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(-) Description

Title :  [FEFE]-HYDROGENASE OXYGEN INACTIVATION IS INITIATED BY THE MODIFICATION AND DEGRADATION OF THE H CLUSTER 2FE SUBCLUSTER
 
Authors :  S. D. Swanson, M. W. Ratzloff, D. W. Mulder, J. H. Artz, S. Ghose, A. Hoffm S. White, O. A. Zadvornyy, J. B. Broderick, B. Bothner, P. W. King, J. W.
Date :  01 Aug 14  (Deposition) - 28 Jan 15  (Release) - 25 Feb 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.29
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Hyda1 Monomer, Fes Cluster, H-Cluster, [Fefe]-Hydrogenase, Oxidoreductase, Cys Oxidation, S-Hydroxycysteine, Cysteine-S- Dioxide, [2Fe2S] Cluster (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  K. D. Swanson, M. W. Ratzloff, D. W. Mulder, J. H. Artz, S. Ghose, A. Hoffman, S. White, O. A. Zadvornyy, J. B. Broderick, B. Bothner, P. W. King, J. W. Peters
[Fefe]-Hydrogenase Oxygen Inactivation Is Initiated At The Cluster 2Fe Subcluster.
J. Am. Chem. Soc. V. 137 1809 2015
PubMed-ID: 25579778  |  Reference-DOI: 10.1021/JA510169S

(-) Compounds

Molecule 1 - FE-HYDROGENASE
    Chains: A, B
    EC Number: 1.18.99.1
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: CHLREDRAFT_183963, HYD1, HYDA, HYDA1
    Organism Scientific: CHLAMYDOMONAS REINHARDTII
    Organism Taxid: 3055
    Synonym: IRON HYDROGENASE, IRON-HYDROGENASE HYDA1

 Structural Features

(-) Chains, Units

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

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (5, 14)

Asymmetric Unit (5, 14)
No.NameCountTypeFull Name
1ARS2Ligand/IonARSENIC
2CL4Ligand/IonCHLORIDE ION
3CSD2Mod. Amino Acid3-SULFINOALANINE
4CSO4Mod. Amino AcidS-HYDROXYCYSTEINE
5SF42Ligand/IonIRON/SULFUR CLUSTER
Biological Unit 1 (4, 5)
No.NameCountTypeFull Name
1ARS1Ligand/IonARSENIC
2CL-1Ligand/IonCHLORIDE ION
3CSD1Mod. Amino Acid3-SULFINOALANINE
4CSO2Mod. Amino AcidS-HYDROXYCYSTEINE
5SF41Ligand/IonIRON/SULFUR CLUSTER
Biological Unit 2 (4, 5)
No.NameCountTypeFull Name
1ARS1Ligand/IonARSENIC
2CL-1Ligand/IonCHLORIDE ION
3CSD1Mod. Amino Acid3-SULFINOALANINE
4CSO2Mod. Amino AcidS-HYDROXYCYSTEINE
5SF41Ligand/IonIRON/SULFUR CLUSTER

(-) Sites  (8, 8)

Asymmetric Unit (8, 8)
No.NameEvidenceResiduesDescription
1AC1SOFTWARECYS A:170 , CYS A:225 , CYS A:417 , CYS A:421BINDING SITE FOR RESIDUE SF4 A 601
2AC2SOFTWAREILE A:174 , ARG A:234 , HOH A:702 , HOH A:737 , HOH A:745BINDING SITE FOR RESIDUE CL A 602
3AC3SOFTWAREGLN A:195 , LYS A:228BINDING SITE FOR RESIDUE CL A 603
4AC4SOFTWAREHIS A:147 , GLU A:151 , HIS A:158 , GLU A:161 , HIS B:475BINDING SITE FOR RESIDUE ARS A 604
5AC5SOFTWARECYS B:170 , CYS B:225 , CYS B:417 , CYS B:421BINDING SITE FOR RESIDUE SF4 B 601
6AC6SOFTWAREGLN B:195 , LYS B:228BINDING SITE FOR RESIDUE CL B 602
7AC7SOFTWAREILE B:174 , ARG B:234 , HOH B:702 , HOH B:738 , HOH B:746BINDING SITE FOR RESIDUE CL B 603
8AC8SOFTWAREHIS A:475 , HIS B:147 , GLU B:151 , HIS B:158 , GLU B:161BINDING SITE FOR RESIDUE ARS B 604

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4R0V)

(-) Cis Peptide Bonds  (4, 4)

Asymmetric Unit
No.Residues
1Leu A:163 -Pro A:164
2Asn A:390 -Gly A:391
3Leu B:163 -Pro B:164
4Asn B:390 -Gly B:391

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4R0V)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4R0V)

(-) Exons   (0, 0)

(no "Exon" information available for 4R0V)

