2HMKA

Crystal structure of naphthalene 1,2-dioxygenase bound to phenanthrene
Total Genus 162
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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
162
sequence length
446
structure length
446
Chain Sequence
MNYNNKILVSESGLSQKHLIHGDEELFQHELKTIFARNWLFLTHDSLIPAPGDYVTAKMGIDEVIVSRQNDGSIRAFLNVCRHRGKTLVSVEAGNAKGFVCSYHGWGFGSNGELQSVPFEKDLYGESLNKKCLGLKEVARVESFHGFIYGCFDQEAPPLMDYLGDAAWYLEPMFKHSGGLELVGPPGKVVIKANWKAPAENFVGDAYHVGWTHASSLRSGESIFSSLAGNAALPPEGAGLQMTSKYGSGMGVLWDGYSGVHSADLVPELMAFGGAKQERLNKEIGDVRARIYRSHLNCTVFPNNSMLTCSGVFKVWNPIDANTTEVWTYAIVEKDMPEDLKRRLADSVQRTFGPAGFWESDDNDNMETASQNGKKYQSRDSDLLSNLGFGEDVYGDAVYPGVVGKSAIGETSYRGFYRAYQAHVSSSNWAEFEHASSTWHTELTKT
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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.

molecule tags Oxidoreductase
molecule keywords Naphthalene 1,2-dioxygenase alpha subunit
publication title Structural basis for regioselectivity and stereoselectivity of product formation by naphthalene 1,2-dioxygenase.
pubmed doi rcsb
source organism Pseudomonas sp.
total genus 162
structure length 446
sequence length 446
ec nomenclature ec 1.14.12.12: Naphthalene 1,2-dioxygenase.
pdb deposition date 2006-07-11

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF00355 Rieske Rieske [2Fe-2S] domain
A PF00848 Ring_hydroxyl_A Ring hydroxylating alpha subunit (catalytic domain)
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
2.102.10.10 Mainly Beta 3-layer Sandwich Rieske Iron-sulfur Protein Rieske [2Fe-2S] iron-sulphur domain 2hmkA02
3.90.380.10 Alpha Beta Alpha-Beta Complex Naphthalene 1,2-dioxygenase Alpha Subunit; Chain A, domain 1 Naphthalene 1,2-dioxygenase Alpha Subunit; Chain A, domain 1 2hmkA01
