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(-) Description

Title :  PRECURSOR BOUND NIFEN
 
Authors :  J. T. Kaiser, Y. Hu, J. A. Wiig, D. C. Rees, M. W. Ribbe
Date :  22 Oct 10  (Deposition) - 19 Jan 11  (Release) - 19 Jan 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.40
Chains :  Asym. Unit :  A,B,C,D,E,F,G,H
Biol. Unit 1:  A,B,C,D  (1x)
Biol. Unit 2:  E,F,G,H  (1x)
Keywords :  Nitrogenase Cofactor Maturation, Nifb, Nifdk, Nifh, Protein Binding (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. T. Kaiser, Y. Hu, J. A. Wiig, D. C. Rees, M. W. Ribbe
Structure Of Precursor-Bound Nifen: A Nitrogenase Femo Cofactor Maturase/Insertase.
Science V. 331 91 2011
PubMed-ID: 21212358  |  Reference-DOI: 10.1126/SCIENCE.1196954

(-) Compounds

Molecule 1 - NITROGENASE MOFE COFACTOR BIOSYNTHESIS PROTEIN NIFE
    Chains: A, C, E, G
    Engineered: YES
    Expression System: AZOTOBACTER VINELANDII
    Expression System Taxid: 354
    Gene: AVIN_01450, NIFE
    Organism Scientific: AZOTOBACTER VINELANDII
    Organism Taxid: 322710
    Strain: DJ / ATCC BAA-1303
 
Molecule 2 - NITROGENASE MOFE COFACTOR BIOSYNTHESIS PROTEIN NIFN
    Chains: B, D, F, H
    Engineered: YES
    Expression System: AZOTOBACTER VINELANDII
    Expression System Taxid: 354
    Gene: AVIN_01470, NIFN
    Organism Scientific: AZOTOBACTER VINELANDII
    Organism Taxid: 322710
    Strain: DJ / ATCC BAA-1303

 Structural Features

(-) Chains, Units

  12345678
Asymmetric Unit : ABCDEFGH
Biological Unit 1 (1x): ABCD    
Biological Unit 2 (1x):     EFGH

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 8)

Asymmetric Unit (2, 8)
No.NameCountTypeFull Name
1CZL4Ligand/IonL-CLUSTER (FE8S9)
2SF44Ligand/IonIRON/SULFUR CLUSTER
Biological Unit 1 (2, 4)
No.NameCountTypeFull Name
1CZL2Ligand/IonL-CLUSTER (FE8S9)
2SF42Ligand/IonIRON/SULFUR CLUSTER
Biological Unit 2 (2, 4)
No.NameCountTypeFull Name
1CZL2Ligand/IonL-CLUSTER (FE8S9)
2SF42Ligand/IonIRON/SULFUR CLUSTER

(-) Sites  (8, 8)

Asymmetric Unit (8, 8)
No.NameEvidenceResiduesDescription
1AC1SOFTWARECYS A:37 , CYS A:62 , THR A:123 , CYS A:124 , GLY A:155 , GLY B:43 , CYS B:44 , PHE B:47BINDING SITE FOR RESIDUE SF4 A 501
2AC2SOFTWAREASN A:161 , ARG A:165 , THR A:359 , GLU A:360 , GLU A:361BINDING SITE FOR RESIDUE CZL A 502
3AC3SOFTWARECYS C:37 , PHE C:39 , CYS C:62 , THR C:123 , CYS C:124 , GLY C:155 , GLY D:43 , CYS D:44 , PHE D:47BINDING SITE FOR RESIDUE SF4 C 501
4AC4SOFTWAREASN C:161 , ARG C:165 , THR C:359 , GLU C:360 , GLU C:361BINDING SITE FOR RESIDUE CZL C 502
5AC5SOFTWARECYS E:37 , CYS E:62 , THR E:123 , CYS E:124 , GLY E:155 , SER F:41 , CYS F:44 , PHE F:47BINDING SITE FOR RESIDUE SF4 E 501
6AC6SOFTWAREGLY E:24 , THR E:359 , GLU E:360 , GLU E:361BINDING SITE FOR RESIDUE CZL E 502
7AC7SOFTWARECYS G:37 , PHE G:39 , CYS G:62 , THR G:123 , CYS G:124 , GLY G:155 , GLY H:43 , CYS H:44BINDING SITE FOR RESIDUE SF4 G 501
8AC8SOFTWARECYS G:25 , ASN G:161 , ARG G:165 , ALA G:253 , THR G:359 , GLU G:360 , GLU G:361BINDING SITE FOR RESIDUE CZL G 502

