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3TOR

Crystal structure of Escherichia coli NrfA with Europium bound

Functional Information from GO Data
ChainGOidnamespacecontents
A0005506molecular_functioniron ion binding
A0005509molecular_functioncalcium ion binding
A0006807biological_processobsolete nitrogen compound metabolic process
A0009061biological_processanaerobic respiration
A0016491molecular_functionoxidoreductase activity
A0016966molecular_functionnitric oxide reductase activity
A0019645biological_processanaerobic electron transport chain
A0020037molecular_functionheme binding
A0030288cellular_componentouter membrane-bounded periplasmic space
A0042128biological_processnitrate assimilation
A0042279molecular_functionnitrite reductase (cytochrome, ammonia-forming) activity
A0042597cellular_componentperiplasmic space
A0046872molecular_functionmetal ion binding
B0005506molecular_functioniron ion binding
B0005509molecular_functioncalcium ion binding
B0006807biological_processobsolete nitrogen compound metabolic process
B0009061biological_processanaerobic respiration
B0016491molecular_functionoxidoreductase activity
B0016966molecular_functionnitric oxide reductase activity
B0019645biological_processanaerobic electron transport chain
B0020037molecular_functionheme binding
B0030288cellular_componentouter membrane-bounded periplasmic space
B0042128biological_processnitrate assimilation
B0042279molecular_functionnitrite reductase (cytochrome, ammonia-forming) activity
B0042597cellular_componentperiplasmic space
B0046872molecular_functionmetal ion binding
C0005506molecular_functioniron ion binding
C0005509molecular_functioncalcium ion binding
C0006807biological_processobsolete nitrogen compound metabolic process
C0009061biological_processanaerobic respiration
C0016491molecular_functionoxidoreductase activity
C0016966molecular_functionnitric oxide reductase activity
C0019645biological_processanaerobic electron transport chain
C0020037molecular_functionheme binding
C0030288cellular_componentouter membrane-bounded periplasmic space
C0042128biological_processnitrate assimilation
C0042279molecular_functionnitrite reductase (cytochrome, ammonia-forming) activity
C0042597cellular_componentperiplasmic space
C0046872molecular_functionmetal ion binding
D0005506molecular_functioniron ion binding
D0005509molecular_functioncalcium ion binding
D0006807biological_processobsolete nitrogen compound metabolic process
D0009061biological_processanaerobic respiration
D0016491molecular_functionoxidoreductase activity
D0016966molecular_functionnitric oxide reductase activity
D0019645biological_processanaerobic electron transport chain
D0020037molecular_functionheme binding
D0030288cellular_componentouter membrane-bounded periplasmic space
D0042128biological_processnitrate assimilation
D0042279molecular_functionnitrite reductase (cytochrome, ammonia-forming) activity
D0042597cellular_componentperiplasmic space
D0046872molecular_functionmetal ion binding
Functional Information from PDB Data
site_idAC1
Number of Residues6
DetailsBINDING SITE FOR RESIDUE CA A 1
ChainResidue
AHOH21
AGLU215
ATYR216
ALYS261
AGLN263
AHOH583

site_idAC2
Number of Residues8
DetailsBINDING SITE FOR RESIDUE EU A 2
ChainResidue
AHOH525
AHOH626
AHOH825
AHOH854
AHOH1993
AHEC5
AHEC6
APRO91

site_idAC3
Number of Residues24
DetailsBINDING SITE FOR RESIDUE HEC A 3
ChainResidue
AHEC5
AHOH10
AHOH13
AHOH24
ATYR88
AASN89
APRO91
AASP100
ATHR104
AARG106
ACYS122
ACYS125
ALYS126
ACYS212
AHIS213
ATYR216
AHIS264
AHIS388
AHOH487
AHOH502
AHOH518
AHOH537
AHOH577
AHOH1316

site_idAC4
Number of Residues23
DetailsBINDING SITE FOR RESIDUE HEC A 4
ChainResidue
AHEC5
AHIS49
AGLN52
ATYR53
ATRP56
AGLY159
ACYS160
ACYS163
AHIS164
APHE171
AGLY174
AARG201
AGLN205
AILE283
AMET287
ALYS289
ATYR298
ATHR299
AHIS301
AILE303
AHOH544
AHOH634
AHOH1049

site_idAC5
Number of Residues28
DetailsBINDING SITE FOR RESIDUE HEC A 5
ChainResidue
AEU2
AHEC3
AHEC4
AHEC6
AGLN62
APRO91
AARG92
AGLY93
AHIS94
APHE96
AALA97
AASP100
ACYS125
ALYS126
ALEU158
AARG182
AVAL208
ACYS209
ACYS212
AHIS213
AILE283
AHIS286
AMET287
AILE303
AGLY304
AHOH620
AHOH626
AHOH854

