Contacts of the strand formed by residues 150 - 158 (chain C) in PDB entry 1ZUM
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 PHE 150 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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144C ILE 5.3 0.5 - - - +
146C ILE* 3.9 24.1 - - + +
147C ASP 3.4 21.8 - - - -
148C GLY* 2.9 11.6 + - - +
149C ASP* 1.3 90.3 - - + +
151C PHE* 1.3 60.9 + - - +
152C SER 3.9 0.6 + - - -
492C THR* 4.1 10.3 - - + -
493C VAL 3.2 8.3 - - - +
494C LYS* 3.8 23.3 - - + -
495C VAL* 3.8 6.8 - - - +
498C LYS* 4.3 10.8 - - - +
285D TRP* 6.6 0.2 - + - -
455D CYS* 4.0 17.7 - - + -
458D VAL* 3.7 42.4 - - + -
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Residues in contact with PHE 151 (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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440A ASN* 4.8 9.6 - - - +
444A GLN* 5.3 2.7 - - - +
151B PHE* 4.0 3.4 - + - -
153B TYR* 3.2 61.2 - + - -
155B ARG* 5.0 10.5 - - + -
143C THR* 4.0 21.8 - - + -
144C ILE 5.8 0.4 - - - -
150C PHE* 1.3 71.9 - - - +
152C SER* 1.3 65.6 + - - +
153C TYR* 3.5 30.5 - + - -
491C VAL 3.7 1.6 - - - +
492C THR* 3.5 1.3 - - - -
493C VAL* 2.8 46.9 + - + +
495C VAL* 3.9 20.6 - - + +
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Residues in contact with SER 152 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
143C THR* 3.4 4.2 - - - -
144C ILE* 2.7 43.6 + - - +
146C ILE* 3.8 22.2 - - - -
150C PHE 3.9 1.4 + - - -
151C PHE* 1.3 81.3 - - - +
153C TYR* 1.3 59.8 + - - +
490C THR* 3.9 7.1 - - - +
491C VAL 3.4 3.9 + - - -
492C THR* 2.9 23.8 + - - -
463D SER* 3.2 17.8 + - - -
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Residues in contact with TYR 153 (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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143B THR* 3.6 13.5 - - + -
151B PHE* 3.4 39.5 - + - -
142C LYS 3.0 15.0 - - - +
143C THR* 4.1 8.7 - - + -
144C ILE* 4.4 1.3 - - - +
151C PHE* 3.5 29.4 - + + -
152C SER* 1.3 75.8 + - - +
154C THR* 1.3 73.3 + - - +
155C ARG* 4.2 4.0 - - + -
490C THR* 3.4 4.5 - - - +
491C VAL* 2.9 69.8 + - + +
493C VAL* 4.6 5.8 - - + -
3113C EDO 2.6 35.9 + - - -
440D ASN* 4.7 4.2 + - - -
443D SER* 4.0 2.3 + - - -
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Residues in contact with THR 154 (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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143B THR* 2.9 28.8 + - - +
141C GLY* 3.5 2.8 - - - -
142C LYS* 2.8 27.2 + - - -
144C ILE* 3.9 23.6 - - + -
153C TYR* 1.3 78.5 - - - +
155C ARG* 1.3 64.8 + - - +
156C HIS* 4.3 0.2 + - - -
488C VAL* 3.9 8.7 - - + -
489C LYS 3.0 7.9 - - - +
490C THR* 3.7 20.0 - - - +
464D PRO* 4.0 1.3 - - + -
480D TYR* 2.8 35.8 + - + -
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Residues in contact with ARG 155 (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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143B THR* 4.7 5.4 - - - +
151B PHE* 5.5 1.3 - - + -
498B LYS* 5.7 2.0 - - - +
499B ASN 3.1 25.3 + - - -
500B SER* 3.8 15.0 + - - -
141C GLY* 4.8 0.2 - - - -
153C TYR* 4.2 10.8 - - + -
154C THR* 1.3 77.2 - - - +
156C HIS* 1.3 64.0 + - - +
157C GLU* 3.4 26.0 + - + -
487C LYS 3.5 2.6 - - - +
488C VAL* 3.6 2.8 - - - -
489C LYS* 2.8 46.8 + - + +
491C VAL* 4.7 0.9 - - - -
3113C EDO 2.4 57.3 + - - +
444D GLN* 3.4 29.7 + - - +
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Residues in contact with HIS 156 (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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500B SER* 4.2 6.1 - - - +
139C TYR* 3.3 50.1 + + + +
140C HIS 3.1 27.3 + - - -
141C GLY* 4.1 6.4 - - - +
142C LYS* 5.6 2.9 - - - -
154C THR* 4.5 0.4 - - - -
155C ARG* 1.3 78.4 - - - +
157C GLU* 1.3 61.2 + - - +
158C PRO* 4.6 1.0 - - - +
185C THR 5.7 0.5 - - - +
486C THR* 3.4 17.2 + - + -
487C LYS 3.5 3.6 - - - -
488C VAL* 4.0 17.9 - - + +
480D TYR* 2.8 38.2 + + - -
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Residues in contact with GLU 157 (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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500B SER* 3.7 13.7 - - - +
77C ARG* 5.6 4.0 + - - +
155C ARG* 3.4 34.2 + - + +
156C HIS* 1.3 77.2 - - - +
158C PRO* 1.3 75.4 - - + +
185C THR 5.0 0.4 - - - -
486C THR* 3.3 7.2 - - - -
487C LYS* 2.8 38.9 + - + +
489C LYS* 3.2 27.0 + - - +
444D GLN 4.5 2.5 - - - +
468D TYR* 2.7 38.8 + - - +
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Residues in contact with PRO 158 (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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500B SER* 3.4 35.4 - - - +
70C PHE* 3.7 20.6 - - + -
77C ARG* 4.7 4.3 - - - +
156C HIS 4.6 0.9 - - - +
157C GLU* 1.3 94.3 - - + +
159C VAL* 1.3 64.0 + - - +
160C GLY 3.3 0.2 - - - -
185C THR 3.1 26.7 - - - +
186C GLY* 3.6 21.5 - - - +
187C ASN* 3.7 7.9 - - - +
485C TYR 3.9 5.2 - - - +
487C LYS* 3.9 10.3 - - - +
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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