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (12, 12)

Asymmetric Unit
No.Residues
1Phe A:423 -Gly A:424
2Lys B:9 -Ala B:10
3Ile B:202 -Pro B:203
4Phe C:423 -Gly C:424
5Lys D:9 -Ala D:10
6Ile D:202 -Pro D:203
7Phe E:423 -Gly E:424
8Lys F:9 -Ala F:10
9Ile F:202 -Pro F:203
10Phe G:423 -Gly G:424
11Lys H:9 -Ala H:10
12Ile H:202 -Pro H:203

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3PDI)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3PDI)

(-) Exons   (0, 0)

(no "Exon" information available for 3PDI)

(-) 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:427
 aligned with C1DH03_AZOVD | C1DH03 from UniProtKB/TrEMBL  Length:475

    Alignment length:427
                                    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       303       313       323       333       343       353       363       373       383       393       403       413       423       433       443       
         C1DH03_AZOVD    24 GCAKPKPGATDGGCSFDGAQIALLPVADVAHIVHGPIACAGSSWDNRGTRSSGPDLYRIGMTTDLTENDVIMGRAEKRLFHAIRQAVESYSPPAVFVYNTCVPALIGDDVDAVCKAAAERFGTPVIPVDSAGFYGTKNLGNRIAGEAMLKYVIGTREPDPLPVGSERPGIRVHDVNLIGEYNIAGEFWHVLPLLDELGLRVLCTLAGDARYREVQTMHRAEVNMMVCSKAMLNVARKLQETYGTPWFEGSFYGITDTSQALRDFARLLDDPDLTARTEALIAREEAKVRAALEPWRARLEGKRVLLYTGGVKSWSVVSALQDLGMKVVATGTKKSTEEDKARIRELMGDDVKMLDEGNARVLLKTVDEYQADILIAGGRNMYTALKGRVPFLDINQEREFGYAGYDGMLELVRQLCITLECPVWEAV 450
               SCOP domains d3pdia_ A: automated matches                                                                                                                                                                                                                                                                                                                                                                                                                SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .............hhhhhhhhhhh.....eeeeee....hhhhhh.........hhhhh.eeee.hhhhhh.hhhhhhhhhhhhhhhhhhh...eeee.hhhhhhh..hhhhhhhhhhhhhh..eeee..hhhhhhhhhhhhhhhhhhhhhhh...................eeeeee...hhhhhhhhhhhhhhhhheeeeeee....hhhhhhhhhhh.eeeee....hhhhhhhhhhhhh..eeee...hhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..eeeee.....hhhhhhhhhhhh.eeeee.....hhhhhhhhhhhh..........hhhhhhhhhhhh...eee.hhhhhhhhhhh...............hhhhhhhhhhhhhhhhhh....... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3pdi A  24 GCAKPKPGATDGGCSFDGAQIALLPVADVAHIVHGPIACAGSSWDNRGTRSSGPDLYRIGMTTDLTENDVIMGRAEKRLFHAIRQAVESYSPPAVFVYNTCVPALIGDDVDAVCKAAAERFGTPVIPVDSAGFYGTKNLGNRIAGEAMLKYVIGTREPDPLPVGSERPGIRVHDVNLIGEYNIAGEFWHVLPLLDELGLRVLCTLAGDARYREVQTMHRAEVNMMVCSKAMLNVARKLQETYGTPWFEGSFYGITDTSQALRDFARLLDDPDLTARTEALIAREEAKVRAALEPWRARLEGKRVLLYTGGVKSWSVVSALQDLGMKVVATGTKKSTEEDKARIRELMGDDVKMLDEGNARVLLKTVDEYQADILIAGGRNMYTALKGRVPFLDINQEREFGYAGYDGMLELVRQLCITLECPVWEAV 450
                                    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       303       313       323       333       343       353       363       373       383       393       403       413       423       433       443       


Chain B from PDB  Type:PROTEIN  Length:432
 aligned with C1DH04_AZOVD | C1DH04 from UniProtKB/TrEMBL  Length:458

