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PR00155

Identifier
AMICYANIN  [View Relations]  [View Alignment]  
Accession
PR00155
No. of Motifs
5
Creation Date
03-FEB-1995  (UPDATE 11-JUN-1999)
Title
Amicyanin family signature
Database References
PRINTS; PR00156 COPPERBLUE
INTERPRO; IPR002386
PDB; 1AAJ
SCOP; 1AAJ
CATH; 1AAJ
Literature References
1. KALVERDA, A.P., WYMENGA, S.S., LOMMEN, A., VAN DE VEN, F.J.M.,
HILBERS, C.W. AND CANTERS, G.W.
Solution structure of the type 1 blue copper protein amicyanin from
Thiobacillus versutus.
J.MOL.BIOL. 240 358-371 (1994).
 
2. RYDEN, L.G. AND HUNT, L.T.
Evolution of protein complexity - the blue copper-containing oxidases
and related proteins.
J.MOL.EVOL. 36 41-66 (1993).

Documentation
Type I blue copper proteins are found in methylothropic bacteria, where
they appear to function as the electron acceptor to methylamine dehydro-
genase [1]. They bind a single copper atom and are characterised by an
intense electronic absorption band near 600nm [2]. Several subclasses of
the blue copper proteins, such as the azurins and plastocyanins, have been
identified. Based on their primary sequences and their unique metabolic
role, amicyanins are considered as a distinct subclass of cupredoxins,
although they appear to be closely related to the plant plastocyanins.
 
The structure of amicyanin is a beta-sandwich, built from 9 beta-strands.
The copper atom is located between 3 loops on one end of the molecule.
Two of these loops contribute the copper ligands. The other 3 ligands are 
located on the loop between strands 8 and 9. The structure departs from
the general cupredoxin fold in having a 21-residue N-terminal extension,
which forms an extra beta-strand, and it shows significant differences
between strands 5 and 7 (this forms a helix in azurin and an acidic
patch in plastocyanin).  
 
AMICYANIN is a 5-element fingerprint that provides a signature for the
amicyanins and pseudoazurins. The fingerprint was derived from an initial
alignment of 7 sequences: the motifs were drawn from conserved regions
spanning virtually the full alignment length, motif 5 including the region
encoded by PROSITE pattern COPPER_BLUE (PS00196), which contains conserved
Cys and His residues involved in copper binding. Two iterations on OWL25.1
were required to reach convergence, at which point a true set comprising
12 sequences was identified. Thirteen partial matches were also found,
virtually all of which are closely related plastocyanins.
 
An update on SPTR37_9f identified a true set of 9 sequences, and 2
partial matches.
Summary Information
   9 codes involving  5 elements
0 codes involving 4 elements
0 codes involving 3 elements
2 codes involving 2 elements
Composite Feature Index
599999
400000
300000
201102
12345
True Positives
AMCY_METEX    AMCY_PARDE    AMCY_PARVE    AZUP_ACHCY    
AZUP_ALCFA AZUP_METEX AZUP_PARDE AZUP_PARDT
AZUP_RHILV
True Positive Partials
Codes involving 2 elements
O24185 PLAS_SCEOB
Sequence Titles
AMCY_METEX  AMICYANIN-ALPHA PRECURSOR - METHYLOBACTERIUM EXTORQUENS. 
AMCY_PARDE AMICYANIN PRECURSOR - PARACOCCUS DENITRIFICANS.
AMCY_PARVE AMICYANIN PRECURSOR - PARACOCCUS VERSUTUS (THIOBACILLUS VERSUTUS).
AZUP_ACHCY PSEUDOAZURIN PRECURSOR (BLUE COPPER PROTEIN) - ACHROMOBACTER CYCLOCLASTES.
AZUP_ALCFA PSEUDOAZURIN PRECURSOR (CUPREDOXIN) (BLUE COPPER PROTEIN) - ALCALIGENES FAECALIS.
AZUP_METEX PSEUDOAZURIN - METHYLOBACTERIUM EXTORQUENS.
AZUP_PARDE PSEUDOAZURIN - PARACOCCUS DENITRIFICANS.
AZUP_PARDT PSEUDOAZURIN PRECURSOR - PARACOCCUS DENITRIFICANS (SUBSP. THIOSPHAERA PANTOTROPHA).
AZUP_RHILV PUTATIVE PSEUDOAZURIN PRECURSOR (BLUE COPPER PROTEIN) - RHIZOBIUM LEGUMINOSARUM (BIOVAR VICIAE).

