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(-) Description

Title :  NITROGENASE MOLYBDENUM-IRON PROTEIN FROM CLOSTRIDIUM PASTEURIANUM AT 1.08 A RESOLUTION
 
Authors :  L. M. Zhang, C. N. Morrison, J. T. Kaiser, D. C. Rees
Date :  10 Sep 14  (Deposition) - 11 Feb 15  (Release) - 25 Feb 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.08
Chains :  Asym./Biol. Unit :  A,B,C,D
Keywords :  Nitrogen Fixation, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  L. M. Zhang, C. N. Morrison, J. T. Kaiser, D. C. Rees
Nitrogenase Mofe Protein From Clostridium Pasteurianum At 1. 08 Angstrom Resolution: Comparison With The Azotobacter Vinelandii Mofe Protein.
Acta Crystallogr. , Sect. D V. 71 274 2015
PubMed-ID: 25664737  |  Reference-DOI: 10.1107/S1399004714025243

(-) Compounds

Molecule 1 - NITROGENASE MOLYBDENUM-IRON PROTEIN ALPHA CHAIN
    Chains: A, C
    EC Number: 1.18.6.1
    Organism Scientific: CLOSTRIDIUM PASTEURIANUM
    Organism Taxid: 1262449
    Strain: DSM 525
    Synonym: DINITROGENASE,NITROGENASE COMPONENT I
 
Molecule 2 - NITROGENASE MOLYBDENUM-IRON PROTEIN BETA CHAIN
    Chains: B, D
    EC Number: 1.18.6.1
    Organism Scientific: CLOSTRIDIUM PASTEURIANUM
    Organism Taxid: 1262449
    Strain: DSM 525
    Synonym: DINITROGENASE,NITROGENASE COMPONENT I

 Structural Features

(-) Chains, Units

  1234
Asymmetric/Biological Unit : ABCD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (5, 9)

Asymmetric/Biological Unit (5, 9)
No.NameCountTypeFull Name
1CLF2Ligand/IonFE(8)-S(7) CLUSTER
2FE22Ligand/IonFE (II) ION
3HCA2Ligand/Ion3-HYDROXY-3-CARBOXY-ADIPIC ACID
4ICS2Ligand/IonIRON-SULFUR-MOLYBDENUM CLUSTER WITH INTERSTITIAL CARBON
5MPD1Ligand/Ion(4S)-2-METHYL-2,4-PENTANEDIOL

(-) Sites  (9, 9)

Asymmetric Unit (9, 9)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREALA A:56 , ARG A:87 , GLN A:182 , GLY A:464 , ILE A:465 , HIS A:482 , ICS A:602 , HOH A:771 , HOH A:774 , HOH A:777 , HOH A:784 , HOH A:797 , HOH A:802 , HOH A:824 , HOH A:866 , HOH A:873 , HOH B:1059binding site for residue HCA A 601
2AC2SOFTWAREVAL A:61 , ARG A:87 , HIS A:186 , TYR A:216 , CYS A:262 , SER A:265 , GLY A:344 , GLY A:345 , SER A:346 , ARG A:347 , PHE A:369 , HIS A:482 , HCA A:601binding site for residue ICS A 602
3AC3SOFTWARECYS A:302 , HOH A:1242 , HOH A:1314binding site for residue MPD A 603
4AC4SOFTWARECYS A:53 , TYR A:55 , PRO A:76 , GLY A:78 , CYS A:79 , CYS A:145 , GLY A:176 , CYS B:23 , SER B:45 , GLY B:47 , CYS B:48 , TYR B:51 , HIS B:52 , CYS B:106 , SER B:141binding site for residue CLF A 604
5AC5SOFTWAREASP B:301 , ASP B:305 , HOH B:983 , LYS D:61 , GLU D:62 , HOH D:1117binding site for residue FE2 B 501
6AC6SOFTWARELYS B:61 , GLU B:62 , HOH B:987 , ASP D:301 , ASP D:305 , HOH D:1045binding site for residue FE2 B 502
7AC7SOFTWAREALA C:56 , ARG C:87 , GLN C:182 , GLY C:464 , ILE C:465 , HIS C:482 , ICS C:602 , HOH C:751 , HOH C:753 , HOH C:754 , HOH C:764 , HOH C:769 , HOH C:770 , HOH C:785 , HOH C:1186 , HOH D:754 , HOH D:1114binding site for residue HCA C 601
8AC8SOFTWAREVAL C:61 , ARG C:87 , HIS C:186 , TYR C:216 , CYS C:262 , SER C:265 , VAL C:343 , GLY C:344 , GLY C:345 , SER C:346 , ARG C:347 , PHE C:369 , HIS C:482 , HCA C:601binding site for residue ICS C 602
9AC9SOFTWARECYS C:53 , TYR C:55 , PRO C:76 , GLY C:78 , CYS C:79 , CYS C:145 , GLY C:176 , CYS D:23 , SER D:45 , GLY D:47 , CYS D:48 , TYR D:51 , HIS D:52 , THR D:105 , CYS D:106 , SER D:141binding site for residue CLF C 603