    Alignment length:432
                                    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       303       313       323       333       343       353       363       373       383       393       403       413       423       433  
         C1DH04_AZOVD     4 IINRNKALAVSPLKASQTMGAALAILGLARSMPLFHGSQGCTAFAKVFFVRHFREPVPLQTTAMDQVSSVMGADENVVEALKTICERQNPSVIGLLTTGLSETQGCDLHTALHEFRTQYEEYKDVPIVPVNTPDFSGCFESGFAAAVKAIVETLVPERRDQVGKRPRQVNVLCSANLTPGDLEYIAESIESFGLRPLLIPDLSGSLDGHLDENRFNALTTGGLSVAELATAGQSVATLVVGQSLAGAADALAERTGVPDRRFGMLYGLDAVDAWLMALAEISGNPVPDRYKRQRAQLQDAMLDTHFMLSSARTAIAADPDLLLGFDALLRSMGAHTVAAVVPARAAALVDSPLPSVRVGDLEDLEHAARAGQAQLVIGNSHALASARRLGVPLLRAGFPQYDLLGGFQRCWSGYRGSSQVLFDLANLLVEHH 435
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .ee.....ee.....hhhhhhhhhhh....eeeeee.hhhhhhhhhhhhhhhhh.....ee...........hhhhhhhhhhhhhhhh...eeeeeehhhhhh...hhhhhhhhh...........eeee.......hhhhhhhhhhhhhhhhh.............eeeeee....hhhhhhhhhhhhhh...eeeee.hhhhhh.................hhhhhhhhh....eeee...hhhhhhhhhhhh...eeee...hhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhh..eeeee.hhhhhhhhhhhhhh...eeeeeee..............eeehhhhhhhhhhhhhh..eeee..hhhhhhhhh...eee.........hhhhh..hhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3pdi B   4 IINRNKALAVSPLKASQTMGAALAILGLARSMPLFHGSQGCTAFAKVFFVRHFREPVPLQTTAMDQVSSVMGADENVVEALKTICERQNPSVIGLLTTGLSETQGCDLHTALHEFRTQYEEYKDVPIVPVNTPDFSGCFESGFAAAVKAIVETLVPERRDQVGKRPRQVNVLCSANLTPGDLEYIAESIESFGLRPLLIPDLSGSLDGHLDENRFNALTTGGLSVAELATAGQSVATLVVGQSLAGAADALAERTGVPDRRFGMLYGLDAVDAWLMALAEISGNPVPDRYKRQRAQLQDAMLDTHFMLSSARTAIAADPDLLLGFDALLRSMGAHTVAAVVPARAAALVDSPLPSVRVGDLEDLEHAARAGQAQLVIGNSHALASARRLGVPLLRAGFPQYDLLGGFQRCWSGYRGSSQVLFDLANLLVEHH 435
                                    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       303       313       323       333       343       353       363       373       383       393       403       413       423       433  


Chain C from PDB  Type:PROTEIN  Length:427
 aligned with C1DH03_AZOVD | C1DH03 from UniProtKB/TrEMBL  Length:475

    Alignment length:427
                                    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       303       313       323       333       343       353       363       373       383       393       403       413       423       433       443       
         C1DH03_AZOVD    24 GCAKPKPGATDGGCSFDGAQIALLPVADVAHIVHGPIACAGSSWDNRGTRSSGPDLYRIGMTTDLTENDVIMGRAEKRLFHAIRQAVESYSPPAVFVYNTCVPALIGDDVDAVCKAAAERFGTPVIPVDSAGFYGTKNLGNRIAGEAMLKYVIGTREPDPLPVGSERPGIRVHDVNLIGEYNIAGEFWHVLPLLDELGLRVLCTLAGDARYREVQTMHRAEVNMMVCSKAMLNVARKLQETYGTPWFEGSFYGITDTSQALRDFARLLDDPDLTARTEALIAREEAKVRAALEPWRARLEGKRVLLYTGGVKSWSVVSALQDLGMKVVATGTKKSTEEDKARIRELMGDDVKMLDEGNARVLLKTVDEYQADILIAGGRNMYTALKGRVPFLDINQEREFGYAGYDGMLELVRQLCITLECPVWEAV 450
               SCOP domains d3pdic_ C: automated matches                                                                                                                                                                                                                                                                                                                                                                                                                SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .............hhhhhhhhhhh.....eeeeee....hhhhhh.........hhhhh.eeee.hhhhhh.hhhhhhhhhhhhhhhhhhh...eeee.hhhhhhh..hhhhhhhhhhhhhh..eeee..hhhhhhhhhhhhhhhhhhhhhhh...................eeeeee...hhhhhhhhhhhhhhhhheeeeeee....hhhhhhhhhhh.eeeee....hhhhhhhhhhhhh..eeee...hhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..eeeee.....hhhhhhhhhhhh.eeeee.....hhhhhhhhhhhh..........hhhhhhhhhhhh...eee.hhhhhhhhhhh...............hhhhhhhhhhhhhhhhhh....... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3pdi C  24 GCAKPKPGATDGGCSFDGAQIALLPVADVAHIVHGPIACAGSSWDNRGTRSSGPDLYRIGMTTDLTENDVIMGRAEKRLFHAIRQAVESYSPPAVFVYNTCVPALIGDDVDAVCKAAAERFGTPVIPVDSAGFYGTKNLGNRIAGEAMLKYVIGTREPDPLPVGSERPGIRVHDVNLIGEYNIAGEFWHVLPLLDELGLRVLCTLAGDARYREVQTMHRAEVNMMVCSKAMLNVARKLQETYGTPWFEGSFYGITDTSQALRDFARLLDDPDLTARTEALIAREEAKVRAALEPWRARLEGKRVLLYTGGVKSWSVVSALQDLGMKVVATGTKKSTEEDKARIRELMGDDVKMLDEGNARVLLKTVDEYQADILIAGGRNMYTALKGRVPFLDINQEREFGYAGYDGMLELVRQLCITLECPVWEAV 450
                                    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       303       313       323       333       343       353       363       373       383       393       403       413       423       433       443       


