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
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)

(-) Description

Title :  STRUCTURE OF THE THIOALKALIVIBRIO NITRATIREDUCENS CYTOCHROME C NITRITE REDUCTASE REDUCED BY SODIUM DITHIONITE (SULFITE COMPLEX)
 
Authors :  A. A. Trofimov, K. M. Polyakov, K. M. Boyko, A. Slutsky, T. V. Tikhonova, A. N. Antipov, R. A. Zvyagilskaya, A. N. Popov, V. S. Lamzin, G. P. Boure V. O. Popov
Date :  27 Dec 08  (Deposition) - 29 Dec 09  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.40
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A,B  (3x)
Keywords :  Alpha Protein, Eight Hemes C, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. A. Trofimov, K. M. Polyakov, K. M. Boyko, T. V. Tikhonova, T. N. Safonova, A. V. Tikhonov, A. N. Popov, V. O. Popov
Structures Of Complexes Of Octahaem Cytochrome C Nitrite Reductase From Thioalkalivibrio Nitratireducens With Sulfit And Cyanide
Acta Crystallogr. , Sect. D V. 66 1043 2010
PubMed-ID: 20944237  |  Reference-DOI: 10.1107/S0907444910031665

(-) Compounds

Molecule 1 - EIGHT-HEME NITRITE REDUCTASE
    Chains: A, B
    Organism Scientific: THIOALKALIVIBRIO NITRATIREDUCENS
    Organism Taxid: 186931
    Strain: ALEN 2

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (3x): AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (10, 59)

Asymmetric Unit (10, 59)
No.NameCountTypeFull Name
1ACT1Ligand/IonACETATE ION
2CA4Ligand/IonCALCIUM ION
3HEC16Ligand/IonHEME C
4NA5Ligand/IonSODIUM ION
5PG416Ligand/IonTETRAETHYLENE GLYCOL
6PG68Ligand/Ion1-(2-METHOXY-ETHOXY)-2-{2-[2-(2-METHOXY-ETHOXY]-ETHOXY}-ETHANE
7SO33Ligand/IonSULFITE ION
8SO42Ligand/IonSULFATE ION
9THJ2Ligand/IonTHIOSULFATE
10TRS2Ligand/Ion2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL
Biological Unit 1 (8, 150)
No.NameCountTypeFull Name
1ACT3Ligand/IonACETATE ION
2CA-1Ligand/IonCALCIUM ION
3HEC48Ligand/IonHEME C
4NA-1Ligand/IonSODIUM ION
5PG448Ligand/IonTETRAETHYLENE GLYCOL
6PG624Ligand/Ion1-(2-METHOXY-ETHOXY)-2-{2-[2-(2-METHOXY-ETHOXY]-ETHOXY}-ETHANE
7SO39Ligand/IonSULFITE ION
8SO46Ligand/IonSULFATE ION
9THJ6Ligand/IonTHIOSULFATE
10TRS6Ligand/Ion2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL

(-) Sites  (59, 59)