4NBFA 3EN1A 3TGUE 4OGQD 3FOUA 1NTME 4PV1D 4EMJB 2YFJA 2NVGA 4QURA 2E74D 2QPZA 1EZVE 1NDOA 2XSHA 4QDFB 2NVFA 3H1JE 4HJLA 4NBBD 1NU1E 1UUVA 1FQTA 2B24A 4HM4A 4QDCA 2HMNA 1SJGA 2HMLA 1NTKE 4HM6A 3GTSA 3L74E 4P1CH 5AEWA 4HKVA 2BMRA 4AIVA 2IBZE 1L0NE 3CWBE 1G8JB 2BCCE 4QUPA 5HL4A 1SQVE 1VM9A 4QDFA 2QJPC 3L75E 4HM0A 2FYNC 4AAYB 1G8KB 3GKEA 1Z03A 4NB8D 4NBBA 2E4QA 1Q90C 2DE6D 2NUMA 3GZYA 4NBED 2JO6A 5KLVE 4NBHA 1O7NA 3VCAA 1VCKA 3GOBA 4HM8A 5CXMA 1O7WA 2I7FA 4HM7A 4NB9D 1BCCE 2D2CD 1BE3E 4NBAD 2GBWA 3H1LE 4H0LD 2CKFA 1VF5D 1ULJA 4H44D 1ZRTE 1Z02A 1NTZE 3CXHE 1KYOE 4NB8A 2BMQA 2E76D 3VMGD 2XR8A 4QCKA 4NBCD 2GBXA 2NVEA 1SQPE 2XSOA 4H13D 2YIUC 1O7GA 3L71E 1NYKA 2HMKA 3GZXA 3H1HE 3GL2A 3GCFA 1UUWA 4NBGD 2NWFA 3L72E 3L70E 1RFSA 4NBAA 1EG9A 3VMID 3L73E 4NBCA 2YFLA 4HM3A 4NBDD 3GB4A 1PP9E 3GKQA 2YFIA 4P1BH 2HMMA 3BCCE 2DE5D 4QUQA 3VMHD 1WW9A 2DE7D 2A06E 2HMOA 4HM5A 5KKZC 2DE6A 1O7PA 2ZT9D 3C0DA 2YVJB 3D89A 4NBEA 2XRXA 1Z01A 2FYUE 3GCEA 1O7HA 1SQQE 2E4PA 5AEUA 3H1IE 2B1XA 2Q3WA 3VMIA 2BMOA 3VCPA 1RIEA 3DQYA 1WQLA 4NBDA 4NB9A 2JZAA 3EQQA 4QDDA 5BOKA 2QJYC 2QJKC 4NBFD 2DE5A 5KLIC 3VMHA 1PPJE 2DE7A 4HM1A 1KB9E 3GL0A 4HM2A 2E75D 3VMGA 3CX5E 2HMJA 2ZYLA 1P84E 4NBHD 3GTEA 4U3FE 3N0QA 2NUKA 1O7MA 1L0LE 3AZCA 4NBGA 1ULIA 1SQBE 4PD4E 3H1KE 1SQXE 1JM1A
chains in the Genus database with same CATH superfamily
4NBFA 3EN1A 3TGUE 4OGQD 3FOUA 1NTME 4PV1D 4EMJB 2YFJA 2NVGA 4QURA 2E74D 2QPZA 1EZVE 1NDOA 2XSHA 4QDFB 2NVFA 3H1JE 4HJLA 4NBBD 1NU1E 1UUVA 1FQTA 2B24A 4HM4A 4QDCA 2HMNA 1SJGA 2HMLA 1NTKE 4HM6A 3GTSA 3L74E 4P1CH 5AEWA 4HKVA 2BMRA 4AIVA 2IBZE 1L0NE 3CWBE 1G8JB 2BCCE 4QUPA 5HL4A 1SQVE 1VM9A 4QDFA 2QJPC 3L75E 4HM0A 2FYNC 4AAYB 1G8KB 3GKEA 1Z03A 4NB8D 4NBBA 2E4QA 1Q90C 2DE6D 2NUMA 3GZYA 4NBED 2JO6A 5KLVE 4NBHA 1O7NA 3VCAA 1VCKA 3GOBA 4HM8A 5CXMA 1O7WA 2I7FA 4HM7A 4NB9D 1BCCE 2D2CD 1BE3E 4NBAD 2GBWA 3H1LE 4H0LD 2CKFA 1VF5D 1ULJA 4H44D 1ZRTE 1Z02A 1NTZE 3CXHE 1KYOE 4NB8A 2BMQA 2E76D 3VMGD 2XR8A 4QCKA 4NBCD 2GBXA 2NVEA 1SQPE 2XSOA 4H13D 2YIUC 1O7GA 3L71E 1NYKA 2HMKA 3GZXA 3H1HE 3GL2A 3GCFA 1UUWA 4NBGD 2NWFA 3L72E 3L70E 1RFSA 4NBAA 1EG9A 3VMID 3L73E 4NBCA 2YFLA 4HM3A 4NBDD 3GB4A 1PP9E 3GKQA 2YFIA 4P1BH 2HMMA 3BCCE 2DE5D 4QUQA 3VMHD 1WW9A 2DE7D 2A06E 2HMOA 4HM5A 5KKZC 