Chain D from PDB  Type:PROTEIN  Length:432
 aligned with C1DH04_AZOVD | C1DH04 from UniProtKB/TrEMBL  Length:458

    Alignment length:432
                                    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       303       313       323       333       343       353       363       373       383       393       403       413       423       433  
         C1DH04_AZOVD     4 IINRNKALAVSPLKASQTMGAALAILGLARSMPLFHGSQGCTAFAKVFFVRHFREPVPLQTTAMDQVSSVMGADENVVEALKTICERQNPSVIGLLTTGLSETQGCDLHTALHEFRTQYEEYKDVPIVPVNTPDFSGCFESGFAAAVKAIVETLVPERRDQVGKRPRQVNVLCSANLTPGDLEYIAESIESFGLRPLLIPDLSGSLDGHLDENRFNALTTGGLSVAELATAGQSVATLVVGQSLAGAADALAERTGVPDRRFGMLYGLDAVDAWLMALAEISGNPVPDRYKRQRAQLQDAMLDTHFMLSSARTAIAADPDLLLGFDALLRSMGAHTVAAVVPARAAALVDSPLPSVRVGDLEDLEHAARAGQAQLVIGNSHALASARRLGVPLLRAGFPQYDLLGGFQRCWSGYRGSSQVLFDLANLLVEHH 435
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .ee.....ee.....hhhhhhhhhhh....eeeeee.hhhhhhhhhhhhhhhhh.....ee...........hhhhhhhhhhhhhhhh...eeeeeehhhhhh...hhhhhhhhh...........eeee.......hhhhhhhhhhhhhhhhh.............eeeeee....hhhhhhhhhhhhhh...eeeee.hhhhhh.................hhhhhhhhhh...eeee...hhhhhhhhhhhh...eeee...hhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhh..eeeee.hhhhhhhhhhhhhh...eeeeeee..............eeehhhhhhhhhhhhhh..eeee..hhhhhhhhh...eee.........hhhhh..hhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3pdi D   4 IINRNKALAVSPLKASQTMGAALAILGLARSMPLFHGSQGCTAFAKVFFVRHFREPVPLQTTAMDQVSSVMGADENVVEALKTICERQNPSVIGLLTTGLSETQGCDLHTALHEFRTQYEEYKDVPIVPVNTPDFSGCFESGFAAAVKAIVETLVPERRDQVGKRPRQVNVLCSANLTPGDLEYIAESIESFGLRPLLIPDLSGSLDGHLDENRFNALTTGGLSVAELATAGQSVATLVVGQSLAGAADALAERTGVPDRRFGMLYGLDAVDAWLMALAEISGNPVPDRYKRQRAQLQDAMLDTHFMLSSARTAIAADPDLLLGFDALLRSMGAHTVAAVVPARAAALVDSPLPSVRVGDLEDLEHAARAGQAQLVIGNSHALASARRLGVPLLRAGFPQYDLLGGFQRCWSGYRGSSQVLFDLANLLVEHH 435
                                    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       303       313       323       333       343       353       363       373       383       393       403       413       423       433  


