1AOMA

Substrate and product bound to cytochrome cd1 nitrite reductase
Total Genus 128
50100150200250300350400020406080100120
Genus TraceResidueGenus

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
50100150200250300350400400300200100
020406080100120Genus Matrix

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
EMPTYTVIII1 (148-151)S1 (147-148)TII3 (427-430)S25 (413-418)3H1 (152-154)S5 (199-204)3H2 (165-167)TIV1 (156-159)S4 (189-194)S8 (231-237)S2 (168-173)TIV2 (184-187)3H3 (174-176)TI3 (215-218)TI1 (183-186)S3 (178-183)TIV3 (196-199)TVIII2 (227-230)S6 (210-215)S10 (257-264)S7 (219-224)TIV5 (263-266)TI4 (224-227)S9 (241-247)TVIII3 (239-242)TIV4 (251-254)TII1 (250-253)TII2 (253-256)S12 (278-283)S16 (311-316)TI6 (273-276)TVIII4 (262-265)S11 (267-272)TI11 (350-353)TI5 (272-275)TIV6 (288-291)S13 (286-288)TI8 (306-309)S14 (293-295)TI7 (289-292)TIV7 (295-298)S15 (300-306)TIV9 (330-333)TI10 (329-332)TIV8 (316-319)TVIII5 (327-330)S22 (375-381)TI9 (317-320)S17 (321-326)TIV12 (384-387)TI14 (408-411)S24 (401-408)TIV10 (341-344)S18 (334-339)3H4 (361-363)S19 (344-349)S20 (355-360)S21 (365-370)S23 (387-397)TIV11 (370-373)TI13 (397-400)S26 (430-436)3H5 (425-427)TIV14 (420-423)TI15 (421-424)AH1 (139-145)TI2 (205-208)Updating...
connected with : NaN
molecule tags Oxidoreductase
publication title Haem-ligand switching during catalysis in crystals of a nitrogen-cycle enzyme.
pubmed doi rcsb
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
1BL9A 1H9YA 1HCMA 1QKSA 1HJ5A 1DY7A 1GQ1A 1GJQA 1H9XA 1NNOA 1HJ3A 1N15A 1AOMA 1E2RA 1AOQA 1NIRA 1N90A 1HZUA 1HJ4A 1AOFA 1HZVA 1N50A
chains in the Genus database with same CATH superfamily
1PFQA 2IITA 2OAEA 1H9YA 4MAEA 3OC0A 1QKSA 3VJLA 3QBJA 2AD7A 1R9NA 2BGRA 2EEPA 4TQOA 1GQ1A 4DTCA 4WJLA 3G0CA 2QOEA 1TKRA 4A5SA 4FFVA 2IIVA 2JIDA 1AOMA 3SX4A 1E2RA 1KB0A 5LLSA 2RGUA 1KV9A 4DSZA 2QTBA 2AJLI 1N90A 4L72A 4AAHA 1HZVA 1ORVA 2OGZA 3H0CA 2D0VA 3CCCA 2OPHA 1BL9A 3SWWA 1HCMA 3G0BA 3NOXA 1W6SA 1H9XA 3VJKA 4JH0A 4G1FA 2OQVA 4QZVA 3O9VA 2G5TA 1H4IA 2BUBA 3F8SA 2HHAA 1LRWA 1RWQA 2I78A 3G0GA 1G72A 1AOQA 2AJBA 1NIRA 3EIOA 2I3ZA 1XFDA 3KWFA 2GBCA 1NU6A 5KBYA 2GBFA 2I03A 2AD6A 3Q8WA 5ISMA 5T4BA 4N8DA 1HJ4A 2ONCA 2FJPA 3CCBA 3O95A 3Q0TA 3D4LA 3OPMA 1H4JA 3G0DA 1HJ5A 3KWJA 4FFWA 1DY7A 2GBGA 2D5LA 1YIQA 4CVCA 1GJQA 5I7UA 1NNOA 2G5PA 1X70A 3C43A 2QKYA 3HABA 2AJCA 4DSAA 4N8EA 2DCMA 3HACA 2GBIA 2G63A 2QT9A 1N1MA 4LKOA 1NU8A 5J3JA 2P8SA 2AD8A 1AOFA 2OLEA 1TK3A 3WQHA 2AJ8A 2QJRA 3C45A 1Z68A 5T4EA 1J2EA 4KR0A 2Z3WA 4Q1VA 1WCYA 2BGNA 2OAGA 4PNZA 1HJ3A 2BUAA 2RIPA 5T4HA 2BUCA 4J3JA 1W1IA 4MH1A 1FLGA 1N15A 3W2TA 2AJDA 3VJMA 1U8EA 4CVBA 2ECFA 1ORWA 1R9MA 4PV7A 5T4FA 1HZUA 2OQIA 3BJMA 2Z3ZA 1N50A
chains in the Genus database with same CATH topology
1BL9A 1H9YA 1HCMA 1QKSA 1HJ5A 1DY7A 1GQ1A 1GJQA 1H9XA 1NNOA 1HJ3A 1N15A 1AOMA 1E2RA 1AOQA 1NIRA 1N90A 1HZUA 1HJ4A 1AOFA 1HZVA 1N50A
chains in the Genus database with same CATH homology


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