2GBWA

Crystal structure of biphenyl 2,3-dioxygenase from sphingomonas yanoikuyae b1
Total Genus 150
Loading diagram...

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
150
sequence length
449
structure length
449
Chain Sequence
TLVDTVNASQSRQVFWDEDVYALEIERIFSRAWLMLGHESLVPKPGDFITTYMAEDKVILSHQSDGTFRAFINSCSHRGNQICHADSGNAKAFVCNYHGWVFGQDGSLVDVPLESRCYHNSLDKQKLAAKSVRVETYKGFIFGCHDPEAPSLEDYLGEFRYYLDTIWEGAGGGMELLGPPMKSLLQCNWKVPAENFIGDGYHVGWTHAAALSQIGGELAGLAGNRADIPFDDLGLQFTTRHGHGFGVIDNAAAGLHIKREGWTKFLEDTRGEVRRKFGPERERLYLGHWNCSIFPNCSFLYGTNTFKIWHPRGPHEIEVWTYTIVPRDADPATKSMIQREAIRTFGTAGTLESDDGENMSSATYINRGVITRNGRMNSTMGVGYEGPHPVYPGIVGISFIGETSYRGFYRFWKEMIDAPDWASVKANDDTWDSVFPNRNFWNEKLNAAE
Loading diagram...

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 Sphingobium yanoikuyae
publication title Structural investigations of the ferredoxin and terminal oxygenase components of the biphenyl 2,3-dioxygenase from Sphingobium yanoikuyae B1.
pubmed doi rcsb
molecule keywords Biphenyl 2,3-Dioxygenase Alpha Subunit
total genus 150
structure length 449
sequence length 449
chains with identical sequence C, E
ec nomenclature
pdb deposition date 2006-03-12