Chain E from PDB  Type:PROTEIN  Length:427
 aligned with C1DH03_AZOVD | C1DH03 from UniProtKB/TrEMBL  Length:475

    Alignment length:427
                                    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       303       313       323       333       343       353       363       373       383       393       403       413       423       433       443       
         C1DH03_AZOVD    24 GCAKPKPGATDGGCSFDGAQIALLPVADVAHIVHGPIACAGSSWDNRGTRSSGPDLYRIGMTTDLTENDVIMGRAEKRLFHAIRQAVESYSPPAVFVYNTCVPALIGDDVDAVCKAAAERFGTPVIPVDSAGFYGTKNLGNRIAGEAMLKYVIGTREPDPLPVGSERPGIRVHDVNLIGEYNIAGEFWHVLPLLDELGLRVLCTLAGDARYREVQTMHRAEVNMMVCSKAMLNVARKLQETYGTPWFEGSFYGITDTSQALRDFARLLDDPDLTARTEALIAREEAKVRAALEPWRARLEGKRVLLYTGGVKSWSVVSALQDLGMKVVATGTKKSTEEDKARIRELMGDDVKMLDEGNARVLLKTVDEYQADILIAGGRNMYTALKGRVPFLDINQEREFGYAGYDGMLELVRQLCITLECPVWEAV 450
               SCOP domains d3pdie_ E: automated matches                                                                                                                                                                                                                                                                                                                                                                                                                SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .............hhhhhhhhhhh.....eeeeee....hhhhhh.........hhhhh.eeee.hhhhhh.hhhhhhhhhhhhhhhhhhh...eeee.hhhhhhh..hhhhhhhhhhhhhh..eeee..hhhhhhhhhhhhhhhhhhhhhhh...................eeeeee...hhhhhhhhhhhhhhhhheeeeeee....hhhhhhhhhhh.eeeee....hhhhhhhhhhhhh..eeee...hhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..eeeee.....hhhhhhhhhhhh.eeeee.....hhhhhhhhhhhh..........hhhhhhhhhhhh...eee.hhhhhhhhhhh...............hhhhhhhhhhhhhhhhhh....... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3pdi E  24 GCAKPKPGATDGGCSFDGAQIALLPVADVAHIVHGPIACAGSSWDNRGTRSSGPDLYRIGMTTDLTENDVIMGRAEKRLFHAIRQAVESYSPPAVFVYNTCVPALIGDDVDAVCKAAAERFGTPVIPVDSAGFYGTKNLGNRIAGEAMLKYVIGTREPDPLPVGSERPGIRVHDVNLIGEYNIAGEFWHVLPLLDELGLRVLCTLAGDARYREVQTMHRAEVNMMVCSKAMLNVARKLQETYGTPWFEGSFYGITDTSQALRDFARLLDDPDLTARTEALIAREEAKVRAALEPWRARLEGKRVLLYTGGVKSWSVVSALQDLGMKVVATGTKKSTEEDKARIRELMGDDVKMLDEGNARVLLKTVDEYQADILIAGGRNMYTALKGRVPFLDINQEREFGYAGYDGMLELVRQLCITLECPVWEAV 450
                                    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       303       313       323       333       343       353       363       373       383       393       403       413       423       433       443       


Chain F from PDB  Type:PROTEIN  Length:432
 aligned with C1DH04_AZOVD | C1DH04 from UniProtKB/TrEMBL  Length:458

