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(-) Description

Title :  CRYSTAL STRUCTURE OF CYTOCHROME C NITRITE REDUCTASE NRFHA COMPLEX BOUND TO THE HQNO INHIBITOR
 
Authors :  M. L. Rodrigues, M. Archer
Date :  24 Mar 08  (Deposition) - 03 Jun 08  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.80
Chains :  Asym./Biol. Unit :  A,B,C,D,E,F
Keywords :  Quinol Dehydrogenase, Oxidoreductase, Hqno, Nrfh, Nrfha, Membrane Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. L. Rodrigues, K. A. Scott, M. S. P. Sansom, I. A. C. Pereira, M. Archer
Quinol Oxidation By C-Type Cytochromes: Structural Characterization Of The Menaquinol Binding Site Of Nrfha.
J. Mol. Biol. V. 381 341 2008
PubMed-ID: 18597779  |  Reference-DOI: 10.1016/J.JMB.2008.05.066

(-) Compounds

Molecule 1 - CYTOCHROME C NITRITE REDUCTASE, CATALYTIC SUBUNIT NFRA
    Chains: A, B, D, E
    EC Number: 1.7.2.2
    Organism Scientific: DESULFOVIBRIO VULGARIS
    Organism Taxid: 882
    Strain: HILDENBOROUGH
    Synonym: CYTOCHROME C NITRITE REDUCTASE NRFA
 
Molecule 2 - NAPC/NIRT CYTOCHROME C FAMILY PROTEIN
    Chains: C, F
    EC Number: 1.10.2.-
    Organism Scientific: DESULFOVIBRIO VULGARIS
    Organism Taxid: 882
    Strain: HILDENBOROUGH
    Synonym: CYTOCHROME C QUINOL DEHYDROGENASE NRFH

 Structural Features

(-) Chains, Units

  123456
Asymmetric/Biological Unit : ABCDEF

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 38)

Asymmetric/Biological Unit (3, 38)
No.NameCountTypeFull Name
1CA8Ligand/IonCALCIUM ION
2HEM28Ligand/IonHEME C
3HQO2Ligand/Ion2-HEPTYL-4-HYDROXY QUINOLINE N-OXIDE

(-) Sites  (38, 38)

