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(-) Description

Title :  CRYSTAL STRUCTURE OF HSCARG FROM HOMO SAPIENS IN COMPLEX WITH NADP
 
Authors :  X. Dai, Q. Chen, D. Yao, Y. Liang, Y. Dong, X. Gu, X. Zheng, M. Luo
Date :  09 Nov 05  (Deposition) - 21 Nov 06  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.40
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Protein-Nadp Complex, Unknown Function (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  X. Zheng, X. Dai, Y. Zhao, Q. Chen, F. Lu, D. Yao, Q. Yu, X. Liu, C. Zhang, X. Gu, M. Luo
Restructuring Of The Dinucleotide-Binding Fold In An Nadp(H Sensor Protein.
Proc. Natl. Acad. Sci. Usa V. 104 8809 2007
PubMed-ID: 17496144  |  Reference-DOI: 10.1073/PNAS.0700480104

(-) Compounds

Molecule 1 - HSCARG PROTEIN
    ChainsA, B
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System Taxid562
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit AB

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (2, 2)
No.NameCountTypeFull Name
1GOL1Ligand/IonGLYCEROL
2NAP1Ligand/IonNADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLY A:11 , GLY A:12 , THR A:13 , GLY A:14 , GLN A:16 , THR A:36 , ARG A:37 , LYS A:41 , ASP A:58 , GLN A:59 , THR A:79 , ASN A:80 , TYR A:81 , LYS A:133 , LEU A:152 , PRO A:153 , CYS A:154 , TYR A:155 , ASN A:158 , GOL A:2647 , HOH A:3699 , HOH A:3700 , HOH A:3707 , GLN B:62 , LYS B:92BINDING SITE FOR RESIDUE NAP A 3698
2AC2SOFTWARETRP A:82 , MET A:260 , NAP A:3698BINDING SITE FOR RESIDUE GOL A 2647

(-) SS Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1A:85 -B:85

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2EXX)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (2, 3)

Asymmetric/Biological Unit (2, 3)
  dbSNPPDB
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
1UniProtVAR_030689T23INMRL1_HUMANPolymorphism11557236A/BT23I
2UniProtVAR_030690P252LNMRL1_HUMANPolymorphism3747582AP252L

  SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2EXX)

(-) Exons   (5, 10)

Asymmetric/Biological Unit (5, 10)
 ENSEMBLUniProtKBPDB
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.1aENST000002834291aENSE00001526041chr16:4524896-4524555342NMRL1_HUMAN-00--
1.2ENST000002834292ENSE00001293533chr16:4524167-452409474NMRL1_HUMAN1-14142A:1-14
B:4-14
14
11
1.3ENST000002834293ENSE00001010612chr16:4519466-4519228239NMRL1_HUMAN14-93802A:14-93
B:14-93
80
80
1.4ENST000002834294ENSE00001010610chr16:4516403-4516154250NMRL1_HUMAN94-177842A:94-177
B:94-175
84
82
1.5ENST000002834295ENSE00001010609chr16:4513851-4513661191NMRL1_HUMAN177-240642A:177-240
B:183-240
64
58
1.6bENST000002834296bENSE00001900515chr16:4511960-4511695266NMRL1_HUMAN241-299592A:241-298
B:241-296 (gaps)
58
56

(-) Sequences/Alignments

Asymmetric/Biological 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:305
 aligned with NMRL1_HUMAN | Q9HBL8 from UniProtKB/Swiss-Prot  Length:299

    Alignment length:305
                                   1                                                                                                                                                                                                                                                                                                         
                                   | 3        13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293     
          NMRL1_HUMAN     - -------MVDKKLVVVFGGTGAQGGSVARTLLEDGTFKVRVVTRNPRKKAAKELRLQGAEVVQGDQDDQVIMELALNGAYATFIVTNYWESCSQEQEVKQGKLLADLARRLGLHYVVYSGLENIKKLTAGRLAAAHFDGKGEVEEYFRDIGVPMTSVRLPCYFENLLSHFLPQKAPDGKSYLLSLPTGDVPMDGMSVSDLGPVVLSLLKMPEKYVGQNIGLSTCRHTAEEYAALLTKHTRKVVHDAKMTPEDYEKLGFPGARDLANMFRFYALRPDRDIELTLRLNPKALTLDQWLEQHKGDFNL 298
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhh....eeee....hhhhhhhhhhhhhhh..eeeeee....hhhhhhhhhh..eeee....hhhhhhhhh....eeee..hhhhhhhhhhhhhhhhhhhhhhhhh...eeee....hhhhhh.....hhhhhhhhhhhhhhhhh...eeeee..ee.hhhh.....ee.....eeee........eeeehhhhhhhhhhhhhhhhhhhh..eee...eeehhhhhhhhhhhhhh.eeee...hhhhhhh....hhhhhhhhhhhhh.....hhhhhhhhh....hhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) -----------------------------I------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------L---------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
           Transcript 1 (1) -------Exon 1.2      -------------------------------------------------------------------------------Exon 1.4  PDB: A:94-177 UniProt: 94-177                                             ---------------------------------------------------------------Exon 1.6b  PDB: A:241-298 UniProt: 241-299 [INCOMPLETE]    Transcript 1 (1)
           Transcript 1 (2) --------------------Exon 1.3  PDB: A:14-93 UniProt: 14-93                                           -----------------------------------------------------------------------------------Exon 1.5  PDB: A:177-240 UniProt: 177-240                       ---------------------------------------------------------- Transcript 1 (2)
                 2exx A  -6 LYKKAGLMVDKKLVVVFGGTGAQGGSVARTLLEDGTFKVRVVTRNPRKKAAKELRLQGAEVVQGDQDDQVIMELALNGAYATFIVTNYWESCSQEQEVKQGKLLADLARRLGLHYVVYSGLENIKKLTAGRLAAAHFDGKGEVEEYFRDIGVPMTSVRLPCYFENLLSHFLPQKAPDGKSYLLSLPTGDVPMDGMSVSDLGPVVLSLLKMPEKYVGQNIGLSTCRHTAEEYAALLTKHTRKVVHDAKMTPEDYEKLGFPGARDLANMFRFYALRPDRDIELTLRLNPKALTLDQWLEQHKGDFNL 298
                                     3        13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293     