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (8, 8)

Asymmetric/Biological Unit
No.Residues
1Leu A:240 -Thr A:241
2Gly A:488 -Pro A:489
3Phe B:201 -Pro B:202
4Phe B:411 -Pro B:412
5Leu C:240 -Thr C:241
6Gly C:488 -Pro C:489
7Phe D:201 -Pro D:202
8Phe D:411 -Pro D:412

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4WES)

(-) 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:519
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                       
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhh..hhhhhhhhhh.eee.........................hhhhhhh.........eeeeee.hhhhhhh..........hhhhh........ee...hhhhhhhhhhhhhhhhhhhhhhhhh..eeeeee.hhhhhh..hhhhhhhhhhhhhh..eeee........hhhhhhhhhhhhhhhhh...........eeeeeee.hhhhhhhhhhhhhhhhh.eeeeeee...hhhhhhh.....eeee.hhhhhhhhhhhhhhhhh..eee....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..eeeeee..hhhhhhhhhhhhh..eeeeeee...hhhhhhhhhhhhhh.........................hhhhhhhhhhh........hhhhhh....eee...hhhhhhhhhhhhh..eee.hhhhhhhhhhh........hhhhh...hhhhhhhhhhhhhhhhhhhhhhhh....... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4wes A   3 ENLKDEILEKYIPKTKKTRSGHIVIKTEETPNPEIVANTRTVPGIITARGCAYAGCKGVVMGPIKDMVHITHGPIGCSFYTWGGRRFKSKPENGTGLNFNEYVFSTDMQESDIVFGGVNKLKDAIHEAYEMFHPAAIGVYATCPVGLIGDDILAVAATASKEIGIPVHAFSCEGYKGVSQSAGHHIANNTVMTDIIGKGNKEQKKYSINVLGEYNIGGDAWEMDRVLEKIGYHVNATLTGDATYEKVQNADKADLNLVQCHRSINYIAEMMETKYGIPWIKCNFIGVDGIVETLRDMAKCFDDPELTKRTEEVIAEEIAAIQDDLDYFKEKLQGKTACLYVGGSRSHTYMNMLKSFGVDSLVAGFEFAHRDDYEGREVIPTIKIDADSKNIPEITVTPDEQKYRVVIPEDKVEELKKAGVPLSSYGGMMKEMHDGTILIDDMNHHDMEVVLEKLKPDMFFAGIKEKFVIQKGGVLSKQLHSYDYNGPYAGFRGVVNFGHELVNGIYTPAWKMITPPWKK 521
                                    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       362       372       382       392       402       412       422       432       442       452       462       472       482       492       502       512         


Chain B from PDB  Type:PROTEIN  Length:458
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...............ee.....hhhhhhhhhhhh...eeeeee.hhhhhhhhhhhhhhhhh.....ee...hhhhhhhhhhhhhhhhhhhhhhhhh..eeeeeehhhhhhhh.hhhhhhhhhhhhh......eeee........hhhhhhhhhhhhhhhhhh.........eeee....hhhhhhhhhhhhhhh...eee........................hhhhhhhhhhh.eeeeehhhhhhhhhhhhhhhhh..eeee....hhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhh...eeeee.hhhhhhhhhhhhhhh..eeeeeee...hhhhhhhhhhhhhhh.....eeee..hhhhhhhhhhhh...eeeehhhhhhhhhhhh..eee.........hhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4wes B   1 MLDATPKEIVERKALRINPAKTCQPVGAMYAALGIHNCLPHSHGSQGCCSYHRTVLSRHFKEPAMASTSSFTEGASVFGGGSNIKTAVKNIFSLYNPDIIAVHTTCLSETLGDDLPTYISQMEDAGSIPEGKLVIHTNTPSYVGSHVTGFANMVQGIVNYLSENTGAKNGKINVIPGFVGPADMREIKRLFEAMDIPYIMFPDTSGVLDGPTTGEYKMYPEGGTKIEDLKDTGNSDLTLSLGSYASDLGAKTLEKKCKVPFKTLRTPIGVSATDEFIMALSEATGKEVPASIEEERGQLIDLMIDAQQYLQGKKVALLGDPDEIIALSKFIIELGAIPKYVVTGTPGMKFQKEIDAMLAEAGIEGSKVKVEGDFFDVHQWIKNEGVDLLISNTYGKFIAREENIPFVRFGFPIMDRYGHYYNPKVGYKGAIRLVEEITNVILDKIERECTEEDFEVVR 458
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400       410       420       430       440       450        


