3GZXA

Crystal structure of the biphenyl dioxygenase in complex with biphenyl from comamonas testosteroni sp. strain b-356
Total Genus 144
50100150200250300350400020406080100120140
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
144
sequence length
440
structure length
440
Chain Sequence
NWTPDAIRALVDQDNGKLDARIYADQDLYQLELERVFGRSWLMLGHETHIPKIGDYLTTYMGEDPVIMVRQKDQSIKVFLNQCRHRGMRIVRSDGGNAKAFTCTYHGWAYDIAGNLVNVPFEKEAFCDKKEGDCGFDKADWGPLQARVETYKGLVFANWDPEAPDLKTYLSDAMPYMDVMLDRTEAGTEAIGGIQKWVIPCNWKFAAEQFCSDMYHAGTMSHLSGVLAGLPPEMDLTQIQLSKNGNQFRSAWGGHGAGWFINDSSILLSVVGPKITQYWTQGPAAEKAARRVPQLPILDMFGQHMTVFPTCSFLPGINTIRTWHPRGPNEVEVWAFVLVDADAPEDIKEEFRLQNIRTFNAGGVFEQDDGENWVEIQRVMRGHKAKSTSLCAKMGLNVPNKNNPAYPGKTAYVYAEEAARGMYHHWSRMMSEPSWDTLKP
50100150200250300350400400300200100
020406080100120140Genus 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.

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


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