Chain B from PDB  Type:PROTEIN  Length:279
 aligned with NMRL1_HUMAN | Q9HBL8 from UniProtKB/Swiss-Prot  Length:299

    Alignment length:293
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293   
          NMRL1_HUMAN     4 KKLVVVFGGTGAQGGSVARTLLEDGTFKVRVVTRNPRKKAAKELRLQGAEVVQGDQDDQVIMELALNGAYATFIVTNYWESCSQEQEVKQGKLLADLARRLGLHYVVYSGLENIKKLTAGRLAAAHFDGKGEVEEYFRDIGVPMTSVRLPCYFENLLSHFLPQKAPDGKSYLLSLPTGDVPMDGMSVSDLGPVVLSLLKMPEKYVGQNIGLSTCRHTAEEYAALLTKHTRKVVHDAKMTPEDYEKLGFPGARDLANMFRFYALRPDRDIELTLRLNPKALTLDQWLEQHKGDF 296
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeee...hhhhhhhhhhhhhhh..eeeeee....hhhhhhhhhh..eeee....hhhhhhhhhh...eeeee.......hhhhhhhhhhhhhhhhhhh...eeeee...hhhhhhhhhhh.......hhhhhhhhhhh..eeeee..ee.hhhh..........ee...-------..eeeehhhhhhhhhhhhhhhhhhhh..eee...eeehhhhhhhhhhhhhh...ee..........-------.hhhhhhhhh.....hhhhhhhhh....hhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------I--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
           Transcript 1 (1) Exon 1.2   -------------------------------------------------------------------------------Exon 1.4  PDB: B:94-175 UniProt: 94-177 [INCOMPLETE]                                ---------------------------------------------------------------Exon 1.6b  PDB: B:241-296 (gaps) UniProt: 241-299        Transcript 1 (1)
           Transcript 1 (2) ----------Exon 1.3  PDB: B:14-93 UniProt: 14-93                                           -----------------------------------------------------------------------------------Exon 1.5  PDB: B:183-240 UniProt: 177-240 [INCOMPLETE]          -------------------------------------------------------- Transcript 1 (2)
                 2exx B   4 KKLVVVFGGTGAQGGSVARTLLEDGTFKVRVVTRNPRKKAAKELRLQGAEVVQGDQDDQVIMELALNGAYATFIVTNYWESCSQEQEVKQGKLLADLARRLGLHYVVYSGLENIKKLTAGRLAAAHFDGKGEVEEYFRDIGVPMTSVRLPCYFENLLSHFLPQKAPDGKSYL-------VPMDGMSVSDLGPVVLSLLKMPEKYVGQNIGLSTCRHTAEEYAALLTKHTRKVVHDAKMTPEDYEK-------DLANMFRFYALRPDRDIELTLRLNPKALTLDQWLEQHKGDF 296
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173 |     183       193       203       213       223       233       243    |    -  |    263       273       283       293   
                                                                                                                                                                                                     175     183                                                              248     256                                        

   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  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 2EXX)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2EXX)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2EXX)

(-) Gene Ontology  (5, 5)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (NMRL1_HUMAN | Q9HBL8)
biological process
    GO:0000050    urea cycle    The sequence of reactions by which arginine is synthesized from ornithine, then cleaved to yield urea and regenerate ornithine. The overall reaction equation is NH3 + CO2 + aspartate + 3 ATP + 2 H2O = urea + fumarate + 2 ADP + 2 phosphate + AMP + diphosphate.
cellular component
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
    GO:0005829    cytosol    The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.
    GO:0005634    nucleus    A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent.
    GO:0048471    perinuclear region of cytoplasm    Cytoplasm situated near, or occurring around, the nucleus.

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 Related Entries

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UniProtKB/Swiss-Prot
        NMRL1_HUMAN | Q9HBL82wm3 2wmd 3dxf 3e5m

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