Asymmetric Unit (59, 59)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREHIS A:113 , ALA A:114 , ASP A:125 , HIS A:126 , VAL A:129 , ARG A:131 , ALA A:179 , CYS A:184 , CYS A:187 , LYS A:188 , ARG A:242 , CYS A:299 , HIS A:300 , TYR A:303 , CYS A:305 , HIS A:361 , ASN A:486 , SO3 A:526 , HOH A:599 , HOH A:713 , HOH A:856 , HOH A:857 , HOH A:863 , HEC A:1006BINDING SITE FOR RESIDUE HEC A 1004
02AC2SOFTWARECYS A:66 , HIS A:70 , GLN A:73 , PHE A:74 , LEU A:225 , ASN A:226 , CYS A:227 , CYS A:230 , HIS A:231 , ALA A:290 , MET A:384 , TYR A:395 , THR A:396 , HIS A:398 , HOH A:826 , HOH A:951 , HOH A:977 , HEC A:1003 , HEC A:1006 , HOH A:1065 , HOH A:1098 , HOH A:1112 , HOH A:1186 , HOH A:1187BINDING SITE FOR RESIDUE HEC A 1005
03AC3SOFTWARESER A:84 , PRO A:116 , ARG A:117 , HIS A:119 , PHE A:121 , MET A:122 , ASP A:125 , CYS A:187 , MET A:229 , CYS A:296 , CYS A:299 , HIS A:300 , HIS A:383 , MET A:384 , CA A:528 , HOH A:703 , HOH A:720 , HOH A:850 , HEC A:1004 , HEC A:1005 , HEC A:1007BINDING SITE FOR RESIDUE HEC A 1006
04AC4SOFTWAREARG A:96 , HIS A:300 , PHE A:367 , HIS A:372 , ALA A:378 , CYS A:379 , CYS A:382 , HIS A:383 , THR A:402 , ARG A:404 , LYS A:431 , ASN A:486 , PHE A:490 , HIS A:491 , CA A:528 , HOH A:733 , HOH A:850 , HOH A:851 , HOH A:852 , HOH A:860 , HOH A:864 , HEC A:1006 , HEC A:1008 , HOH A:1146BINDING SITE FOR RESIDUE HEC A 1007
05AC5SOFTWAREASN A:141 , TRP A:142 , GLN A:143 , VAL A:371 , HIS A:372 , ALA A:410 , CYS A:411 , CYS A:414 , HIS A:415 , TRP A:418 , ILE A:427 , PHE A:490 , HOH A:795 , HEC A:1007 , HOH A:1114 , HOH A:1128 , HOH A:1171 , HOH A:1194BINDING SITE FOR RESIDUE HEC A 1008
06AC6SOFTWARECYS A:14 , PHE A:15 , HIS A:18 , ILE A:21 , VAL A:33 , ASN A:34 , CYS A:35 , CYS A:38 , HIS A:39 , LEU A:194 , PHE A:228 , PRO A:233 , HIS A:234 , ARG A:239 , PHE A:274 , ARG A:276 , ARG A:282 , HOH A:786 , HEC A:1001 , HEC A:1003 , HOH A:1174BINDING SITE FOR RESIDUE HEC A 1002
07AC7SOFTWARELYS A:29 , HIS A:30 , HIS A:37 , ALA A:65 , CYS A:66 , THR A:68 , CYS A:69 , HIS A:70 , CYS A:227 , HIS A:231 , ALA A:236 , HOH A:573 , HOH A:586 , HOH A:677 , HOH A:678 , HEC A:1002 , HEC A:1005 , HOH A:1041 , HOH A:1207 , HOH A:1239BINDING SITE FOR RESIDUE HEC A 1003
08AC8SOFTWAREGLN A:13 , CYS A:14 , CYS A:17 , HIS A:18 , HIS A:39 , HIS A:44 , VAL A:45 , ALA A:48 , SER A:49 , SER A:50 , ARG A:52 , MET A:53 , ARG A:56 , PRO A:57 , THR A:59 , LEU A:194 , GLN A:275 , ARG A:276 , HOH A:789 , HOH A:824 , HOH A:993 , HOH A:994 , HEC A:1002 , HOH A:1064 , HOH A:1068 , HOH A:1126 , HOH A:1174BINDING SITE FOR RESIDUE HEC A 1001