2DE6A 1O7PA 2ZT9D 3C0DA 2YVJB 3D89A 4NBEA 2XRXA 1Z01A 2FYUE 3GCEA 1O7HA 1SQQE 2E4PA 5AEUA 3H1IE 2B1XA 2Q3WA 3VMIA 2BMOA 3VCPA 1RIEA 3DQYA 1WQLA 4NBDA 4NB9A 2JZAA 3EQQA 4QDDA 5BOKA 2QJYC 2QJKC 4NBFD 2DE5A 5KLIC 3VMHA 1PPJE 2DE7A 4HM1A 1KB9E 3GL0A 4HM2A 2E75D 3VMGA 3CX5E 2HMJA 2ZYLA 1P84E 4NBHD 3GTEA 4U3FE 3N0QA 2NUKA 1O7MA 1L0LE 3AZCA 4NBGA 1ULIA 1SQBE 4PD4E 3H1KE 1SQXE 1JM1A
chains in the Genus database with same CATH topology
4NBFA 3EN1A 3TGUE 4OGQD 3FOUA 1NTME 4PV1D 4EMJB 2YFJA 2NVGA 4QURA 2E74D 2QPZA 1EZVE 1NDOA 2XSHA 4QDFB 2NVFA 3H1JE 4HJLA 4NBBD 1NU1E 1UUVA 1FQTA 2B24A 4HM4A 4QDCA 2HMNA 1SJGA 2HMLA 1NTKE 4HM6A 3GTSA 3L74E 4P1CH 5AEWA 4HKVA 2BMRA 4AIVA 2IBZE 1L0NE 3CWBE 1G8JB 2BCCE 4QUPA 5HL4A 1SQVE 1VM9A 4QDFA 2QJPC 3L75E 4HM0A 2FYNC 4AAYB 1G8KB 3GKEA 1Z03A 4NB8D 4NBBA 2E4QA 1Q90C 2DE6D 2NUMA 3GZYA 4NBED 2JO6A 5KLVE 4NBHA 1O7NA 3VCAA 1VCKA 3GOBA 4HM8A 5CXMA 1O7WA 2I7FA 4HM7A 4NB9D 1BCCE 2D2CD 1BE3E 4NBAD 2GBWA 3H1LE 4H0LD 2CKFA 1VF5D 1ULJA 4H44D 1ZRTE 1Z02A 1NTZE 3CXHE 1KYOE 4NB8A 2BMQA 2E76D 3VMGD 2XR8A 4QCKA 4NBCD 2GBXA 2NVEA 1SQPE 2XSOA 4H13D 2YIUC 1O7GA 3L71E 1NYKA 2HMKA 3GZXA 3H1HE 3GL2A 3GCFA 1UUWA 4NBGD 2NWFA 3L72E 3L70E 1RFSA 4NBAA 1EG9A 3VMID 3L73E 4NBCA 2YFLA 4HM3A 4NBDD 3GB4A 1PP9E 3GKQA 2YFIA 4P1BH 2HMMA 3BCCE 2DE5D 4QUQA 3VMHD 1WW9A 2DE7D 2A06E 2HMOA 4HM5A 5KKZC 2DE6A 1O7PA 2ZT9D 3C0DA 2YVJB 3D89A 4NBEA 2XRXA 1Z01A 2FYUE 3GCEA 1O7HA 1SQQE 2E4PA 5AEUA 3H1IE 2B1XA 2Q3WA 3VMIA 2BMOA 3VCPA 1RIEA 3DQYA 1WQLA 4NBDA 4NB9A 2JZAA 3EQQA 4QDDA 5BOKA 2QJYC 2QJKC 4NBFD 2DE5A 5KLIC 3VMHA 1PPJE 2DE7A 4HM1A 1KB9E 3GL0A 4HM2A 2E75D 3VMGA 3CX5E 2HMJA 2ZYLA 1P84E 4NBHD 3GTEA 4U3FE 3N0QA 2NUKA 1O7MA 1L0LE 3AZCA 4NBGA 1ULIA 1SQBE 4PD4E 3H1KE 1SQXE 1JM1A