    Alignment length:432
                                    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       303       313       323       333       343       353       363       373       383       393       403       413       423       433  
         C1DH04_AZOVD     4 IINRNKALAVSPLKASQTMGAALAILGLARSMPLFHGSQGCTAFAKVFFVRHFREPVPLQTTAMDQVSSVMGADENVVEALKTICERQNPSVIGLLTTGLSETQGCDLHTALHEFRTQYEEYKDVPIVPVNTPDFSGCFESGFAAAVKAIVETLVPERRDQVGKRPRQVNVLCSANLTPGDLEYIAESIESFGLRPLLIPDLSGSLDGHLDENRFNALTTGGLSVAELATAGQSVATLVVGQSLAGAADALAERTGVPDRRFGMLYGLDAVDAWLMALAEISGNPVPDRYKRQRAQLQDAMLDTHFMLSSARTAIAADPDLLLGFDALLRSMGAHTVAAVVPARAAALVDSPLPSVRVGDLEDLEHAARAGQAQLVIGNSHALASARRLGVPLLRAGFPQYDLLGGFQRCWSGYRGSSQVLFDLANLLVEHH 435
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .ee.....ee.....hhhhhhhhhhh....eeeeee.hhhhhhhhhhhhhhhhh.....ee...........hhhhhhhhhhhhhhhh...eeeeeehhhhhh...hhhhhhhhh...........eeee.......hhhhhhhhhhhhhhhhh.............eeeeee....hhhhhhhhhhhhhh...eeeee.hhhhhh.................hhhhhhhhh....eeee...hhhhhhhhhhhh...eeee...hhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhh..eeeee.hhhhhhhhhhhhhh...eeeeeee..............eeehhhhhhhhhhhhhh..eeee..hhhhhhhhh...eee.........hhhhh..hhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3pdi F   4 IINRNKALAVSPLKASQTMGAALAILGLARSMPLFHGSQGCTAFAKVFFVRHFREPVPLQTTAMDQVSSVMGADENVVEALKTICERQNPSVIGLLTTGLSETQGCDLHTALHEFRTQYEEYKDVPIVPVNTPDFSGCFESGFAAAVKAIVETLVPERRDQVGKRPRQVNVLCSANLTPGDLEYIAESIESFGLRPLLIPDLSGSLDGHLDENRFNALTTGGLSVAELATAGQSVATLVVGQSLAGAADALAERTGVPDRRFGMLYGLDAVDAWLMALAEISGNPVPDRYKRQRAQLQDAMLDTHFMLSSARTAIAADPDLLLGFDALLRSMGAHTVAAVVPARAAALVDSPLPSVRVGDLEDLEHAARAGQAQLVIGNSHALASARRLGVPLLRAGFPQYDLLGGFQRCWSGYRGSSQVLFDLANLLVEHH 435
                                    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       303       313       323       333       343       353       363       373       383       393       403       413       423       433  


Chain G from PDB  Type:PROTEIN  Length:427
 aligned with C1DH03_AZOVD | C1DH03 from UniProtKB/TrEMBL  Length:475

    Alignment length:427
                                    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       303       313       323       333       343       353       363       373       383       393       403       413       423       433       443       
         C1DH03_AZOVD    24 GCAKPKPGATDGGCSFDGAQIALLPVADVAHIVHGPIACAGSSWDNRGTRSSGPDLYRIGMTTDLTENDVIMGRAEKRLFHAIRQAVESYSPPAVFVYNTCVPALIGDDVDAVCKAAAERFGTPVIPVDSAGFYGTKNLGNRIAGEAMLKYVIGTREPDPLPVGSERPGIRVHDVNLIGEYNIAGEFWHVLPLLDELGLRVLCTLAGDARYREVQTMHRAEVNMMVCSKAMLNVARKLQETYGTPWFEGSFYGITDTSQALRDFARLLDDPDLTARTEALIAREEAKVRAALEPWRARLEGKRVLLYTGGVKSWSVVSALQDLGMKVVATGTKKSTEEDKARIRELMGDDVKMLDEGNARVLLKTVDEYQADILIAGGRNMYTALKGRVPFLDINQEREFGYAGYDGMLELVRQLCITLECPVWEAV 450
               SCOP domains d3pdig_ G: automated matches                                                                                                                                                                                                                                                                                                                                                                                                                SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) -------------Oxidored_nitro-3pdiG01 G:37-443                                                                                                                                                                                                                                                                                                                                                                                        ------- Pfam domains (1)
           Pfam domains (2) -------------Oxidored_nitro-3pdiG02 G:37-443                                                                                                                                                                                                                                                                                                                                                                                        ------- Pfam domains (2)
           Pfam domains (3) -------------Oxidored_nitro-3pdiG03 G:37-443                                                                                                                                                                                                                                                                                                                                                                                        ------- Pfam domains (3)
           Pfam domains (4) -------------Oxidored_nitro-3pdiG04 G:37-443                                                                                                                                                                                                                                                                                                                                                                                        ------- Pfam domains (4)
         Sec.struct. author .............hhhhhhhhhhh.....eeeeee....hhhhhh.........hhhhh.eeee.hhhhhh.hhhhhhhhhhhhhhhhhhh...eeee.hhhhhhh..hhhhhhhhhhhhhh..eeee..hhhhhhhhhhhhhhhhhhhhhhh...................eeeeee...hhhhhhhhhhhhhhhh.eeeeeee....hhhhhhhhhhh.eeeee....hhhhhhhhhhhhh..eeee...hhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..eeeee.....hhhhhhhhhhhh.eeeee.....hhhhhhhhhhhh..........hhhhhhhhhhhh...eee.hhhhhhhhhhh...............hhhhhhhhhhhhhhhhhh....... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3pdi G  24 GCAKPKPGATDGGCSFDGAQIALLPVADVAHIVHGPIACAGSSWDNRGTRSSGPDLYRIGMTTDLTENDVIMGRAEKRLFHAIRQAVESYSPPAVFVYNTCVPALIGDDVDAVCKAAAERFGTPVIPVDSAGFYGTKNLGNRIAGEAMLKYVIGTREPDPLPVGSERPGIRVHDVNLIGEYNIAGEFWHVLPLLDELGLRVLCTLAGDARYREVQTMHRAEVNMMVCSKAMLNVARKLQETYGTPWFEGSFYGITDTSQALRDFARLLDDPDLTARTEALIAREEAKVRAALEPWRARLEGKRVLLYTGGVKSWSVVSALQDLGMKVVATGTKKSTEEDKARIRELMGDDVKMLDEGNARVLLKTVDEYQADILIAGGRNMYTALKGRVPFLDINQEREFGYAGYDGMLELVRQLCITLECPVWEAV 450
                                    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       303       313       323       333       343       353       363       373       383       393       403       413       423       433       443       


