Show PDB file:   
         Plain Text   HTML   (compressed file size)
QuickSearch:   
by PDB,NDB,UniProt,PROSITE Code or Search Term(s)  
(-)Asymmetric Unit
(-)Asym. Unit - sites
(-)Biological Unit 1
(-)Biol. Unit 1 - sites
(-)Biological Unit 2
collapse expand < >
Image Asymmetric Unit
Asymmetric Unit  (Jmol Viewer)
Image Asym. Unit - sites
Asym. Unit - sites  (Jmol Viewer)
Image Biological Unit 1
Biological Unit 1  (Jmol Viewer)
Image Biol. Unit 1 - sites
Biol. Unit 1 - sites  (Jmol Viewer)
Image Biological Unit 2
Biological Unit 2  (Jmol Viewer)

(-) Description

Title :  CYTOCHROME C NITRITE REDUCTASE
 
Authors :  O. Einsle, A. Messerschmidt, P. Stach, R. Huber, P. M. H. Kroneck
Date :  19 May 99  (Deposition) - 18 Aug 99  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.90
Chains :  Asym. Unit :  A,B,C
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  C  (2x)
Keywords :  C-Type Cytochrome Lysine-Coordinated Heme Nitrite Reductase, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  O. Einsle, A. Messerschmidt, P. Stach, G. P. Bourenkov, H. D. Bartunik, R. Huber, P. M. Kroneck
Structure Of Cytochrome C Nitrite Reductase.
Nature V. 400 476 1999
PubMed-ID: 10440380  |  Reference-DOI: 10.1038/22802
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - CYTOCHROME C NITRITE REDUCTASE
    Cellular Location: PERIPLASM
    Chains: A, B, C
    Organism Scientific: SULFUROSPIRILLUM DELEYIANUM
    Organism Taxid: 65553

 Structural Features

(-) Chains, Units

  123
Asymmetric Unit : ABC
Biological Unit 1 (1x): AB 
Biological Unit 2 (2x):   C

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 27)

Asymmetric Unit (3, 27)
No.NameCountTypeFull Name
1CA3Ligand/IonCALCIUM ION
2HEM15Ligand/IonPROTOPORPHYRIN IX CONTAINING FE
3SO49Ligand/IonSULFATE ION
Biological Unit 1 (2, 16)
No.NameCountTypeFull Name
1CA-1Ligand/IonCALCIUM ION
2HEM10Ligand/IonPROTOPORPHYRIN IX CONTAINING FE
3SO46Ligand/IonSULFATE ION
Biological Unit 2 (2, 16)
No.NameCountTypeFull Name
1CA-1Ligand/IonCALCIUM ION
2HEM10Ligand/IonPROTOPORPHYRIN IX CONTAINING FE
3SO46Ligand/IonSULFATE ION

(-) Sites  (27, 27)