Asymmetric Unit (38, 38)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREARG A:116 , ALA A:118 , ILE A:131 , ARG A:133 , CYS A:147 , CYS A:150 , LYS A:151 , CYS A:232 , HIS A:233 , TYR A:236 , HIS A:298 , ASN A:429 , HEM A:1003 , HOH A:2023BINDING SITE FOR RESIDUE HEM A1001
02AC2SOFTWARETYR A:39 , PHE A:57 , GLN A:60 , TYR A:61 , TYR A:64 , GLY A:186 , CYS A:187 , CYS A:190 , HIS A:191 , MET A:196 , LEU A:198 , ARG A:221 , ARG A:225 , MET A:321 , ILE A:332 , SER A:333 , HIS A:335 , TRP A:337 , HEM A:1003 , GLU C:126 , VAL C:127BINDING SITE FOR RESIDUE HEM A1002
03AC3SOFTWAREGLY A:78 , SER A:79 , ALA A:118 , ARG A:119 , GLY A:120 , HIS A:121 , TYR A:123 , ALA A:124 , ASP A:127 , CYS A:150 , ILE A:185 , THR A:189 , VAL A:228 , CYS A:229 , CYS A:232 , HIS A:233 , HIS A:320 , TRP A:337 , THR A:338 , HEM A:1001 , HEM A:1002 , HEM A:1004 , CA A:1007BINDING SITE FOR RESIDUE HEM A1003
04AC4SOFTWARETHR A:74 , LYS A:77 , GLY A:78 , GLU A:117 , HIS A:233 , GLU A:300 , TRP A:304 , HIS A:309 , VAL A:314 , THR A:315 , CYS A:316 , CYS A:319 , HIS A:320 , SER A:339 , MET A:341 , GLN A:369 , ASN A:429 , PHE A:433 , HIS A:434 , HEM A:1003 , CA A:1007BINDING SITE FOR RESIDUE HEM A1004
05AC5SOFTWAREHIS A:309 , CYS A:319 , PRO A:340 , MET A:346 , CYS A:349 , CYS A:352 , HIS A:353 , ARG A:364 , HIS B:353 , LYS B:356 , HEM B:1005 , ASP C:138 , ARG C:141BINDING SITE FOR RESIDUE HEM A1005
06AC6SOFTWAREGLU A:235 , TYR A:236 , LYS A:295 , GLN A:297 , HOH A:2014BINDING SITE FOR RESIDUE CA A1006
07AC7SOFTWAREGLY A:78 , GLU A:117 , ALA A:118 , HEM A:1003 , HEM A:1004BINDING SITE FOR RESIDUE CA A1007
08AC8SOFTWAREARG B:116 , ALA B:118 , PHE B:128 , ILE B:131 , ARG B:133 , CYS B:147 , CYS B:150 , LYS B:151 , CYS B:232 , HIS B:233 , TYR B:236 , PHE B:238 , HIS B:298 , ASN B:429 , HEM B:1003 , HOH B:2008 , HOH B:2040 , HOH B:2041BINDING SITE FOR RESIDUE HEM B1001
09AC9SOFTWARETYR B:39 , PHE B:57 , GLN B:60 , TYR B:64 , GLY B:186 , CYS B:187 , CYS B:190 , HIS B:191 , MET B:196 , LEU B:198 , ARG B:221 , ARG B:225 , MET B:321 , TYR B:323 , SER B:333 , HIS B:335 , TRP B:337 , HEM B:1003 , ALA C:157BINDING SITE FOR RESIDUE HEM B1002
10BC1SOFTWAREGLY B:78 , SER B:79 , ALA B:118 , ARG B:119 , GLY B:120 , HIS B:121 , TYR B:123 , ALA B:124 , ASP B:127 , CYS B:150 , ILE B:185 , VAL B:228 , CYS B:229 , CYS B:232 , HIS B:233 , HIS B:320 , MET B:321 , TRP B:337 , THR B:338 , HEM B:1001 , HEM B:1002 , HEM B:1004 , CA B:1007 , HOH B:2029BINDING SITE FOR RESIDUE HEM B1003
11BC2SOFTWARETHR B:74 , LYS B:77 , GLY B:78 , GLU B:117 , ALA B:118 , HIS B:233 , GLU B:300 , TRP B:304 , HIS B:309 , VAL B:314 , THR B:315 , CYS B:316 , CYS B:319 , HIS B:320 , SER B:339 , GLN B:369 , ASN B:429 , PHE B:433 , HIS B:434 , HEM B:1003 , HEM B:1005 , CA B:1007 , HOH B:2029BINDING SITE FOR RESIDUE HEM B1004
