 14.8 - - - +
217C ARG* 3.7 30.4 - - - +
219C ALA* 4.5 11.9 - - + -
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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
------------------------------------------------------------
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