09AC9SOFTWAREPHE A:109 , ARG A:131 , TYR A:303 , GLN A:360 , HIS A:361 , HOH A:599 , HOH A:863 , HEC A:1004 , HOH A:1140BINDING SITE FOR RESIDUE SO3 A 526
10BC1SOFTWAREGLU A:302 , TYR A:303 , LYS A:358 , GLN A:360 , HOH A:954 , HOH A:955BINDING SITE FOR RESIDUE CA A 527
11BC2SOFTWAREPRO A:116 , HOH A:726 , HOH A:733 , HEC A:1006 , HEC A:1007 , HOH A:1146BINDING SITE FOR RESIDUE CA A 528
12BC3SOFTWAREHIS A:18 , THR A:19 , GLN A:20 , ILE A:21 , PHE A:274 , HOH A:785 , HOH A:1174BINDING SITE FOR RESIDUE SO4 A 529
13BC4SOFTWAREARG A:457 , HOH A:585 , HOH A:986BINDING SITE FOR RESIDUE THJ A 530
14BC5SOFTWAREHOH A:554 , HOH A:1132 , HOH A:1167BINDING SITE FOR RESIDUE NA A 531
15BC6SOFTWARETYR A:309 , LEU A:311 , GLY A:314 , ARG A:348 , ALA A:354 , ALA A:355 , GLU A:470 , HOH A:673 , HOH A:674 , HOH A:968 , HOH A:971 , HOH A:990 , HOH A:1225BINDING SITE FOR RESIDUE PG6 A 532
16BC7SOFTWAREMET A:99 , LYS A:102 , HOH A:554 , HOH A:590 , HOH A:736 , HOH A:745 , HOH A:1167BINDING SITE FOR RESIDUE TRS A 533
17BC8SOFTWAREALA A:11 , MET A:12 , ALA A:31 , ASN A:34 , HOH A:1143 , PG6 B:535BINDING SITE FOR RESIDUE PG6 A 534
18BC9SOFTWAREGLN A:138 , PHE A:139 , TRP A:142 , HOH A:563 , HOH A:624 , HOH A:672 , HOH A:1151BINDING SITE FOR RESIDUE PG4 A 535
19CC1SOFTWAREPHE A:333 , GLU A:498 , LYS A:506 , HOH A:668 , HOH A:1107 , HOH A:1115BINDING SITE FOR RESIDUE PG6 A 536
20CC2SOFTWAREPRO A:307 , HOH A:577 , HOH A:578 , HOH A:676BINDING SITE FOR RESIDUE PG4 A 537
21CC3SOFTWAREASN A:375 , GLY A:376 , HOH A:940 , HOH A:1197 , HOH A:1217BINDING SITE FOR RESIDUE PG4 A 538
22CC4SOFTWAREARG A:171 , PHE A:172 , SER A:174BINDING SITE FOR RESIDUE PG4 A 539
23CC5SOFTWAREPG4 A:541BINDING SITE FOR RESIDUE PG4 A 540
24CC6SOFTWAREGLN A:20 , MET A:24 , VAL A:272 , PG4 A:540 , HOH A:632BINDING SITE FOR RESIDUE PG4 A 541
25CC7SOFTWAREASP A:320 , ASP A:321 , HOH A:597BINDING SITE FOR RESIDUE PG6 A 542
26CC8SOFTWARETHR A:351 , LYS A:447 , VAL A:511 , ASN A:515 , HOH A:756 , HOH A:1035 , HOH A:1073 , HOH A:1156BINDING SITE FOR RESIDUE PG6 A 543
27CC9SOFTWAREHOH A:598 , HOH A:749 , HOH A:852 , HOH A:1050 , HOH A:1146BINDING SITE FOR RESIDUE NA A 544
28DC1SOFTWAREHIS B:113 , ALA B:114 , ASP B:125 , HIS B:126 , VAL B:129 , ARG B:131 , ALA B:179 , CYS B:184 , CYS B:187 , LYS B:188 , ARG B:242 , CYS B:299 , HIS B:300 , TYR B:303 , CYS B:305 , HIS B:361 , ASN B:486 , SO3 B:526 , PG4 B:547 , HOH B:599 , HOH B:637 , HOH B:862 , HOH B:863 , HOH B:869 , HEC B:1006BINDING SITE FOR RESIDUE HEC B 1004