12BC3SOFTWAREHIS A:353 , LYS A:356 , HEM A:1005 , HIS B:309 , VAL B:314 , ASP B:318 , PRO B:340 , CYS B:349 , CYS B:352 , HIS B:353 , ARG B:364 , VAL B:365 , PHE B:433 , PRO B:436 , HEM B:1004 , MET C:148BINDING SITE FOR RESIDUE HEM B1005
13BC4SOFTWAREGLU B:235 , TYR B:236 , LYS B:295 , GLN B:297 , HOH B:2016BINDING SITE FOR RESIDUE CA B1006
14BC5SOFTWAREGLY B:78 , GLU B:117 , ALA B:118 , HEM B:1003 , HEM B:1004BINDING SITE FOR RESIDUE CA B1007
15BC6SOFTWARETHR C:37 , CYS C:43 , CYS C:46 , MET C:49 , ASN C:67 , ASP C:89 , MET C:92 , ASN C:93 , ALA C:104 , GLY C:105 , THR C:108 , HEM C:1002 , HQO C:1005BINDING SITE FOR RESIDUE HEM C1001
16BC7SOFTWAREARG C:40 , CYS C:43 , MET C:49 , VAL C:52 , GLY C:53 , HIS C:56 , HIS C:61 , SER C:65 , CYS C:66 , CYS C:69 , HIS C:70 , ILE C:102 , ALA C:104 , LYS C:109 , THR C:137 , GLN C:144 , HIS C:145 , HEM C:1001BINDING SITE FOR RESIDUE HEM C1002
17BC8SOFTWAREGLY C:60 , HIS C:61 , ASP C:68 , CYS C:69 , ASN C:115 , CYS C:116 , CYS C:119 , HIS C:120 , HIS C:140 , VAL C:143 , HEM C:1004 , LYS D:329 , CYS F:119 , HIS F:120 , MET F:122 , THR F:123 , HEM F:1003BINDING SITE FOR RESIDUE HEM C1003
18BC9SOFTWARETYR A:323 , THR A:324 , ARG A:325 , LYS A:331 , ARG A:347 , GLN A:351 , CYS C:116 , HIS C:120 , ASN C:124 , SER C:129 , CYS C:136 , CYS C:139 , HIS C:140 , HEM C:1003 , ARG D:325 , LYS D:329 , HEM F:1004BINDING SITE FOR RESIDUE HEM C1004
19CC1SOFTWAREMET C:34 , PHE C:42 , ASN C:67 , LYS C:82 , ALA C:85 , GLY C:86 , ASP C:89 , HEM C:1001BINDING SITE FOR RESIDUE HQO C1005
20CC2SOFTWARETYR D:115 , ARG D:116 , ALA D:118 , PHE D:128 , ILE D:131 , ARG D:133 , CYS D:147 , CYS D:150 , LYS D:151 , CYS D:232 , HIS D:233 , TYR D:236 , HIS D:298 , ASN D:429 , HEM D:1003 , HOH D:2007 , HOH D:2019 , HOH D:2020BINDING SITE FOR RESIDUE HEM D1001
21CC3SOFTWARETYR D:39 , PHE D:57 , GLN D:60 , TYR D:61 , TYR D:64 , GLY D:186 , CYS D:187 , CYS D:190 , HIS D:191 , MET D:196 , ARG D:221 , ARG D:225 , MET D:321 , SER D:333 , HIS D:335 , TRP D:337 , HEM D:1003 , GLU F:126 , VAL F:127BINDING SITE FOR RESIDUE HEM D1002
22CC4SOFTWAREGLY D:78 , SER D:79 , ALA D:118 , ARG D:119 , GLY D:120 , HIS D:121 , TYR D:123 , ALA D:124 , ASP D:127 , CYS D:150 , LYS D:151 , ILE D:185 , THR D:189 , VAL D:228 , CYS D:229 , CYS D:232 , HIS D:233 , HIS D:320 , MET D:321 , TRP D:337 , THR D:338 , HEM D:1001 , HEM D:1002 , HEM D:1004 , CA D:1007BINDING SITE FOR RESIDUE HEM D1003
23CC5SOFTWARETHR D:74 , LYS D:77 , GLY D:78 , GLU D:117 , HIS D:233 , GLU D:300 , TRP D:304 , HIS D:309 , VAL D:314 , THR D:315 , CYS D:316 , CYS D:319 , HIS D:320 , SER D:339 , GLN D:369 , ASN D:429 , PHE D:433 , HIS D:434 , HEM D:1003 , HEM D:1005 , CA D:1007BINDING SITE FOR RESIDUE HEM D1004
24CC6SOFTWAREHIS D:309 , VAL D:314 , MET D:346 , ALA D:348 , CYS D:349 , CYS D:352 , HIS D:353 , ARG D:364 , HEM D:1004 , HIS E:353 , LYS E:356 , ARG F:141BINDING SITE FOR RESIDUE HEM D1005
