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(-) Description

Title :  THE STRUCTURE OF THE NITRATE/NITRITE RESPONSE REGULATOR PROTEIN NARL IN THE MONOCLINIC C2 CRYSTAL FORM
 
Authors :  I. Baikalov, I. Schroder, M. Kaczor-Grzeskowiak, D. Cascio, R. P. Gunsalus, R. E. Dickerson
Date :  08 Dec 97  (Deposition) - 18 Mar 98  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.20
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Signal Transduction Protein, Response Regulators, Two- Component Systems (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  I. Baikalov, I. Schroder, M. Kaczor-Grzeskowiak, D. Cascio, R. P. Gunsalus, R. E. Dickerson
Narl Dimerization? Suggestive Evidence From A New Crystal Form
Biochemistry V. 37 3665 1998
PubMed-ID: 9521685  |  Reference-DOI: 10.1021/BI972365A
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - NITRATE/NITRITE RESPONSE REGULATOR PROTEIN NARL
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PHXL-1
    Expression System Taxid: 562
    Expression System Vector Type: T7 PROMOTER
    Fragment: RESIDUES 2 - 216 OF THE WILD TYPE NARL
    Organism Scientific: ESCHERICHIA COLI
    Organism Taxid: 562
    Strain: JM109

 Structural Features

(-) Chains, Units

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

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 1A04)

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
11UNKNOWNASP A:59 , ASP A:13 , ASP A:14 , LYS A:109PHOSPHORYLATION SITE.

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1A04)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1A04)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1A04)

(-) PROSITE Motifs  (3, 6)

Asymmetric Unit (3, 6)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1RESPONSE_REGULATORYPS50110 Response regulatory domain profile.NARL_ECO578-124
 		  2A:8-124
B:8-124
NARL_ECOL68-124
 		  2A:8-124
B:8-124
NARL_ECOLI8-124
 		  2A:8-124
B:8-124
NARL_SHIFL8-124
 		  2A:8-124
B:8-124
2HTH_LUXR_2PS50043 LuxR-type HTH domain profile.NARL_ECO57149-214
 		  2A:150-214
B:150-214
NARL_ECOL6149-214
 		  2A:150-214
B:150-214
NARL_ECOLI149-214
 		  2A:150-214
B:150-214
NARL_SHIFL149-214
 		  2A:150-214
B:150-214
3HTH_LUXR_1PS00622 LuxR-type HTH domain signature.NARL_ECO57170-197
 		  2A:170-197
B:170-197
NARL_ECOL6170-197
 		  2A:170-197
B:170-197
NARL_ECOLI170-197
 		  2A:170-197
B:170-197
NARL_SHIFL170-197
 		  2A:170-197
B:170-197
Biological Unit 1 (3, 12)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1RESPONSE_REGULATORYPS50110 Response regulatory domain profile.NARL_ECO578-124
 		  1A:8-124
-
NARL_ECOL68-124
 		  1A:8-124
-
NARL_ECOLI8-124
 		  1A:8-124
-
NARL_SHIFL8-124
 		  1A:8-124
-
2HTH_LUXR_2PS50043 LuxR-type HTH domain profile.NARL_ECO57149-214
 		  1A:150-214
-
NARL_ECOL6149-214
 		  1A:150-214
-
NARL_ECOLI149-214
 		  1A:150-214
-
NARL_SHIFL149-214
 		  1A:150-214
-
3HTH_LUXR_1PS00622 LuxR-type HTH domain signature.NARL_ECO57170-197
 		  1A:170-197
-
NARL_ECOL6170-197
 		  1A:170-197
-
NARL_ECOLI170-197
 		  1A:170-197
-
NARL_SHIFL170-197
 		  1A:170-197
-
Biological Unit 2 (3, 12)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1RESPONSE_REGULATORYPS50110 Response regulatory domain profile.NARL_ECO578-124
 		  1-
B:8-124
NARL_ECOL68-124
 		  1-
B:8-124
NARL_ECOLI8-124
 		  1-
B:8-124
NARL_SHIFL8-124
 		  1-
B:8-124
2HTH_LUXR_2PS50043 LuxR-type HTH domain profile.NARL_ECO57149-214
 		  1-
B:150-214
NARL_ECOL6149-214
 		  1-
B:150-214
NARL_ECOLI149-214
 		  1-
B:150-214
NARL_SHIFL149-214
 		  1-
B:150-214
3HTH_LUXR_1PS00622 LuxR-type HTH domain signature.NARL_ECO57170-197
 		  1-
B:170-197
NARL_ECOL6170-197
 		  1-
B:170-197
NARL_ECOLI170-197
 		  1-
B:170-197
NARL_SHIFL170-197
 		  1-
B:170-197