29DC2SOFTWAREHIS B:70 , GLN B:73 , PHE B:74 , LEU B:225 , ASN B:226 , CYS B:227 , CYS B:230 , HIS B:231 , ALA B:290 , MET B:384 , TYR B:395 , THR B:396 , HIS B:398 , HOH B:832 , HOH B:957 , HOH B:983 , HEC B:1003 , HEC B:1006 , HOH B:1072 , HOH B:1104 , HOH B:1118 , HOH B:1192 , HOH B:1193BINDING SITE FOR RESIDUE HEC B 1005
30DC3SOFTWARESER B:84 , PRO B:116 , ARG B:117 , HIS B:119 , PHE B:121 , MET B:122 , ASP B:125 , CYS B:187 , MET B:229 , CYS B:296 , CYS B:299 , HIS B:300 , HIS B:383 , MET B:384 , CA B:528 , HOH B:627 , HOH B:643 , HOH B:856 , HEC B:1004 , HEC B:1005 , HEC B:1007BINDING SITE FOR RESIDUE HEC B 1006
31DC4SOFTWAREARG B:96 , HIS B:300 , PHE B:367 , HIS B:372 , ALA B:378 , CYS B:379 , CYS B:382 , HIS B:383 , THR B:402 , ARG B:404 , LYS B:431 , ASN B:486 , PHE B:490 , HIS B:491 , CA B:528 , HOH B:656 , HOH B:856 , HOH B:857 , HOH B:858 , HOH B:866 , HOH B:870 , HEC B:1006 , HEC B:1008 , HOH B:1152BINDING SITE FOR RESIDUE HEC B 1007
32DC5SOFTWAREASN B:141 , TRP B:142 , GLN B:143 , VAL B:371 , HIS B:372 , PRO B:403 , ALA B:410 , CYS B:411 , CYS B:414 , HIS B:415 , TRP B:418 , ILE B:427 , PHE B:490 , PG4 B:540 , HOH B:801 , HEC B:1007 , HOH B:1120 , HOH B:1134 , HOH B:1177 , HOH B:1200BINDING SITE FOR RESIDUE HEC B 1008
33DC6SOFTWARECYS B:14 , PHE B:15 , HIS B:18 , ILE B:21 , HIS B:25 , VAL B:33 , ASN B:34 , CYS B:35 , CYS B:38 , HIS B:39 , LEU B:194 , PHE B:228 , PRO B:233 , HIS B:234 , ARG B:239 , PHE B:274 , ARG B:276 , ARG B:282 , HOH B:792 , HEC B:1001 , HEC B:1003 , HOH B:1180BINDING SITE FOR RESIDUE HEC B 1002
34DC7SOFTWARELYS B:29 , HIS B:30 , HIS B:37 , ALA B:65 , CYS B:66 , THR B:68 , CYS B:69 , HIS B:70 , CYS B:227 , HIS B:231 , ALA B:236 , HOH B:573 , HOH B:586 , HOH B:609 , HEC B:1002 , HEC B:1005 , HOH B:1048 , HOH B:1213BINDING SITE FOR RESIDUE HEC B 1003
35DC8SOFTWAREGLN B:13 , CYS B:14 , CYS B:17 , HIS B:18 , HIS B:39 , HIS B:44 , VAL B:45 , ALA B:48 , SER B:49 , ARG B:51 , ARG B:52 , MET B:53 , ARG B:56 , PRO B:57 , THR B:59 , LEU B:194 , GLN B:275 , ARG B:276 , HOH B:758 , HOH B:795 , HOH B:830 , HEC B:1002 , HOH B:1009 , HOH B:1071 , HOH B:1074 , HOH B:1132 , HOH B:1180BINDING SITE FOR RESIDUE HEC B 1001
36DC9SOFTWAREPHE B:109 , ARG B:131 , TYR B:303 , GLN B:360 , HIS B:361 , HOH B:599 , HOH B:869 , HEC B:1004 , HOH B:1146BINDING SITE FOR RESIDUE SO3 B 526
37EC1SOFTWAREGLU B:302 , TYR B:303 , LYS B:358 , GLN B:360 , HOH B:960 , HOH B:961BINDING SITE FOR RESIDUE CA B 527
38EC2SOFTWAREPRO B:116 , HOH B:649 , HOH B:656 , HEC B:1006 , HEC B:1007 , HOH B:1152BINDING SITE FOR RESIDUE CA B 528
