3GZYA

Crystal structure of the biphenyl dioxygenase from comamonas testosteroni sp. strain b-356
Total Genus 156
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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
156
sequence length
440
structure length
440
Chain Sequence
NWTPDAIRALVDQDNGKLDARIYADQDLYQLELERVFGRSWLMLGHETHIPKIGDYLTTYMGEDPVIMVRQKDQSIKVFLNQCRHRGMRIVRSDGGNAKAFTCTYHGWAYDIAGNLVNVPFEKEAFCDKKEGDCGFDKADWGPLQARVETYKGLVFANWDPEAPDLKTYLSDAMPYMDVMLDRTEAGTEAIGGIQKWVIPCNWKFAAEQFCSDMYHAGTMSHLSGVLAGLPPEMDLTQIQLSKNGNQFRSAWGGHGAGWFINDSSILLSVVGPKITQYWTQGPAAEKAARRVPQLPILDMFGQHMTVFPTCSFLPGINTIRTWHPRGPNEVEVWAFVLVDADAPEDIKEEFRLQNIRTFNAGGVFEQDDGENWVEIQRVMRGHKAKSTSLCAKMGLNVPNKNNPAYPGKTAYVYAEEAARGMYHHWSRMMSEPSWDTLKP
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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 keywords Biphenyl dioxygenase subunit alpha
publication title Structural Characterization of Pandoraea pnomenusa B-356 Biphenyl Dioxygenase Reveals Features of Potent Polychlorinated Biphenyl-Degrading Enzymes
pubmed doi rcsb
source organism Comamonas testosteroni
molecule tags Oxidoreductase
total genus 156
structure length 440
sequence length 440
ec nomenclature ec 1.14.12.18: Biphenyl 2,3-dioxygenase.
pdb deposition date 2009-04-08