(-) Exons   (0, 0)

(no "Exon" information available for 1A04)

(-) 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:205
 aligned with NARL_ECO57 | P0AF30 from UniProtKB/Swiss-Prot  Length:216

    Alignment length:212
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214  
           NARL_ECO57     5 EPATILLIDDHPMLRTGVKQLISMAPDITVVGEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLSGRIVVFSVSNHEEDVVTALKRGADGYLLKDMEPEDLLKALHQAAAGEMVLSEALTPVLAASLRANRATTERDVNQLTPRERDILKLIAQGLPNKMIARRLDITESTVKVHVKHMLKKMKLKSRVEAAVWVHQERIF 216
               SCOP domains d1a04a2 A:5-142 Nitrate/nitrite response regulator (NarL), receiver domain                                                                -------d1a04a1 A:150-216 Nitrate/nitrite response regulator (NarL)         SCOP domains
               CATH domains 1a04A01 A:5-128  [code=3.40.50.2300, no name defined]                                                                       1a04A02 A:129-       215 'winged helix' repressor DNA binding domain                   - CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee...hhhhhhhhhhhhh...eeeeeee..hhhhhhhhhhh...eeeee.......hhhhhhhhhh.....eeeeee....hhhhhhhhh....eeee....hhhhhhhhhhhhh......hhhhhhhhhh.-------...hhh..hhhhhhhhhhh....hhhhhhhh...hhhhhhhhhhhhhhh....hhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (2) ---RESPONSE_REGULATORY  PDB: A:8-124 UniProt: 8-124                                                                     -------------------------------------------------------------------------------------------- PROSITE (2)
                PROSITE (1) ------------------------------------------------------------------------------------------------------------------------------------------------HTH_LUXR_2  PDB: A:150-214 UniProt: 149-214                       -- PROSITE (1)
                PROSITE (3) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (3)
                PROSITE (4) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (4)
                PROSITE (5) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------HTH_LUXR_1  PDB: A:170-197  ------------------- PROSITE (5)
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1a04 A   5 EPATILLIDDHPMLRTGVKQLISMAPDITVVGEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLSGRIVVFSVSNHEEDVVTALKRGADGYLLKDMEPEDLLKALHQAAAGEMVLSEALTPVLAASL-------ERDVNQLTPRERDILKLIAQGLPNKMIARRLDITESTVKVHVKHMLKKMKLKSRVEAAVWVHQERIF 216
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       | -     | 154       164       174       184       194       204       214  
                                                                                                                                                                   142     150                                                                  


Chain A from PDB  Type:PROTEIN  Length:205
 aligned with NARL_ECOL6 | P0AF29 from UniProtKB/Swiss-Prot  Length:216