25CC7SOFTWAREGLU D:235 , TYR D:236 , ASP D:283 , LYS D:295 , GLN D:297BINDING SITE FOR RESIDUE CA D1006
26CC8SOFTWAREGLY D:78 , GLU D:117 , ALA D:118 , HEM D:1003 , HEM D:1004BINDING SITE FOR RESIDUE CA D1007
27CC9SOFTWAREARG E:116 , ALA E:118 , ASP E:127 , ILE E:131 , ARG E:133 , CYS E:147 , CYS E:150 , LYS E:151 , CYS E:232 , HIS E:233 , VAL E:234 , TYR E:236 , HIS E:298 , ASN E:429 , HEM E:1003 , HOH E:2005 , HOH E:2013BINDING SITE FOR RESIDUE HEM E1001
28DC1SOFTWARETYR E:39 , GLN E:60 , TYR E:64 , GLY E:186 , CYS E:187 , CYS E:190 , HIS E:191 , MET E:196 , ARG E:221 , ARG E:225 , MET E:321 , TYR E:323 , ILE E:332 , SER E:333 , HIS E:335 , TRP E:337 , HEM E:1003 , ALA F:157BINDING SITE FOR RESIDUE HEM E1002
29DC2SOFTWAREGLY E:78 , SER E:79 , ALA E:118 , ARG E:119 , GLY E:120 , HIS E:121 , ALA E:124 , ASP E:127 , CYS E:150 , LYS E:151 , ILE E:185 , THR E:189 , VAL E:228 , CYS E:229 , CYS E:232 , HIS E:233 , HIS E:320 , MET E:321 , TRP E:337 , THR E:338 , HEM E:1001 , HEM E:1002 , HEM E:1004 , CA E:1007BINDING SITE FOR RESIDUE HEM E1003
30DC3SOFTWARETHR E:74 , LYS E:77 , GLY E:78 , GLU E:117 , GLU E:300 , TRP E:304 , HIS E:309 , VAL E:314 , THR E:315 , CYS E:316 , CYS E:319 , HIS E:320 , SER E:339 , PRO E:340 , MET E:341 , GLN E:369 , ASN E:429 , PHE E:433 , HIS E:434 , HEM E:1003 , CA E:1007 , HOH E:2009BINDING SITE FOR RESIDUE HEM E1004
31DC4SOFTWAREHIS D:353 , LYS D:356 , HIS E:309 , VAL E:314 , ASP E:318 , PRO E:340 , CYS E:349 , CYS E:352 , HIS E:353 , ARG E:364 , VAL E:365 , PRO E:436 , HOH E:2014 , MET F:148BINDING SITE FOR RESIDUE HEM E1005
32DC5SOFTWAREGLU E:235 , TYR E:236 , LYS E:295 , GLN E:297BINDING SITE FOR RESIDUE CA E1006
33DC6SOFTWAREGLY E:78 , GLU E:117 , ALA E:118 , HEM E:1003 , HEM E:1004BINDING SITE FOR RESIDUE CA E1007
34DC7SOFTWARETHR F:37 , CYS F:43 , CYS F:46 , MET F:49 , CYS F:66 , ASN F:67 , HIS F:70 , ASP F:89 , MET F:92 , LEU F:103 , ALA F:104 , GLY F:105 , THR F:108 , HEM F:1002 , HQO F:1005BINDING SITE FOR RESIDUE HEM F1001
35DC8SOFTWAREARG F:40 , CYS F:43 , MET F:49 , VAL F:52 , HIS F:56 , HIS F:61 , SER F:65 , CYS F:66 , CYS F:69 , HIS F:70 , ALA F:104 , LYS F:109 , THR F:137 , VAL F:143 , GLN F:144 , HIS F:145 , HEM F:1001BINDING SITE FOR RESIDUE HEM F1002
36DC9SOFTWARELYS A:329 , CYS C:119 , HIS C:120 , MET C:122 , THR C:123 , HEM C:1003 , GLY F:60 , HIS F:61 , ASP F:68 , CYS F:69 , VAL F:112 , ASN F:115 , CYS F:116 , CYS F:119 , HIS F:120 , HIS F:140 , HOH F:2003BINDING SITE FOR RESIDUE HEM F1003
37EC1SOFTWAREARG A:325 , LYS A:329 , HEM C:1004 , TYR D:323 , THR D:324 , ARG D:325 , LYS D:331 , ARG D:347 , GLN D:351 , HIS F:120 , ASN F:124 , SER F:129 , CYS F:136 , CYS F:139 , HIS F:140BINDING SITE FOR RESIDUE HEM F1004
38EC2SOFTWARETHR F:37 , ASN F:67 , LYS F:82 , ALA F:85 , GLY F:86 , ASP F:89 , HEM F:1001BINDING SITE FOR RESIDUE HQO F1005