O24185 PLASTOCYANIN PRECURSOR - ORYZA SATIVA (RICE).
PLAS_SCEOB PLASTOCYANIN - SCENEDESMUS OBLIQUUS.
Scan History
OWL25_1    2  150  NSINGLE    
SPTR37_9f 3 15 NSINGLE
Initial Motifs
Motif 1  width=16
Element Seqn Id St Int Rpt
AAEVADGAIVVDIAKM NRL_2MTAA 13 13 -
AAEVADGAIVVDIAKM NRL_1AAJ 13 13 -
AADVPADAVVVGIEKM AMCY_THIVE 14 14 -
NIEVHMLNKGAEGAMV NRL_1PAZ 2 2 -
AAEVADGAIVVDIAKM NRL_1AAN 13 13 -
AAEVADGAIVVDIAKM AMCY_PARDE 39 39 -
NIEVHMLNKGAEGAMV AZUP_ALCFA 25 25 -

Motif 2 width=20
Element Seqn Id St Int Rpt
YETPELHVKVGDTVTWINRE NRL_2MTAA 30 1 -
YETPELHVKVGDTVTWINRE NRL_1AAN 30 1 -
YETPELHVKVGDTVTWINRE NRL_1AAJ 30 1 -
YLTPEVTIKAGETVYWVNGE AMCY_THIVE 31 1 -
FEPAYIKANPGDTVTFIPVD NRL_1PAZ 18 0 -
YETPELHVKVGDTVTWINRE AMCY_PARDE 56 1 -
FEPAYIKANPGDTVTFIPVD AZUP_ALCFA 41 0 -

Motif 3 width=16
Element Seqn Id St Int Rpt
MPHNVHFVAGVLGEAA AMCY_PARDE 77 1 -
MPHNVHFVAGVLGEAA NRL_1AAJ 51 1 -
MPHNVHFVAGVLGEAA NRL_1AAN 51 1 -
MPHNVHFVAGVLGEAA NRL_2MTAA 51 1 -
MPHNVAFKKGIVGEDA AMCY_THIVE 52 1 -
KGHNVESIKDMIPEGA NRL_1PAZ 38 0 -
KGHNVESIKDMIPEGA AZUP_ALCFA 61 0 -

Motif 4 width=16
Element Seqn Id St Int Rpt
KKEQAYSLTFTEAGTY NRL_2MTAA 73 6 -
KKEQAYSLTFTEAGTY NRL_1AAJ 73 6 -
KKEQAYSLTFTEAGTY NRL_1AAN 73 6 -
TKDQAYAITFNEAGSY AMCY_THIVE 74 6 -
KINENYVLTVTQPGAY NRL_1PAZ 59 5 -
KINENYVLTVTQPGAY AZUP_ALCFA 82 5 -
KKEQAYSLTFTEAGTY AMCY_PARDE 99 6 -

