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(-) Description

Title :  CRYSTAL STRUCTURE OF A DABB FAMILY PROTEIN WITH A FERREDOXIN-LIKE FOLD (MLL5499) FROM MESORHIZOBIUM LOTI MAFF303099 AT 1.79 A RESOLUTION
 
Authors :  Joint Center For Structural Genomics (Jcsg)
Date :  14 Nov 07  (Deposition) - 27 Nov 07  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.79
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (2x)
Biol. Unit 2:  B  (2x)
Keywords :  Stress Responsive A/B Barrel Domain, Structural Genomics, Joint Center For Structural Genomics, Jcsg, Protein Structure Initiative, Psi-2, Unknown Function (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Joint Center For Structural Genomics (Jcsg)
Crystal Structure Of Domain Of Unknown Function With A Ferredoxin-Like Fold (Np_106155. 1) From Mesorhizobium Loti At 1. 79 A Resolution
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - MLL5499 PROTEIN
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: SPEEDET
    Expression System Strain: HK100
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: NP_106155.1, MLL5499
    Organism Scientific: MESORHIZOBIUM LOTI
    Organism Taxid: 266835
    Strain: MAFF303099

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (2x): A 
Biological Unit 2 (2x):  B

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 20)

Asymmetric Unit (3, 20)
No.NameCountTypeFull Name
1ACT1Ligand/IonACETATE ION
2EDO15Ligand/Ion1,2-ETHANEDIOL
3MSE4Mod. Amino AcidSELENOMETHIONINE
Biological Unit 1 (3, 22)
No.NameCountTypeFull Name
1ACT2Ligand/IonACETATE ION
2EDO16Ligand/Ion1,2-ETHANEDIOL
3MSE4Mod. Amino AcidSELENOMETHIONINE
Biological Unit 2 (2, 18)
No.NameCountTypeFull Name
1ACT-1Ligand/IonACETATE ION
2EDO14Ligand/Ion1,2-ETHANEDIOL
3MSE4Mod. Amino AcidSELENOMETHIONINE

(-) Sites  (16, 16)

Asymmetric Unit (16, 16)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREMSE A:1 , THR A:37 , HIS A:38 , GLU A:58 , ALA A:60BINDING SITE FOR RESIDUE ACT A 102
02AC2SOFTWAREHIS B:4 , TYR B:68 , HIS B:74 , VAL B:78 , EDO B:106BINDING SITE FOR RESIDUE EDO B 102
03AC3SOFTWAREHIS A:4 , TYR A:68 , HIS A:74 , VAL A:78 , EDO A:108BINDING SITE FOR RESIDUE EDO A 103
04AC4SOFTWARETHR B:37 , HIS B:38 , LYS B:48 , LYS B:88 , PHE B:89 , HOH B:145 , HOH B:156 , HOH B:187BINDING SITE FOR RESIDUE EDO B 103
05AC5SOFTWAREGLN A:62 , TYR A:65 , THR A:66 , ASN A:69 , ALA B:63 , HOH B:174BINDING SITE FOR RESIDUE EDO A 104
06AC6SOFTWAREASN B:69 , HIS B:74 , HOH B:116 , HOH B:226BINDING SITE FOR RESIDUE EDO B 104
07AC7SOFTWARETHR A:37 , HIS A:38 , LYS A:88 , PHE A:89 , HOH A:167 , HOH A:218 , HOH A:229BINDING SITE FOR RESIDUE EDO A 105
08AC8SOFTWAREGLU A:18 , ARG A:21 , HOH A:148 , ARG B:21 , ARG B:81BINDING SITE FOR RESIDUE EDO A 106
09AC9SOFTWAREPRO A:84 , PRO B:72 , ASP B:73 , HOH B:119 , HOH B:216BINDING SITE FOR RESIDUE EDO B 105
10BC1SOFTWAREASP A:80 , HOH A:170 , PRO B:72 , VAL B:75 , ARG B:79BINDING SITE FOR RESIDUE EDO A 107
11BC2SOFTWAREVAL A:6 , VAL A:78 , TRP A:82 , GLU A:91 , EDO A:103BINDING SITE FOR RESIDUE EDO A 108
12BC3SOFTWAREVAL B:6 , TRP B:82 , GLU B:91 , EDO B:102 , HOH B:226 , HOH B:227BINDING SITE FOR RESIDUE EDO B 106
13BC4SOFTWARETHR B:5 , ILE B:92 , TYR B:94 , HOH B:208BINDING SITE FOR RESIDUE EDO B 107
14BC5SOFTWAREARG A:67 , GLN B:62 , TYR B:65 , THR B:66BINDING SITE FOR RESIDUE EDO B 108
15BC6SOFTWARETHR A:5 , TYR A:94 , HOH A:216BINDING SITE FOR RESIDUE EDO A 109
16BC7SOFTWAREASN A:69 , HIS A:74 , HOH A:131BINDING SITE FOR RESIDUE EDO A 110

