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(-) Description

Title :  Y274F ALANINE RACEMASE FROM E. COLI INHIBITED BY L-ALA-P
 
Authors :  C. J. Squire, Y. Yosaatmadja, W. M. Patrick
Date :  17 Dec 14  (Deposition) - 23 Dec 15  (Release) - 23 Dec 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.25
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  C,D  (1x)
Keywords :  Isomerase, Isomerase-Isomerase Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  C. J. Squire
Y274F Alanine Racemase From E. Coli
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - ALANINE RACEMASE, BIOSYNTHETIC
    Chains: A, B, C, D
    EC Number: 5.1.1.1
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: ALR
    Mutation: YES
    Organism Scientific: ESCHERICHIA COLI
    Organism Taxid: 562

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABCD
Biological Unit 1 (1x): AB  
Biological Unit 2 (1x):   CD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 11)

Asymmetric Unit (2, 11)
No.NameCountTypeFull Name
1IN53Ligand/Ion{1-[(3-HYDROXY-METHYL-5-PHOSPHONOOXY-METHYL-PYRIDIN-4-YLMETHYL)-AMINO]-ETHYL}-PHOSPHONIC ACID
2SO48Ligand/IonSULFATE ION
Biological Unit 1 (2, 6)
No.NameCountTypeFull Name
1IN52Ligand/Ion{1-[(3-HYDROXY-METHYL-5-PHOSPHONOOXY-METHYL-PYRIDIN-4-YLMETHYL)-AMINO]-ETHYL}-PHOSPHONIC ACID
2SO44Ligand/IonSULFATE ION
Biological Unit 2 (2, 5)
No.NameCountTypeFull Name
1IN51Ligand/Ion{1-[(3-HYDROXY-METHYL-5-PHOSPHONOOXY-METHYL-PYRIDIN-4-YLMETHYL)-AMINO]-ETHYL}-PHOSPHONIC ACID
2SO44Ligand/IonSULFATE ION

(-) Sites  (11, 11)

Asymmetric Unit (11, 11)
No.NameEvidenceResiduesDescription
01AC1SOFTWARELYS A:34 , TYR A:38 , ARG A:129 , HIS A:159 , ALA A:193 , SER A:194 , ARG A:209 , GLY A:211 , ILE A:212 , TYR A:343 , HOH A:516 , HOH A:530 , HOH A:566 , HOH A:577 , TYR B:255 , ALA B:302 , MET B:303 , ASP B:304binding site for residue IN5 A 401
02AC2SOFTWARELYS A:122 , ARG A:129 , LEU A:130 , HIS A:159 , HOH A:595binding site for residue SO4 A 402
03AC3SOFTWAREARG A:266 , ARG B:19binding site for residue SO4 A 403
04AC4SOFTWAREARG A:19 , ARG B:266binding site for residue SO4 A 404
05AC5SOFTWARETYR A:255 , ALA A:302 , MET A:303 , LYS B:34 , TYR B:38 , ARG B:129 , HIS B:159 , ALA B:193 , SER B:194 , ARG B:209 , GLY B:211 , ILE B:212 , TYR B:343 , HOH B:530 , HOH B:538 , HOH B:567 , HOH B:569binding site for residue IN5 B 401
06AC6SOFTWARELYS B:122 , MET B:127 , ARG B:129 , LEU B:130 , HIS B:159 , HOH B:553binding site for residue SO4 B 402
07AC7SOFTWARELYS C:34 , TYR C:38 , ARG C:129 , HIS C:159 , ALA C:193 , SER C:194 , ARG C:209 , GLY C:211 , ILE C:212 , TYR C:343 , HOH C:503 , TYR D:255 , ALA D:302 , MET D:303 , ASP D:304binding site for residue IN5 C 401
08AC8SOFTWAREGLU C:246 , ARG C:266 , HOH C:510binding site for residue SO4 C 402
09AC9SOFTWARELYS C:122 , MET C:127 , ARG C:129 , LEU C:130 , HIS C:159binding site for residue SO4 C 403
10AD1SOFTWAREARG C:19 , ARG D:266 , LYS D:317binding site for residue SO4 C 404
11AD2SOFTWARETYR D:38 , ALA D:193 , SER D:194 , GLY D:211 , ILE D:212 , TYR D:343binding site for residue SO4 D 401

