YRC Public Data Repository - Protein Structure Prediction

Protein:	alr2
Organism:	Schizosaccharomyces pombe
Length:	370 amino acids
Reference:	Drew K, et al. (2011) The proteome folding project: Proteome-scale prediction of structure and function. Genome Res. 2011 Sep 16

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Top Sequence Alignment Hits

Listed below are up to the top 10 sequence alignment matches, by species, for the PSI-BLAST search against the protein sequence for alr2.

Description	E-value	Query Range	Subject Range
ALR1_SCHPO - Alanine racemase, catabolic OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=alr1 PE=1 SV=1 alr1 - alanine racemase Alr1	335.0	[0..1]	[370..1]
gi\|26991945, gi\|... - gi\|26991945\|ref\|NP_747370.1\| alanine racemase [Pseudomonas putida KT2440], gi\|24987073\|gb\|AAN70834.1...	308.0	[0..1]	[369..1]
gi\|75822390, gi\|... - gi\|75822390\|ref\|ZP_00752026.1\| COG0787: Alanine racemase [Vibrio cholerae RC385], gi\|116215659\|ref\|Z...	308.0	[0..1]	[369..8]
gi\|75814268 - gi\|75814268\|ref\|ZP_00744882.1\| COG0787: Alanine racemase [Vibrio cholerae V52] gi\|75828354 - gi\|75828354\|ref\|ZP_00757789.1\| COG0787: Alanine racemase [Vibrio cholerae O395]	308.0	[0..1]	[369..8]
gi\|116187943, gi... - gi\|75828931\|ref\|ZP_00758259.1\| COG0787: Alanine racemase [Vibrio cholerae MO10], gi\|116187943\|ref\|ZP... gi\|75817960, gi\|... - gi\|75817960\|ref\|ZP_00748204.1\| COG0787: Alanine racemase [Vibrio cholerae V51], gi\|116218793\|ref\|ZP_...	308.0	[0..1]	[369..8]
gi\|121590967, gi... - gi\|121590967\|ref\|ZP_01678287.1\| alanine racemase, biosynthetic [Vibrio cholerae 2740-80], gi\|1215471... gi\|153224528, gi... - gi\|153224528\|ref\|ZP_01954486.1\| alanine racemase, biosynthetic [Vibrio cholerae MAK 757], gi\|1241175... gi\|197752194, gi... - gi\|254286204\|ref\|ZP_04961163.1\| alanine racemase, biosynthetic [Vibrio cholerae AM-19226], gi\|197752... gi\|229358013, gi... - gi\|229504955\|ref\|ZP_04394466.1\| alanine racemase biosynthetic [Vibrio cholerae BX 330286], gi\|229358... gi\|124114169, gi... - gi\|153216658\|ref\|ZP_01950565.1\| alanine racemase, biosynthetic [Vibrio cholerae 1587], gi\|124114169\|... gi\|153830458, gi... - gi\|153830458\|ref\|ZP_01983125.1\| alanine racemase, biosynthetic [Vibrio cholerae 623-39], gi\|14887406... gi\|227008472, gi... - gi\|227080584\|ref\|YP_002809135.1\| alanine racemase, biosynthetic [Vibrio cholerae M66-2], gi\|22700847... gi\|254227117, gi... - gi\|254227117\|ref\|ZP_04920668.1\| alanine racemase, biosynthetic [Vibrio cholerae V51], gi\|225354220\|r... gi\|153827276, gi... - gi\|153827276\|ref\|ZP_01979943.1\| alanine racemase, biosynthetic [Vibrio cholerae MZO-2], gi\|149738824... gi\|229526947, gi... - gi\|229526947\|ref\|ZP_04416344.1\| alanine racemase biosynthetic [Vibrio cholerae 12129(1)], gi\|2293355... gi\|254847388, gi... - gi\|254851683\|ref\|ZP_05241033.1\| alanine racemase [Vibrio cholerae MO10], gi\|254847388\|gb\|EET25802.1\|... gi\|229346922, gi... - gi\|229516019\|ref\|ZP_04405470.1\| alanine racemase biosynthetic [Vibrio cholerae RC9], gi\|229346922\|gb... gi\|229354375, gi... - gi\|229508607\|ref\|ZP_04398103.1\| alanine racemase biosynthetic [Vibrio cholerae B33], gi\|229354375\|gb... gi\|229606347, gi... - gi\|229606347\|ref\|YP_002876995.1\| alanine racemase biosynthetic [Vibrio cholerae MJ-1236], gi\|2293690... gi\|9654790, gi\|1... - gi\|9654790\|gb\|AAF93545.1\| alanine racemase, biosynthetic [Vibrio cholerae O1 biovar El Tor str. N169... gi\|11268983 - gi\|11268983\|pir\|\|H82329 alanine racemase, biosynthetic VC0372 [imported] - Vibrio cholerae (strain N...	307.0	[0..1]	[369..15]
gi\|77385748, gi\|... - gi\|77461745\|ref\|YP_351252.1\| alanine racemase [Pseudomonas fluorescens Pf0-1], gi\|77385748\|gb\|ABA772...	306.0	[0..1]	[369..9]
ALR1_VIBCH - Alanine racemase 1 OS=Vibrio cholerae GN=alr1 PE=3 SV=2 ALR1_VIBCH - Alanine racemase 1 OS=Vibrio cholerae serotype O1 (strain ATCC 39315 / El Tor Inaba N16961) GN=alr1 ...	306.0	[0..1]	[369..1]
gi\|28850577, gi\|... - gi\|28867343\|ref\|NP_789962.1\| alanine racemase [Pseudomonas syringae pv. tomato str. DC3000], gi\|2885... tr\|Q88BB4\|Q88BB4... - Alanine racemase OS=Pseudomonas syringae pv. tomato (strain DC3000) GN=dadX PE=3 SV=1	306.0	[0..1]	[369..1]
ALR_METMP - Alanine racemase OS=Methanococcus maripaludis (strain S2 / LL) GN=alr PE=3 SV=1	305.0	[0..3]	[370..5]