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 4NBF A;  3EN1 A;  3TGU E;  4OGQ D;  3FOU A;  1NTM E;  4PV1 D;  4EMJ B;  2YFJ A;  2NVG A;  4QUR A;  2E74 D;  2QPZ A;  1EZV E;  1NDO A;  2XSH A;  4QDF B;  2NVF A;  3H1J E;  4HJL A;  4NBB D;  1NU1 E;  1UUV A;  1FQT A;  2B24 A;  4HM4 A;  4QDC A;  2HMN A;  1SJG A;  2HML A;  1NTK E;  4HM6 A;  3GTS A;  3L74 E;  4P1C H;  5AEW A;  4HKV A;  2BMR A;  4AIV A;  2IBZ E;  1L0N E;  3CWB E;  1G8J B;  2BCC E;  4QUP A;  5HL4 A;  1SQV E;  1VM9 A;  4QDF A;  2QJP C;  3L75 E;  4HM0 A;  2FYN C;  4AAY B;  1G8K B;  3GKE A;  1Z03 A;  4NB8 D;  4NBB A;  2E4Q A;  1Q90 C;  2DE6 D;  2NUM A;  3GZY A;  4NBE D;  2JO6 A;  5KLV E;  4NBH A;  1O7N A;  3VCA A;  1VCK A;  3GOB A;  4HM8 A;  5CXM A;  1O7W A;  2I7F A;  4HM7 A;  4NB9 D;  1BCC E;  2D2C D;  1BE3 E;  4NBA D;  2GBW A;  3H1L E;  4H0L D;  2CKF A;  1VF5 D;  1ULJ A;  4H44 D;  1ZRT E;  1Z02 A;  1NTZ E;  3CXH E;  1KYO E;  4NB8 A;  2BMQ A;  2E76 D;  3VMG D;  2XR8 A;  4QCK A;  4NBC D;  2GBX A;  2NVE A;  1SQP E;  2XSO A;  4H13 D;  2YIU C;  1O7G A;  3L71 E;  1NYK A;  2HMK A;  3GZX A;  3H1H E;  3GL2 A;  3GCF A;  1UUW A;  4NBG D;  2NWF A;  3L72 E;  3L70 E;  1RFS A;  4NBA A;  1EG9 A;  3VMI D;  3L73 E;  4NBC A;  2YFL A;  4HM3 A;  4NBD D;  3GB4 A;  1PP9 E;  3GKQ A;  2YFI A;  4P1B H;  2HMM A;  3BCC E;  2DE5 D;  4QUQ A;  3VMH D;  1WW9 A;  2DE7 D;  2A06 E;  2HMO A;  4HM5 A;  5KKZ C;  2DE6 A;  1O7P A;  2ZT9 D;  3C0D A;  2YVJ B;  3D89 A;  4NBE A;  2XRX A;  1Z01 A;  2FYU E;  3GCE A;  1O7H A;  1SQQ E;  2E4P A;  5AEU A;  3H1I E;  2B1X A;  2Q3W A;  3VMI A;  2BMO A;  3VCP A;  1RIE A;  3DQY A;  1WQL A;  4NBD A;  4NB9 A;  2JZA A;  3EQQ A;  4QDD A;  5BOK A;  2QJY C;  2QJK C;  4NBF D;  2DE5 A;  5KLI C;  3VMH A;  1PPJ E;  2DE7 A;  4HM1 A;  1KB9 E;  3GL0 A;  4HM2 A;  2E75 D;  3VMG A;  3CX5 E;  2HMJ A;  2ZYL A;  1P84 E;  4NBH D;  3GTE A;  4U3F E;  3N0Q A;  2NUK A;  1O7M A;  1L0L E;  3AZC A;  4NBG A;  1ULI A;  1SQB E;  4PD4 E;  3H1K E;  1SQX E;  1JM1 A; 
#chains in the Genus database with same CATH topology