Asymmetric Unit (27, 27)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREGLU A:216 , TYR A:217 , LYS A:279 , GLN A:281 , HOH A:1534 , HOH A:1564BINDING SITE FOR RESIDUE CA A 520
02AC2SOFTWAREGLU B:216 , TYR B:217 , LYS B:279 , GLN B:281 , HOH B:1535 , HOH B:1610BINDING SITE FOR RESIDUE CA B 520
03AC3SOFTWAREGLU C:216 , TYR C:217 , LYS C:279 , GLN C:281 , HOH C:1543 , HOH C:1546BINDING SITE FOR RESIDUE CA C 520
04AC4SOFTWAREPHE A:91 , ARG A:113 , TYR A:217 , GLN A:281 , HIS A:282 , HEM A:515 , HOH A:1607 , HOH A:1762BINDING SITE FOR RESIDUE SO4 A 1501
05AC5SOFTWAREPHE B:91 , ARG B:113 , TYR B:217 , GLN B:281 , HIS B:282 , HEM B:515 , HOH B:1534 , HOH B:1672BINDING SITE FOR RESIDUE SO4 B 1502
06AC6SOFTWAREPHE C:91 , ARG C:113 , TYR C:217 , GLN C:281 , HIS C:282 , HEM C:515 , HOH C:1599 , HOH C:1647 , HOH C:2025 , HOH C:2112BINDING SITE FOR RESIDUE SO4 C 1503
07AC7SOFTWARELYS A:367 , ARG A:431 , HOH A:1551 , HOH A:1579 , HOH A:1616 , HOH A:1790 , LYS B:429 , HOH B:1584BINDING SITE FOR RESIDUE SO4 A 1504
08AC8SOFTWARELYS A:429 , HOH A:1570 , LYS B:367 , ARG B:431 , HOH B:1595 , HOH B:1600 , HOH B:1609 , HOH B:1618 , HOH B:1752BINDING SITE FOR RESIDUE SO4 B 1505
09AC9SOFTWAREASN A:250 , ARG A:418 , HOH A:1527 , HOH A:1724BINDING SITE FOR RESIDUE SO4 A 1506
10BC1SOFTWAREASN B:250 , ARG B:418 , HOH B:1539 , HOH B:1716BINDING SITE FOR RESIDUE SO4 B 1507
11BC2SOFTWAREASN C:250 , ARG C:418 , HOH C:1766BINDING SITE FOR RESIDUE SO4 C 1508
12BC3SOFTWARELYS C:367 , LYS C:429 , ARG C:431 , HOH C:1607 , HOH C:1610 , HOH C:1713 , HOH C:1747BINDING SITE FOR RESIDUE SO4 C 1509
13BC4SOFTWARETYR A:95 , ASN A:96 , PRO A:98 , ASP A:107 , ASN A:108 , SER A:111 , ARG A:113 , THR A:114 , LEU A:125 , CYS A:129 , CYS A:132 , LYS A:133 , CYS A:213 , HIS A:214 , TYR A:217 , PHE A:219 , HIS A:282 , ALA A:404 , HIS A:406 , HEM A:517 , SO4 A:1501 , HOH A:1544 , HOH A:1545 , HOH A:1589 , HOH A:1596 , HOH A:1607 , HOH A:1649BINDING SITE FOR RESIDUE HEM A 515
14BC5SOFTWARETYR A:56 , GLN A:59 , PHE A:60 , TRP A:63 , GLY A:166 , CYS A:167 , CYS A:170 , HIS A:171 , LEU A:178 , HIS A:202 , ARG A:206 , MET A:305 , TYR A:307 , TYR A:315 , SER A:316 , HIS A:318 , HOH A:1637 , HOH A:1841BINDING SITE FOR RESIDUE HEM A 516
15BC6SOFTWARETYR A:69 , ARG A:99 , GLY A:100 , HIS A:101 , TYR A:103 , ALA A:104 , ASP A:107 , CYS A:132 , LYS A:133 , ILE A:165 , VAL A:209 , CYS A:210 , GLN A:212 , CYS A:213 , HIS A:214 , HIS A:304 , VAL A:320 , LYS A:321 , GLU A:322 , HEM A:515 , HEM A:518 , HOH A:1568BINDING SITE FOR RESIDUE HEM A 517
16BC7SOFTWAREPRO A:98 , HIS A:214 , TRP A:288 , HIS A:293 , VAL A:298 , SER A:299 , CYS A:300 , CYS A:303 , HIS A:304 , GLU A:322 , ASN A:323 , HIS A:406 , TYR A:409 , PHE A:410 , HIS A:411 , HEM A:517 , HEM A:519 , HOH A:1608 , HOH A:1781BINDING SITE FOR RESIDUE HEM A 518
17BC8SOFTWAREILE A:292 , HIS A:293 , SER A:331 , CYS A:332 , CYS A:335 , HIS A:336 , LEU A:343 , LYS A:350 , PHE A:410 , HEM A:518 , HOH A:1533 , HOH A:1634 , HIS B:336 , GLY C:311BINDING SITE FOR RESIDUE HEM A 519