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4XBJ)

(-) Cis Peptide Bonds  (4, 4)

Asymmetric Unit
No.Residues
1Gln A:152 -Pro A:153
2Gln B:152 -Pro B:153
3Gln C:152 -Pro C:153
4Gln D:152 -Pro D:153

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4XBJ)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4XBJ)

(-) Exons   (0, 0)

(no "Exon" information available for 4XBJ)

(-) Sequences/Alignments

Asymmetric Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it) 
Chain A from PDB  Type:PROTEIN  Length:357
                                                                                                                                                                                                                                                                                                                                                                                                     
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeehhhhhhhhhhhhhhh...eeeeehhhhhhh.hhhhhhhhh....eeee.hhhhhhhhhhh.....eee.....hhhhhhhhhhh.eeeee.hhhhhhhhhhh.......eeee..........hhhhhhhhhhhhhh........eee...........hhhhhhhhhhhhhhh.....ee..hhhhhhhhhhhh..ee..hhhhhh........hhhhhh....eeeeeeeeeeeee....eehhhhhee....eeeeee................eeee..eeee.........eeee...........eeeee....hhhhhhhhhh.hhhhhhhh.....eeeee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4xbj A   3 AATVVINRRALRHNLQRLRELAPASKMVAVVKANAYGHGLLETARTLPDADAFGVARLEEALRLRAGGITKPVLLLEGFFDARDLPTISAQHFHTAVHNEEQLAALEEASLDEPVTVWMKLDTGMHRLGVRPEQAEAFYHRLTQCKNVRQPVNIVSHFARADEPKCGATEKQLAIFNTFCEGKPGQRSIAASGGILLWPQSHFDWVRPGIILYGVSPLEDRSTGADFGCQPVMSLTSSLIAVREHKAGEPVGYGGTWVSERDTRLGVVAMGFGDGYPRAAPSGTPVLVNGREVPIVGRVAMDMICVDLGPQAQDKAGDPVILWGEGLPVERIAEMTKVSAYELITRLTSRVAMKYVD 359
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       


Chain B from PDB  Type:PROTEIN  Length:358
                                                                                                                                                                                                                                                                                                                                                                                                      
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeehhhhhhhhhhhhhhh...eeeeehhhhhhh.hhhhhhhhh....eeee.hhhhhhhhhhh.....eee.....hhhhhhhhhhh.eeeee.hhhhhhhhhhh.......eeee..........hhhhhhhhhhhhhh........eee...........hhhhhhhhhhhhhhh.....eeeehhhhhhhhhhhh..ee..hhhhhh........hhhhhh....eeeeeeeeeeeee....eehhhhhee....eeeeee................eeee..eeee.........eeee...........eeeee....hhhhhhhhhh.hhhhhhhh.....eeeee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4xbj B   2 QAATVVINRRALRHNLQRLRELAPASKMVAVVKANAYGHGLLETARTLPDADAFGVARLEEALRLRAGGITKPVLLLEGFFDARDLPTISAQHFHTAVHNEEQLAALEEASLDEPVTVWMKLDTGMHRLGVRPEQAEAFYHRLTQCKNVRQPVNIVSHFARADEPKCGATEKQLAIFNTFCEGKPGQRSIAASGGILLWPQSHFDWVRPGIILYGVSPLEDRSTGADFGCQPVMSLTSSLIAVREHKAGEPVGYGGTWVSERDTRLGVVAMGFGDGYPRAAPSGTPVLVNGREVPIVGRVAMDMICVDLGPQAQDKAGDPVILWGEGLPVERIAEMTKVSAYELITRLTSRVAMKYVD 359
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351        