 4NBF A;  3EN1 A;  3TGU E;  4OGQ D;  3FOU A;  1NTM E;  4PV1 D;  4EMJ B;  2YFJ A;  2NVG A;  4QUR A;  2E74 D;  2QPZ A;  1EZV E;  1NDO A;  2XSH A;  4QDF B;  2NVF A;  3H1J E;  4HJL A;  4NBB D;  1NU1 E;  1UUV A;  1FQT A;  2B24 A;  4HM4 A;  4QDC A;  2HMN A;  1SJG A;  2HML A;  1NTK E;  4HM6 A;  3GTS A;  3L74 E;  4P1C H;  5AEW A;  4HKV A;  2BMR A;  4AIV A;  2IBZ E;  1L0N E;  3CWB E;  1G8J B;  2BCC E;  4QUP A;  5HL4 A;  1SQV E;  1VM9 A;  4QDF A;  2QJP C;  3L75 E;  4HM0 A;  2FYN C;  4AAY B;  1G8K B;  3GKE A;  1Z03 A;  4NB8 D;  4NBB A;  2E4Q A;  1Q90 C;  2DE6 D;  2NUM A;  3GZY A;  4NBE D;  2JO6 A;  5KLV E;  4NBH A;  1O7N A;  3VCA A;  1VCK A;  3GOB A;  4HM8 A;  5CXM A;  1O7W A;  2I7F A;  4HM7 A;  4NB9 D;  1BCC E;  2D2C D;  1BE3 E;  4NBA D;  2GBW A;  3H1L E;  4H0L D;  2CKF A;  1VF5 D;  1ULJ A;  4H44 D;  1ZRT E;  1Z02 A;  1NTZ E;  3CXH E;  1KYO E;  4NB8 A;  2BMQ A;  2E76 D;  3VMG D;  2XR8 A;  4QCK A;  4NBC D;  2GBX A;  2NVE A;  1SQP E;  2XSO A;  4H13 D;  2YIU C;  1O7G A;  3L71 E;  1NYK A;  2HMK A;  3GZX A;  3H1H E;  3GL2 A;  3GCF A;  1UUW A;  4NBG D;  2NWF A;  3L72 E;  3L70 E;  1RFS A;  4NBA A;  1EG9 A;  3VMI D;  3L73 E;  4NBC A;  2YFL A;  4HM3 A;  4NBD D;  3GB4 A;  1PP9 E;  3GKQ A;  2YFI A;  4P1B H;  2HMM A;  3BCC E;  2DE5 D;  4QUQ A;  3VMH D;  1WW9 A;  2DE7 D;  2A06 E;  2HMO A;  4HM5 A;  5KKZ C;  2DE6 A;  1O7P A;  2ZT9 D;  3C0D A;  2YVJ B;  3D89 A;  4NBE A;  2XRX A;  1Z01 A;  2FYU E;  3GCE A;  1O7H A;  1SQQ E;  2E4P A;  5AEU A;  3H1I E;  2B1X A;  2Q3W A;  3VMI A;  2BMO A;  3VCP A;  1RIE A;  3DQY A;  1WQL A;  4NBD A;  4NB9 A;  2JZA A;  3EQQ A;  4QDD A;  5BOK A;  2QJY C;  2QJK C;  4NBF D;  2DE5 A;  5KLI C;  3VMH A;  1PPJ E;  2DE7 A;  4HM1 A;  1KB9 E;  3GL0 A;  4HM2 A;  2E75 D;  3VMG A;  3CX5 E;  2HMJ A;  2ZYL A;  1P84 E;  4NBH D;  3GTE A;  4U3F E;  3N0Q A;  2NUK A;  1O7M A;  1L0L E;  3AZC A;  4NBG A;  1ULI A;  1SQB E;  4PD4 E;  3H1K E;  1SQX E;  1JM1 A; 
#chains in the Genus database with same CATH homology