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Predicted Domain #1

Region A:
Residues: [1-370]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MRGARAVIDL RAIGYNYNLI RELLDEKNPD AHILCILKAN AYGHGAVEVA QFLAKYCSAE  60
   61 GFGVASIEEA LELRLSGIQN RILLLEGFFT DEDELSLIDK YNFSITIHCE EQLKSFMNYP 120
  121 FKKPVEVHLK LDSGMNRLGF TPAEYADKYR LLKNHKNVSG IVKATHFAFA DIPEKSEYTL 180
  181 KQWRIFEKAA GCLPDPLSAG GGVIVVGWLN TIHMDWLRTG SMLYGLDPYD LDAKAPELPK 240
  241 PLIPAMKLMS TIVCVKHVEK DQPIGYGGAY VTTRDSLIGV VAIGYGDGFP QVRNGCPVII 300
  301 NGKRVPTVGK VCMDMLAIDV TDVPDVKRGD DVVLWGNPEL TIEEVSTFSN ENPFEIITGL 360
  361 TRRVPLQYTF

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	79.0
Match:	1rcqA
Description:	The 1.45 A crystal structure of alanine racemase from a pathogenic bacterium, Pseudomonas aeruginosa, contains both internal and external aldimine forms
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
alanine racemase activity	2.62362449847897	bayes_pls_golite062009
amino-acid racemase activity	2.31165775898309	bayes_pls_golite062009
racemase and epimerase activity, acting on amino acids and derivatives	2.17003836264776	bayes_pls_golite062009
catalytic activity	1.23611818854966	bayes_pls_golite062009
binding	0.911032619175149	bayes_pls_golite062009
diaminopimelate decarboxylase activity	0.492894938678183	bayes_pls_golite062009
racemase and epimerase activity	0.328743179708914	bayes_pls_golite062009
lyase activity	0.320782640542698	bayes_pls_golite062009
carboxy-lyase activity	0.14065879331273	bayes_pls_golite062009

TMHMM	2.0c	PSIPRED	v2.61
SignalP	3.0	COILS	1999
DISOPRED	v0.1	NCBI nr	06/2007
PSI-BLAST	2.2.18	FFAS	ffas03
PDB	06/2007	Pfam	22
HMMER	2.3.2

View Structure Prediction Details

Top Sequence Alignment Hits

Predicted functions: