2YFI | Genus

Total Genus 135

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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	135
sequence length	442
structure length	433
Chain Sequence	NWTPEAIRGLVDQEKGLLDPRIYADQSLYELELERVFGRSWLLLGHESHVPETGDFLATYMGEDPVVMVRQKDKSIKVFLNQCRHRGMRICRSDAGNAKAFTCSYHGWAYDIAGKLVNVPFEKEAFFDKAEWGPLQARVATYKGLVFANWDVQAPDLETYLGDARPYMDVMLDRTPAGTVAIGGMQKWVIPCNWKFAAEQFCSDMYHAGTTTHLSGILAGIPPEMDLSQAQIPTKGNQFRAAWGGHGSGWYVDEPGSLLAVMGPKVTQYWTEGPAAELAEQRLGHTGMPVRRMVGQHMTIFPTCSFLPAMNQIRVWHPRGPNEIEVWAFTLVDADAPAEIKEEYRRHNIRNFSAGGVFEQDDGENWVEIQKGLRGYKAKSQPFNAQMGLGRSQTGHPDFPGNVGYVYAEEAARGMYHHWMRMMSEPSWATLKP

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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

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After clicking on a point (x,y) in the genus matrix above, a subchain from x to y is shown in color.

Genus data interpretation

molecule tags	Oxidoreductase
source organism	Burkholderia xenovorans
publication title	Retuning Rieske-Type Oxygenases to Expand Substrate Range. pubmed doi rcsb
molecule keywords	BIPHENYL DIOXYGENASE SUBUNIT ALPHA
total genus	135
structure length	433
sequence length	442
chains with identical sequence	C, E, G, I, K
ec nomenclature	ec 1.14.12.18: Biphenyl 2,3-dioxygenase.
pdb deposition date	2011-04-06

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	Class	Architecture	Topology	Homology	Domain
2.102.10.10	Mainly Beta	3-layer Sandwich	Rieske Iron-sulfur Protein	Rieske [2Fe-2S] iron-sulphur domain	2yfiA02
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	2yfiA01

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

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

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

pfam database annotations