site_idAC6
Number of Residues25
DetailsBINDING SITE FOR RESIDUE HEC A 6
ChainResidue
ACYS282
ACYS285
AHIS286
APRO306
APHE307
AHIS388
AHIS391
AMET392
AHIS393
AHOH596
AHOH724
AHOH825
AHOH843
AHOH854
AHOH1189
AEU2
AHEC5
AHEC7
APRO91
AHIS213
AGLU266
ATRP270
AHIS275
AVAL280
ATHR281

site_idAC7
Number of Residues20
DetailsBINDING SITE FOR RESIDUE HEC A 7
ChainResidue
AHEC6
AHIS275
AVAL280
AASP284
APRO306
APHE307
ATHR313
ACYS314
ACYS317
AHIS318
AARG332
AMET392
AEU479
AEU480
AHOH534
AHOH897
DHEC7
DHIS318
DGLN320
DGLU396

site_idAC8
Number of Residues4
DetailsBINDING SITE FOR RESIDUE EU A 479
ChainResidue
AHEC7
AHOH1459
DHEC7
DHOH652

site_idAC9
Number of Residues4
DetailsBINDING SITE FOR RESIDUE EU A 480
ChainResidue
AHEC7
AGLU396
DHEC7
DGLU396

site_idBC1
Number of Residues6
DetailsBINDING SITE FOR RESIDUE CA B 1
ChainResidue
BGLU215
BTYR216
BLYS261
BGLN263
BHOH566
BHOH635

site_idBC2
Number of Residues8
DetailsBINDING SITE FOR RESIDUE EU B 2
ChainResidue
BHEC5
BHEC6
BPRO91
BHOH541
BHOH562
BHOH686
BHOH690
BHOH1976

site_idBC3
Number of Residues26
DetailsBINDING SITE FOR RESIDUE HEC B 3
ChainResidue
BHEC5
BHOH11
BHOH22
BTYR88
BASN89
BPRO91
BASP100
BTHR104
BARG106
BTHR107
BCYS122
BCYS125
BLYS126
BCYS212
BHIS213
BTYR216
BPHE218
BHIS264
BHIS388
BHOH495
BHOH504
BHOH509
BHOH527
BHOH533
BHOH557
BHOH829

site_idBC4
Number of Residues22
DetailsBINDING SITE FOR RESIDUE HEC B 4
ChainResidue
BHEC5
BHIS49
BGLN52
BTYR53
BTRP56
BGLY159
BCYS160
BCYS163
BHIS164
BPHE171
BGLY174
BARG201
BGLN205
BILE283
BMET287
BLYS289
BTYR298
BTHR299
BHIS301
BHOH529
BHOH570
BHOH1105

site_idBC5
Number of Residues29
DetailsBINDING SITE FOR RESIDUE HEC B 5
ChainResidue
BEU2
BHEC3
BHEC4
BHEC6
BGLN62
BPRO91
BARG92
BGLY93
BHIS94
BPHE96
BALA97
BASP100
BCYS125
BLYS126
BLEU158
BARG182
BVAL208
BCYS209
BCYS212
BHIS213
BILE283
BHIS286
BMET287
BILE303
BGLY304
BHOH562
BHOH567
BHOH690
BHOH1350

site_idBC6
Number of Residues26
DetailsBINDING SITE FOR RESIDUE HEC B 6
ChainResidue
BEU2
BHEC5
BHEC7
BPRO91
BHIS213
BGLU266
BTRP270
BHIS275
BVAL280
BTHR281
BCYS282
BCYS285
BHIS286
BASN305
BPRO306
BPHE307
BHIS388
BHIS391
BMET392
BHIS393
BHOH492
BHOH686
BHOH687
BHOH690
BHOH823
BHOH1433

site_idBC7
Number of Residues21
DetailsBINDING SITE FOR RESIDUE HEC B 7
ChainResidue
BHEC6
BILE274
BHIS275
BVAL280
BASP284
BPRO306
BPHE307
BTHR313
BCYS314
BCYS317
BHIS318
BARG332
BMET392
BEU479
BEU480
BHOH644
BHOH992
CHEC7
CHIS318
CGLN320
CGLU396

site_idBC8
Number of Residues4
DetailsBINDING SITE FOR RESIDUE EU B 479
ChainResidue
BHEC7
BHOH1718
CHEC7
CHOH611