(-) 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:419
                                                                                                                                                                                                                                                                                                                                                                                                                                                                   
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhh............eeehhhhhhhhhhhhh......hhhhhhhhhhhh....eeehhhhhhhhhhhhhhhhhhhhhhhhh..........ee...hhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhh..hhhhh..eeee...hhhhhhh................eeeehhhhhhhhhhh..hhhhh.......................hhhhhhhhhhhhhhhh........ee......eeeeeeee.....hhhhhhhhh...............eee.......eeeeeeeeeehhhhhhhhhhhhhh......eeeee....hhhhh.........hhhhhhhhh....hhhhh..hhhhhhhhhhhhhhh.....hhhhhhhhh........ Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4r0v A  65 LSHVQQALAELAKPKDDPTRKHVcVQVAPAVRVAIAETLGLAPGATTPKQLAEGLRRLGFDEVFDTLFGADLTIMEEGSELLHRLTEHLEAHPHSDEPLPMFTScCPGWIAMLEKSYPDLIPYVSSCKSPQMMLAAMVKSYLAEKKGIAPKDMVMVSIMPCTRKQSEADRDWFcVDADPTLRQLDHVITTVELGNIFKERGINLAELPEGEWDNPMGVGSGAGVLFGTTGGVMEAALRTAYELFTGTPLPRLSLSEVRGMDGIKETNITMVPAPGSKFEELLKHAAAHGTPGPLAWDGGAGFTSEDGRGGITLRVAVANGLGNAKKLITKMQAGEAKYDFVEIMACPAGCVGGGGQPRSTDKAITQKRQAALYNLDEKSTLRRSHENPSIRELYDTYLGEPLGHKAHELLHTHYVAGGV 490
                                    74        84   |    94       104       114       124       134       144       154       164    |  174       184       194       204       214       224       234   |   244       254       264       274       284       294       304       314       324       334       344   || |361       371       381       391       401       411       421       431       441       451       461       471       481         
                                                  88-CSD                                                                          169-CSO                                                              238-CSO                                                                                                       348| ||                                                                                                                                   
                                                                                                                                                                                                                                                                                                                      350 ||                                                                                                                                   
                                                                                                                                                                                                                                                                                                                        352|                                                                                                                                   
                                                                                                                                                                                                                                                                                                                         359                                                                                                                                   


Chain B from PDB  Type:PROTEIN  Length:410
                                                                                                                                                                                                                                                                                                                                                                                                                                                          
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhh.........eeeeeehhhhhhhhhhhhh......hhhhhhhhhhhh...eeeehhhhhhhhhhhhhhhhhhhhhhhhh..........ee...hhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhh..hhh.eeeeeee...hhhhhhh..............eeeehhhhhhhhhhh..hhhhh.......................hhhhhhhhhhhhhhhh........ee......eeeeeeee.....hhhhhhhhh........eee.......eeeeeeeeeehhhhhhhhhhhhhh......eeeee....hhhhh.........hhhhhhhhh....hhhhh..hhhhhhhhhhhhhhh.....hhhhhhhhh........ Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4r0v B  65 LSHVQQALAELAKPKDDPTRKHVcVQVAPAVRVAIAETLGLAPGATTPKQLAEGLRRLGFDEVFDTLFGADLTIMEEGSELLHRLTEHLEAHPHSDEPLPMFTScCPGWIAMLEKSYPDLIPYVSSCKSPQMMLAAMVKSYLAEKKGIAPKDMVMVSIMPCTRKQSEADRDWFcADPTLRQLDHVITTVELGNIFKERGINLAELPEGEWDNPMGVGSGAGVLFGTTGGVMEAALRTAYELFTGTPLPRLSLSEVRGMDGIKETNITMVPAPGSKFEELLKHGPLAWDGGAGFTSEDGRGGITLRVAVANGLGNAKKLITKMQAGEAKYDFVEIMACPAGCVGGGGQPRSTDKAITQKRQAALYNLDEKSTLRRSHENPSIRELYDTYLGEPLGHKAHELLHTHYVAGGV 490
                                    74        84   |    94       104       114       124       134       144       154       164    |  174       184       194       204       214       224       234   ||  246       256       266       276       286       296       306       316       326       336       346 ||    370       380       390       400       410       420       430       440       450       460       470       480       490
                                                  88-CSD                                                                          169-CSO                                                              238-CSO                                                                                                     348|                                                                                                                               
                                                                                                                                                                                                        241                                                                                                         363
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  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 4R0V)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4R0V)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4R0V)

(-) Gene Ontology  (5, 5)

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 Related Entries

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        Q9FYU1_CHLRE | Q9FYU1: 2n0s 3lx4

(-) Related Entries Specified in the PDB File

3c8y CLOSTRIDIUM PASTEURIANUM [FEFE]-HYDROGENASE (CP1)
3lx4 CHLAMYDOMONAS REINHARDTII [FEFE]-HYDROGENASE (CRHYDA1)