Chain H from PDB  Type:PROTEIN  Length:432
 aligned with C1DH04_AZOVD | C1DH04 from UniProtKB/TrEMBL  Length:458

    Alignment length:432
                                    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       303       313       323       333       343       353       363       373       383       393       403       413       423       433  
         C1DH04_AZOVD     4 IINRNKALAVSPLKASQTMGAALAILGLARSMPLFHGSQGCTAFAKVFFVRHFREPVPLQTTAMDQVSSVMGADENVVEALKTICERQNPSVIGLLTTGLSETQGCDLHTALHEFRTQYEEYKDVPIVPVNTPDFSGCFESGFAAAVKAIVETLVPERRDQVGKRPRQVNVLCSANLTPGDLEYIAESIESFGLRPLLIPDLSGSLDGHLDENRFNALTTGGLSVAELATAGQSVATLVVGQSLAGAADALAERTGVPDRRFGMLYGLDAVDAWLMALAEISGNPVPDRYKRQRAQLQDAMLDTHFMLSSARTAIAADPDLLLGFDALLRSMGAHTVAAVVPARAAALVDSPLPSVRVGDLEDLEHAARAGQAQLVIGNSHALASARRLGVPLLRAGFPQYDLLGGFQRCWSGYRGSSQVLFDLANLLVEHH 435
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
           Pfam domains (1) ---------------Oxidored_nitro-3pdiH01 H:19-432                                                                                                                                                                                                                                                                                                                                                                                               --- Pfam domains (1)
           Pfam domains (2) ---------------Oxidored_nitro-3pdiH02 H:19-432                                                                                                                                                                                                                                                                                                                                                                                               --- Pfam domains (2)
           Pfam domains (3) ---------------Oxidored_nitro-3pdiH03 H:19-432                                                                                                                                                                                                                                                                                                                                                                                               --- Pfam domains (3)
           Pfam domains (4) ---------------Oxidored_nitro-3pdiH04 H:19-432                                                                                                                                                                                                                                                                                                                                                                                               --- Pfam domains (4)
         Sec.struct. author .ee.....ee.....hhhhhhhhhhh....eeeeee.hhhhhhhhhhhhhhhhh.....ee...........hhhhhhhhhhhhhhhh...eeeeeehhhhhh...hhhhhhhhh...........eeeee......hhhhhhhhhhhhhhhhh.............eeeeee....hhhhhhhhhhhhhh...eeeee.hhhhhh.................hhhhhhhhhh...eeee...hhhhhhhhhhhh...eeee...hhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhh..eeeee.hhhhhhhhhhhhhh...eeeeeee..............eeehhhhhhhhhhhhhh..eeee..hhhhhhhhh...eee.........hhhhh..hhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3pdi H   4 IINRNKALAVSPLKASQTMGAALAILGLARSMPLFHGSQGCTAFAKVFFVRHFREPVPLQTTAMDQVSSVMGADENVVEALKTICERQNPSVIGLLTTGLSETQGCDLHTALHEFRTQYEEYKDVPIVPVNTPDFSGCFESGFAAAVKAIVETLVPERRDQVGKRPRQVNVLCSANLTPGDLEYIAESIESFGLRPLLIPDLSGSLDGHLDENRFNALTTGGLSVAELATAGQSVATLVVGQSLAGAADALAERTGVPDRRFGMLYGLDAVDAWLMALAEISGNPVPDRYKRQRAQLQDAMLDTHFMLSSARTAIAADPDLLLGFDALLRSMGAHTVAAVVPARAAALVDSPLPSVRVGDLEDLEHAARAGQAQLVIGNSHALASARRLGVPLLRAGFPQYDLLGGFQRCWSGYRGSSQVLFDLANLLVEHH 435
                                    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       303       313       323       333       343       353       363       373       383       393       403       413       423       433
   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  (1, 4)

