Contacts of the helix formed by residues 91 - 105 (chain K) in PDB entry 2ZHX
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 PRO 91 (chain K).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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70K TYR* 3.8 44.0 - - + +
75K HIS* 4.6 6.7 - - - +
83K VAL* 4.0 18.8 - - + -
87K VAL* 4.4 6.7 - - + -
89K PRO 4.3 2.2 - - - +
90K TRP* 1.3 85.4 - - + +
92K ARG* 1.3 57.7 + - - +
93K SER 3.1 0.4 - - - -
94K LEU* 2.7 31.1 + - + +
95K ALA 2.8 9.5 + - - -
19L GLN* 3.3 26.7 - - + +
20L GLU* 4.0 9.0 - - + +
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Residues in contact with ARG 92 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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89K PRO* 4.9 3.2 - - - +
90K TRP* 2.4 44.3 + - - +
91K PRO* 1.3 70.1 - - - +
93K SER* 1.3 56.9 + - - +
95K ALA* 3.0 27.0 - - - +
96K ASN* 2.7 36.8 + - - +
194K PRO* 3.6 23.8 - - + -
19L GLN* 3.6 4.5 + - - +
20L GLU* 3.7 3.6 + - - +
45L THR* 4.3 10.3 - - + +
47L TYR* 3.1 62.7 + - + +
54L ASN* 3.2 29.4 - - + +
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Residues in contact with SER 93 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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70K TYR* 5.4 3.4 - - - -
81K PHE* 5.0 9.0 - - - -
91K PRO* 5.3 0.7 - - - -
92K ARG* 1.3 72.6 - - - +
94K LEU* 1.3 58.0 + - - +
96K ASN* 3.3 2.8 + - - +
97K ILE* 2.8 33.1 + - - +
191K HIS* 3.2 26.7 - - - -
192K PRO* 3.8 14.1 - - - +
193K SER* 3.3 8.5 - - - +
194K PRO* 4.4 0.8 - - - +
20L GLU* 2.6 42.2 + - - -
22L ILE* 5.2 1.3 - - - -
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Residues in contact with LEU 94 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70K TYR* 4.1 12.7 + - - +
81K PHE* 3.9 16.8 - - - +
83K VAL* 4.1 14.1 - - + -
90K TRP* 4.4 12.8 - - + -
91K PRO* 2.7 15.3 + - + +
93K SER* 1.3 75.3 - - - +
95K ALA* 1.3 62.2 + - - +
97K ILE* 3.0 22.3 + - + +
98K PHE* 2.9 53.5 + - + -
113K GLY* 3.9 29.2 - - - +
115K LEU* 4.0 20.9 - - + -
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Residues in contact with ALA 95 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
90K TRP* 3.9 18.1 - - + +
91K PRO 2.8 5.1 + - - -
92K ARG* 3.0 48.2 - - - +
94K LEU* 1.3 77.7 - - - +
96K ASN* 1.3 63.7 + - - +
98K PHE* 3.1 13.6 + - - +
99K ASP* 3.1 21.0 + - - +
109K LEU* 5.6 0.2 - - - +
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Residues in contact with ASN 96 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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92K ARG* 2.7 19.8 + - - +
93K SER 3.5 0.4 - - - +
95K ALA* 1.3 71.9 - - - +
97K ILE* 1.3 69.3 + - - +
99K ASP* 3.1 20.6 + - - +
100K GLU 3.1 9.0 + - - -
192K PRO* 2.8 31.8 + - + +
194K PRO* 3.5 22.4 - - - +
197K ALA* 3.3 14.1 - - + +
201K PHE* 3.8 3.5 - - + -
202K PHE* 3.5 29.8 - - + -
54L ASN* 5.2 3.4 + - - +
73L GLN* 5.5 0.2 + - - -
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Residues in contact with ILE 97 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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81K PHE* 3.7 27.1 - - + -
93K SER 2.8 31.1 + - - +
94K LEU* 3.0 20.6 + - + +
96K ASN* 1.3 73.1 - - - +
98K PHE* 1.3 71.5 + - + +
100K GLU* 3.0 4.3 + - - +
101K TYR* 2.8 18.8 + - - +
115K LEU* 6.2 0.2 - - + -
118K TRP* 5.0 7.0 - - + -
168K TRP* 3.5 34.8 - - + -
192K PRO* 3.6 16.8 - - + -
201K PHE* 3.9 9.4 - - + -
207K PHE* 3.6 26.2 - - + -
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Residues in contact with PHE 98 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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90K TRP* 4.1 23.6 - + - +
94K LEU* 2.9 37.5 + - + -
95K ALA* 3.1 7.6 + - - +
