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(-) Description

Title :  THE CRYSTAL STRUCTURE OF A RUBISCO-LIKE PROTEIN (MTNW) FROM ALICYCLOBACILLUS ACIDOCALDARIUS SUBSP. ACIDOCALDARIUS DSM 446
 
Authors :  K. Tan, H. Li, S. Clancy, A. Joachimiak, Midwest Center For Structur Genomics (Mcsg)
Date :  22 Oct 13  (Deposition) - 13 Nov 13  (Release) - 13 Nov 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.92
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  C,D  (1x)
Keywords :  Structural Genomics, Psi-Biology, Protein Structure Initiative, Midwest Center For Structural Genomics, Mcsg, Lyase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  K. Tan, H. Li, S. Clancy, A. Joachimiak
The Crystal Structure Of A Rubisco-Like Protein (Mtnw) From Alicyclobacillus Acidocaldarius Subsp. Acidocaldarius Dsm 446.
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - RIBULOSE-BISPHOSPHATE CARBOXYLASE
    Chains: A, B, C, D
    EC Number: 4.1.1.39
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PMCSG68
    Expression System Strain: BL21(DE)MAGIC
    Expression System Taxid: 511693
    Expression System Vector Type: PLASMID
    Fragment: UNP RESIDUES 3-408
    Gene: AACI_0096
    Organism Scientific: ALICYCLOBACILLUS ACIDOCALDARIUS SUBSP. ACIDOCALDARIUS
    Organism Taxid: 521098
    Strain: DSM 446

 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  (6, 40)

Asymmetric Unit (6, 40)
No.NameCountTypeFull Name
1CA7Ligand/IonCALCIUM ION
2CL1Ligand/IonCHLORIDE ION
3FMT3Ligand/IonFORMIC ACID
4GOL1Ligand/IonGLYCEROL
5KCX4Mod. Amino AcidLYSINE NZ-CARBOXYLIC ACID
6MSE24Mod. Amino AcidSELENOMETHIONINE
Biological Unit 1 (4, 18)
No.NameCountTypeFull Name
1CA-1Ligand/IonCALCIUM ION
2CL-1Ligand/IonCHLORIDE ION
3FMT3Ligand/IonFORMIC ACID
4GOL1Ligand/IonGLYCEROL
5KCX2Mod. Amino AcidLYSINE NZ-CARBOXYLIC ACID
6MSE12Mod. Amino AcidSELENOMETHIONINE
Biological Unit 2 (2, 14)
No.NameCountTypeFull Name
1CA-1Ligand/IonCALCIUM ION
2CL-1Ligand/IonCHLORIDE ION
3FMT-1Ligand/IonFORMIC ACID
4GOL-1Ligand/IonGLYCEROL
5KCX2Mod. Amino AcidLYSINE NZ-CARBOXYLIC ACID
6MSE12Mod. Amino AcidSELENOMETHIONINE

(-) Sites  (12, 12)

Asymmetric Unit (12, 12)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREVAL A:243 , HOH A:603 , HOH A:622 , VAL B:243 , GLY B:246BINDING SITE FOR RESIDUE GOL A 501
02AC2SOFTWAREASP A:248 , ALA A:251 , ASP A:252 , PRO B:219 , VAL B:220BINDING SITE FOR RESIDUE FMT A 502
03AC3SOFTWAREKCX A:175 , ASP A:177 , GLU A:178 , HOH A:720 , HOH A:728 , HOH A:729BINDING SITE FOR RESIDUE CA A 503
04AC4SOFTWAREPRO A:123 , HOH A:790 , HOH A:791 , HOH A:792 , HOH A:793BINDING SITE FOR RESIDUE CA A 504
05AC5SOFTWARETRP B:407BINDING SITE FOR RESIDUE FMT B 501
06AC6SOFTWAREGLU B:225 , GLU B:232BINDING SITE FOR RESIDUE FMT B 502
07AC7SOFTWAREKCX B:175 , ASP B:177 , GLU B:178 , HOH B:727 , HOH B:746 , HOH B:794BINDING SITE FOR RESIDUE CA B 503
08AC8SOFTWAREPRO B:123 , HOH B:784 , HOH B:795 , HOH B:800 , HOH B:801 , HOH B:802 , HOH B:803BINDING SITE FOR RESIDUE CA B 504
09AC9SOFTWARESER B:276BINDING SITE FOR RESIDUE CL B 505
10BC1SOFTWAREKCX C:175 , ASP C:177 , GLU C:178 , HOH C:724BINDING SITE FOR RESIDUE CA C 501
11BC2SOFTWAREPRO C:123 , HOH C:728 , HOH C:732 , HOH C:733BINDING SITE FOR RESIDUE CA C 502
12BC3SOFTWAREKCX D:175 , ASP D:177 , GLU D:178 , HOH D:705BINDING SITE FOR RESIDUE CA D 501