39EC3SOFTWAREHIS B:18 , THR B:19 , GLN B:20 , ILE B:21 , PHE B:274 , HOH B:689 , HOH B:1180BINDING SITE FOR RESIDUE SO3 B 529
40EC4SOFTWAREARG B:457 , HOH B:585 , HOH B:992BINDING SITE FOR RESIDUE THJ B 530
41EC5SOFTWARETRS B:533 , HOH B:554 , HOH B:1138 , HOH B:1173BINDING SITE FOR RESIDUE NA B 531
42EC6SOFTWARETYR B:309 , LEU B:311 , GLY B:314 , ARG B:348 , ALA B:354 , ALA B:355 , HOH B:974 , HOH B:977 , HOH B:996 , HOH B:1231BINDING SITE FOR RESIDUE PG6 B 532
43EC7SOFTWARELYS B:102 , NA B:531 , HOH B:554 , HOH B:590 , HOH B:659 , HOH B:668 , HOH B:702 , HOH B:1173BINDING SITE FOR RESIDUE TRS B 533
44EC8SOFTWARESER A:50 , ARG A:51 , ARG A:278 , HOH A:622 , ARG B:252 , GLU B:341 , HOH B:973 , HOH B:1051BINDING SITE FOR RESIDUE SO4 B 534
45EC9SOFTWARETHR A:32 , PG6 A:534 , ALA B:11 , ALA B:31 , THR B:32 , ASN B:34 , HOH B:1149BINDING SITE FOR RESIDUE PG6 B 535
46FC1SOFTWAREGLN B:138 , PHE B:139 , TRP B:142 , ASP B:494 , HOH B:563 , HOH B:1041 , HOH B:1156 , HOH B:1157BINDING SITE FOR RESIDUE PG4 B 536
47FC2SOFTWAREPRO B:307 , TYR B:309 , HOH B:577 , HOH B:578BINDING SITE FOR RESIDUE PG4 B 537
48FC3SOFTWARETHR B:94 , SER B:95 , ARG B:96 , GLU B:115 , HIS B:435 , HOH B:703 , HOH B:712 , HOH B:1141 , HOH B:1143 , HOH B:1144 , HOH B:1145 , HOH B:1154 , HOH B:1165BINDING SITE FOR RESIDUE PG4 B 538
49FC4SOFTWAREMET B:53 , ALA B:205 , ARG B:276 , HOH B:756 , HOH B:788 , HOH B:913 , HOH B:1132BINDING SITE FOR RESIDUE PG4 B 539
50FC5SOFTWAREASN B:375 , GLY B:376 , NA B:549 , HOH B:744 , HOH B:745 , HOH B:746 , HEC B:1008BINDING SITE FOR RESIDUE PG4 B 540
51FC6SOFTWAREARG B:171 , PHE B:172BINDING SITE FOR RESIDUE PG4 B 541
52FC7SOFTWAREHOH B:780BINDING SITE FOR RESIDUE PG6 B 542
53FC8SOFTWAREASN B:141 , GLN B:143 , LYS B:144 , HOH B:890BINDING SITE FOR RESIDUE PG4 B 543
54FC9SOFTWARETHR B:351 , LYS B:447 , ASN B:515 , HOH B:704 , HOH B:705 , HOH B:1162BINDING SITE FOR RESIDUE PG4 B 544
55GC1SOFTWAREASP B:62 , GLU B:64BINDING SITE FOR RESIDUE PG4 B 545
56GC2SOFTWAREARG B:457 , ASN B:515 , ILE B:518 , ASP B:519 , HOH B:705 , HOH B:1209BINDING SITE FOR RESIDUE ACT B 546
57GC3SOFTWAREALA B:179 , ALA B:180 , ASN B:181 , ASN B:306 , PRO B:307 , MET B:319 , HOH B:808 , HOH B:903 , HEC B:1004 , HOH B:1092BINDING SITE FOR RESIDUE PG4 B 547
58GC4SOFTWAREHOH B:598 , HOH B:672 , HOH B:858 , HOH B:1057 , HOH B:1152BINDING SITE FOR RESIDUE NA B 548
59GC5SOFTWAREASN B:375 , PG4 B:540 , HOH B:722 , HOH B:723 , HOH B:783BINDING SITE FOR RESIDUE NA B 549