18BC9SOFTWARETYR B:95 , ASN B:96 , PRO B:98 , ASP B:107 , ASN B:108 , SER B:111 , ARG B:113 , THR B:114 , LEU B:125 , CYS B:129 , CYS B:132 , LYS B:133 , CYS B:213 , HIS B:214 , TYR B:217 , HIS B:282 , ALA B:404 , HIS B:406 , HEM B:517 , SO4 B:1502 , HOH B:1519 , HOH B:1530 , HOH B:1534 , HOH B:1542 , HOH B:1561 , HOH B:1576BINDING SITE FOR RESIDUE HEM B 515
19CC1SOFTWARETYR B:56 , GLN B:59 , TRP B:63 , GLY B:166 , CYS B:167 , CYS B:170 , HIS B:171 , LEU B:178 , HIS B:202 , ARG B:206 , MET B:305 , TYR B:307 , TYR B:315 , SER B:316 , HIS B:318 , HOH B:1684 , HOH B:1700 , HOH B:1807BINDING SITE FOR RESIDUE HEM B 516
20CC2SOFTWAREPRO B:98 , ARG B:99 , GLY B:100 , HIS B:101 , TYR B:103 , ALA B:104 , ASP B:107 , CYS B:132 , LYS B:133 , ILE B:165 , VAL B:209 , CYS B:210 , GLN B:212 , CYS B:213 , HIS B:214 , CYS B:300 , HIS B:304 , MET B:305 , VAL B:320 , LYS B:321 , GLU B:322 , HEM B:515 , HEM B:518 , HOH B:1553BINDING SITE FOR RESIDUE HEM B 517
21CC3SOFTWAREPRO B:98 , HIS B:214 , TRP B:288 , HIS B:293 , VAL B:298 , SER B:299 , CYS B:300 , CYS B:303 , HIS B:304 , GLU B:322 , ASN B:323 , HIS B:406 , TYR B:409 , PHE B:410 , HIS B:411 , HEM B:517 , HOH B:1562 , HOH B:1825 , HOH B:1829BINDING SITE FOR RESIDUE HEM B 518
22CC4SOFTWAREHIS A:336 , ILE B:292 , HIS B:293 , LYS B:296 , SER B:331 , CYS B:332 , CYS B:335 , HIS B:336 , LYS B:350 , HOH B:1526 , HOH B:1598 , HOH B:1773BINDING SITE FOR RESIDUE HEM B 519
23CC5SOFTWARETYR C:95 , ASN C:96 , PRO C:98 , ASP C:107 , ASN C:108 , SER C:111 , ARG C:113 , THR C:114 , LEU C:125 , CYS C:129 , CYS C:132 , LYS C:133 , CYS C:213 , HIS C:214 , TYR C:217 , HIS C:282 , ALA C:404 , HIS C:406 , HEM C:517 , SO4 C:1503 , HOH C:1554 , HOH C:1579 , HOH C:1591 , HOH C:1602 , HOH C:1628 , HOH C:1647BINDING SITE FOR RESIDUE HEM C 515
24CC6SOFTWARETYR C:56 , GLN C:59 , TRP C:63 , GLY C:166 , CYS C:167 , CYS C:170 , HIS C:171 , LEU C:178 , HIS C:202 , ARG C:206 , MET C:305 , TYR C:307 , TYR C:315 , SER C:316 , HIS C:318 , HEM C:517 , HOH C:1715 , HOH C:1846 , HOH C:2016BINDING SITE FOR RESIDUE HEM C 516
25CC7SOFTWARETYR C:69 , PRO C:98 , ARG C:99 , GLY C:100 , HIS C:101 , TYR C:103 , ALA C:104 , ASP C:107 , CYS C:132 , LYS C:133 , ILE C:165 , VAL C:209 , CYS C:210 , GLN C:212 , CYS C:213 , HIS C:214 , CYS C:300 , HIS C:304 , MET C:305 , VAL C:320 , LYS C:321 , GLU C:322 , HEM C:515 , HEM C:516 , HEM C:518 , HOH C:1575BINDING SITE FOR RESIDUE HEM C 517
26CC8SOFTWAREPRO C:98 , HIS C:214 , TRP C:288 , HIS C:293 , VAL C:298 , SER C:299 , CYS C:300 , CYS C:303 , HIS C:304 , GLU C:322 , ASN C:323 , PRO C:324 , HIS C:406 , TYR C:409 , PHE C:410 , HIS C:411 , HEM C:517 , HEM C:519 , HOH C:1673BINDING SITE FOR RESIDUE HEM C 518
27CC9SOFTWAREGLY B:311 , ILE C:292 , HIS C:293 , LYS C:296 , SER C:331 , CYS C:332 , CYS C:335 , HIS C:336 , LYS C:350 , PHE C:410 , HEM C:518 , HOH C:1511 , HOH C:1571 , HOH C:1923BINDING SITE FOR RESIDUE HEM C 519