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2VR0)

(-) Cis Peptide Bonds  (4, 4)

Asymmetric/Biological Unit
No.Residues
1Leu A:91 -Pro A:92
2Leu B:91 -Pro B:92
3Leu D:91 -Pro D:92
4Leu E:91 -Pro E:92

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2VR0)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2VR0)

(-) Exons   (0, 0)

(no "Exon" information available for 2VR0)

(-) Sequences/Alignments

Asymmetric/Biological Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it) 
Chain A from PDB  Type:PROTEIN  Length:495
 aligned with Q72EF3_DESVH | Q72EF3 from UniProtKB/TrEMBL  Length:524

    Alignment length:495
                                    35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       305       315       325       335       345       355       365       375       385       395       405       415       425       435       445       455       465       475       485       495       505       515     
         Q72EF3_DESVH    26 GCSDVSTELKTPVYKTKLTAEEIRNSAFKPEFPKQYASYERNDETTVMTEYKGSVPFNKNDNVNPLPEGYRHAQPYLKNLWLGYPFMYEYREARGHTYAIQDFLHIDRINRYAEKGGLPATCWNCKTPKMMEWVKESGDGFWAKDVNEFRDKIDMKDHTIGCATCHDPQTMELRITSVPLTDYLVSQGKDPKKLPRNEMRALVCGQCHVEYYFNGPTMGVNKKPVFPWAEGFDPADMYRYYDKHGDLQVKGFEGKFADWTHPASKTPMIKAQHPEYETWINGTHGAAGVTCADCHMSYTRSDDKKKISSHWWTSPMKDPEMRACRQCHSDKTPDYLKSRVLFTQKRTFDLLLAAQEVSVKAHEAVRLANEYQGAKAAGYDDLMIQAREMVRKGQFFWDYVSAENSVGFHNPAKALDTLAQSQQFSQKAIDLAMEATQYGIGKDLSGDIKTIVPPILKMNRKLQQDPEFMKTHKWFQYLPVLPKADQVWDGQKRLV 520
               SCOP domains d2vr0a_ A: automated matches                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    SCOP domains
               CATH domains -----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------2vr0A02 A:355-478 Butyryl-CoA Dehydrogenase, subunit A, domain 3                                                            ------------------------------------------ CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......................hhhhhh..hhhhhhhhhhhhh...............................hhhhhh..hhhhh......hhhhhhhhhh...............hhhhhhh..hhhhhhhhhhhhh....hhhh...........hhhhhh..........hhhhhhhhhhh.......hhhhhhhhhhhh.....ee..........ee.......hhhhhhhhhhhh..............ee......ee.....hhhhhhh...hhhhh.hhhhhhh.eeeee..eeee.....hhhhh.............hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhh.hhhhhh........hhhhh.hhhhhhhhhhhh.........ee..ee.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2vr0 A  26 GCSDVSTELKTPVYKTKLTAEEIRNSAFKPEFPKQYASYERNDETTVMTEYKGSVPFNKNDNVNPLPEGYRHAQPYLKNLWLGYPFMYEYREARGHTYAIQDFLHIDRINRYAEKGGLPATCWNCKTPKMMEWVKESGDGFWAKDVNEFRDKIDMKDHTIGCATCHDPQTMELRITSVPLTDYLVSQGKDPKKLPRNEMRALVCGQCHVEYYFNGPTMGVNKKPVFPWAEGFDPADMYRYYDKHGDLQVKGFEGKFADWTHPASKTPMIKAQHPEYETWINGTHGAAGVTCADCHMSYTRSDDKKKISSHWWTSPMKDPEMRACRQCHSDKTPDYLKSRVLFTQKRTFDLLLAAQEVSVKAHEAVRLANEYQGAKAAGYDDLMIQAREMVRKGQFFWDYVSAENSVGFHNPAKALDTLAQSQQFSQKAIDLAMEATQYGIGKDLSGDIKTIVPPILKMNRKLQQDPEFMKTHKWFQYLPVLPKADQVWDGQKRLV 520
                                    35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       305       315       325       335       345       355       365       375       385       395       405       415       425       435       445       455       465       475       485       495       505       515     


Chain B from PDB  Type:PROTEIN  Length:498
 aligned with Q72EF3_DESVH | Q72EF3 from UniProtKB/TrEMBL  Length:524

    Alignment length:498
                                    34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334       344       354       364       374       384       394       404       414       424       434       444       454       464       474       484       494       504       514        
         Q72EF3_DESVH    25 AGCSDVSTELKTPVYKTKLTAEEIRNSAFKPEFPKQYASYERNDETTVMTEYKGSVPFNKNDNVNPLPEGYRHAQPYLKNLWLGYPFMYEYREARGHTYAIQDFLHIDRINRYAEKGGLPATCWNCKTPKMMEWVKESGDGFWAKDVNEFRDKIDMKDHTIGCATCHDPQTMELRITSVPLTDYLVSQGKDPKKLPRNEMRALVCGQCHVEYYFNGPTMGVNKKPVFPWAEGFDPADMYRYYDKHGDLQVKGFEGKFADWTHPASKTPMIKAQHPEYETWINGTHGAAGVTCADCHMSYTRSDDKKKISSHWWTSPMKDPEMRACRQCHSDKTPDYLKSRVLFTQKRTFDLLLAAQEVSVKAHEAVRLANEYQGAKAAGYDDLMIQAREMVRKGQFFWDYVSAENSVGFHNPAKALDTLAQSQQFSQKAIDLAMEATQYGIGKDLSGDIKTIVPPILKMNRKLQQDPEFMKTHKWFQYLPVLPKADQVWDGQKRLVSA 522
               SCOP domains d2vr0b_ B: automated matches                                                                                                                                                                                                                                                                                                                                                                                                                                                                                       SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------2vr0B02 B:355-478 Butyryl-CoA Dehydrogenase, subunit A, domain 3                                                            -------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ........................hhhhhh..hhhhhhhhhhhhh...............................hhhhhh..hhhhh......hhhhhhhhhhhh.............hhhhhhh..hhhhhhhhhhhhh....hhhhh..........hhhhh...........hhhhhhhhhhh..hhhhhhhhhhhhhhhhh.....ee..........ee.......hhhhhhhhhhhh..............ee......ee.....hhhhhhh...hhhhh.hhhhhhh.ee.......ee.....hhhhh....hhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhh..hhhhhh........hhhhh.hhhhhhhhhhhh.........ee..ee.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 2vr0 B  25 AGCSDVSTELKTPVYKTKLTAEEIRNSAFKPEFPKQYASYERNDETTVMTEYKGSVPFNKNDNVNPLPEGYRHAQPYLKNLWLGYPFMYEYREARGHTYAIQDFLHIDRINRYAEKGGLPATCWNCKTPKMMEWVKESGDGFWAKDVNEFRDKIDMKDHTIGCATCHDPQTMELRITSVPLTDYLVSQGKDPKKLPRNEMRALVCGQCHVEYYFNGPTMGVNKKPVFPWAEGFDPADMYRYYDKHGDLQVKGFEGKFADWTHPASKTPMIKAQHPEYETWINGTHGAAGVTCADCHMSYTRSDDKKKISSHWWTSPMKDPEMRACRQCHSDKTPDYLKSRVLFTQKRTFDLLLAAQEVSVKAHEAVRLANEYQGAKAAGYDDLMIQAREMVRKGQFFWDYVSAENSVGFHNPAKALDTLAQSQQFSQKAIDLAMEATQYGIGKDLSGDIKTIVPPILKMNRKLQQDPEFMKTHKWFQYLPVLPKADQVWDGQKRLVSA 522
                                    34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334       344       354       364       374       384       394       404       414       424       434       444       454       464       474       484       494       504       514        