    Alignment length:212
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214  
           NARL_ECOL6     5 EPATILLIDDHPMLRTGVKQLISMAPDITVVGEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLSGRIVVFSVSNHEEDVVTALKRGADGYLLKDMEPEDLLKALHQAAAGEMVLSEALTPVLAASLRANRATTERDVNQLTPRERDILKLIAQGLPNKMIARRLDITESTVKVHVKHMLKKMKLKSRVEAAVWVHQERIF 216
               SCOP domains d1a04a2 A:5-142 Nitrate/nitrite response regulator (NarL), receiver domain                                                                -------d1a04a1 A:150-216 Nitrate/nitrite response regulator (NarL)         SCOP domains
               CATH domains 1a04A01 A:5-128  [code=3.40.50.2300, no name defined]                                                                       1a04A02 A:129-       215 'winged helix' repressor DNA binding domain                   - CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee...hhhhhhhhhhhhh...eeeeeee..hhhhhhhhhhh...eeeee.......hhhhhhhhhh.....eeeeee....hhhhhhhhh....eeee....hhhhhhhhhhhhh......hhhhhhhhhh.-------...hhh..hhhhhhhhhhh....hhhhhhhh...hhhhhhhhhhhhhhh....hhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (2) ------------------------------------------------------------------------------------------------------------------------------------------------HTH_LUXR_2  PDB: A:150-214 UniProt: 149-214                       -- PROSITE (2)
                PROSITE (3) ---RESPONSE_REGULATORY  PDB: A:8-124 UniProt: 8-124                                                                     -------------------------------------------------------------------------------------------- PROSITE (3)
                PROSITE (4) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (4)
                PROSITE (5) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (5)
                PROSITE (6) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (6)
                PROSITE (7) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------HTH_LUXR_1  PDB: A:170-197  ------------------- PROSITE (7)
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1a04 A   5 EPATILLIDDHPMLRTGVKQLISMAPDITVVGEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLSGRIVVFSVSNHEEDVVTALKRGADGYLLKDMEPEDLLKALHQAAAGEMVLSEALTPVLAASL-------ERDVNQLTPRERDILKLIAQGLPNKMIARRLDITESTVKVHVKHMLKKMKLKSRVEAAVWVHQERIF 216
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       | -     | 154       164       174       184       194       204       214  
                                                                                                                                                                   142     150                                                                  


Chain A from PDB  Type:PROTEIN  Length:205
 aligned with NARL_ECOLI | P0AF28 from UniProtKB/Swiss-Prot  Length:216

    Alignment length:212
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214  
           NARL_ECOLI     5 EPATILLIDDHPMLRTGVKQLISMAPDITVVGEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLSGRIVVFSVSNHEEDVVTALKRGADGYLLKDMEPEDLLKALHQAAAGEMVLSEALTPVLAASLRANRATTERDVNQLTPRERDILKLIAQGLPNKMIARRLDITESTVKVHVKHMLKKMKLKSRVEAAVWVHQERIF 216
               SCOP domains d1a04a2 A:5-142 Nitrate/nitrite response regulator (NarL), receiver domain                                                                -------d1a04a1 A:150-216 Nitrate/nitrite response regulator (NarL)         SCOP domains
               CATH domains 1a04A01 A:5-128  [code=3.40.50.2300, no name defined]                                                                       1a04A02 A:129-       215 'winged helix' repressor DNA binding domain                   - CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee...hhhhhhhhhhhhh...eeeeeee..hhhhhhhhhhh...eeeee.......hhhhhhhhhh.....eeeeee....hhhhhhhhh....eeee....hhhhhhhhhhhhh......hhhhhhhhhh.-------...hhh..hhhhhhhhhhh....hhhhhhhh...hhhhhhhhhhhhhhh....hhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) ---RESPONSE_REGULATORY  PDB: A:8-124 UniProt: 8-124                                                                     -------------------------------------------------------------------------------------------- PROSITE (1)
                PROSITE (2) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (2)
                PROSITE (3) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (3)
                PROSITE (4) ------------------------------------------------------------------------------------------------------------------------------------------------HTH_LUXR_2  PDB: A:150-214 UniProt: 149-214                       -- PROSITE (4)
                PROSITE (5) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (5)
                PROSITE (6) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (6)
                PROSITE (7) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (7)
                PROSITE (8) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------HTH_LUXR_1  PDB: A:170-197  ------------------- PROSITE (8)
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1a04 A   5 EPATILLIDDHPMLRTGVKQLISMAPDITVVGEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLSGRIVVFSVSNHEEDVVTALKRGADGYLLKDMEPEDLLKALHQAAAGEMVLSEALTPVLAASL-------ERDVNQLTPRERDILKLIAQGLPNKMIARRLDITESTVKVHVKHMLKKMKLKSRVEAAVWVHQERIF 216
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       | -     | 154       164       174       184       194       204       214  
                                                                                                                                                                   142     150                                                                  


