3GZXA

Crystal structure of the biphenyl dioxygenase in complex with biphenyl from comamonas testosteroni sp. strain b-356
Total Genus 144
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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
144
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 144
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 3gzxA02
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 3gzxA01
3C0DA 3H1IE 4NBCD 3FOUA 3GKEA 3L71E 2E4QA 2XR8A 1VM9A 2BMQA 2YFLA 3GL0A 3H1JE 4QDDA 3TGUE 4NB8A 1NU1E 2GBWA 4HM2A 2HMLA 2DE5D 4QDCA 4NBEA 1G8KB 4HM0A 1O7HA 1O7NA 1PP9E 4HM5A 4NBCA 2QJYC 1UUWA 4NBFA 2XRXA 3L75E 4HM3A 4NB9D 1O7GA 2YFIA 4HM4A 1Q90C 3DQYA 2E74D 2B24A 3H1HE 1Z02A 3VMHD 2I7FA 3GZYA 5CXMA 4HM1A 1ZRTE 4HM6A 2XSOA 4NBAD 1EZVE 1VF5D 2NUKA 3CWBE 1BCCE 3CXHE 1O7WA 2BMOA 4QDFB 2BMRA 1NTKE 2BCCE 2HMNA 2HMJA 1EG9A 3CX5E 1P84E 4NBBD 4NBDA 2Q3WA 3GTSA 5HL4A 4QUQA 4AIVA 2CKFA 1VCKA 2E76D 4NBGD 3H1LE 2DE6D 2NVGA 1SQPE 1NTME 1O7MA 2DE5A 3GCEA 3H1KE 2QJPC 1KB9E 4NBGA 3VMID 2DE6A 3VMGA 1L0NE 2ZYLA 4QURA 4AAYB 4NB9A 5KKZC 4NBHD 2NWFA 2YIUC 4P1CH 1Z01A 2HMKA 2A06E 2QJKC 3VMHA 2DE7D 2NVFA 1WQLA 1NTZE 1WW9A 4NBAA 4U3FE 3AZCA 2QPZA 1ULJA 4H0LD 1Z03A 3GZXA 3GL2A 3GTEA 1PPJE 4QUPA 2HMOA 1BE3E 1SQVE 3BCCE 4H13D 3EQQA 4HM7A 5KLVE 4NBBA 4H44D 1JM1A 2JO6A 5AEWA 4PD4E 5AEUA 3GKQA 3N0QA 1SQQE 2NUMA 1SQXE 2HMMA 4P1BH 3VMGD 4NB8D 2B1XA 1RFSA 5KLIC 1O7PA 3GCFA 2E4PA 5BOKA 1ULIA 2YVJB 3L73E 4QDFA 4NBED 4NBFD 4PV1D 4HM8A 2JZAA 3VMIA 1NDOA 2E75D 1UUVA 3GB4A 2FYNC 3L74E 3D89A 4NBHA 2YFJA 1G8JB 2GBXA 4OGQD 1KYOE 3EN1A 2DE7A 1NYKA 3VCAA 3GOBA 4HKVA 1RIEA 2XSHA 1L0LE 3VCPA 3L72E 2D2CD 3L70E 2FYUE 1FQTA 4HJLA 4NBDD 2NVEA 1SJGA 2ZT9D 4QCKA 2IBZE 1SQBE 4EMJB
chains in the Genus database with same CATH superfamily
3C0DA 3H1IE 4NBCD 3FOUA 3GKEA 3L71E 2E4QA 2XR8A 1VM9A 2BMQA 2YFLA 3GL0A 3H1JE 4QDDA 3TGUE 4NB8A 1NU1E 2GBWA 4HM2A 2HMLA 2DE5D 4QDCA 4NBEA 1G8KB 4HM0A 1O7HA 1O7NA 1PP9E 4HM5A 4NBCA 2QJYC 1UUWA 4NBFA 2XRXA 3L75E 4HM3A 4NB9D 1O7GA 2YFIA 4HM4A 1Q90C 3DQYA 2E74D 2B24A 3H1HE 1Z02A 3VMHD 2I7FA 3GZYA 5CXMA 4HM1A 1ZRTE 4HM6A 2XSOA 4NBAD 1EZVE 1VF5D 2NUKA 3CWBE 1BCCE 3CXHE 1O7WA 2BMOA 4QDFB 2BMRA 1NTKE 2BCCE 2HMNA 2HMJA 1EG9A 3CX5E 1P84E 4NBBD 4NBDA 2Q3WA 3GTSA 5HL4A 