Chain C from PDB  Type:PROTEIN  Length:144
 aligned with Q72EF4_DESVH | Q72EF4 from UniProtKB/TrEMBL  Length:159

    Alignment length:144
                                    24        34        44        54        64        74        84        94       104       114       124       134       144       154    
         Q72EF4_DESVH    15 LVLGGATLGVVALATVAFGMKYTDQRPFCTSCHIMNPVGVTHKLSGHANISCNDCHAPHNLLAKLPFKAIAGARDVYMNTLGHPGDLILAGMETKEVVNANCKACHTMTNVEVASMEAKKYCTDCHRNVQHMRMKPISTREVAD 158
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains 2vr0C00 C:15-158 Di-heme elbow motif domain                                                                                                      CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhh......hhhhhh..hhhhhhhhhhhhhhhhhhhhh..........hhhhhhhhhhhhhhhhhhhhh..hhhhhh.hhhhhhhhhh.....hhhhh.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 2vr0 C  15 LVLGGATLGVVALATVAFGMKYTDQRPFCTSCHIMNPVGVTHKLSGHANISCNDCHAPHNLLAKLPFKAIAGARDVYMNTLGHPGDLILAGMETKEVVNANCKACHTMTNVEVASMEAKKYCTDCHRNVQHMRMKPISTREVAD 158
                                    24        34        44        54        64        74        84        94       104       114       124       134       144       154    


Chain D from PDB  Type:PROTEIN  Length:494
 aligned with Q72EF3_DESVH | Q72EF3 from UniProtKB/TrEMBL  Length:524

    Alignment length:494
                                    35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       305       315       325       335       345       355       365       375       385       395       405       415       425       435       445       455       465       475       485       495       505       515    
         Q72EF3_DESVH    26 GCSDVSTELKTPVYKTKLTAEEIRNSAFKPEFPKQYASYERNDETTVMTEYKGSVPFNKNDNVNPLPEGYRHAQPYLKNLWLGYPFMYEYREARGHTYAIQDFLHIDRINRYAEKGGLPATCWNCKTPKMMEWVKESGDGFWAKDVNEFRDKIDMKDHTIGCATCHDPQTMELRITSVPLTDYLVSQGKDPKKLPRNEMRALVCGQCHVEYYFNGPTMGVNKKPVFPWAEGFDPADMYRYYDKHGDLQVKGFEGKFADWTHPASKTPMIKAQHPEYETWINGTHGAAGVTCADCHMSYTRSDDKKKISSHWWTSPMKDPEMRACRQCHSDKTPDYLKSRVLFTQKRTFDLLLAAQEVSVKAHEAVRLANEYQGAKAAGYDDLMIQAREMVRKGQFFWDYVSAENSVGFHNPAKALDTLAQSQQFSQKAIDLAMEATQYGIGKDLSGDIKTIVPPILKMNRKLQQDPEFMKTHKWFQYLPVLPKADQVWDGQKRL 519
               SCOP domains d2vr0d_ D: automated matches                                                                                                                                                                                                                                                                                                                                                                                                                                                                                   SCOP domains
               CATH domains -----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------2vr0D02 D:355-478 Butyryl-CoA Dehydrogenase, subunit A, domain 3                                                            ----------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......................hhhhh...hhhhhhhhhhhhh...............................hhhhhh..hhhhh......hhhhhhhhhh...............hhhhh....hhhhhhhhhhhhh....hhhh...........hhhhh...........hhhhhhhhhhh.......hhhhhhhhhhhh.....ee..........ee.......hhhhhhhhhhhh..............ee......ee.....hhhhhhh...hhhhh.hhhhhhh.eeeee..eeee.....hhhhh.............hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhh.hhhhhh........hhhhh.hhhhhhhhhhhh.........ee..ee. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2vr0 D  26 GCSDVSTELKTPVYKTKLTAEEIRNSAFKPEFPKQYASYERNDETTVMTEYKGSVPFNKNDNVNPLPEGYRHAQPYLKNLWLGYPFMYEYREARGHTYAIQDFLHIDRINRYAEKGGLPATCWNCKTPKMMEWVKESGDGFWAKDVNEFRDKIDMKDHTIGCATCHDPQTMELRITSVPLTDYLVSQGKDPKKLPRNEMRALVCGQCHVEYYFNGPTMGVNKKPVFPWAEGFDPADMYRYYDKHGDLQVKGFEGKFADWTHPASKTPMIKAQHPEYETWINGTHGAAGVTCADCHMSYTRSDDKKKISSHWWTSPMKDPEMRACRQCHSDKTPDYLKSRVLFTQKRTFDLLLAAQEVSVKAHEAVRLANEYQGAKAAGYDDLMIQAREMVRKGQFFWDYVSAENSVGFHNPAKALDTLAQSQQFSQKAIDLAMEATQYGIGKDLSGDIKTIVPPILKMNRKLQQDPEFMKTHKWFQYLPVLPKADQVWDGQKRL 519
                                    35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       305       315       325       335       345       355       365       375       385       395       405       415       425       435       445       455       465       475       485       495       505       515    