Chain A from PDB  Type:PROTEIN  Length:205
 aligned with NARL_SHIFL | P0AF31 from UniProtKB/Swiss-Prot  Length:216

    Alignment length:212
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214  
           NARL_SHIFL     5 EPATILLIDDHPMLRTGVKQLISMAPDITVVGEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLSGRIVVFSVSNHEEDVVTALKRGADGYLLKDMEPEDLLKALHQAAAGEMVLSEALTPVLAASLRANRATTERDVNQLTPRERDILKLIAQGLPNKMIARRLDITESTVKVHVKHMLKKMKLKSRVEAAVWVHQERIF 216
               SCOP domains d1a04a2 A:5-142 Nitrate/nitrite response regulator (NarL), receiver domain                                                                -------d1a04a1 A:150-216 Nitrate/nitrite response regulator (NarL)         SCOP domains
               CATH domains 1a04A01 A:5-128  [code=3.40.50.2300, no name defined]                                                                       1a04A02 A:129-       215 'winged helix' repressor DNA binding domain                   - CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee...hhhhhhhhhhhhh...eeeeeee..hhhhhhhhhhh...eeeee.......hhhhhhhhhh.....eeeeee....hhhhhhhhh....eeee....hhhhhhhhhhhhh......hhhhhhhhhh.-------...hhh..hhhhhhhhhhh....hhhhhhhh...hhhhhhhhhhhhhhh....hhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (2) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (2)
                PROSITE (3) ------------------------------------------------------------------------------------------------------------------------------------------------HTH_LUXR_2  PDB: A:150-214 UniProt: 149-214                       -- PROSITE (3)
                PROSITE (4) ---RESPONSE_REGULATORY  PDB: A:8-124 UniProt: 8-124                                                                     -------------------------------------------------------------------------------------------- PROSITE (4)
                PROSITE (5) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (5)
                PROSITE (6) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------HTH_LUXR_1  PDB: A:170-197  ------------------- PROSITE (6)
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1a04 A   5 EPATILLIDDHPMLRTGVKQLISMAPDITVVGEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLSGRIVVFSVSNHEEDVVTALKRGADGYLLKDMEPEDLLKALHQAAAGEMVLSEALTPVLAASL-------ERDVNQLTPRERDILKLIAQGLPNKMIARRLDITESTVKVHVKHMLKKMKLKSRVEAAVWVHQERIF 216
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       | -     | 154       164       174       184       194       204       214  
                                                                                                                                                                   142     150                                                                  


Chain B from PDB  Type:PROTEIN  Length:205
 aligned with NARL_ECO57 | P0AF30 from UniProtKB/Swiss-Prot  Length:216

