2GBWA

Crystal structure of biphenyl 2,3-dioxygenase from sphingomonas yanoikuyae b1
Total Genus 150
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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
150
sequence length
449
structure length
449
Chain Sequence
b'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.

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


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