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3FO3)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3FO3)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3FO3)

(-) PROSITE Motifs  (1, 2)

Asymmetric Unit (1, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1MULTIHEME_CYTCPS51008 Multiheme cytochrome c family profile.NIR_THIND37-448
 		  2A:9-420
B:9-420
Biological Unit 1 (1, 6)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1MULTIHEME_CYTCPS51008 Multiheme cytochrome c family profile.NIR_THIND37-448
 		  6A:9-420
B:9-420

(-) Exons   (0, 0)

(no "Exon" information available for 3FO3)

(-) 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:519
 aligned with NIR_THIND | L0DSL2 from UniProtKB/Swiss-Prot  Length:553

    Alignment length:519
                                    42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362       372       382       392       402       412       422       432       442       452       462       472       482       492       502       512       522       532       542         
            NIR_THIND    33 NLKPVDAMQCFDCHTQIEDMHTVGKHATVNCVHCHDATEHVETASSRRMGERPVTRMDLEACATCHTAQFNSFVEVRHESHPRLEKATPTSRSPMFDKLIAGHGFAFEHAEPRSHAFMLVDHFVVDRAYGGRFQFKNWQKVTDGMGAVRGAWTVLTDADPESSDQRRFLSQTATAANPVCLNCKTQDHILDWAYMGDEHEAAKWSRTSEVVEFARDLNHPLNCFMCHDPHSAGPRVVRDGLINAVVDRGLGTYPHDPVKSEQQGMTKVTFQRGREDFRAIGLLDTADSNVMCAQCHVEYNCNPGYQLSDGSRVGMDDRRANHFFWANVFDYKEAAQEIDFFDFRHATTGAALPKLQHPEAETFWGSVHERNGVACADCHMPKVQLENGKVYTSHSQRTPRDMMGQACLNCHAEWTEDQALYAIDYIKNYTHGKIVKSEYWLAKMIDLFPVAKRAGVSEDVLNQARELHYDAHLYWEWWTAENSVGFHNPDQARESLMTSISKSKEAVSLLNDAIDAQVA 551
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....hhhhhhh.hhhhhhhhhhh.....hhhh.eehhhhhhhh.........ee...hhhhhh.hhhhhhhhhh...................hhhhhhh.hhhhhh.....hhhhhhhhhhhh.......eee.hhhhhhhhhhhhhhhhh.eee...................hhhhhhhh........hhhhh...........hhhhhhhh.....hhhhh........ee.hhhhhhhhh.........hhhhhhhh.eeeeeeee..eeeeeeeee...hhhhhhh.....eee..ee......ee...hhh.eee...hhhhhhhhhhhh....ee......ee.....hhhhhhh.hhhhhh..hhhhhhh.................hhhhh...hhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----MULTIHEME_CYTC  PDB: A:9-420 UniProt: 37-448                                                                                                                                                                                                                                                                                                                                                                                ------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3fo3 A   5 NLKPVDAMQCFDCHTQIEDMHTVGKHATVNCVHCHDATEHVETASSRRMGERPVTRMDLEACATCHTAQFNSFVEVRHESHPRLEKATPTSRSPMFDKLIAGHGFAFEHAEPRSHAFMLVDHFVVDRAYGGRFQFKNWQKVTDGMGAVRGAWTVLTDADPESSDQRRFLSQTATAANPVCLNCKTQDHILDWAYMGDEHEAAKWSRTSEVVEFARDLNHPLNCFMCHDPHSAGPRVVRDGLINAVVDRGLGTYPHDPVKSEQQGMTKVTFQRGREDFRAIGLLDTADSNVMCAQCHVEYNCNPGYQLSDGSRVGMDDRRANHFFWANVFDYKEAAQEIDFFDFRHATTGAALPKLQHPEAETFWGSVHERNGVACADCHMPKVQLENGKVYTSHSQRTPRDMMGQACLNCHAEWTEDQALYAIDYIKNYTHGKIVKSEYWLAKMIDLFPVAKRAGVSEDVLNQARELHYDAHLYWEWWTAENSVGFHNPDQARESLMTSISKSKEAVSLLNDAIDAQVA 523
                                    14        24        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 B from PDB  Type:PROTEIN  Length:519
 aligned with NIR_THIND | L0DSL2 from UniProtKB/Swiss-Prot  Length:553