    Alignment length:212
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214  
           NARL_ECO57     5 EPATILLIDDHPMLRTGVKQLISMAPDITVVGEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLSGRIVVFSVSNHEEDVVTALKRGADGYLLKDMEPEDLLKALHQAAAGEMVLSEALTPVLAASLRANRATTERDVNQLTPRERDILKLIAQGLPNKMIARRLDITESTVKVHVKHMLKKMKLKSRVEAAVWVHQERIF 216
               SCOP domains d1a04b2 B:5-142 Nitrate/nitrite response regulator (NarL), receiver domain                                                                -------d1a04b1 B:150-216 Nitrate/nitrite response regulator (NarL)         SCOP domains
               CATH domains 1a04B01 B:5-128  [code=3.40.50.2300, no name defined]                                                                       1a04B02 B:129-       215 'winged helix' repressor DNA binding domain                   - CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee...hhhhhhhhhhhhh...eeeeeee..hhhhhhhhhhh...eeeee.......hhhhhhhhhh.....eeeeee....hhhhhhhhh....eeee....hhhhhhhhhhhhh......hhhhhhhhhh.-------...hhh..hhhhhhhhhhh....hhhhhhh....hhhhhhhhhhhhhhh....hhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (2) ---RESPONSE_REGULATORY  PDB: B:8-124 UniProt: 8-124                                                                     -------------------------------------------------------------------------------------------- PROSITE (2)
                PROSITE (1) ------------------------------------------------------------------------------------------------------------------------------------------------HTH_LUXR_2  PDB: B:150-214 UniProt: 149-214                       -- PROSITE (1)
                PROSITE (3) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (3)
                PROSITE (4) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (4)
                PROSITE (5) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------HTH_LUXR_1  PDB: B:170-197  ------------------- PROSITE (5)
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1a04 B   5 EPATILLIDDHPMLRTGVKQLISMAPDITVVGEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLSGRIVVFSVSNHEEDVVTALKRGADGYLLKDMEPEDLLKALHQAAAGEMVLSEALTPVLAASL-------ERDVNQLTPRERDILKLIAQGLPNKMIARRLDITESTVKVHVKHMLKKMKLKSRVEAAVWVHQERIF 216
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       | -     | 154       164       174       184       194       204       214  
                                                                                                                                                                   142     150                                                                  


Chain B from PDB  Type:PROTEIN  Length:205
 aligned with NARL_ECOL6 | P0AF29 from UniProtKB/Swiss-Prot  Length:216

    Alignment length:212
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214  
           NARL_ECOL6     5 EPATILLIDDHPMLRTGVKQLISMAPDITVVGEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLSGRIVVFSVSNHEEDVVTALKRGADGYLLKDMEPEDLLKALHQAAAGEMVLSEALTPVLAASLRANRATTERDVNQLTPRERDILKLIAQGLPNKMIARRLDITESTVKVHVKHMLKKMKLKSRVEAAVWVHQERIF 216
               SCOP domains d1a04b2 B:5-142 Nitrate/nitrite response regulator (NarL), receiver domain                                                                -------d1a04b1 B:150-216 Nitrate/nitrite response regulator (NarL)         SCOP domains
               CATH domains 1a04B01 B:5-128  [code=3.40.50.2300, no name defined]                                                                       1a04B02 B:129-       215 'winged helix' repressor DNA binding domain                   - CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee...hhhhhhhhhhhhh...eeeeeee..hhhhhhhhhhh...eeeee.......hhhhhhhhhh.....eeeeee....hhhhhhhhh....eeee....hhhhhhhhhhhhh......hhhhhhhhhh.-------...hhh..hhhhhhhhhhh....hhhhhhh....hhhhhhhhhhhhhhh....hhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (2) ------------------------------------------------------------------------------------------------------------------------------------------------HTH_LUXR_2  PDB: B:150-214 UniProt: 149-214                       -- PROSITE (2)
                PROSITE (3) ---RESPONSE_REGULATORY  PDB: B:8-124 UniProt: 8-124                                                                     -------------------------------------------------------------------------------------------- PROSITE (3)
                PROSITE (4) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (4)
                PROSITE (5) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (5)
                PROSITE (6) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (6)
                PROSITE (7) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------HTH_LUXR_1  PDB: B:170-197  ------------------- PROSITE (7)
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1a04 B   5 EPATILLIDDHPMLRTGVKQLISMAPDITVVGEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLSGRIVVFSVSNHEEDVVTALKRGADGYLLKDMEPEDLLKALHQAAAGEMVLSEALTPVLAASL-------ERDVNQLTPRERDILKLIAQGLPNKMIARRLDITESTVKVHVKHMLKKMKLKSRVEAAVWVHQERIF 216
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       | -     | 154       164       174       184       194       204       214  
                                                                                                                                                                   142     150                                                                  