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (1, 3)

Asymmetric Unit (1, 3)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1MULTIHEME_CYTCPS51008 Multiheme cytochrome c family profile.NRFA_SULDE162-341
 
 		  3A:162-341
B:162-341
C:162-341
Biological Unit 1 (1, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1MULTIHEME_CYTCPS51008 Multiheme cytochrome c family profile.NRFA_SULDE162-341
 
 		  2A:162-341
B:162-341
-
Biological Unit 2 (1, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1MULTIHEME_CYTCPS51008 Multiheme cytochrome c family profile.NRFA_SULDE162-341
 
 		  2-
-
C:162-341

(-) Exons   (0, 0)

(no "Exon" information available for 1QDB)

(-) 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:473
 aligned with NRFA_SULDE | Q9Z4P4 from UniProtKB/Swiss-Prot  Length:514

    Alignment length:473
                                    51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411       421       431       441       451       461       471       481       491       501       511   
           NRFA_SULDE    42 GIAGKEKSEEWAKYYPRQFDSWKKTKEYDSFTDMLAKDPALVIAWSGYAFSKDYNSPRGHYYALQDNVNSLRTGAPVDAKTGPLPTACWTCKSPDVPRLIEEDGELEYFTGKWAKYGSQIVNVIGCANCHDDKTAELKVRVPHLNRGLQAAGLKTFEESTHQDKRTLVCAQCHVEYYFKKTEWKDAKGADKTAMVVTLPWANGVGKDGNAGVEGMIKYYDEINFSDWTHNISKTPMLKAQHPGFEFWKSGIHGQKGVSCADCHMPYTQEGSVKYSDHQVKENPLDSMDQSCMNCHRESESKLRGIVHQKYERKEFLNKVAFDNIGKAHLETGKAIEAGASDEELKEVRKLIRHGQFKADMAIAAHGNYFHAPEETLRLLAAGSDDAQKARLLLVKILAKHGVMDYIAPDFDTKDKAQKLAKVDIAALAAEKMKFKQTLEQEWKKEAKAKGRANPELYKDVDTINDGKSSWNKK 514
               SCOP domains d1qdba_ A: Cytochrome c nitrite reductase                                                                                                                                                                                                                                                                                                                                                                                                                                                 SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......hhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhh..hhhhh......hhhhhhhhhhhhhhhh...........hhhhh...hhhhhhhhhhhhhhhh...hhhhh.......hhhhhh...........hhhhhhhhhh...hhhhhhhhhhhhhhhhh.....eeeeeeee.....eeeeeeee.............hhhhhhhhhhhh....ee......ee.....hhhhhhhhhhhhhh..hhhhhhh.eeee..eeee......hhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...........hhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhh............ Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------MULTIHEME_CYTC  PDB: A:162-341 UniProt: 162-341                                                                                                                                     ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1qdb A  42 GIAGKEKSEEWAKYYPRQFDSWKKTKEYDSFTDMLAKDPALVIAWSGYAFSKDYNSPRGHYYALQDNVNSLRTGAPVDAKTGPLPTACWTCKSPDVPRLIEEDGELEYFTGKWAKYGSQIVNVIGCANCHDDKTAELKVRVPHLNRGLQAAGLKTFEESTHQDKRTLVCAQCHVEYYFKKTEWKDAKGADKTAMVVTLPWANGVGKDGNAGVEGMIKYYDEINFSDWTHNISKTPMLKAQHPGFEFWKSGIHGQKGVSCADCHMPYTQEGSVKYSDHQVKENPLDSMDQSCMNCHRESESKLRGIVHQKYERKEFLNKVAFDNIGKAHLETGKAIEAGASDEELKEVRKLIRHGQFKADMAIAAHGNYFHAPEETLRLLAAGSDDAQKARLLLVKILAKHGVMDYIAPDFDTKDKAQKLAKVDIAALAAEKMKFKQTLEQEWKKEAKAKGRANPELYKDVDTINDGKSSWNKK 514
                                    51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411       421       431       441       451       461       471       481       491       501       511   


Chain B from PDB  Type:PROTEIN  Length:473
 aligned with NRFA_SULDE | Q9Z4P4 from UniProtKB/Swiss-Prot  Length:514