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 3gzyA02
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 3gzyA01
3VMGD 2FYUE 2BMOA 2E4PA 2BMRA 4OGQD 2GBXA 2YFJA 3L70E 1Z02A 3FOUA 4HM4A 1Q90C 4H0LD 3GCEA 1UUVA 2CKFA 3EN1A 2XSHA 3GL2A 4HM5A 3H1KE 2YVJB 2Q3WA 4HM7A 3GTEA 4U3FE 1SQPE 3D89A 1SQQE 3VMHD 5AEUA 2GBWA 2HMOA 4HM8A 2DE5D 2IBZE 4NB9D 2QJPC 4NBED 4QCKA 1NU1E 4AIVA 1ULJA 2BMQA 3VMID 2ZT9D 3GTSA 2YFLA 1WW9A 2NUKA 2XRXA 5CXMA 1WQLA 1KYOE 1O7HA 1NTKE 3GCFA 3H1JE 3VMHA 1VM9A 1BE3E 2ZYLA 1SQVE 4QDDA 4HM0A 4P1BH 5KKZC 4EMJB 2DE5A 1BCCE 4NBEA 2YFIA 2XSOA 2BCCE 1EZVE 4NBAD 4NB9A 1PP9E 1EG9A 4H44D 1SJGA 1L0LE 4QDFA 4QURA 3VCPA 3DQYA 3H1HE 3VMGA 4NBAA 2B1XA 4NBDD 4QUPA 3N0QA 4HM3A 1RFSA 4AAYB 4NBGD 3GKEA 5AEWA 2B24A 2D2CD 2JZAA 2NVGA 3TGUE 3L71E 2QJKC 3H1LE 4NBFD 3GB4A 2HMMA 4HJLA 4NBHD 1O7MA 4HM2A 3C0DA 3GZYA 4NBBD 3L72E 3CXHE 4QDCA 3VMIA 1ZRTE 5KLIC 1G8JB 3GL0A 3GOBA 2E4QA 2QPZA 4QDFB 1RIEA 4NBFA 4NBHA 3L74E 2XR8A 3EQQA 1JM1A 1FQTA 1SQBE 2E75D 1O7PA 1UUWA 2FYNC 3L75E 2QJYC 4H13D 1G8KB 5HL4A 1O7WA 4NBBA 1NDOA 3CWBE 4HM6A 1VCKA 3AZCA 3GZXA 1KB9E 2DE6D 2JO6A 4NB8D 4HM1A 1Z01A 2NVEA 4NBDA 2DE7D 4PD4E 1PPJE 2E74D 4NBGA 4NBCD 2I7FA 3CX5E 2HMKA 3H1IE 4P1CH 4QUQA 1ULIA 3GKQA 2NWFA 5KLVE 2DE6A 1O7GA 4NB8A 2HMLA 2NVFA 4HKVA 1NTME 2A06E 2E76D 3L73E 2DE7A 1O7NA 1L0NE 2HMNA 1SQXE 3VCAA 1NYKA 4NBCA 1VF5D 5BOKA 3BCCE 2NUMA 1P84E 1Z03A 4PV1D 2HMJA 1NTZE 2YIUC
chains in the Genus database with same CATH superfamily
3VMGD 2FYUE 2BMOA 2E4PA 2BMRA 4OGQD 2GBXA 2YFJA 3L70E 1Z02A 3FOUA 4HM4A 1Q90C 4H0LD 3GCEA 1UUVA 2CKFA 3EN1A 2XSHA 3GL2A 4HM5A 3H1KE 2YVJB 2Q3WA 4HM7A 3GTEA 4U3FE 1SQPE 3D89A 1SQQE 3VMHD 5AEUA 2GBWA 2HMOA 4HM8A 2DE5D 2IBZE 4NB9D 2QJPC 4NBED 4QCKA 1NU1E 4AIVA 1ULJA 2BMQA 3VMID 2ZT9D 3GTSA 2YFLA 1WW9A 2NUKA 2XRXA 5CXMA 1WQLA 1KYOE 1O7HA 1NTKE 3GCFA 3H1JE 3VMHA 1VM9A 1BE3E 2ZYLA 1SQVE 4QDDA 4HM0A 4P1BH 5KKZC 4EMJB 2DE5A 1BCCE 4NBEA 2YFIA 2XSOA 2BCCE 1EZVE 4NBAD 4NB9A 1PP9E 1EG9A 4H44D 1SJGA 1L0LE 4QDFA 4QURA 3VCPA 3DQYA 3H1HE 3VMGA 4NBAA 2B1XA 4NBDD 4QUPA 3N0QA 4HM3A 1RFSA 4AAYB 4NBGD 3GKEA 5AEWA 2B24A 2D2CD 2JZAA 2NVGA 3TGUE 3L71E 2QJKC 3H1LE 4NBFD 3GB4A 2HMMA 4HJLA 4NBHD 1O7MA 4HM2A 3C0DA 3GZYA 4NBBD 3L72E 3CXHE 4QDCA 3VMIA 1ZRTE 5KLIC 1G8JB 3GL0A 3GOBA 2E4QA 2QPZA 4QDFB 1RIEA 4NBFA 4NBHA 3L74E 2XR8A 3EQQA 1JM1A 1FQTA 1SQBE 2E75D 1O7PA 1UUWA 2FYNC 3L75E 2QJYC 4H13D 1G8KB 5HL4A 1O7WA 4NBBA 1NDOA 3CWBE 4HM6A 1VCKA 3AZCA 3GZXA 1KB9E 2DE6D 2JO6A 4NB8D 4HM1A 1Z01A 2NVEA 4NBDA 2DE7D 4PD4E 1PPJE 2E74D 4NBGA 4NBCD 2I7FA 3CX5E 2HMKA 3H1IE 4P1CH 4QUQA 1ULIA 3GKQA 2NWFA 5KLVE 2DE6A 1O7GA 4NB8A 2HMLA 2NVFA 4HKVA 1NTME 2A06E 2E76D 3L73E 2DE7A 1O7NA 1L0NE 2HMNA 1SQXE 3VCAA 1NYKA 4NBCA 1VF5D 5BOKA 3BCCE 2NUMA 1P84E 1Z03A 4PV1D 2HMJA 1NTZE 2YIUC
chains in the Genus database with same CATH topology
3VMGD 2FYUE 2BMOA 2E4PA 2BMRA 4OGQD 2GBXA 2YFJA 3L70E 1Z02A 3FOUA 4HM4A 1Q90C 4H0LD 3GCEA 1UUVA 2CKFA 3EN1A 2XSHA 3GL2A 4HM5A 3H1KE 2YVJB 2Q3WA 4HM7A 3GTEA 4U3FE 1SQPE 3D89A 1SQQE 3VMHD 5AEUA 2GBWA 2HMOA 4HM8A 2DE5D 2IBZE 4NB9D 2QJPC 4NBED 4QCKA 1NU1E 4AIVA 1ULJA 2BMQA 3VMID 2ZT9D 3GTSA 2YFLA 1WW9A 2NUKA 2XRXA 5CXMA 1WQLA 1KYOE 1O7HA 1NTKE 3GCFA 3H1JE 3VMHA 1VM9A 1BE3E 2ZYLA 1SQVE 4QDDA 4HM0A 4P1BH 5KKZC 4EMJB 2DE5A 1BCCE 4NBEA 2YFIA 2XSOA 2BCCE 1EZVE 4NBAD 4NB9A 1PP9E 1EG9A 4H44D 1SJGA 1L0LE 4QDFA 4QURA 3VCPA 3DQYA 3H1HE 3VMGA 4NBAA 2B1XA 4NBDD 4QUPA 3N0QA 4HM3A 1RFSA 4AAYB 4NBGD 3GKEA 5AEWA 2B24A 2D2CD 2JZAA 2NVGA 3TGUE 3L71E 2QJKC 3H1LE 4NBFD 3GB4A 2HMMA 4HJLA 4NBHD 1O7MA 4HM2A 3C0DA 3GZYA 4NBBD 3L72E 3CXHE 4QDCA 3VMIA 1ZRTE 5KLIC 1G8JB 3GL0A 3GOBA 2E4QA 2QPZA 4QDFB 1RIEA 4NBFA 4NBHA 3L74E 2XR8A 3EQQA 1JM1A 1FQTA 1SQBE 2E75D 1O7PA 1UUWA 2FYNC 3L75E 2QJYC 4H13D 1G8KB 5HL4A 1O7WA 4NBBA 1NDOA 3CWBE 4HM6A 1VCKA 3AZCA 3GZXA 1KB9E 2DE6D 2JO6A 4NB8D 4HM1A 1Z01A 2NVEA 4NBDA 2DE7D 4PD4E 1PPJE 2E74D 4NBGA 4NBCD 2I7FA 3CX5E 2HMKA 3H1IE 4P1CH 4QUQA 1ULIA 3GKQA 2NWFA 5KLVE 2DE6A 1O7GA 4NB8A 2HMLA 2NVFA 4HKVA 1NTME 2A06E 2E76D 3L73E 2DE7A 1O7NA 1L0NE 2HMNA 1SQXE 3VCAA 1NYKA 4NBCA 1VF5D 5BOKA 3BCCE 2NUMA 1P84E 1Z03A 4PV1D 2HMJA 1NTZE 2YIUC
chains in the Genus database with same CATH homology


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