Chain B from PDB  Type:PROTEIN  Length:205
 aligned with NARL_ECOLI | P0AF28 from UniProtKB/Swiss-Prot  Length:216

    Alignment length:212
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214  
           NARL_ECOLI     5 EPATILLIDDHPMLRTGVKQLISMAPDITVVGEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLSGRIVVFSVSNHEEDVVTALKRGADGYLLKDMEPEDLLKALHQAAAGEMVLSEALTPVLAASLRANRATTERDVNQLTPRERDILKLIAQGLPNKMIARRLDITESTVKVHVKHMLKKMKLKSRVEAAVWVHQERIF 216
               SCOP domains d1a04b2 B:5-142 Nitrate/nitrite response regulator (NarL), receiver domain                                                                -------d1a04b1 B:150-216 Nitrate/nitrite response regulator (NarL)         SCOP domains
               CATH domains 1a04B01 B:5-128  [code=3.40.50.2300, no name defined]                                                                       1a04B02 B:129-       215 'winged helix' repressor DNA binding domain                   - CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee...hhhhhhhhhhhhh...eeeeeee..hhhhhhhhhhh...eeeee.......hhhhhhhhhh.....eeeeee....hhhhhhhhh....eeee....hhhhhhhhhhhhh......hhhhhhhhhh.-------...hhh..hhhhhhhhhhh....hhhhhhh....hhhhhhhhhhhhhhh....hhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) ---RESPONSE_REGULATORY  PDB: B:8-124 UniProt: 8-124                                                                     -------------------------------------------------------------------------------------------- PROSITE (1)
                PROSITE (2) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (2)
                PROSITE (3) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (3)
                PROSITE (4) ------------------------------------------------------------------------------------------------------------------------------------------------HTH_LUXR_2  PDB: B:150-214 UniProt: 149-214                       -- PROSITE (4)
                PROSITE (5) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (5)
                PROSITE (6) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (6)
                PROSITE (7) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (7)
                PROSITE (8) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------HTH_LUXR_1  PDB: B:170-197  ------------------- PROSITE (8)
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1a04 B   5 EPATILLIDDHPMLRTGVKQLISMAPDITVVGEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLSGRIVVFSVSNHEEDVVTALKRGADGYLLKDMEPEDLLKALHQAAAGEMVLSEALTPVLAASL-------ERDVNQLTPRERDILKLIAQGLPNKMIARRLDITESTVKVHVKHMLKKMKLKSRVEAAVWVHQERIF 216
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       | -     | 154       164       174       184       194       204       214  
                                                                                                                                                                   142     150                                                                  


Chain B from PDB  Type:PROTEIN  Length:205
 aligned with NARL_SHIFL | P0AF31 from UniProtKB/Swiss-Prot  Length:216