Chain E from PDB  Type:PROTEIN  Length:495
 aligned with Q72EF3_DESVH | Q72EF3 from UniProtKB/TrEMBL  Length:524

    Alignment length:495
                                    34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334       344       354       364       374       384       394       404       414       424       434       444       454       464       474       484       494       504       514     
         Q72EF3_DESVH    25 AGCSDVSTELKTPVYKTKLTAEEIRNSAFKPEFPKQYASYERNDETTVMTEYKGSVPFNKNDNVNPLPEGYRHAQPYLKNLWLGYPFMYEYREARGHTYAIQDFLHIDRINRYAEKGGLPATCWNCKTPKMMEWVKESGDGFWAKDVNEFRDKIDMKDHTIGCATCHDPQTMELRITSVPLTDYLVSQGKDPKKLPRNEMRALVCGQCHVEYYFNGPTMGVNKKPVFPWAEGFDPADMYRYYDKHGDLQVKGFEGKFADWTHPASKTPMIKAQHPEYETWINGTHGAAGVTCADCHMSYTRSDDKKKISSHWWTSPMKDPEMRACRQCHSDKTPDYLKSRVLFTQKRTFDLLLAAQEVSVKAHEAVRLANEYQGAKAAGYDDLMIQAREMVRKGQFFWDYVSAENSVGFHNPAKALDTLAQSQQFSQKAIDLAMEATQYGIGKDLSGDIKTIVPPILKMNRKLQQDPEFMKTHKWFQYLPVLPKADQVWDGQKRL 519
               SCOP domains d2vr0e_ E: automated matches                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------2vr0E02 E:355-478 Butyryl-CoA Dehydrogenase, subunit A, domain 3                                                            ----------------------------------------- CATH domains
           Pfam domains (1) -------------------------Cytochrom_C552-2vr0E01 E:50-514                                                                                                                                                                                                                                                                                                                                                                                                                                                  ----- Pfam domains (1)
           Pfam domains (2) -------------------------Cytochrom_C552-2vr0E02 E:50-514                                                                                                                                                                                                                                                                                                                                                                                                                                                  ----- Pfam domains (2)
           Pfam domains (3) -------------------------Cytochrom_C552-2vr0E03 E:50-514                                                                                                                                                                                                                                                                                                                                                                                                                                                  ----- Pfam domains (3)
           Pfam domains (4) -------------------------Cytochrom_C552-2vr0E04 E:50-514                                                                                                                                                                                                                                                                                                                                                                                                                                                  ----- Pfam domains (4)
         Sec.struct. author ........................hhhhhhhhhhhhhhhhhhhhh...............................hhhhhh..hhhhh......hhhhhhhhhh...............hhhhhhh..hhhhhhhhhhhhh....hhhhh..........hhhhh...........hhhhhhhhhhh..hhhhhhhhhhhhhhhhh.....ee..........ee.......hhhhhhhhhhhh..............ee......ee.....hhhhhhh...hhhhh.hhhhhhh.ee.......ee.....hhhhh....hhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhh..hhhhhh........hhhhh.hhhhhhhhhhhh.........ee..ee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2vr0 E  25 AGCSDVSTELKTPVYKTKLTAEEIRNSAFKPEFPKQYASYERNDETTVMTEYKGSVPFNKNDNVNPLPEGYRHAQPYLKNLWLGYPFMYEYREARGHTYAIQDFLHIDRINRYAEKGGLPATCWNCKTPKMMEWVKESGDGFWAKDVNEFRDKIDMKDHTIGCATCHDPQTMELRITSVPLTDYLVSQGKDPKKLPRNEMRALVCGQCHVEYYFNGPTMGVNKKPVFPWAEGFDPADMYRYYDKHGDLQVKGFEGKFADWTHPASKTPMIKAQHPEYETWINGTHGAAGVTCADCHMSYTRSDDKKKISSHWWTSPMKDPEMRACRQCHSDKTPDYLKSRVLFTQKRTFDLLLAAQEVSVKAHEAVRLANEYQGAKAAGYDDLMIQAREMVRKGQFFWDYVSAENSVGFHNPAKALDTLAQSQQFSQKAIDLAMEATQYGIGKDLSGDIKTIVPPILKMNRKLQQDPEFMKTHKWFQYLPVLPKADQVWDGQKRL 519
                                    34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334       344       354       364       374       384       394       404       414       424       434       444       454       464       474       484       494       504       514     