    Alignment length:473
                                    51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411       421       431       441       451       461       471       481       491       501       511   
           NRFA_SULDE    42 GIAGKEKSEEWAKYYPRQFDSWKKTKEYDSFTDMLAKDPALVIAWSGYAFSKDYNSPRGHYYALQDNVNSLRTGAPVDAKTGPLPTACWTCKSPDVPRLIEEDGELEYFTGKWAKYGSQIVNVIGCANCHDDKTAELKVRVPHLNRGLQAAGLKTFEESTHQDKRTLVCAQCHVEYYFKKTEWKDAKGADKTAMVVTLPWANGVGKDGNAGVEGMIKYYDEINFSDWTHNISKTPMLKAQHPGFEFWKSGIHGQKGVSCADCHMPYTQEGSVKYSDHQVKENPLDSMDQSCMNCHRESESKLRGIVHQKYERKEFLNKVAFDNIGKAHLETGKAIEAGASDEELKEVRKLIRHGQFKADMAIAAHGNYFHAPEETLRLLAAGSDDAQKARLLLVKILAKHGVMDYIAPDFDTKDKAQKLAKVDIAALAAEKMKFKQTLEQEWKKEAKAKGRANPELYKDVDTINDGKSSWNKK 514
               SCOP domains d1qdbb_ B: Cytochrome c nitrite reductase                                                                                                                                                                                                                                                                                                                                                                                                                                                 SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......hhhhh...hhhhhhhhhhhhhh....hhhhhhhhhhhhh..hhhhh......hhhhhhhhhhhhhhhh...........hhhhh...hhhhhhhhhhhhhhhh...hhhhh.......hhhhhh...........hhhhhhhhhh...hhhhhhhhhhhhhhhhh.....eeeeeeee.....eeeeeeee.............hhhhhhhhhhhh....ee......ee.....hhhhhhhhhhhhhh..hhhhhhh.eeee..eeee......hhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...........hhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhh............... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------MULTIHEME_CYTC  PDB: B:162-341 UniProt: 162-341                                                                                                                                     ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1qdb B  42 GIAGKEKSEEWAKYYPRQFDSWKKTKEYDSFTDMLAKDPALVIAWSGYAFSKDYNSPRGHYYALQDNVNSLRTGAPVDAKTGPLPTACWTCKSPDVPRLIEEDGELEYFTGKWAKYGSQIVNVIGCANCHDDKTAELKVRVPHLNRGLQAAGLKTFEESTHQDKRTLVCAQCHVEYYFKKTEWKDAKGADKTAMVVTLPWANGVGKDGNAGVEGMIKYYDEINFSDWTHNISKTPMLKAQHPGFEFWKSGIHGQKGVSCADCHMPYTQEGSVKYSDHQVKENPLDSMDQSCMNCHRESESKLRGIVHQKYERKEFLNKVAFDNIGKAHLETGKAIEAGASDEELKEVRKLIRHGQFKADMAIAAHGNYFHAPEETLRLLAAGSDDAQKARLLLVKILAKHGVMDYIAPDFDTKDKAQKLAKVDIAALAAEKMKFKQTLEQEWKKEAKAKGRANPELYKDVDTINDGKSSWNKK 514
                                    51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411       421       431       441       451       461       471       481       491       501       511   


Chain C from PDB  Type:PROTEIN  Length:473
 aligned with NRFA_SULDE | Q9Z4P4 from UniProtKB/Swiss-Prot  Length:514