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 2gbwA02
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 2gbwA01
2JO6A 3DQYA 3H1KE 3EQQA 4NBDD 2QJKC 2YVJB 3VMHD 2HMOA 2D2CD 1Q90C 1JM1A 2NVFA 3GCEA 2E74D 2HMLA 2HMMA 4NBCD 4QUPA 1PPJE 2QPZA 4NBFA 1VM9A 4OGQD 4HM2A 2QJYC 4QDCA 3H1IE 4NB9D 2BMQA 3GL2A 2B1XA 3H1JE 1O7HA 4NBED 2HMJA 4H13D 4AIVA 4HM7A 2A06E 4NBGA 2NUKA 3L72E 4HKVA 3BCCE 1O7PA 3VMIA 4HM8A 1WQLA 4HM4A 1NTZE 1PP9E 4NBBA 1P84E 2YIUC 4HM1A 1SJGA 2ZT9D 1ULJA 2E4QA 3N0QA 4NB8D 5HL4A 3L75E 2BCCE 1SQVE 3L70E 3C0DA 2B24A 3H1HE 4P1CH 2BMRA 4NBFD 5AEUA 1Z03A 4QURA 3EN1A 2ZYLA 1O7GA 1O7WA 3GZYA 4P1BH 5AEWA 2E4PA 1NDOA 2E76D 3FOUA 4NBAD 3GCFA 2DE6A 1KYOE 3AZCA 2BMOA 3VMID 2E75D 2YFJA 3D89A 1FQTA 2Q3WA 4PD4E 2DE7A 1NTKE 1SQPE 4QUQA 3L74E 2NVGA 2DE5A 1L0LE 2YFLA 4QCKA 4HM3A 3H1LE 2FYNC 4NBDA 4QDFA 1WW9A 1VF5D 4HJLA 1EG9A 2GBWA 1SQXE 1O7MA 1ULIA 5BOKA 1SQBE 1NTME 3GL0A 4NBCA 2XRXA 4NBHA 2CKFA 4HM5A 3L71E 3TGUE 2DE6D 4NB9A 4HM6A 1NYKA 4AAYB 5KLIC 1G8KB 2XSHA 4NBGD 2DE7D 2YFIA 3VCAA 4QDFB 1UUVA 3GTEA 2I7FA 2NUMA 1KB9E 2NWFA 1SQQE 4NBBD 2HMKA 2JZAA 1BE3E 2DE5D 3GKQA 2XR8A 3VMGA 5CXMA 3GB4A 3CWBE 1BCCE 4NB8A 4H0LD 1EZVE 3GTSA 4HM0A 5KKZC 1ZRTE 4NBHD 4PV1D 3VMHA 4QDDA 3L73E 1Z01A 2GBXA 1Z02A 1UUWA 4U3FE 2QJPC 2NVEA 2XSOA 5KLVE 4NBAA 4H44D 3CX5E 2IBZE 3GKEA 3VCPA 4EMJB 4NBEA 3GZXA 1G8JB 2FYUE 1NU1E 1O7NA 1RIEA 3GOBA 1VCKA 1L0NE 3VMGD 3CXHE 1RFSA 2HMNA
chains in the Genus database with same CATH superfamily
2JO6A 3DQYA 3H1KE 3EQQA 4NBDD 2QJKC 2YVJB 3VMHD 2HMOA 2D2CD 1Q90C 1JM1A 2NVFA 3GCEA 2E74D 2HMLA 2HMMA 4NBCD 4QUPA 1PPJE 2QPZA 4NBFA 1VM9A 4OGQD 4HM2A 2QJYC 4QDCA 3H1IE 4NB9D 2BMQA 3GL2A 2B1XA 3H1JE 1O7HA 4NBED 2HMJA 4H13D 4AIVA 4HM7A 2A06E 4NBGA 2NUKA 3L72E 4HKVA 3BCCE 1O7PA 3VMIA 4HM8A 1WQLA 4HM4A 1NTZE 1PP9E 4NBBA 1P84E 2YIUC 4HM1A 1SJGA 2ZT9D 1ULJA 2E4QA 3N0QA 4NB8D 5HL4A 3L75E 2BCCE 1SQVE 3L70E 3C0DA 2B24A 3H1HE 4P1CH 2BMRA 4NBFD 5AEUA 1Z03A 4QURA 3EN1A 2ZYLA 1O7GA 1O7WA 3GZYA 4P1BH 5AEWA 2E4PA 1NDOA 2E76D 3FOUA 4NBAD 3GCFA 2DE6A 1KYOE 3AZCA 2BMOA 3VMID 2E75D 2YFJA 3D89A 1FQTA 2Q3WA 4PD4E 2DE7A 1NTKE 1SQPE 4QUQA 3L74E 2NVGA 2DE5A 1L0LE 2YFLA 4QCKA 4HM3A 3H1LE 2FYNC 4NBDA 4QDFA 1WW9A 1VF5D 4HJLA 1EG9A 2GBWA 1SQXE 1O7MA 1ULIA 5BOKA 1SQBE 1NTME 3GL0A 4NBCA 2XRXA 4NBHA 2CKFA 4HM5A 3L71E 3TGUE 2DE6D 4NB9A 4HM6A 1NYKA 4AAYB 5KLIC 1G8KB 2XSHA 4NBGD 2DE7D 2YFIA 3VCAA 4QDFB 1UUVA 3GTEA 2I7FA 2NUMA 1KB9E 2NWFA 1SQQE 4NBBD 2HMKA 2JZAA 1BE3E 2DE5D 3GKQA 2XR8A 3VMGA 5CXMA 3GB4A 3CWBE 1BCCE 4NB8A 4H0LD 1EZVE 3GTSA 4HM0A 5KKZC 1ZRTE 4NBHD 4PV1D 3VMHA 4QDDA 3L73E 1Z01A 2GBXA 1Z02A 1UUWA 4U3FE 2QJPC 2NVEA 2XSOA 5KLVE 4NBAA 4H44D 3CX5E 2IBZE 3GKEA 3VCPA 4EMJB 4NBEA 3GZXA 1G8JB 2FYUE 1NU1E 1O7NA 1RIEA 3GOBA 1VCKA 1L0NE 3VMGD 3CXHE 1RFSA 2HMNA
chains in the Genus database with same CATH topology
2JO6A 3DQYA 3H1KE 3EQQA 4NBDD 2QJKC 2YVJB 3VMHD 2HMOA 2D2CD 1Q90C 1JM1A 2NVFA 3GCEA 2E74D 2HMLA 2HMMA 4NBCD 4QUPA 1PPJE 2QPZA 4NBFA 1VM9A 4OGQD 4HM2A 2QJYC 4QDCA 3H1IE 4NB9D 2BMQA 3GL2A 2B1XA 3H1JE 1O7HA 4NBED 2HMJA 4H13D 4AIVA 4HM7A 2A06E 4NBGA 2NUKA 3L72E 4HKVA 3BCCE 1O7PA 3VMIA 4HM8A 1WQLA 4HM4A 1NTZE 1PP9E 4NBBA 1P84E 2YIUC 4HM1A 1SJGA 2ZT9D 1ULJA 2E4QA 3N0QA 4NB8D 5HL4A 3L75E 2BCCE 1SQVE 3L70E 3C0DA 2B24A 3H1HE 4P1CH 2BMRA 4NBFD 5AEUA 1Z03A 4QURA 3EN1A 2ZYLA 1O7GA 1O7WA 3GZYA 4P1BH 5AEWA 2E4PA 1NDOA 2E76D 3FOUA 4NBAD 3GCFA 2DE6A 1KYOE 3AZCA 2BMOA 3VMID 2E75D 2YFJA 3D89A 1FQTA 2Q3WA 4PD4E 2DE7A 1NTKE 1SQPE 4QUQA 3L74E 2NVGA 2DE5A 1L0LE 2YFLA 4QCKA 4HM3A 3H1LE 2FYNC 4NBDA 4QDFA 1WW9A 1VF5D 4HJLA 1EG9A 2GBWA 1SQXE 1O7MA 1ULIA 5BOKA 1SQBE 1NTME 3GL0A 4NBCA 2XRXA 4NBHA 2CKFA 4HM5A 3L71E 3TGUE 2DE6D 4NB9A 4HM6A 1NYKA 4AAYB 5KLIC 1G8KB 2XSHA 4NBGD 2DE7D 2YFIA 3VCAA 4QDFB 1UUVA 3GTEA 2I7FA 2NUMA 1KB9E 2NWFA 1SQQE 4NBBD 2HMKA 2JZAA 1BE3E 2DE5D 3GKQA 2XR8A 3VMGA 5CXMA 3GB4A 3CWBE 1BCCE 4NB8A 4H0LD 1EZVE 3GTSA 4HM0A 5KKZC 1ZRTE 4NBHD 4PV1D 3VMHA 4QDDA 3L73E 1Z01A 2GBXA 1Z02A 1UUWA 4U3FE 2QJPC 2NVEA 2XSOA 5KLVE 4NBAA 4H44D 3CX5E 2IBZE 3GKEA 3VCPA 4EMJB 4NBEA 3GZXA 1G8JB 2FYUE 1NU1E 1O7NA 1RIEA 3GOBA 1VCKA 1L0NE 3VMGD 3CXHE 1RFSA 2HMNA
chains in the Genus database with same CATH homology


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

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