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.

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


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