Motif 5 width=16
Element Seqn Id St Int Rpt
DYHCTPHPFMRGKVVV NRL_2MTAA 89 0 -
DYHCTPHPFMRGKVVV NRL_1AAN 89 0 -
DYHCTPHPFMRGKVVV NRL_1AAJ 89 0 -
LVKCTPHYAMGMIALI AZUP_ALCFA 98 0 -
DYHCTPHPFMRGKVVV AMCY_PARDE 115 0 -
LVKCTPHYAMGMIALI NRL_1PAZ 75 0 -
DYFCTPHPFMRGKVIV AMCY_THIVE 90 0 -
Final Motifs
Motif 1  width=16
Element Seqn Id St Int Rpt
DFEVHMLNKGKDGAMV AZUP_ACHCY 30 30 -
THEVHMLNKGESGAMV AZUP_PARDE 2 2 -
THEVHMLNKGESGAMV AZUP_PARDT 24 24 -
NIEVHMLNKGAEGAMV AZUP_ALCFA 25 25 -
DHQVQMLNKGTDGAMV AZUP_RHILV 25 25 -
EVAVKMLNSGPGGMMV AZUP_METEX 2 2 -
AAEVADGAIVVDIAKM AMCY_PARDE 39 39 -
VQEAPAGSTEVKIAKM AMCY_METEX 27 27 -
AADVPADAVVVGIEKM AMCY_PARVE 40 40 -

Motif 2 width=20
Element Seqn Id St Int Rpt
FEPASLKVAPGDTVTFIPTD AZUP_ACHCY 46 0 -
FEPAFIRAEPGDVINFIPTD AZUP_PARDE 18 0 -
FEPAFVRAEPGDVINFVPTD AZUP_PARDT 40 0 -
FEPAYIKANPGDTVTFIPVD AZUP_ALCFA 41 0 -
FEPGFLKIAPGDTVTFIPTD AZUP_RHILV 41 0 -
FDPALVRLKPGDSIKFLPTD AZUP_METEX 18 0 -
YETPELHVKVGDTVTWINRE AMCY_PARDE 56 1 -
FQTPEVRIKAGSAVTWTNTE AMCY_METEX 44 1 -
YLTPEVTIKAGETVYWVNGE AMCY_PARVE 57 1 -

Motif 3 width=16
Element Seqn Id St Int Rpt
KGHNVETIKGMIPDGA AZUP_ACHCY 66 0 -
KSHNVEAIKEILPEGV AZUP_PARDE 38 0 -
KSHNVEAIKEILPEGV AZUP_PARDT 60 0 -
KGHNVESIKDMIPEGA AZUP_ALCFA 61 0 -
KSHNVETFKGLIPDGV AZUP_RHILV 61 0 -
KGHNVETIKGMAPDGA AZUP_METEX 38 0 -
MPHNVHFVAGVLGEAA AMCY_PARDE 77 1 -
LPHNVHFKSGPGVEKD AMCY_METEX 65 1 -
MPHNVAFKKGIVGEDA AMCY_PARVE 78 1 -

Motif 4 width=16
Element Seqn Id St Int Rpt
KINENYKVTFTAPGVY AZUP_ACHCY 87 5 -
KINEAYALTVTEPGLY AZUP_PARDE 59 5 -
KINESYTLTVTEPGLY AZUP_PARDT 81 5 -
KINENYVLTVTQPGAY AZUP_ALCFA 82 5 -
KPNEQYQVKFDIPGAY AZUP_RHILV 82 5 -
TVGQEAVVKFDKEGVY AZUP_METEX 59 5 -
KKEQAYSLTFTEAGTY AMCY_PARDE 99 6 -
RSNQTYSVKFNAPGTY AMCY_METEX 87 6 -
TKDQAYAITFNEAGSY AMCY_PARVE 100 6 -

Motif 5 width=16
Element Seqn Id St Int Rpt
GVKCTPHYGMGMVGVV AZUP_ACHCY 103 0 -
GVKCTPHFGMGMVGLV AZUP_PARDE 75 0 -
GVKCTPHFGMGMVGLV AZUP_PARDT 97 0 -
LVKCTPHYAMGMIALI AZUP_ALCFA 98 0 -
VLKCTPHVGMGMVALI AZUP_RHILV 98 0 -
GFKCAPHYMMGMVALV AZUP_METEX 75 0 -
DYHCTPHPFMRGKVVV AMCY_PARDE 115 0 -
DYICTPHPFMKGKVVV AMCY_METEX 103 0 -
DYFCTPHPFMRGKVIV AMCY_PARVE 116 0 -