Chain F from PDB  Type:PROTEIN  Length:146
 aligned with Q72EF4_DESVH | Q72EF4 from UniProtKB/TrEMBL  Length:159

    Alignment length:146
                                    23        33        43        53        63        73        83        93       103       113       123       133       143       153      
         Q72EF4_DESVH    14 KLVLGGATLGVVALATVAFGMKYTDQRPFCTSCHIMNPVGVTHKLSGHANISCNDCHAPHNLLAKLPFKAIAGARDVYMNTLGHPGDLILAGMETKEVVNANCKACHTMTNVEVASMEAKKYCTDCHRNVQHMRMKPISTREVADE 159
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains 2vr0F00 F:14-159 Di-heme elbow motif domain                                                                                                        CATH domains
           Pfam domains (1) Cytochrom_NNT-2vr0F01 F:14-150                                                                                                           --------- Pfam domains (1)
           Pfam domains (2) Cytochrom_NNT-2vr0F02 F:14-150                                                                                                           --------- Pfam domains (2)
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhh......hhhhhh..hhhhhhhhhhhhhhhhhhhhh..........hhhhhhhhhhhhhhhh.......hhhhhh.hhhhhhhhhh.....hhhhh..... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2vr0 F  14 KLVLGGATLGVVALATVAFGMKYTDQRPFCTSCHIMNPVGVTHKLSGHANISCNDCHAPHNLLAKLPFKAIAGARDVYMNTLGHPGDLILAGMETKEVVNANCKACHTMTNVEVASMEAKKYCTDCHRNVQHMRMKPISTREVADE 159
                                    23        33        43        53        63        73        83        93       103       113       123       133       143       153
   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/Biological Unit
(-)
Class: All alpha proteins (14657)

(-) CATH Domains  (2, 6)

Asymmetric/Biological Unit
(-)
Class: Mainly Alpha (13335)

(-) Pfam Domains  (2, 6)

Asymmetric/Biological Unit
(-)
Clan: Multiheme_cytos (34)

(-) Gene Ontology  (10, 12)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B,D,E   (Q72EF3_DESVH | Q72EF3)
molecular function
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0042279    nitrite reductase (cytochrome, ammonia-forming) activity    Catalysis of the reaction: NH3 + 2 H2O + 6 ferricytochrome c = nitrite + 6 ferrocytochrome c + 7 H+.
    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: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:0006807    nitrogen compound metabolic process    The chemical reactions and pathways involving organic or inorganic compounds that contain nitrogen.
    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.
cellular component
    GO:0042597    periplasmic space    The region between the inner (cytoplasmic) and outer membrane (Gram-negative Bacteria) or cytoplasmic membrane and cell wall (Fungi and Gram-positive Bacteria).

Chain C,F   (Q72EF4_DESVH | Q72EF4)
molecular function
    GO:0020037    heme binding    Interacting selectively and non-covalently with heme, any compound of iron complexed in a porphyrin (tetrapyrrole) ring.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
biological process
    GO:0019333    denitrification pathway    The reduction of nitrate to dinitrogen by four reactions; each intermediate is transformed to the next lower oxidation state; also part of cellular bioenergetics; the nitrogen compounds can serve as terminal acceptors for electron transport phosphorylation in place of oxygen.
    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.
cellular component
    GO:0016021    integral component of membrane    The component of a membrane consisting of the gene products and protein complexes having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.

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 Related Entries

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

UniProtKB/TrEMBL
        Q72EF3_DESVH | Q72EF3: 2j7a
        Q72EF4_DESVH | Q72EF4: 2j7a

(-) Related Entries Specified in the PDB File

2j7a CRYSTAL STRUCTURE OF CYTOCHROME C NITRITE REDUCTASE NRFHA COMPLEX FROM DESULFOVIBRIO VULGARIS