Chain C from PDB  Type:PROTEIN  Length:351
                                                                                                                                                                                                                                                                                                                                                                                               
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeehhhhhhhhhhhhhhh...eeeeehhhhhhh.hhhhhhhh.....eeee.hhhhhhhhhhh.....eee.....hhhhhhhhhhh.eeeee.hhhhhhhhhhh......eeee..........hhhhhhhhhhhhhh........eee...........hhhhhhhhhhhhhhh.....ee..hhhhhhhhhhhh..ee..hhhhhh.........hhhhh....eeeeeeeeeeeee....eehhhhhee...eeeeee................eeee..eee.........eeeeee.........eeeee............hhhhhhhh.....eeeee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4xbj C   3 AATVVINRRALRHNLQRLRELAPASKMVAVVKANAYGHGLLETARTLPDADAFGVARLEEALRLRAGGITKPVLLLEGFFDARDLPTISAQHFHTAVHNEEQLAALEEALDEPVTVWMKLDTGMHRLGVRPEQAEAFYHRLTQCKNVRQPVNIVSHFARADEPKCGATEKQLAIFNTFCEGKPGQRSIAASGGILLWPQSHFDWVRPGIILYGVSPLEDRSTGADFGCQPVMSLTSSLIAVREHKAGEPVGYGGTWVSRDTRLGVVAMGFGDGYPRAAPSGTPVLVNREVPIVGRVAMDMICVDLGPQAQDKAGDPVILWGGLPVERIMTKVSAYELITRLTSRVAMKYVD 359
                                    12        22        32        42        52        62        72        82        92       102       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       264       274       284      |295       305       315       325||     338       348       358 
                                                                                                                                      111|                                                                                                                                                 261|                         291|                              326|   334|                      
                                                                                                                                       113                                                                                                                                                  263                          293                               328    337                      


Chain D from PDB  Type:PROTEIN  Length:351
                                                                                                                                                                                                                                                                                                                                                                                               
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeehhhhhhhhhhhhhhh..eeeeeehhhhhhh.hhhhhhhh....eeee.hhhhhhhhhhh.....eee.....hhhhhhhhhhh.eeeee.hhhhhhhhhhh......eeee.............hhhhhhhhhh.........eee..........hhhhhhhhhhhhhhh.....ee..hhhhhhhhhhhh.eee..hhhhhh......hhhhhh....eeeeeeeeeeeee....eehhhhhee....eeeeeee...............eeee..eeee........eeeee...........eeeee....hhhhhhhhhh.hhhhhhhh.....eeeee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4xbj D   4 ATVVINRRALRHNLQRLRELAPASKMVAVVKANAYGHGLLETARTLPADAFGVARLEEALRLRAGGITKPVLLLEGFFDARDLPTISAQHFHTAVHNEEQLAALEEASDEPVTVWMKLDTGMHRLGVRPEQAEAFYHRLTQCKNVRQPVNIVSHFARADEPCGATEKQLAIFNTFCEGKPGQRSIAASGGILLWPQSHFDWVRPGIILYGVSPLRSTGADFGCQPVMSLTSSLIAVREHKAGEPVGYGGTWVSERDTRLGVVAMGFGDGYPRAAPSGTPVLVNGREVPIVGRVAMDMICVDLGPQAQDKAGDPVILWGEGLPVERIAEMTKVSAYELITRLTSRVAMKYVD 359
                                    13        23        33        43      ||54        64        74        84        94       104       115       125       135       145       155       165||     176       186       196       206       216   ||  228       238       248       258       268       278       288       298       308       318       328       338       348       358 
                                                                         50|                                                         112|                                                 166|                                                 220|                                                                                                                                        
                                                                          52                                                          114                                                  168                                                  223
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  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (0, 0)

(no "SCOP Domain" information available for 4XBJ)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4XBJ)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4XBJ)

(-) Gene Ontology  (9, 9)

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        ALR1_ECOLI | P0A6B4: 2rjg 2rjh 3b8t 3b8u 3b8v 3b8w 4wr3

(-) Related Entries Specified in the PDB File

4wr3 SAME MUTANT ALANINE RACEMASE BUT NOT INHIBITED