    Alignment length:473
                                    51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411       421       431       441       451       461       471       481       491       501       511   
           NRFA_SULDE    42 GIAGKEKSEEWAKYYPRQFDSWKKTKEYDSFTDMLAKDPALVIAWSGYAFSKDYNSPRGHYYALQDNVNSLRTGAPVDAKTGPLPTACWTCKSPDVPRLIEEDGELEYFTGKWAKYGSQIVNVIGCANCHDDKTAELKVRVPHLNRGLQAAGLKTFEESTHQDKRTLVCAQCHVEYYFKKTEWKDAKGADKTAMVVTLPWANGVGKDGNAGVEGMIKYYDEINFSDWTHNISKTPMLKAQHPGFEFWKSGIHGQKGVSCADCHMPYTQEGSVKYSDHQVKENPLDSMDQSCMNCHRESESKLRGIVHQKYERKEFLNKVAFDNIGKAHLETGKAIEAGASDEELKEVRKLIRHGQFKADMAIAAHGNYFHAPEETLRLLAAGSDDAQKARLLLVKILAKHGVMDYIAPDFDTKDKAQKLAKVDIAALAAEKMKFKQTLEQEWKKEAKAKGRANPELYKDVDTINDGKSSWNKK 514
               SCOP domains d1qdbc_ C: Cytochrome c nitrite reductase                                                                                                                                                                                                                                                                                                                                                                                                                                                 SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) ------Cytochrom_C552-1qdbC01 C:48-497                                                                                                                                                                                                                                                                                                                                                                                                                                   ----------------- Pfam domains (1)
           Pfam domains (2) ------Cytochrom_C552-1qdbC02 C:48-497                                                                                                                                                                                                                                                                                                                                                                                                                                   ----------------- Pfam domains (2)
           Pfam domains (3) ------Cytochrom_C552-1qdbC03 C:48-497                                                                                                                                                                                                                                                                                                                                                                                                                                   ----------------- Pfam domains (3)
         Sec.struct. author ......hhhhhh..hhhhhhhhhhhhhh....hhhhhhhhhhhhh..hhhhh......hhhhhhhhhhhhhhhh...........hhhhh...hhhhhhhhhhhhhhhh...hhhhh.......hhhhh............hhhhhhhhhh........hhhhhhhhhhhh.....eeeeeeee.....eeeeeeee.............hhhhhhhhhhhh....ee......ee.....hhhhhhhhhhhhhh..hhhhhhh.eeee..eeee......hhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...........hhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhh............... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------MULTIHEME_CYTC  PDB: C:162-341 UniProt: 162-341                                                                                                                                     ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1qdb C  42 GIAGKEKSEEWAKYYPRQFDSWKKTKEYDSFTDMLAKDPALVIAWSGYAFSKDYNSPRGHYYALQDNVNSLRTGAPVDAKTGPLPTACWTCKSPDVPRLIEEDGELEYFTGKWAKYGSQIVNVIGCANCHDDKTAELKVRVPHLNRGLQAAGLKTFEESTHQDKRTLVCAQCHVEYYFKKTEWKDAKGADKTAMVVTLPWANGVGKDGNAGVEGMIKYYDEINFSDWTHNISKTPMLKAQHPGFEFWKSGIHGQKGVSCADCHMPYTQEGSVKYSDHQVKENPLDSMDQSCMNCHRESESKLRGIVHQKYERKEFLNKVAFDNIGKAHLETGKAIEAGASDEELKEVRKLIRHGQFKADMAIAAHGNYFHAPEETLRLLAAGSDDAQKARLLLVKILAKHGVMDYIAPDFDTKDKAQKLAKVDIAALAAEKMKFKQTLEQEWKKEAKAKGRANPELYKDVDTINDGKSSWNKK 514
                                    51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411       421       431       441       451       461       471       481       491       501       511
   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, 3)

Asymmetric Unit
(-)
Class: All alpha proteins (14657)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 1QDB)

(-) Pfam Domains  (1, 3)

Asymmetric Unit
(-)
Clan: Multiheme_cytos (34)

(-) Gene Ontology  (10, 10)

Asymmetric Unit(hide GO term definitions)
Chain A,B,C   (NRFA_SULDE | Q9Z4P4)
molecular function
    GO:0005509    calcium ion binding    Interacting selectively and non-covalently with calcium ions (Ca2+).
    GO:0020037    heme binding    Interacting selectively and non-covalently with heme, any compound of iron complexed in a porphyrin (tetrapyrrole) ring.
    GO:0005506    iron ion binding    Interacting selectively and non-covalently with iron (Fe) ions.
    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).

 Visualization

(-) Interactive Views

Asymmetric Unit
  Complete Structure
    Jena3D(integrated viewing of ligand, site, SAP, PROSITE, SCOP information)
    WebMol | AstexViewer[tm]@PDBe
(Java Applets, require no local installation except for Java; loading may be slow)
    STRAP
(Java WebStart application, automatic local installation, requires Java; full application with system access!)
    RasMol
(require local installation)
    Molscript (VRML)
(requires installation of a VRML viewer; select preferred view via VRML and generate a mono or stereo PDF format file)
 
  Ligands, Modified Residues, Ions
    CA  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
    HEM  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
    SO4  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
 