97K ILE* 1.3 79.4 - - + +
99K ASP* 1.3 52.4 + - - +
101K TYR* 2.9 16.4 + + + +
102K THR* 2.7 35.7 + - - +
109K LEU* 3.9 14.6 - - + -
110K PRO* 3.7 31.9 - - + -
112K ASN 3.7 22.4 - - - -
113K GLY* 4.1 5.6 - - - -
115K LEU* 3.6 32.3 - - + -
118K TRP* 4.4 11.4 - + - -
226K LEU* 4.3 7.9 - - + -
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Residues in contact with ASP 99 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
95K ALA* 3.1 15.5 + - - +
96K ASN* 3.1 19.1 + - - +
97K ILE 3.1 0.2 + - - -
98K PHE* 1.3 75.8 - - - +
100K GLU* 1.3 57.3 + - - +
102K THR* 2.7 22.9 + - - -
103K ALA* 2.9 18.7 + - - +
109K LEU* 4.3 14.0 - - - +
202K PHE* 4.2 11.2 - - + -
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Residues in contact with GLU 100 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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54A THR* 5.1 1.0 - - - +
96K ASN 3.1 2.2 + - - -
97K ILE 3.0 8.0 + - - +
99K ASP* 1.3 78.6 - - - +
101K TYR* 1.3 54.0 + - - +
103K ALA* 4.3 4.3 - - - +
104K ASP* 2.8 37.1 + - - +
201K PHE* 3.5 33.4 - - + +
202K PHE* 3.2 14.4 - - + +
203K GLY* 2.7 28.5 + - - -
204K SER 4.2 0.2 - - - -
205K ARG* 2.9 44.9 + - - -
206K PRO* 3.7 20.4 - - + -
207K PHE* 4.1 1.3 - - + -
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Residues in contact with TYR 101 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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97K ILE 2.8 10.7 + - - +
98K PHE* 2.9 21.9 + + + +
100K GLU* 1.3 74.0 - - - +
102K THR* 1.3 78.2 + - + -
104K ASP* 3.2 0.3 + - - +
105K LEU* 2.9 55.1 + - + +
107K TYR* 3.5 22.0 - + + +
108K PRO 3.6 19.5 - - - -
110K PRO* 3.9 16.4 - - + -
118K TRP* 4.1 18.8 - + - -
207K PHE* 3.3 26.4 - + + -
224K TRP* 4.5 0.7 - - + -
225K ARG* 3.2 39.2 - - - -
226K LEU* 3.3 20.7 + - + +
227K PRO* 3.6 4.9 - - - +
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Residues in contact with THR 102 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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98K PHE 2.7 16.4 + - - +
99K ASP* 2.7 27.7 + - - -
101K TYR* 1.3 78.6 - - + +
103K ALA* 1.3 56.8 + - - +
105K LEU 2.5 20.4 - - - +
106K GLY* 4.6 1.0 - - - -
107K TYR 3.7 13.3 - - - +
108K PRO* 3.7 6.5 - - + -
109K LEU* 3.4 45.3 - - + +
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Residues in contact with ALA 103 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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47A SER* 2.9 33.3 + - - +
54A THR* 6.3 0.9 - - + -
99K ASP 2.9 18.3 + - - +
100K GLU* 3.8 9.0 - - - +
102K THR* 1.3 80.3 + - - +
104K ASP* 1.3 56.9 + - - +
205K ARG* 3.8 22.5 - - - +
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Residues in contact with ASP 104 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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47A SER* 3.4 13.0 + - - -
48A ASN* 5.1 0.9 - - - +
100K GLU* 2.8 24.8 + - - +
101K TYR 3.7 2.9 - - - +
103K ALA* 1.3 76.7 - - - +
105K LEU* 1.3 62.8 + - - +
205K ARG* 3.2 35.0 - - - +
206K PRO 3.5 0.2 - - - -
207K PHE* 3.0 22.3 + - + +
208K SER* 2.9 48.3 + - - -
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Residues in contact with LEU 105 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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47A SER* 4.2 2.4 + - - -
101K TYR* 2.9 39.7 + - + +
102K THR 2.5 30.5 - - - +
103K ALA 3.9 0.5 - - - +
104K ASP* 1.3 79.2 - - - +
106K GLY* 1.3 56.9 + - - +
107K TYR* 2.9 43.5 + - + +
207K PHE* 4.0 12.8 - - + -
208K SER* 4.4 29.6 - - - +
211K ASN* 5.1 3.1 - - - +
224K TRP* 3.9 20.2 - - + -
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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