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3BDE)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3BDE)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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(-) PROSITE Motifs  (0, 0)

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(-) Exons   (0, 0)

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(-) 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:100
 aligned with Q98BN1_RHILO | Q98BN1 from UniProtKB/TrEMBL  Length:101

    Alignment length:100
                              1                                                                                                 
                              |      8        18        28        38        48        58        68        78        88        98
          Q98BN1_RHILO    - --MIRHTVVFTLKHASHSLEEKRFLVDAKKILSAIRGVTHFEQLRQISPKIDYHFGFSMEFADQAAYTRYNDHPDHVAFVRDRWVPEVEKFLEIDYVPLG 98
               SCOP domains ---------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains 3bdeA00 A:-1-98  [code=3.30.70.900, no name defined]                                                 CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeeeeee.....hhhhhhhhhhhhhhhhh....eeeeeee.........eeeeeee.hhhhhhhhhhhhhhhhhhhhhhhhheeeeeeeee.... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------- Transcript
                  3bde A -1 QGmIRHTVVFTLKHASHSLEEKRFLVDAKKILSAIRGVTHFEQLRQISPKIDYHFGFSmEFADQAAYTRYNDHPDHVAFVRDRWVPEVEKFLEIDYVPLG 98
                              |      8        18        28        38        48        58        68        78        88        98
                              |                                                      57-MSE                                     
                              1-MSE                                                                                             


Chain B from PDB  Type:PROTEIN  Length:99
 aligned with Q98BN1_RHILO | Q98BN1 from UniProtKB/TrEMBL  Length:101

    Alignment length:99
                             1                                                                                                 
                             |       9        19        29        39        49        59        69        79        89         
          Q98BN1_RHILO    - -MIRHTVVFTLKHASHSLEEKRFLVDAKKILSAIRGVTHFEQLRQISPKIDYHFGFSMEFADQAAYTRYNDHPDHVAFVRDRWVPEVEKFLEIDYVPLG 98
               SCOP domains --------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains 3bdeB00 B:0-98  [code=3.30.70.900, no name defined]                                                 CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeeeee.....hhhhhhhhhhhhhhhhh....eeeeeee.........eeeeeee.hhhhhhhhhhhhhhhhhhhhhhhhheeeeeeeee.... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------- Transcript
                  3bde B  0 GmIRHTVVFTLKHASHSLEEKRFLVDAKKILSAIRGVTHFEQLRQISPKIDYHFGFSmEFADQAAYTRYNDHPDHVAFVRDRWVPEVEKFLEIDYVPLG 98
                             |       9        19        29        39        49       |59        69        79        89         
                             1-MSE                                                  57-MSE
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 Classification and Annotation

(-) SCOP Domains  (0, 0)

(no "SCOP Domain" information available for 3BDE)

(-) CATH Domains  (1, 2)

Asymmetric Unit
(-)
Class: Alpha Beta (26913)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3BDE)

(-) Gene Ontology  (0, 0)

Asymmetric Unit(hide GO term definitions)
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