    Alignment length:519
                                    42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362       372       382       392       402       412       422       432       442       452       462       472       482       492       502       512       522       532       542         
            NIR_THIND    33 NLKPVDAMQCFDCHTQIEDMHTVGKHATVNCVHCHDATEHVETASSRRMGERPVTRMDLEACATCHTAQFNSFVEVRHESHPRLEKATPTSRSPMFDKLIAGHGFAFEHAEPRSHAFMLVDHFVVDRAYGGRFQFKNWQKVTDGMGAVRGAWTVLTDADPESSDQRRFLSQTATAANPVCLNCKTQDHILDWAYMGDEHEAAKWSRTSEVVEFARDLNHPLNCFMCHDPHSAGPRVVRDGLINAVVDRGLGTYPHDPVKSEQQGMTKVTFQRGREDFRAIGLLDTADSNVMCAQCHVEYNCNPGYQLSDGSRVGMDDRRANHFFWANVFDYKEAAQEIDFFDFRHATTGAALPKLQHPEAETFWGSVHERNGVACADCHMPKVQLENGKVYTSHSQRTPRDMMGQACLNCHAEWTEDQALYAIDYIKNYTHGKIVKSEYWLAKMIDLFPVAKRAGVSEDVLNQARELHYDAHLYWEWWTAENSVGFHNPDQARESLMTSISKSKEAVSLLNDAIDAQVA 551
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....hhhhhhh.hhhhhhhhhhh.....hhhh.eehhhhhhhh.........ee...hhhhhh.hhhhhhhhhh...................hhhhhhh.hhhhhh.....hhhhhhhhhhhh.......eee.hhhhhhhhhhhhhhhhhheee...................hhhhhhhh........hhhhh...........hhhhhhhh.....hhhhh........ee.hhhhhhhhh.........hhhhhhhh.eeeeeeee..eeeeeeeee...hhhhhhh.....eee..ee......ee...hhh.eee...hhhhhhhhhhhhh...ee......ee.....hhhhhhh.hhhhhh..hhhhhhh.................hhhhhh..hhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----MULTIHEME_CYTC  PDB: B:9-420 UniProt: 37-448                                                                                                                                                                                                                                                                                                                                                                                ------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3fo3 B   5 NLKPVDAMQCFDCHTQIEDMHTVGKHATVNCVHCHDATEHVETASSRRMGERPVTRMDLEACATCHTAQFNSFVEVRHESHPRLEKATPTSRSPMFDKLIAGHGFAFEHAEPRSHAFMLVDHFVVDRAYGGRFQFKNWQKVTDGMGAVRGAWTVLTDADPESSDQRRFLSQTATAANPVCLNCKTQDHILDWAYMGDEHEAAKWSRTSEVVEFARDLNHPLNCFMCHDPHSAGPRVVRDGLINAVVDRGLGTYPHDPVKSEQQGMTKVTFQRGREDFRAIGLLDTADSNVMCAQCHVEYNCNPGYQLSDGSRVGMDDRRANHFFWANVFDYKEAAQEIDFFDFRHATTGAALPKLQHPEAETFWGSVHERNGVACADCHMPKVQLENGKVYTSHSQRTPRDMMGQACLNCHAEWTEDQALYAIDYIKNYTHGKIVKSEYWLAKMIDLFPVAKRAGVSEDVLNQARELHYDAHLYWEWWTAENSVGFHNPDQARESLMTSISKSKEAVSLLNDAIDAQVA 523
                                    14        24        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
   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  (0, 0)