site_idBC9
Number of Residues4
DetailsBINDING SITE FOR RESIDUE EU B 480
ChainResidue
BHEC7
BGLU396
CHEC7
CGLU396

site_idCC1
Number of Residues6
DetailsBINDING SITE FOR RESIDUE CA C 1
ChainResidue
CGLU215
CTYR216
CLYS261
CGLN263
CHOH509
CHOH583

site_idCC2
Number of Residues8
DetailsBINDING SITE FOR RESIDUE EU C 2
ChainResidue
CHEC5
CHEC6
CPRO91
CHOH645
CHOH858
CHOH1356
CHOH1509
CHOH1793

site_idCC3
Number of Residues26
DetailsBINDING SITE FOR RESIDUE HEC C 3
ChainResidue
CHEC5
CTYR88
CASN89
CPRO91
CASP100
CTHR104
CARG106
CTHR107
CLEU118
CCYS122
CCYS125
CLYS126
CCYS212
CHIS213
CTYR216
CHIS264
CHIS388
CHOH486
CHOH488
CHOH500
CHOH505
CHOH514
CHOH515
CHOH537
CHOH634
CHOH1045

site_idCC4
Number of Residues21
DetailsBINDING SITE FOR RESIDUE HEC C 4
ChainResidue
CHEC5
CHIS49
CGLN52
CTRP56
CGLY159
CCYS160
CCYS163
CHIS164
CPHE171
CGLY174
CPRO176
CLEU178
CARG201
CGLN205
CILE283
CLYS289
CTYR298
CTHR299
CHIS301
CHOH539
CHOH1720

site_idCC5
Number of Residues24
DetailsBINDING SITE FOR RESIDUE HEC C 5
ChainResidue
CEU2
CHEC3
CHEC4
CHEC6
CGLN62
CPRO91
CARG92
CGLY93
CHIS94
CPHE96
CALA97
CASP100
CCYS125
CLYS126
CLEU158
CVAL208
CCYS209
CCYS212
CHIS213
CILE283
CHIS286
CMET287
CILE303
CHOH1509

site_idCC6
Number of Residues25
DetailsBINDING SITE FOR RESIDUE HEC C 6
ChainResidue
CEU2
CHEC5
CHEC7
CPRO91
CHIS213
CGLU266
CTRP270
CHIS275
CVAL280
CTHR281
CCYS282
CCYS285
CHIS286
CASN305
CPRO306
CPHE307
CHIS388
CGLY389
CHIS391
CMET392
CHIS393
CHOH693
CHOH835
CHOH1183
CHOH1356

site_idCC7
Number of Residues21
DetailsBINDING SITE FOR RESIDUE HEC C 7
ChainResidue
BHEC7
BILE274
BHIS318
BGLN320
BGLU396
BEU479
BEU480
CHEC6
CILE274
CHIS275
CVAL280
CASP284
CPHE307
CTHR313
CCYS314
CCYS317
CHIS318
CARG332
CMET392
CHOH961
CHOH969

site_idCC8
Number of Residues7
DetailsBINDING SITE FOR RESIDUE EU C 479
ChainResidue
AASP457
AHOH826
AHOH1514
CGLU190
CHOH521
CHOH622
CHOH866

site_idCC9
Number of Residues6
DetailsBINDING SITE FOR RESIDUE CA D 1
ChainResidue
DGLU215
DTYR216
DLYS261
DGLN263
DHOH509
DHOH543

site_idDC1
Number of Residues7
DetailsBINDING SITE FOR RESIDUE EU D 2
ChainResidue
DHEC5
DHEC6
DPRO91
DHOH725
DHOH783
DHOH1000
DHOH1042

site_idDC2
Number of Residues28
DetailsBINDING SITE FOR RESIDUE HEC D 3
ChainResidue
DHEC5
DHOH17
DTYR88
DASN89
DPRO91
DASP100
DTHR104
DARG106
DTHR107
DLEU118
DCYS122
DCYS125
DLYS126
DCYS212
DHIS213
DTYR216
DPHE218
DVAL225
DHIS264
DHIS388
DHOH485
DHOH489
DHOH496
DHOH517
DHOH542
DHOH590
DHOH613
DHOH818

site_idDC3
Number of Residues21
DetailsBINDING SITE FOR RESIDUE HEC D 4
ChainResidue
DHEC5
DHIS49
DGLN52
DTYR53
DTRP56
DGLY159
DCYS160
DCYS163
DHIS164
DPHE171
DGLY174
DPRO176
DARG201
DGLN205
DILE283
DLYS289
DTYR298
DTHR299
DHIS301
DHOH515
DHOH1968