Chain C from PDB  Type:PROTEIN  Length:518
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhh..hhhhhhhhhh.eee.........................hhhhhhh.........eeeeee.hhhhhhh..........hhhhh........ee...hhhhhhhhhhhhhhhhhhhhhhhhh..eeeeee.hhhhhh..hhhhhhhhhhhhhh..eeee........hhhhhhhhhhhhhhhhh...........eeeeeee.hhhhhhhhhhhhhhhhh.eeeeeee...hhhhhhh.....eeee.hhhhhhhhhhhhhhhhh..eee....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..eeeeee..hhhhhhhhhhhhh..eeeeeee...hhhhhhhhhhhhhh.........................hhhhhhhhhhh........hhhhhh....eee...hhhhhhhhhhhhh..eee.hhhhhhhhhhh........hhhhh...hhhhhhhhhhhhhhhhhhhhhhhh...... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4wes C   3 ENLKDEILEKYIPKTKKTRSGHIVIKTEETPNPEIVANTRTVPGIITARGCAYAGCKGVVMGPIKDMVHITHGPIGCSFYTWGGRRFKSKPENGTGLNFNEYVFSTDMQESDIVFGGVNKLKDAIHEAYEMFHPAAIGVYATCPVGLIGDDILAVAATASKEIGIPVHAFSCEGYKGVSQSAGHHIANNTVMTDIIGKGNKEQKKYSINVLGEYNIGGDAWEMDRVLEKIGYHVNATLTGDATYEKVQNADKADLNLVQCHRSINYIAEMMETKYGIPWIKCNFIGVDGIVETLRDMAKCFDDPELTKRTEEVIAEEIAAIQDDLDYFKEKLQGKTACLYVGGSRSHTYMNMLKSFGVDSLVAGFEFAHRDDYEGREVIPTIKIDADSKNIPEITVTPDEQKYRVVIPEDKVEELKKAGVPLSSYGGMMKEMHDGTILIDDMNHHDMEVVLEKLKPDMFFAGIKEKFVIQKGGVLSKQLHSYDYNGPYAGFRGVVNFGHELVNGIYTPAWKMITPPWK 520
                                    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       362       372       382       392       402       412       422       432       442       452       462       472       482       492       502       512        


Chain D from PDB  Type:PROTEIN  Length:458
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...............ee.....hhhhhhhhhhhh...eeeeee.hhhhhhhhhhhhhhhhh.....ee...hhhhhhhhhhhhhhhhhhhhhhhhh..eeeeeehhhhhhhh.hhhhhhhhhhhhh......eeee........hhhhhhhhhhhhhhhhhh.........eeee....hhhhhhhhhhhhhhh...eee........................hhhhhhhhhhh.eeeeehhhhhhhhhhhhhhhhh..eeee....hhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhh...eeeee.hhhhhhhhhhhhhhh..eeeeeee...hhhhhhhhhhhhhhh.....eeee..hhhhhhhhhhhh...eeeehhhhhhhhhhhh..eee.........hhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4wes D   1 MLDATPKEIVERKALRINPAKTCQPVGAMYAALGIHNCLPHSHGSQGCCSYHRTVLSRHFKEPAMASTSSFTEGASVFGGGSNIKTAVKNIFSLYNPDIIAVHTTCLSETLGDDLPTYISQMEDAGSIPEGKLVIHTNTPSYVGSHVTGFANMVQGIVNYLSENTGAKNGKINVIPGFVGPADMREIKRLFEAMDIPYIMFPDTSGVLDGPTTGEYKMYPEGGTKIEDLKDTGNSDLTLSLGSYASDLGAKTLEKKCKVPFKTLRTPIGVSATDEFIMALSEATGKEVPASIEEERGQLIDLMIDAQQYLQGKKVALLGDPDEIIALSKFIIELGAIPKYVVTGTPGMKFQKEIDAMLAEAGIEGSKVKVEGDFFDVHQWIKNEGVDLLISNTYGKFIAREENIPFVRFGFPIMDRYGHYYNPKVGYKGAIRLVEEITNVILDKIERECTEEDFEVVR 458
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400       410       420       430       440       450
   Legend:   → Mismatch (orange background)
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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 4WES)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (10, 20)

Asymmetric/Biological Unit(hide GO term definitions)

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