(no "SCOP Domain" information available for 3FO3)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3FO3)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3FO3)

(-) Gene Ontology  (10, 10)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (NIR_THIND | L0DSL2)
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: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:0097164    ammonium ion metabolic process    The chemical reactions and pathways involving the ammonium ion.
    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
    ACT  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
    CA  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
    HEC  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
    NA  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
    PG4  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
    PG6  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
    SO3  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
    SO4  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
    THJ  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
    TRS  [ 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 ]
    DC1  [ RasMol ]  +environment [ RasMol ]
    DC2  [ RasMol ]  +environment [ RasMol ]
    DC3  [ RasMol ]  +environment [ RasMol ]
    DC4  [ RasMol ]  +environment [ RasMol ]
    DC5  [ RasMol ]  +environment [ RasMol ]
    DC6  [ RasMol ]  +environment [ RasMol ]
    DC7  [ RasMol ]  +environment [ RasMol ]
    DC8  [ RasMol ]  +environment [ RasMol ]
    DC9  [ RasMol ]  +environment [ RasMol ]
    EC1  [ RasMol ]  +environment [ RasMol ]
    EC2  [ RasMol ]  +environment [ RasMol ]
    EC3  [ RasMol ]  +environment [ RasMol ]
    EC4  [ RasMol ]  +environment [ RasMol ]
    EC5  [ RasMol ]  +environment [ RasMol ]
    EC6  [ RasMol ]  +environment [ RasMol ]
    EC7  [ RasMol ]  +environment [ RasMol ]
    EC8  [ RasMol ]  +environment [ RasMol ]
    EC9  [ RasMol ]  +environment [ RasMol ]
    FC1  [ RasMol ]  +environment [ RasMol ]
    FC2  [ RasMol ]  +environment [ RasMol ]
    FC3  [ RasMol ]  +environment [ RasMol ]
    FC4  [ RasMol ]  +environment [ RasMol ]
    FC5  [ RasMol ]  +environment [ RasMol ]
    FC6  [ RasMol ]  +environment [ RasMol ]
    FC7  [ RasMol ]  +environment [ RasMol ]
    FC8  [ RasMol ]  +environment [ RasMol ]
    FC9  [ RasMol ]  +environment [ RasMol ]
    GC1  [ RasMol ]  +environment [ RasMol ]
    GC2  [ RasMol ]  +environment [ RasMol ]
    GC3  [ RasMol ]  +environment [ RasMol ]
    GC4  [ RasMol ]  +environment [ RasMol ]
    GC5  [ RasMol ]  +environment [ RasMol ]
 
  Cis Peptide Bonds
(no "Cis Peptide Bonds" information available for 3fo3)
 
Biological Unit
  Complete Structure
    Biological Unit 1  [ 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 ](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
  3fo3
    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
  NIR_THIND | L0DSL2
    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
  NIR_THIND | L0DSL2
    Protein Disorder Prediction: DisEMBL | FoldIndex | GLOBPLOT (for more information see DisProt)

 Related Entries

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

UniProtKB/Swiss-Prot
        NIR_THIND | L0DSL2: 2ot4 2zo5 3d1i 3f29 3gm6 3lg1 3lgq 3mmo 3owm 3rkh 3s7w 3sce 3uu9 4l38 4l3x 4l3y 4l3z 4q0t 4q17 4q1o 4q4u 4q5b 4q5c

(-) Related Entries Specified in the PDB File

2ot4 3f29