  Sites
    AC1  [ RasMol ]  +environment [ RasMol ]
    AC2  [ RasMol ]  +environment [ RasMol ]
    AC3  [ RasMol ]  +environment [ RasMol ]
    AC4  [ RasMol ]  +environment [ RasMol ]
    AC5  [ RasMol ]  +environment [ RasMol ]
    AC6  [ RasMol ]  +environment [ RasMol ]
    AC7  [ RasMol ]  +environment [ RasMol ]
    AC8  [ RasMol ]  +environment [ RasMol ]
    AC9  [ RasMol ]  +environment [ RasMol ]
    BC1  [ RasMol ]  +environment [ RasMol ]
    BC2  [ RasMol ]  +environment [ RasMol ]
    BC3  [ RasMol ]  +environment [ RasMol ]
    BC4  [ RasMol ]  +environment [ RasMol ]
    BC5  [ RasMol ]  +environment [ RasMol ]
    BC6  [ RasMol ]  +environment [ RasMol ]
    BC7  [ RasMol ]  +environment [ RasMol ]
    BC8  [ RasMol ]  +environment [ RasMol ]
    BC9  [ RasMol ]  +environment [ RasMol ]
    CC1  [ RasMol ]  +environment [ RasMol ]
    CC2  [ RasMol ]  +environment [ RasMol ]
    CC3  [ RasMol ]  +environment [ RasMol ]
    CC4  [ RasMol ]  +environment [ RasMol ]
    CC5  [ RasMol ]  +environment [ RasMol ]
    CC6  [ RasMol ]  +environment [ RasMol ]
    CC7  [ RasMol ]  +environment [ RasMol ]
    CC8  [ RasMol ]  +environment [ RasMol ]
    CC9  [ RasMol ]  +environment [ RasMol ]
 
  Cis Peptide Bonds
(no "Cis Peptide Bonds" information available for 1qdb)
 
Biological Units
  Complete Structure
    Biological Unit 1  [ Jena3D ]
    Biological Unit 2  [ Jena3D ]

(-) Still Images

Jmol
  protein: cartoon or spacefill or dots and stick; nucleic acid: cartoon and stick; ligands: spacefill; active site: stick
[ Asym. Unit PNG format | Asym. Unit - sites PNG format | Biol. Unit 1 PNG format | Biol. Unit 1 - sites PNG format | Biol. Unit 2 PNG format ](automatic orientation, automatically generated)
Molscript
  protein, nucleic acid: cartoon; ligands: spacefill; active site: ball and stick
[ mono PDF format | stereo PDF format ](default orientation, automatically generated)

 Databases and Analysis Tools

(-) Databases

Access by PDB/NDB ID
  1qdb
    Family and Domain Information: ProDom | SYSTERS
    General Structural Information: GlycoscienceDB | MMDB | NDB | OCA | PDB | PDBe | PDBj | PDBsum | PDBWiki | PQS | PROTEOPEDIA
    Orientation in Membranes: OPM
    Protein Surface: SURFACE
    Secondary Structure: DSSP (structure derived) | HSSP (homology derived)
    Structural Genomics: GeneCensus
    Structural Neighbours: CE | VAST
    Structure Classification: CATH | Dali | SCOP
    Validation and Original Data: BMRB Data View | BMRB Restraints Grid | EDS | PROCHECK | RECOORD | WHAT_CHECK
 
Access by UniProt ID/Accession number
  NRFA_SULDE | Q9Z4P4
    Comparative Protein Structure Models: ModBase
    Genomic Information: Ensembl
    Protein-protein Interaction: DIP
    Sequence, Family and Domain Information: InterPro | Pfam | SMART | UniProtKB/SwissProt
 
Access by Enzyme Classificator   (EC Number)
  (no 'Enzyme Classificator' available)
    General Enzyme Information: BRENDA | EC-PDB | Enzyme | IntEnz
    Pathway: KEGG | MetaCyc
 
Access by Disease Identifier   (MIM ID)
  (no 'MIM ID' available)
    Disease Information: OMIM
 
Access by GenAge ID
  (no 'GenAge ID' available)
    Age Related Information: GenAge

(-) Analysis Tools

Access by PDB/NDB ID
    Domain Information: XDom
    Interatomic Contacts of Structural Units: CSU
    Ligand-protein Contacts: LPC
    Protein Cavities: castP
    Sequence and Secondary Structure: PDBCartoon
    Structure Alignment: STRAP(Java WebStart application, automatic local installation, requires Java; full application with system access!)
    Structure and Sequence Browser: STING
 
Access by UniProt ID/Accession number
  NRFA_SULDE | Q9Z4P4
    Protein Disorder Prediction: DisEMBL | FoldIndex | GLOBPLOT (for more information see DisProt)

 Related Entries

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

(no "Entries Sharing at Least One Protein Chain" available for 1QDB)

(-) Related Entries Specified in the PDB File

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