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

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3PDI)

(-) Pfam Domains  (1, 8)

Asymmetric Unit
(-)
Clan: no clan defined [family: Oxidored_nitro] (12)

(-) Gene Ontology  (8, 16)

Asymmetric Unit(hide GO term definitions)
Chain A,C,E,G   (C1DH03_AZOVD | C1DH03)
molecular function
    GO:0051539    4 iron, 4 sulfur cluster binding    Interacting selectively and non-covalently with a 4 iron, 4 sulfur (4Fe-4S) cluster; this cluster consists of four iron atoms, with the inorganic sulfur atoms found between the irons and acting as bridging ligands.
    GO:0051536    iron-sulfur cluster binding    Interacting selectively and non-covalently with an iron-sulfur cluster, a combination of iron and sulfur atoms.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0016163    nitrogenase activity    Catalysis of the reaction: 8 reduced ferredoxin + 8 H+ + nitrogen + 16 ATP = 8 oxidized ferredoxin + 2 NH3 + 16 ADP + 16 phosphate.
    GO:0016491    oxidoreductase activity    Catalysis of an oxidation-reduction (redox) reaction, a reversible chemical reaction in which the oxidation state of an atom or atoms within a molecule is altered. One substrate acts as a hydrogen or electron donor and becomes oxidized, while the other acts as hydrogen or electron acceptor and becomes reduced.
biological process
    GO:0009399    nitrogen fixation    The process in which nitrogen is taken from its relatively inert molecular form (N2) in the atmosphere and converted into nitrogen compounds useful for other chemical processes, such as ammonia, nitrate and nitrogen dioxide.
    GO:0055114    oxidation-reduction process    A metabolic process that results in the removal or addition of one or more electrons to or from a substance, with or without the concomitant removal or addition of a proton or protons.
    GO:0006461    protein complex assembly    The aggregation, arrangement and bonding together of a set of components to form a protein complex.

Chain B,D,F,H   (C1DH04_AZOVD | C1DH04)
molecular function
    GO:0051539    4 iron, 4 sulfur cluster binding    Interacting selectively and non-covalently with a 4 iron, 4 sulfur (4Fe-4S) cluster; this cluster consists of four iron atoms, with the inorganic sulfur atoms found between the irons and acting as bridging ligands.
    GO:0051536    iron-sulfur cluster binding    Interacting selectively and non-covalently with an iron-sulfur cluster, a combination of iron and sulfur atoms.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0016163    nitrogenase activity    Catalysis of the reaction: 8 reduced ferredoxin + 8 H+ + nitrogen + 16 ATP = 8 oxidized ferredoxin + 2 NH3 + 16 ADP + 16 phosphate.
    GO:0016491    oxidoreductase activity    Catalysis of an oxidation-reduction (redox) reaction, a reversible chemical reaction in which the oxidation state of an atom or atoms within a molecule is altered. One substrate acts as a hydrogen or electron donor and becomes oxidized, while the other acts as hydrogen or electron acceptor and becomes reduced.
biological process
    GO:0009399    nitrogen fixation    The process in which nitrogen is taken from its relatively inert molecular form (N2) in the atmosphere and converted into nitrogen compounds useful for other chemical processes, such as ammonia, nitrate and nitrogen dioxide.
    GO:0055114    oxidation-reduction process    A metabolic process that results in the removal or addition of one or more electrons to or from a substance, with or without the concomitant removal or addition of a proton or protons.
    GO:0006461    protein complex assembly    The aggregation, arrangement and bonding together of a set of components to form a protein complex.

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