site_idDC4
Number of Residues24
DetailsBINDING SITE FOR RESIDUE HEC D 5
ChainResidue
DEU2
DHEC3
DHEC4
DHEC6
DGLN62
DPRO91
DARG92
DGLY93
DHIS94
DPHE96
DALA97
DASP100
DCYS125
DLEU158
DVAL208
DCYS209
DCYS212
DHIS213
DILE283
DHIS286
DMET287
DILE303
DHOH522
DHOH1042

site_idDC5
Number of Residues22
DetailsBINDING SITE FOR RESIDUE HEC D 6
ChainResidue
DEU2
DHEC5
DHEC7
DPRO91
DHIS213
DGLU266
DTRP270
DHIS275
DVAL280
DTHR281
DCYS282
DCYS285
DHIS286
DASN305
DPRO306
DHIS388
DHIS391
DMET392
DHIS393
DHOH725
DHOH844
DHOH1065

site_idDC6
Number of Residues19
DetailsBINDING SITE FOR RESIDUE HEC D 7
ChainResidue
AHEC7
AILE274
AHIS318
AGLN320
AGLU396
AEU479
AEU480
DHEC6
DHIS275
DVAL280
DPHE307
DTHR313
DCYS314
DCYS317
DHIS318
DARG332
DMET392
DHOH591
DHOH1060

Functional Information from SwissProt/UniProt
site_idSWS_FT_FI1
Number of Residues36
DetailsBINDING: axial binding residue => ECO:0007744|PDB:1GU6, ECO:0007744|PDB:2RDZ, ECO:0007744|PDB:2RF7, ECO:0007744|PDB:3L1T, ECO:0007744|PDB:3TOR
ChainResidueDetails
AHIS393
BHIS94
BLYS126
BHIS164
BHIS213
BHIS275
BHIS286
BHIS301
BHIS318
BHIS393
CHIS94
CLYS126
CHIS164
CHIS213
CHIS275
CHIS286
CHIS301
CHIS318
CHIS393
DHIS94
DLYS126
DHIS164
DHIS213
DHIS275
DHIS286
DHIS301
DHIS318
DHIS393
AHIS94
ALYS126
AHIS164
AHIS213
AHIS275
AHIS286
AHIS301
AHIS318

site_idSWS_FT_FI2
Number of Residues32
DetailsBINDING: covalent => ECO:0007744|PDB:1GU6, ECO:0007744|PDB:2RDZ, ECO:0007744|PDB:2RF7, ECO:0007744|PDB:3L1T, ECO:0007744|PDB:3TOR
ChainResidueDetails
ACYS209
ACYS212
ACYS282
ACYS314
BCYS122
BCYS125
BCYS160
BCYS163
BCYS209
BCYS212
BCYS282
BCYS314
CCYS122
CCYS125
CCYS160
CCYS163
CCYS209
CCYS212
CCYS282
CCYS314
DCYS122
DCYS125
DCYS160
DCYS163
DCYS209
DCYS212
DCYS282
DCYS314
ACYS122
ACYS125
ACYS160
ACYS163

site_idSWS_FT_FI3
Number of Residues8
DetailsBINDING: BINDING => ECO:0007744|PDB:1GU6, ECO:0007744|PDB:2RDZ, ECO:0007744|PDB:2RF7, ECO:0007744|PDB:3L1T, ECO:0007744|PDB:3TOR
ChainResidueDetails
AGLU215
ALYS261
BGLU215
BLYS261
CGLU215
CLYS261
DGLU215
DLYS261

site_idSWS_FT_FI4
Number of Residues8
DetailsBINDING: BINDING => ECO:0000305
ChainResidueDetails
CTYR216
CHIS264
DTYR216
DHIS264
AHIS264
BTYR216
BHIS264
ATYR216

site_idSWS_FT_FI5
Number of Residues4
DetailsBINDING: BINDING => ECO:0007744|PDB:1GU6, ECO:0007744|PDB:2RDZ, ECO:0007744|PDB:3L1T, ECO:0007744|PDB:3TOR
ChainResidueDetails
AGLN263
BGLN263
CGLN263
DGLN263

site_idSWS_FT_FI6
Number of Residues8
DetailsBINDING: covalent => ECO:0007744|PDB:1GU6, ECO:0007744|PDB:2RDZ, ECO:0007744|PDB:2RF7
ChainResidueDetails
CCYS285
CCYS317
DCYS285
DCYS317
ACYS285
ACYS317
BCYS285
BCYS317

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PDB entries from 2024-05-15

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