1AOMA

Substrate and product bound to cytochrome cd1 nitrite reductase
Total Genus 128
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The genus trace: a function that shows values of genus (vertical axis) for subchains spanned between the first residue, and all other residues (shown on horizontal axis). The number of the latter residue and the genus of a given subchain are shown interactively.

Total Genus
128
sequence length
439
structure length
439
Chain Sequence
LDPAAPPEFGMKEMRESWKVHVAPEDRPTQQMNDWDLENLFSVTLRDAGQIALIDGSTYEIKTVLDTGYAVHISRLSASGRYLFVIGRDGKVNMIDLWMKEPTTVAEIKIGSEARSIETSKMEGWEDKYAIAGAYWPPQYVIMDGETLEPKKIQSTRGMTYDEQEYHPEPRVAAILASHYRPEFIVNVKETGKILLVDYTDLNNLKTTEISAERFLHDGGLDGSHRYFITAANARNKLVVIDTKEGKLVAIEDTGGQTPHPGRGANFVHPTFGPVWATSHMGDDSVALIGTDPEGHPDNAWKILDSFPALGGGSLFIKTHPNSQYLYVDATLNPEAEISGSVAVFDIKAMTGDGSDPEFKTLPIAEWAGITEGQPRVVQGEFNKDGTEVWFSVWNGKDQESALVVVDDKTLELKHVIKDERLVTPTGKFNVYNTMTDTY
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The genus matrix. At position (x,y) a genus value for a subchain spanned between x’th and y’th residue is shown. Values of the genus are represented by color, according to the scale given on the right.

Structure visualization

After clicking on a point (x,y) in the genus matrix above, a subchain from x to y is shown in color.

Chord Diagram
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publication title Haem-ligand switching during catalysis in crystals of a nitrogen-cycle enzyme.
pubmed doi rcsb
molecule tags Oxidoreductase
molecule keywords NITRITE REDUCTASE
total genus 128
structure length 439
sequence length 439
chains with identical sequence B
ec nomenclature ec 1.7.2.1: Nitrite reductase (NO-forming).
pdb deposition date 1997-07-08