    Alignment length:212
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214  
           NARL_SHIFL     5 EPATILLIDDHPMLRTGVKQLISMAPDITVVGEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLSGRIVVFSVSNHEEDVVTALKRGADGYLLKDMEPEDLLKALHQAAAGEMVLSEALTPVLAASLRANRATTERDVNQLTPRERDILKLIAQGLPNKMIARRLDITESTVKVHVKHMLKKMKLKSRVEAAVWVHQERIF 216
               SCOP domains d1a04b2 B:5-142 Nitrate/nitrite response regulator (NarL), receiver domain                                                                -------d1a04b1 B:150-216 Nitrate/nitrite response regulator (NarL)         SCOP domains
               CATH domains 1a04B01 B:5-128  [code=3.40.50.2300, no name defined]                                                                       1a04B02 B:129-       215 'winged helix' repressor DNA binding domain                   - CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee...hhhhhhhhhhhhh...eeeeeee..hhhhhhhhhhh...eeeee.......hhhhhhhhhh.....eeeeee....hhhhhhhhh....eeee....hhhhhhhhhhhhh......hhhhhhhhhh.-------...hhh..hhhhhhhhhhh....hhhhhhh....hhhhhhhhhhhhhhh....hhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (2) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (2)
                PROSITE (3) ------------------------------------------------------------------------------------------------------------------------------------------------HTH_LUXR_2  PDB: B:150-214 UniProt: 149-214                       -- PROSITE (3)
                PROSITE (4) ---RESPONSE_REGULATORY  PDB: B:8-124 UniProt: 8-124                                                                     -------------------------------------------------------------------------------------------- PROSITE (4)
                PROSITE (5) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (5)
                PROSITE (6) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------HTH_LUXR_1  PDB: B:170-197  ------------------- PROSITE (6)
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1a04 B   5 EPATILLIDDHPMLRTGVKQLISMAPDITVVGEASNGEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLSGRIVVFSVSNHEEDVVTALKRGADGYLLKDMEPEDLLKALHQAAAGEMVLSEALTPVLAASL-------ERDVNQLTPRERDILKLIAQGLPNKMIARRLDITESTVKVHVKHMLKKMKLKSRVEAAVWVHQERIF 216
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       | -     | 154       164       174       184       194       204       214  
                                                                                                                                                                   142     150
   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  (2, 4)

Asymmetric Unit
(-)
Class: All alpha proteins (14657)
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (2, 4)

Asymmetric Unit
(-)
Class: Alpha Beta (26913)
(-)
Class: Mainly Alpha (13335)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1A04)

(-) Gene Ontology  (11, 34)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (NARL_ECOLI | P0AF28)
molecular function
    GO:0005524    ATP binding    Interacting selectively and non-covalently with ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
    GO:0003677    DNA binding    Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
    GO:0000166    nucleotide binding    Interacting selectively and non-covalently with a nucleotide, any compound consisting of a nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the ribose or deoxyribose.
biological process
    GO:0042128    nitrate assimilation    The nitrogen metabolic process that encompasses the uptake of nitrate from the environment and reduction to ammonia, and results in the incorporation of nitrogen derived from nitrate into cellular substances.
    GO:0000160    phosphorelay signal transduction system    A conserved series of molecular signals found in prokaryotes and eukaryotes; involves autophosphorylation of a histidine kinase and the transfer of the phosphate group to an aspartate that then acts as a phospho-donor to response regulator proteins.
    GO:0010468    regulation of gene expression    Any process that modulates the frequency, rate or extent of gene expression. Gene expression is the process in which a gene's coding sequence is converted into a mature gene product or products (proteins or RNA). This includes the production of an RNA transcript as well as any processing to produce a mature RNA product or an mRNA or circRNA (for protein-coding genes) and the translation of that mRNA or circRNA into protein. Protein maturation is included when required to form an active form of a product from an inactive precursor form.
    GO:0090352    regulation of nitrate assimilation    Any process that modulates the rate, frequency, or extent of the uptake, from the environment, of nitrates, inorganic or organic salts and esters of nitric acid and the subsequent reduction of nitrate ion to other, less highly oxidized, inorganic nitrogenous substances.
    GO:0006355    regulation of transcription, DNA-templated    Any process that modulates the frequency, rate or extent of cellular DNA-templated transcription.
    GO:0006351    transcription, DNA-templated    The cellular synthesis of RNA on a template of DNA.
cellular component
    GO:0005829    cytosol    The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.