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4NAS)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4NAS)

(-) 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:397
                                                                                                                                                                                                                                                                                                                                                                                                                                             
               SCOP domains d4nasa1 A:7-122 automated matches                                                                              d4nasa2 A:123-408 automated matches                                                                                                                                                                                                                                                            SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeeeeeeeee..hhhhhhhhhhhhh......hhhhhhhhh.eeeeeeeeee....eeeeeeeeeee.hhh..hhhhhhhhhhhhhhhh..eeeeeee.hhhhhh......hhhhhhhhhhh.....eeeee.......hhhhhhhhhhhhhhh...eee...........hhhhhhhhhhhhhhhhhhhhh...eeeee...hhhhhhhhhhhhhhhh..eeeeehhhhhhhhhhhhhhh......eeee...hhhhhh....eehhhhhhhhhhhhhh..eeeee........hhhhhhhhhhhhhh.......eeeee...hhhhhhhhhhhhh...eeeehhhhhh..hhhhhhhhhhhhhhhhhhh..hhhhhh..hhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4nas A   7 SPRDAVVATYRLRDRKDKLEARAEGIAVGLTIGTWARKSEVAKHCGRVEGIRVLDERPDGDVVAEIDIAYPVANLNGTFASLLVTVFGKLSmDGEIRLERLQmPDELVRQFPGPKFGVEGVRRRLGAYNRPLVmSIFKACAGLTLDELVEAFGEQAEGGVDLVkDDEIFFTEAYATPEDRVRAYAAKADEIAQRTGRRTAYAVNLTGPVHSLRERARRLAELGAGALLVNVVAYGYDVVADLARDPDVDVPILAHPAVSGALYGSPNYGIAADIVLGQLmRLAGADIGIFPSmYGSVTLGREATDRLLQHLRAEGPHKPVLPAPSAGIYPGLVPRLYQDFGVDLVLNAGGGIHGHPGGARmGGRAFFDAIWAVEHGVPLEEAAKDRPALRQALEKWG 408
                                    16        26        36    ||  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       361       371|      381       391       401       
                                                             41|                                                     103-MSE    114-MSE                        145-MSE                       175-KCX                                                                                                             291-MSE      304-MSE                                                             372-MSE                                
                                                              47                                                                                                                                                                                                                                                                                                                                                                         


Chain B from PDB  Type:PROTEIN  Length:399
                                                                                                                                                                                                                                                                                                                                                                                                                                               
               SCOP domains d4nasb1 B:10-122 automated matches                                                                               d4nasb2 B:123-408 automated matches                                                                                                                                                                                                                                                            SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeeeeee..hhhhhhhhhhhhh........hhhhhhhhhh...eeeeeeeeee....eeeeeeeeeee.hhh..hhhhhhhhhhhhhhhh..eeeeeee.hhhhhh......hhhhhhhhhhh.....eeeee.......hhhhhhhhhhhhhh....eee...........hhhhhhhhhhhhhhhhhhhhh...eeeee...hhhhhhhhhhhhhhh...eeeeehhhhhhhhhhhhhhh......eeee...hhhhhh....eehhhhhhhhhhhhhh..eeeee........hhhhhhhhhhhhhh.......eeeee...hhhhhhhhhhhhh...eee.hhhhhh...hhhhhhhhhhhhhhhhhh..hhhhhh..hhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4nas B  10 DAVVATYRLRDRKDKLEARAEGIAVGLTIGTWTDLPAARKSEVAKHCGRVEGIRVLDERPDGDVVAEIDIAYPVANLNGTFASLLVTVFGKLSmDGEIRLERLQmPDELVRQFPGPKFGVEGVRRRLGAYNRPLVmSIFKACAGLTLDELVEAFGEQAEGGVDLVkDDEIFFTEAYATPEDRVRAYAAKADEIAQRTGRRTAYAVNLTGPVHSLRERARRLAELGAGALLVNVVAYGYDVVADLARDPDVDVPILAHPAVSGALYGSPNYGIAADIVLGQLmRLAGADIGIFPSmYGSVTLGREATDRLLQHLRAEGPHKPVLPAPSAGIYPGLVPRLYQDFGVDLVLNAGGGIHGHPGGARmGGRAFFDAIWAVEHGVPLEEAAKDRPALRQALEKWG 408
                                    19        29        39        49        59        69        79        89        99   |   109    |  119       129       139     | 149       159       169     | 179       189       199       209       219       229       239       249       259       269       279       289 |     299    |  309       319       329       339       349       359       369  |    379       389       399         
                                                                                                                       103-MSE    114-MSE                        145-MSE                       175-KCX                                                                                                             291-MSE      304-MSE                                                             372-MSE                                