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF02239 Cytochrom_D1 Cytochrome D1 heme domain
A PF13442 Cytochrome_CBB3 Cytochrome C oxidase, cbb3-type, subunit III
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
2.140.10.20 Mainly Beta 8 Propeller Methanol Dehydrogenase; Chain A C-terminal (heme d1) domain of cytochrome cd1-nitrite reductase 1aomA00
1QKSA 1HZUA 1DY7A 1HCMA 1AOQA 1BL9A 1HJ4A 1N15A 1N90A 1NIRA 1AOFA 1NNOA 1N50A 1HJ3A 1E2RA 1HJ5A 1GJQA 1GQ1A 1H9YA 1HZVA 1AOMA 1H9XA
chains in the Genus database with same CATH superfamily
2QT9A 3KWFA 2OQVA 3OC0A 2Z3ZA 2QJRA 1HZUA 1H4JA 1HCMA 3F8SA 1AOQA 3OPMA 1HJ4A 4PNZA 4DSAA 3C45A 1N15A 2IITA 4MAEA 1N90A 2GBCA 4CVCA 1H4IA 2AJCA 5T4BA 2AD7A 5T4FA 4DTCA 2AJDA 3CCBA 5LLSA 2GBIA 1W1IA 3Q0TA 2AJBA 3Q8WA 1R9NA 3VJLA 3G0CA 4JH0A 1NU6A 4CVBA 1N1MA 2Z3WA 5KBYA 3C43A 5I7UA 1QKSA 2ONCA 3SWWA 3WQHA 1X70A 4L72A 2OQIA 1DY7A 2OGZA 1BL9A 1TKRA 3BJMA 2AJLI 2BUCA 2FJPA 3H0CA 2G63A 1ORVA 1J2EA 4PV7A 2I3ZA 1R9MA 3O95A 4QZVA 3SX4A 3VJKA 4WJLA 4FFWA 4G1FA 3VJMA 2HHAA 4A5SA 1E2RA 1HJ5A 1GJQA 1H9YA 3D4LA 2RIPA 4DSZA 5J3JA 1U8EA 4LKOA 2RGUA 1AOMA 2I78A 1H9XA 5ISMA 1TK3A 4FFVA 2G5PA 3EIOA 1KB0A 2AD8A 4KR0A 1ORWA 3G0DA 5T4HA 3CCCA 1RWQA 1KV9A 2G5TA 2OAGA 1Z68A 2AD6A 5T4EA 1XFDA 1AOFA 1W6SA 2P8SA 1NNOA 2OPHA 2GBFA 2D0VA 2ECFA 3O9VA 2JIDA 2BUBA 3HACA 2QOEA 2BGNA 2OLEA 2QKYA 2OAEA 1NU8A 2BUAA 2I03A 3KWJA 3G0GA 2D5LA 4Q1VA 1LRWA 4TQOA 3NOXA 4MH1A 1NIRA 2AJ8A 1PFQA 3QBJA 2IIVA 4J3JA 1N50A 1WCYA 1HJ3A 1YIQA 2GBGA 4N8DA 4AAHA 2QTBA 1G72A 3W2TA 1GQ1A 1HZVA 2BGRA 1FLGA 3G0BA 2EEPA 3HABA 2DCMA 4N8EA
chains in the Genus database with same CATH topology
1QKSA 1HZUA 1DY7A 1HCMA 1AOQA 1BL9A 1HJ4A 1N15A 1N90A 1NIRA 1AOFA 1NNOA 1N50A 1HJ3A 1E2RA 1HJ5A 1GJQA 1GQ1A 1H9YA 1HZVA 1AOMA 1H9XA
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 1QKS A;  1HZU A;  1DY7 A;  1HCM A;  1AOQ A;  1BL9 A;  1HJ4 A;  1N15 A;  1N90 A;  1NIR A;  1AOF A;  1NNO A;  1N50 A;  1HJ3 A;  1E2R A;  1HJ5 A;  1GJQ A;  1GQ1 A;  1H9Y A;  1HZV A;  1AOM A;  1H9X A; 
#chains in the Genus database with same CATH topology
 2QT9 A;  3KWF A;  2OQV A;  3OC0 A;  2Z3Z A;  2QJR A;  1HZU A;  1H4J A;  1HCM A;  3F8S A;  1AOQ A;  3OPM A;  1HJ4 A;  4PNZ A;  4DSA A;  3C45 A;  1N15 A;  2IIT A;  4MAE A;  1N90 A;  2GBC A;  4CVC A;  1H4I A;  2AJC A;  5T4B A;  2AD7 A;  5T4F A;  4DTC A;  2AJD A;  3CCB A;  5LLS A;  2GBI A;  1W1I A;  3Q0T A;  2AJB A;  3Q8W A;  1R9N A;  3VJL A;  3G0C A;  4JH0 A;  1NU6 A;  4CVB A;  1N1M A;  2Z3W A;  5KBY A;  3C43 A;  5I7U A;  1QKS A;  2ONC A;  3SWW A;  3WQH A;  1X70 A;  4L72 A;  2OQI A;  1DY7 A;  2OGZ A;  1BL9 A;  1TKR A;  3BJM A;  2AJL I;  2BUC A;  2FJP A;  3H0C A;  2G63 A;  1ORV A;  1J2E A;  4PV7 A;  2I3Z A;  1R9M A;  3O95 A;  4QZV A;  3SX4 A;  3VJK A;  4WJL A;  4FFW A;  4G1F A;  3VJM A;  2HHA A;  4A5S A;  1E2R A;  1HJ5 A;  1GJQ A;  1H9Y A;  3D4L A;  2RIP A;  4DSZ A;  5J3J A;  1U8E A;  4LKO A;  2RGU A;  1AOM A;  2I78 A;  1H9X A;  5ISM A;  1TK3 A;  4FFV A;  2G5P A;  3EIO A;  1KB0 A;  2AD8 A;  4KR0 A;  1ORW A;  3G0D A;  5T4H A;  3CCC A;  1RWQ A;  1KV9 A;  2G5T A;  2OAG A;  1Z68 A;  2AD6 A;  5T4E A;  1XFD A;  1AOF A;  1W6S A;  2P8S A;  1NNO A;  2OPH A;  2GBF A;  2D0V A;  2ECF A;  3O9V A;  2JID A;  2BUB A;  3HAC A;  2QOE A;  2BGN A;  2OLE A;  2QKY A;  2OAE A;  1NU8 A;  2BUA A;  2I03 A;  3KWJ A;  3G0G A;  2D5L A;  4Q1V A;  1LRW A;  4TQO A;  3NOX A;  4MH1 A;  1NIR A;  2AJ8 A;  1PFQ A;  3QBJ A;  2IIV A;  4J3J A;  1N50 A;  1WCY A;  1HJ3 A;  1YIQ A;  2GBG A;  4N8D A;  4AAH A;  2QTB A;  1G72 A;  3W2T A;  1GQ1 A;  1HZV A;  2BGR A;  1FLG A;  3G0B A;  2EEP A;  3HAB A;  2DCM A;  4N8E A; 
#chains in the Genus database with same CATH homology
 1QKS A;  1HZU A;  1DY7 A;  1HCM A;  1AOQ A;  1BL9 A;  1HJ4 A;  1N15 A;  1N90 A;  1NIR A;  1AOF A;  1NNO A;  1N50 A;  1HJ3 A;  1E2R A;  1HJ5 A;  1GJQ A;  1GQ1 A;  1H9Y A;  1HZV A;  1AOM A;  1H9X A; 
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similar chains in the Genus database (?% sequence similarity)
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similar chains in the pdb database (?% sequence similarity)

 
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#similar chains, but unknotted
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