 4NBF A;  3EN1 A;  3TGU E;  4OGQ D;  3FOU A;  1NTM E;  4PV1 D;  4EMJ B;  2YFJ A;  2NVG A;  4QUR A;  2E74 D;  2QPZ A;  1EZV E;  1NDO A;  2XSH A;  4QDF B;  2NVF A;  3H1J E;  4HJL A;  4NBB D;  1NU1 E;  1UUV A;  1FQT A;  2B24 A;  4HM4 A;  4QDC A;  2HMN A;  1SJG A;  2HML A;  1NTK E;  4HM6 A;  3GTS A;  3L74 E;  4P1C H;  5AEW A;  4HKV A;  2BMR A;  4AIV A;  2IBZ E;  1L0N E;  3CWB E;  1G8J B;  2BCC E;  4QUP A;  5HL4 A;  1SQV E;  1VM9 A;  4QDF A;  2QJP C;  3L75 E;  4HM0 A;  2FYN C;  4AAY B;  1G8K B;  3GKE A;  1Z03 A;  4NB8 D;  4NBB A;  2E4Q A;  1Q90 C;  2DE6 D;  2NUM A;  3GZY A;  4NBE D;  2JO6 A;  5KLV E;  4NBH A;  1O7N A;  3VCA A;  1VCK A;  3GOB A;  4HM8 A;  5CXM A;  1O7W A;  2I7F A;  4HM7 A;  4NB9 D;  1BCC E;  2D2C D;  1BE3 E;  4NBA D;  2GBW A;  3H1L E;  4H0L D;  2CKF A;  1VF5 D;  1ULJ A;  4H44 D;  1ZRT E;  1Z02 A;  1NTZ E;  3CXH E;  1KYO E;  4NB8 A;  2BMQ A;  2E76 D;  3VMG D;  2XR8 A;  4QCK A;  4NBC D;  2GBX A;  2NVE A;  1SQP E;  2XSO A;  4H13 D;  2YIU C;  1O7G A;  3L71 E;  1NYK A;  2HMK A;  3GZX A;  3H1H E;  3GL2 A;  3GCF A;  1UUW A;  4NBG D;  2NWF A;  3L72 E;  3L70 E;  1RFS A;  4NBA A;  1EG9 A;  3VMI D;  3L73 E;  4NBC A;  2YFL A;  4HM3 A;  4NBD D;  3GB4 A;  1PP9 E;  3GKQ A;  2YFI A;  4P1B H;  2HMM A;  3BCC E;  2DE5 D;  4QUQ A;  3VMH D;  1WW9 A;  2DE7 D;  2A06 E;  2HMO A;  4HM5 A;  5KKZ C;  2DE6 A;  1O7P A;  2ZT9 D;  3C0D A;  2YVJ B;  3D89 A;  4NBE A;  2XRX A;  1Z01 A;  2FYU E;  3GCE A;  1O7H A;  1SQQ E;  2E4P A;  5AEU A;  3H1I E;  2B1X A;  2Q3W A;  3VMI A;  2BMO A;  3VCP A;  1RIE A;  3DQY A;  1WQL A;  4NBD A;  4NB9 A;  2JZA A;  3EQQ A;  4QDD A;  5BOK A;  2QJY C;  2QJK C;  4NBF D;  2DE5 A;  5KLI C;  3VMH A;  1PPJ E;  2DE7 A;  4HM1 A;  1KB9 E;  3GL0 A;  4HM2 A;  2E75 D;  3VMG A;  3CX5 E;  2HMJ A;  2ZYL A;  1P84 E;  4NBH D;  3GTE A;  4U3F E;  3N0Q A;  2NUK A;  1O7M A;  1L0L E;  3AZC A;  4NBG A;  1ULI A;  1SQB E;  4PD4 E;  3H1K E;  1SQX E;  1JM1 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)

 
#similar chains in the Genus database (?% sequence similarity)
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#similar chains, but unknotted
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#similar chains in the pdb database (?% sequence similarity)
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