Chain C from PDB  Type:PROTEIN  Length:396
                                                                                                                                                                                                                                                                                                                                                                                                                                            
               SCOP domains d4nasc1 C:10-122 automated matches                                                                            d4nasc2 C:123-408 automated matches                                                                                                                                                                                                                                                            SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eeeeeeeeeee..hhhhhhhhhhhhh......hhhhhhhh....eeeeeeeeee....eeeeeeeeeee.hhh..hhhhhhhhhhhhhhhh..eeeeeee.hhhhhh......hhhhhhhhhhh.....eeeee.......hhhhhhhhhhhhhhh...eee...........hhhhhhhhhhhhhhhhhhhhh...eeeee...hhhhhhhhhhhhhhh...eeeeehhhhhhhhhhhhhhh......eeee...hhhhhh....eehhhhhhhhhhhhhh..eeeee........hhhhhhhhhhhhhh.......eeeee...hhhhhhhhhhhhh...eeeehhhhhh..hhhhhhhhhhhhhhhhhhh..hhhhhh..hhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4nas C  10 DAVVATYRLRDRKDKLEARAEGIAVGLTIGTWPAARKSEVAKHCGRVEGIRVLDERPDGDVVAEIDIAYPVANLNGTFASLLVTVFGKLSmDGEIRLERLQmPDELVRQFPGPKFGVEGVRRRLGAYNRPLVmSIFKACAGLTLDELVEAFGEQAEGGVDLVkDDEIFFTEAYATPEDRVRAYAAKADEIAQRTGRRTAYAVNLTGPVHSLRERARRLAELGAGALLVNVVAYGYDVVADLARDPDVDVPILAHPAVSGALYGSPNYGIAADIVLGQLmRLAGADIGIFPSmYGSVTLGREATDRLLQHLRAEGPHKPVLPAPSAGIYPGLVPRLYQDFGVDLVLNAGGGIHGHPGGARmGGRAFFDAIWAVEHGVPLEEAAKDRPALRQALEKWG 408
                                    19        29        39 ||     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       362       372       382       392       402      
                                                          41|                                                       103-MSE    114-MSE                        145-MSE                       175-KCX                                                                                                             291-MSE      304-MSE                                                             372-MSE                                
                                                           45                                                                                                                                                                                                                                                                                                                                                                           


Chain D from PDB  Type:PROTEIN  Length:392
                                                                                                                                                                                                                                                                                                                                                                                                                                        
               SCOP domains d4nasd1 D:9-122 automated matches                                                                          d4nasd2 D:123-407 automated matches                                                                                                                                                                                                                                                           SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeeeeeehhhhhhhhhhhhhhhh......hhhhhhh.eeeeeeeeee.....eeeeeeeeee.hhh..hhhhhhhhhhhhhhhh..eeeeeee.hhhhhh......hhhhhhhhhhh.....eeeee.......hhhhhhhhhhhhhh....eee...........hhhhhhhhhhhhhhhhhhhhh...eeeee...hhhhhhhhhhhhhhh...eeeehhhhhhhhhhhhhhhh......eee....hhhhhh....eehhhhhhhhhhhhhh..eeeee........hhhhhhhhhhhhhh.......eeeee...hhhhhhhhhhhhh...eeeehhhhhh..hhhhhhhhhhhhhhhhhhh..hhhhhh..hhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4nas D   9 RDAVVATYRLRDRKDKLEARAEGIAVGLTIGTWRKSVAKHCGRVEGIRVLDERPDGDVVAEIDIAYPVANLNGTFASLLVTVFGKLSmDGEIRLERLQmPDELVRQFPGPKFGVEGVRRRLGAYNRPLVmSIFKACAGLTLDELVEAFGEQAEGGVDLVkDDEIFFTEAYATPEDRVRAYAAKADEIAQRTGRRTAYAVNLTGPVHSLRERARRLAELGAGALLVNVVAYGYDVVADLARDPDVDVPILAHPAVSGALYGSPNYGIAADIVLGQLmRLAGADIGIFPSmYGSVTLGREATDRLLQHLRAEGPHKPVLPAPSAGIYPGLVPRLYQDFGVDLVLNAGGGIHGHPGGARmGGRAFFDAIWAVEHGVPLEEAAKDRPALRQALEKW 407
                                    18        28        38  || || 55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275       285     | 295       305       315       325       335       345       355       365      |375       385       395       405  
                                                           41| ||                                                103-MSE    114-MSE                        145-MSE                       175-KCX                                                                                                             291-MSE      304-MSE                                                             372-MSE                               
                                                            48 ||                                                                                                                                                                                                                                                                                                                                                                   
                                                              50|                                                                                                                                                                                                                                                                                                                                                                   
                                                               52
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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  (2, 8)

Asymmetric Unit
(-)
Class: Alpha and beta proteins (a+b) (23004)
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (5, 5)

Asymmetric Unit(hide GO term definitions)

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