4QUQA 4AIVA 2CKFA 1VCKA 2E76D 4NBGD 3H1LE 2DE6D 2NVGA 1SQPE 1NTME 1O7MA 2DE5A 3GCEA 3H1KE 2QJPC 1KB9E 4NBGA 3VMID 2DE6A 3VMGA 1L0NE 2ZYLA 4QURA 4AAYB 4NB9A 5KKZC 4NBHD 2NWFA 2YIUC 4P1CH 1Z01A 2HMKA 2A06E 2QJKC 3VMHA 2DE7D 2NVFA 1WQLA 1NTZE 1WW9A 4NBAA 4U3FE 3AZCA 2QPZA 1ULJA 4H0LD 1Z03A 3GZXA 3GL2A 3GTEA 1PPJE 4QUPA 2HMOA 1BE3E 1SQVE 3BCCE 4H13D 3EQQA 4HM7A 5KLVE 4NBBA 4H44D 1JM1A 2JO6A 5AEWA 4PD4E 5AEUA 3GKQA 3N0QA 1SQQE 2NUMA 1SQXE 2HMMA 4P1BH 3VMGD 4NB8D 2B1XA 1RFSA 5KLIC 1O7PA 3GCFA 2E4PA 5BOKA 1ULIA 2YVJB 3L73E 4QDFA 4NBED 4NBFD 4PV1D 4HM8A 2JZAA 3VMIA 1NDOA 2E75D 1UUVA 3GB4A 2FYNC 3L74E 3D89A 4NBHA 2YFJA 1G8JB 2GBXA 4OGQD 1KYOE 3EN1A 2DE7A 1NYKA 3VCAA 3GOBA 4HKVA 1RIEA 2XSHA 1L0LE 3VCPA 3L72E 2D2CD 3L70E 2FYUE 1FQTA 4HJLA 4NBDD 2NVEA 1SJGA 2ZT9D 4QCKA 2IBZE 1SQBE 4EMJB
chains in the Genus database with same CATH topology
3C0DA 3H1IE 4NBCD 3FOUA 3GKEA 3L71E 2E4QA 2XR8A 1VM9A 2BMQA 2YFLA 3GL0A 3H1JE 4QDDA 3TGUE 4NB8A 1NU1E 2GBWA 4HM2A 2HMLA 2DE5D 4QDCA 4NBEA 1G8KB 4HM0A 1O7HA 1O7NA 1PP9E 4HM5A 4NBCA 2QJYC 1UUWA 4NBFA 2XRXA 3L75E 4HM3A 4NB9D 1O7GA 2YFIA 4HM4A 1Q90C 3DQYA 2E74D 2B24A 3H1HE 1Z02A 3VMHD 2I7FA 3GZYA 5CXMA 4HM1A 1ZRTE 4HM6A 2XSOA 4NBAD 1EZVE 1VF5D 2NUKA 3CWBE 1BCCE 3CXHE 1O7WA 2BMOA 4QDFB 2BMRA 1NTKE 2BCCE 2HMNA 2HMJA 1EG9A 3CX5E 1P84E 4NBBD 4NBDA 2Q3WA 3GTSA 5HL4A 4QUQA 4AIVA 2CKFA 1VCKA 2E76D 4NBGD 3H1LE 2DE6D 2NVGA 1SQPE 1NTME 1O7MA 2DE5A 3GCEA 3H1KE 2QJPC 1KB9E 4NBGA 3VMID 2DE6A 3VMGA 1L0NE 2ZYLA 4QURA 4AAYB 4NB9A 5KKZC 4NBHD 2NWFA 2YIUC 4P1CH 1Z01A 2HMKA 2A06E 2QJKC 3VMHA 2DE7D 2NVFA 1WQLA 1NTZE 1WW9A 4NBAA 4U3FE 3AZCA 2QPZA 1ULJA 4H0LD 1Z03A 3GZXA 3GL2A 3GTEA 1PPJE 4QUPA 2HMOA 1BE3E 1SQVE 3BCCE 4H13D 3EQQA 4HM7A 5KLVE 4NBBA 4H44D 1JM1A 2JO6A 5AEWA 4PD4E 5AEUA 3GKQA 3N0QA 1SQQE 2NUMA 1SQXE 2HMMA 4P1BH 3VMGD 4NB8D 2B1XA 1RFSA 5KLIC 1O7PA 3GCFA 2E4PA 5BOKA 1ULIA 2YVJB 3L73E 4QDFA 4NBED 4NBFD 4PV1D 4HM8A 2JZAA 3VMIA 1NDOA 2E75D 1UUVA 3GB4A 2FYNC 3L74E 3D89A 4NBHA 2YFJA 1G8JB 2GBXA 4OGQD 1KYOE 3EN1A 2DE7A 1NYKA 3VCAA 3GOBA 4HKVA 1RIEA 2XSHA 1L0LE 3VCPA 3L72E 2D2CD 3L70E 2FYUE 1FQTA 4HJLA 4NBDD 2NVEA 1SJGA 2ZT9D 4QCKA 2IBZE 1SQBE 4EMJB
chains in the Genus database with same CATH homology


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