Chain A,B   (NARL_ECOL6 | P0AF29)
molecular function
    GO:0005524    ATP binding    Interacting selectively and non-covalently with ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
    GO:0003677    DNA binding    Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
    GO:0000166    nucleotide binding    Interacting selectively and non-covalently with a nucleotide, any compound consisting of a nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the ribose or deoxyribose.
biological process
    GO:0042128    nitrate assimilation    The nitrogen metabolic process that encompasses the uptake of nitrate from the environment and reduction to ammonia, and results in the incorporation of nitrogen derived from nitrate into cellular substances.
    GO:0000160    phosphorelay signal transduction system    A conserved series of molecular signals found in prokaryotes and eukaryotes; involves autophosphorylation of a histidine kinase and the transfer of the phosphate group to an aspartate that then acts as a phospho-donor to response regulator proteins.
    GO:0006355    regulation of transcription, DNA-templated    Any process that modulates the frequency, rate or extent of cellular DNA-templated transcription.
    GO:0006351    transcription, DNA-templated    The cellular synthesis of RNA on a template of DNA.
cellular component
    GO:0005622    intracellular    The living contents of a cell; the matter contained within (but not including) the plasma membrane, usually taken to exclude large vacuoles and masses of secretory or ingested material. In eukaryotes it includes the nucleus and cytoplasm.

Chain A,B   (NARL_SHIFL | P0AF31)
molecular function
    GO:0005524    ATP binding    Interacting selectively and non-covalently with ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
    GO:0003677    DNA binding    Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
    GO:0000166    nucleotide binding    Interacting selectively and non-covalently with a nucleotide, any compound consisting of a nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the ribose or deoxyribose.
biological process
    GO:0042128    nitrate assimilation    The nitrogen metabolic process that encompasses the uptake of nitrate from the environment and reduction to ammonia, and results in the incorporation of nitrogen derived from nitrate into cellular substances.
    GO:0000160    phosphorelay signal transduction system    A conserved series of molecular signals found in prokaryotes and eukaryotes; involves autophosphorylation of a histidine kinase and the transfer of the phosphate group to an aspartate that then acts as a phospho-donor to response regulator proteins.
    GO:0006355    regulation of transcription, DNA-templated    Any process that modulates the frequency, rate or extent of cellular DNA-templated transcription.
    GO:0006351    transcription, DNA-templated    The cellular synthesis of RNA on a template of DNA.
cellular component
    GO:0005622    intracellular    The living contents of a cell; the matter contained within (but not including) the plasma membrane, usually taken to exclude large vacuoles and masses of secretory or ingested material. In eukaryotes it includes the nucleus and cytoplasm.

Chain A,B   (NARL_ECO57 | P0AF30)
molecular function
    GO:0005524    ATP binding    Interacting selectively and non-covalently with ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
    GO:0003677    DNA binding    Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
    GO:0000166    nucleotide binding    Interacting selectively and non-covalently with a nucleotide, any compound consisting of a nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the ribose or deoxyribose.
biological process
    GO:0042128    nitrate assimilation    The nitrogen metabolic process that encompasses the uptake of nitrate from the environment and reduction to ammonia, and results in the incorporation of nitrogen derived from nitrate into cellular substances.
    GO:0000160    phosphorelay signal transduction system    A conserved series of molecular signals found in prokaryotes and eukaryotes; involves autophosphorylation of a histidine kinase and the transfer of the phosphate group to an aspartate that then acts as a phospho-donor to response regulator proteins.
    GO:0006355    regulation of transcription, DNA-templated    Any process that modulates the frequency, rate or extent of cellular DNA-templated transcription.
    GO:0006351    transcription, DNA-templated    The cellular synthesis of RNA on a template of DNA.
cellular component
    GO:0005622    intracellular    The living contents of a cell; the matter contained within (but not including) the plasma membrane, usually taken to exclude large vacuoles and masses of secretory or ingested material. In eukaryotes it includes the nucleus and cytoplasm.

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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/Swiss-Prot
        NARL_ECO57 | P0AF30: 1je8 1rnl
        NARL_ECOL6 | P0AF29: 1je8 1rnl
        NARL_ECOLI | P0AF28: 1je8 1rnl 1zg1 1zg5
        NARL_SHIFL | P0AF31: 1je8 1rnl

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 1A04)